Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 60 of 290
Found at i:19838485 original size:21 final size:21
Alignment explanation
Indices: 19838421--19838489 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
19838411 AATAATGCTA
*
19838421 ATAATAATCTAATATAAAACC
1 ATAATAATTTAATATAAAACC
* **
19838442 ATAAT--GTTAAT-TAATAATT
1 ATAATAATTTAATATAA-AACC
19838461 ATAATAATTTAATATAAAACC
1 ATAATAATTTAATATAAAACC
19838482 ATAATAAT
1 ATAATAAT
19838490 AATCATTATA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 11 0.30
21 20 0.54
22 3 0.08
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.36
Consensus pattern (21 bp):
ATAATAATTTAATATAAAACC
Found at i:19839921 original size:93 final size:93
Alignment explanation
Indices: 19839761--19839940 Score: 333
Period size: 93 Copynumber: 1.9 Consensus size: 93
19839751 ATTTGTATGG
* *
19839761 TATGATTATGAATGAAGTAGAAAGAATAACAGAATATTTGCTCAAAATGATACGCAAAAATGTAT
1 TATGATTATGAATGAAGTAGAAAGAATAAAAGAATATTTGCTCAAAATGATACGCAAAAATGCAT
*
19839826 TTTTTATTGAAATAATGATATTTGGACA
66 TTTTTATTGAAATAACGATATTTGGACA
19839854 TATGATTATGAATGAAGTAGAAAGAATAAAAGAATATTTGCTCAAAATGATACGCAAAAATGCAT
1 TATGATTATGAATGAAGTAGAAAGAATAAAAGAATATTTGCTCAAAATGATACGCAAAAATGCAT
19839919 TTTTTATTGAAATAACGATATT
66 TTTTTATTGAAATAACGATATT
19839941 GGAGGCACAT
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 84 1.00
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.33
Consensus pattern (93 bp):
TATGATTATGAATGAAGTAGAAAGAATAAAAGAATATTTGCTCAAAATGATACGCAAAAATGCAT
TTTTTATTGAAATAACGATATTTGGACA
Found at i:19845823 original size:35 final size:35
Alignment explanation
Indices: 19845777--19845849 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
19845767 CACTATCCTA
*
19845777 TACAGAGGTGAAGACCTCATGAAGGAATAGTTTCT
1 TACAGAGGTGAAGACCTCACGAAGGAATAGTTTCT
19845812 TACAGAGGTGAAGACCTCACGAAGGAATAGTTTCT
1 TACAGAGGTGAAGACCTCACGAAGGAATAGTTTCT
19845847 TAC
1 TAC
19845850 TCTCACTTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (35 bp):
TACAGAGGTGAAGACCTCACGAAGGAATAGTTTCT
Found at i:19847046 original size:28 final size:27
Alignment explanation
Indices: 19847015--19847077 Score: 63
Period size: 29 Copynumber: 2.2 Consensus size: 27
19847005 CAAATTTTAA
19847015 AATGATAAGAAATGAATTTAAAATAAAT
1 AATG-TAAGAAATGAATTTAAAATAAAT
* * * *
19847043 AATGTGAAAAAAAGAAATTTAATATCAAT
1 AATGT-AAGAAATG-AATTTAAAATAAAT
19847072 AATGTA
1 AATGTA
19847078 CAAAACAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
27 1 0.03
28 11 0.38
29 17 0.59
ACGTcount: A:0.59, C:0.02, G:0.11, T:0.29
Consensus pattern (27 bp):
AATGTAAGAAATGAATTTAAAATAAAT
Found at i:19847105 original size:29 final size:27
Alignment explanation
Indices: 19847069--19847124 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
19847059 ATTTAATATC
19847069 AATAATGTACAAAACAATTTAAAAATAG
1 AATAATGTACAAAA-AATTTAAAAATAG
* * *
19847097 AATATATGTATAAGAAATTTTAAAATAG
1 AATA-ATGTACAAAAAATTTAAAAATAG
19847125 GTAATATAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (27 bp):
AATAATGTACAAAAAATTTAAAAATAG
Found at i:19847175 original size:27 final size:26
Alignment explanation
Indices: 19847110--19847184 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
19847100 ATATGTATAA
* **
19847110 GAAATTTTAAAATAGGTAATATAGGC
1 GAAAGTTTAAAATAAATAATATAGGC
*
19847136 GAAAGTTTGAAATAAATAATATACGG-
1 GAAAGTTTAAAATAAATAATATA-GGC
* *
19847162 GAAAAGTTTAAAATGAATGATAT
1 G-AAAGTTTAAAATAAATAATAT
19847185 GTAAAATAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
26 20 0.50
27 20 0.50
ACGTcount: A:0.49, C:0.03, G:0.19, T:0.29
Consensus pattern (26 bp):
GAAAGTTTAAAATAAATAATATAGGC
Found at i:19847353 original size:22 final size:22
Alignment explanation
Indices: 19847328--19847378 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
19847318 TTGGAAATTG
19847328 ATAATATATATAAAAT-TTTAAA
1 ATAATATA-ATAAAATATTTAAA
19847350 ATAA-ATAATAAAATAATTTAAA
1 ATAATATAATAAAAT-ATTTAAA
19847372 ATGAATA
1 AT-AATA
19847379 ATGCATAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 7 0.28
21 3 0.12
22 12 0.48
23 2 0.08
24 1 0.04
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
ATAATATAATAAAATATTTAAA
Found at i:19848865 original size:29 final size:31
Alignment explanation
Indices: 19848803--19848866 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
19848793 CTATGTCTAT
* *
19848803 TCTTTGTCTGTTTCTTCATTGTTTTTTTTTC
1 TCTTTGTCTGTTTCTTCATTGTTTTTTGTCC
19848834 TCTTTGT-TGTTTGC-T-ATTGTTTTTTGTCC
1 TCTTTGTCTGTTT-CTTCATTGTTTTTTGTCC
19848863 TCTT
1 TCTT
19848867 GTTCGTTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 16 0.53
30 6 0.20
31 8 0.27
ACGTcount: A:0.03, C:0.16, G:0.12, T:0.69
Consensus pattern (31 bp):
TCTTTGTCTGTTTCTTCATTGTTTTTTGTCC
Found at i:19850333 original size:100 final size:101
Alignment explanation
Indices: 19850200--19850388 Score: 317
Period size: 100 Copynumber: 1.9 Consensus size: 101
19850190 AAATGCATGA
* * * * *
19850200 ATATATATTTAATTAATCTTATATATAAATAATGGTACCTTAGGATTATGTAGAGTGTATAATTG
1 ATATATACTTAATTAATCTTAAATAAAAATAATGGTACCTTAGAATTATGTAGAGTGTAGAATTG
*
19850265 GATGGGTAGTCGAAATTCATCGATAAATACATAAAT
66 AATGGGTAGTCGAAATTCATCGATAAATACATAAAT
19850301 ATATATACTTAATT-ATCTTAAATAAAAATAATGGTACCTTAGAATTATGTAGAGTGTAGAATTG
1 ATATATACTTAATTAATCTTAAATAAAAATAATGGTACCTTAGAATTATGTAGAGTGTAGAATTG
19850365 AATGGGTAGTCGAAATTCATCGAT
66 AATGGGTAGTCGAAATTCATCGAT
19850389 TCTCCAATGT
Statistics
Matches: 82, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
100 69 0.84
101 13 0.16
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (101 bp):
ATATATACTTAATTAATCTTAAATAAAAATAATGGTACCTTAGAATTATGTAGAGTGTAGAATTG
AATGGGTAGTCGAAATTCATCGATAAATACATAAAT
Found at i:19852725 original size:9 final size:8
Alignment explanation
Indices: 19852696--19852748 Score: 56
Period size: 7 Copynumber: 6.5 Consensus size: 8
19852686 AAACTATTTT
*
19852696 TAAAAATA
1 TAAAATTA
19852704 TAAAATTA
1 TAAAATTA
19852712 TTAAAAATTA
1 -T-AAAATTA
19852722 TAAAAATTA
1 T-AAAATTA
19852731 T-AAATTA
1 TAAAATTA
19852738 T-AAATTA
1 TAAAATTA
19852745 TAAA
1 TAAA
19852749 TTTTTAAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
7 14 0.34
8 9 0.22
9 11 0.27
10 7 0.17
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
TAAAATTA
Found at i:19852729 original size:19 final size:17
Alignment explanation
Indices: 19852695--19852731 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 17
19852685 AAAACTATTT
19852695 TTAAAAATATAAAATTA
1 TTAAAAATATAAAATTA
19852712 TTAAAAATTATAAAAATTA
1 TTAAAAA-TAT-AAAATTA
19852731 T
1 T
19852732 AAATTATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 3 0.17
19 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAAATATAAAATTA
Found at i:19855519 original size:15 final size:14
Alignment explanation
Indices: 19855495--19855556 Score: 54
Period size: 15 Copynumber: 4.2 Consensus size: 14
19855485 TAATAAATAA
*
19855495 ATAAATAAATAATG
1 ATAAAAAAATAATG
19855509 ATAATAAAAATAATTG
1 ATAA-AAAAATAA-TG
*
19855525 -TAAAGAAAATAAAG
1 ATAAA-AAAATAATG
*
19855539 ATAAAATTAATAATG
1 ATAAAA-AAATAATG
19855554 ATA
1 ATA
19855557 CTAACGAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
14 7 0.18
15 30 0.77
16 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (14 bp):
ATAAAAAAATAATG
Found at i:19855731 original size:3 final size:3
Alignment explanation
Indices: 19855702--19855797 Score: 115
Period size: 3 Copynumber: 32.7 Consensus size: 3
19855692 TAAAAATAGT
* * * * * * *
19855702 ATA ATA ATG ATA AT- ATG ATA GTA ATA ATA ACA AT- ATA GTG ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
19855748 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
19855796 AT
1 AT
19855798 GACACAACAA
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
2 4 0.05
3 74 0.95
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:19855905 original size:13 final size:14
Alignment explanation
Indices: 19855887--19855935 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
19855877 TGTTAATAAG
19855887 GATAATAA-TAATA
1 GATAATAATTAATA
19855900 GATAATAATTAATA
1 GATAATAATTAATA
*
19855914 -ATACTAAATTAATTA
1 GATAAT-AATTAA-TA
19855929 -ATAATAA
1 GATAATAA
19855936 AGTAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 12 0.39
14 13 0.42
15 6 0.19
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (14 bp):
GATAATAATTAATA
Found at i:19856683 original size:25 final size:25
Alignment explanation
Indices: 19856630--19856683 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
19856620 CAATCTCAAG
* *
19856630 CCAGGAATCCAGCCTAGGTTTTCGG
1 CCAGGAATCCAGCCTAGGTTTCCGA
*
19856655 CCAGGAATCCGGCCTAGGTTTCCGA
1 CCAGGAATCCAGCCTAGGTTTCCGA
19856680 CCAG
1 CCAG
19856684 TTGCCACCGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.31, G:0.28, T:0.20
Consensus pattern (25 bp):
CCAGGAATCCAGCCTAGGTTTCCGA
Found at i:19857315 original size:17 final size:18
Alignment explanation
Indices: 19857284--19857317 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
19857274 TTTTGAGTAG
*
19857284 GTAGTTTGGGTTAATTTA
1 GTAGTTTGGGCTAATTTA
19857302 GTAG-TTGGGCTAATTT
1 GTAGTTTGGGCTAATTT
19857318 GGGTTCATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.21, C:0.03, G:0.29, T:0.47
Consensus pattern (18 bp):
GTAGTTTGGGCTAATTTA
Found at i:19857573 original size:31 final size:32
Alignment explanation
Indices: 19857515--19857574 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
19857505 GTTCAAGGTA
*
19857515 AAAAAATATTAAAATTATGTATCAATAATACG
1 AAAAAATATTAAAATTATGTATAAATAATACG
*
19857547 AAAAATTATTAAAA-TAT-TATTAAATAAT
1 AAAAAATATTAAAATTATGTA-TAAATAAT
19857575 TTTAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 2 0.08
31 10 0.40
32 13 0.52
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.35
Consensus pattern (32 bp):
AAAAAATATTAAAATTATGTATAAATAATACG
Found at i:19858972 original size:25 final size:25
Alignment explanation
Indices: 19858938--19859000 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
19858928 TAAAGTTTTT
19858938 AAAAATAAAAATTATATAAATTATG
1 AAAAATAAAAATTATATAAATTATG
* *
19858963 AAAAATAAAAATTATTTAAATTATT
1 AAAAATAAAAATTATATAAATTATG
*
19858988 TAAAATATAAAAT
1 AAAAATA-AAAAT
19859001 ATAAAAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 29 0.85
26 5 0.15
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (25 bp):
AAAAATAAAAATTATATAAATTATG
Found at i:19859985 original size:13 final size:13
Alignment explanation
Indices: 19859967--19860005 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
19859957 TTTACTCTCG
*
19859967 ATTTTACAAAAAT
1 ATTTTACTAAAAT
19859980 ATTTTACTAAAAT
1 ATTTTACTAAAAT
*
19859993 ACTTTACTAAAAT
1 ATTTTACTAAAAT
19860006 TACAATTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (13 bp):
ATTTTACTAAAAT
Found at i:19862431 original size:53 final size:52
Alignment explanation
Indices: 19862283--19862442 Score: 205
Period size: 52 Copynumber: 3.1 Consensus size: 52
19862273 TGACGGAAAA
* * *
19862283 GATGTGATACATGATTCCGTATAAGACCATAGCCGGGCTATGGCATCGGTAC
1 GATGTGATTCGTGATTCCGTATAAGACCATAGCCGGGCTATGGCATCGGTAT
* * * *
19862335 CATGTGATTCGT-ATCGCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGT
1 GATGTGATTCGTGAT-TCCGTATAAGACCATAGCCGGGCTATGGCATCGGTAT
* * *
19862387 GATGTGATTATGTGATTCCGTATAAGACCATATCCGGGATATGGCATCGGTAT
1 GATGTGATT-CGTGATTCCGTATAAGACCATAGCCGGGCTATGGCATCGGTAT
19862440 GAT
1 GAT
19862443 ATGTGGTCCG
Statistics
Matches: 91, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
51 2 0.02
52 50 0.55
53 37 0.41
54 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (52 bp):
GATGTGATTCGTGATTCCGTATAAGACCATAGCCGGGCTATGGCATCGGTAT
Found at i:19865002 original size:21 final size:21
Alignment explanation
Indices: 19864976--19865016 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19864966 ATCTGCTCAA
* *
19864976 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
19864997 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
19865017 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:19868061 original size:19 final size:19
Alignment explanation
Indices: 19868037--19868082 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
19868027 TATGCCTAAG
19868037 AGCTTACTAAGCTTCAATA
1 AGCTTACTAAGCTTCAATA
19868056 AGCTTACTAAGCTTCAATA
1 AGCTTACTAAGCTTCAATA
19868075 AGCTTACT
1 AGCTTACT
19868083 TCTGTGTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.33
Consensus pattern (19 bp):
AGCTTACTAAGCTTCAATA
Found at i:19868066 original size:9 final size:9
Alignment explanation
Indices: 19868037--19868082 Score: 56
Period size: 10 Copynumber: 4.9 Consensus size: 9
19868027 TATGCCTAAG
19868037 AGCTTACTA
1 AGCTTACTA
*
19868046 AGCTTCAATA
1 AGCTT-ACTA
19868056 AGCTTACTA
1 AGCTTACTA
*
19868065 AGCTTCAATA
1 AGCTT-ACTA
19868075 AGCTTACT
1 AGCTTACT
19868083 TCTGTGTGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
9 15 0.48
10 16 0.52
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.33
Consensus pattern (9 bp):
AGCTTACTA
Found at i:19875152 original size:52 final size:52
Alignment explanation
Indices: 19875074--19875227 Score: 143
Period size: 52 Copynumber: 3.0 Consensus size: 52
19875064 GACGGAAAAG
* * *
19875074 ATGTGA-TACATGATTCCATATAAGACCATAGCCGGGCTATGGCATCGGTACC
1 ATGTGATTACGTGATCCCGTATAAGACCATA-CCGGGCTATGGCATCGGTACC
* * * ***
19875126 ATGTGATT-CGT-ATCCCCGTATAAGACCATAACTGGCTATGGCATCAGTGTG
1 ATGTGATTACGTGAT-CCCGTATAAGACCATACCGGGCTATGGCATCGGTACC
* * * *
19875177 ATGTGATTATGTGATTCTGTATAAGACCATATCCGGGATATGGCATCGGTA
1 ATGTGATTACGTGATCCCGTATAAGACCATA-CCGGGCTATGGCATCGGTA
19875228 TGATATGTGA
Statistics
Matches: 80, Mismatches: 17, Indels: 9
0.75 0.16 0.08
Matches are distributed among these distances:
51 25 0.31
52 38 0.47
53 17 0.21
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (52 bp):
ATGTGATTACGTGATCCCGTATAAGACCATACCGGGCTATGGCATCGGTACC
Found at i:19875619 original size:432 final size:432
Alignment explanation
Indices: 19874816--19875681 Score: 1723
Period size: 432 Copynumber: 2.0 Consensus size: 432
19874806 GATCAAGAAA
19874816 ACAAAGTGATTCGTGGAAAGGAGAAAATTCAAGAATAGTCCCTGAATTTCTACGACTTTTGCAAA
1 ACAAAGTGATTCGTGGAAAGGAGAAAATTCAAGAATAGTCCCTGAATTTCTACGACTTTTGCAAA
19874881 TTAACCCAGGTAAGTTCATATGGAAAAATTCGATGTTTGATATGAATATCTTATGATTGTTAAAG
66 TTAACCCAGGTAAGTTCATATGGAAAAATTCGATGTTTGATATGAATATCTTATGATTGTTAAAG
19874946 TATTTTATTGTAGATGAATATTTTCAAATTATATGAACTAATGAATAATGTGTAACTGAAAGAAC
131 TATTTTATTGTAGATGAATATTTTCAAATTATATGAACTAATGAATAATGTGTAACTGAAAGAAC
19875011 AAATTAGCTGGAACAATGGTTTGAGTGCTTTCATTTTATGACTATAATGAATTGACGGAAAAGAT
196 AAATTAGCTGGAACAATGGTTTGAGTGCTTTCATTTTATGACTATAATGAATTGACGGAAAAGAT
*
19875076 GTGATACATGATTCCATATAAGACCATAGCCGGGCTATGGCATCGGTACCATGTGATTCGTATCC
261 GTGATACATGATTCCATATAAGACCATAGCCGGGCTATGGCATCGATACCATGTGATTCGTATCC
19875141 CCGTATAAGACCATAACTGGCTATGGCATCAGTGTGATGTGATTATGTGATTCTGTATAAGACCA
326 CCGTATAAGACCATAACTGGCTATGGCATCAGTGTGATGTGATTATGTGATTCTGTATAAGACCA
19875206 TATCCGGGATATGGCATCGGTATGATATGTGATCCGTGTAAG
391 TATCCGGGATATGGCATCGGTATGATATGTGATCCGTGTAAG
19875248 ACAAAGTGATTCGTGGAAAGGAGAAAATTCAAGAATAGTCCCTGAATTTCTACGACTTTTGCAAA
1 ACAAAGTGATTCGTGGAAAGGAGAAAATTCAAGAATAGTCCCTGAATTTCTACGACTTTTGCAAA
19875313 TTAACCCAGGTAAGTTCATATGGAAAAATTCGATGTTTGATATGAATATCTTATGATTGTTAAAG
66 TTAACCCAGGTAAGTTCATATGGAAAAATTCGATGTTTGATATGAATATCTTATGATTGTTAAAG
19875378 TATTTTATTGTAGATGAATATTTTCAAATTATATGAACTAATGAATAATGTGTAACTGAAAGAAC
131 TATTTTATTGTAGATGAATATTTTCAAATTATATGAACTAATGAATAATGTGTAACTGAAAGAAC
19875443 AAATTAGCTGGAACAATGGTTTGAGTGCTTTCATTTTATGACTATAATGAATTGACGGAAAAGAT
196 AAATTAGCTGGAACAATGGTTTGAGTGCTTTCATTTTATGACTATAATGAATTGACGGAAAAGAT
19875508 GTGATACATGATTCCATATAAGACCATAGCCGGGCTATGGCATCGATACCATGTGATTCGTATCC
261 GTGATACATGATTCCATATAAGACCATAGCCGGGCTATGGCATCGATACCATGTGATTCGTATCC
19875573 CCGTATAAGACCATAACTGGCTATGGCATCAGTGTGATGTGATTATGTGATTCTGTATAAGACCA
326 CCGTATAAGACCATAACTGGCTATGGCATCAGTGTGATGTGATTATGTGATTCTGTATAAGACCA
19875638 TATCCGGGATATGGCATCGGTATGATATGTGATCCGTGTAAG
391 TATCCGGGATATGGCATCGGTATGATATGTGATCCGTGTAAG
19875680 AC
1 AC
19875682 CATGGCAGGG
Statistics
Matches: 433, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
432 433 1.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (432 bp):
ACAAAGTGATTCGTGGAAAGGAGAAAATTCAAGAATAGTCCCTGAATTTCTACGACTTTTGCAAA
TTAACCCAGGTAAGTTCATATGGAAAAATTCGATGTTTGATATGAATATCTTATGATTGTTAAAG
TATTTTATTGTAGATGAATATTTTCAAATTATATGAACTAATGAATAATGTGTAACTGAAAGAAC
AAATTAGCTGGAACAATGGTTTGAGTGCTTTCATTTTATGACTATAATGAATTGACGGAAAAGAT
GTGATACATGATTCCATATAAGACCATAGCCGGGCTATGGCATCGATACCATGTGATTCGTATCC
CCGTATAAGACCATAACTGGCTATGGCATCAGTGTGATGTGATTATGTGATTCTGTATAAGACCA
TATCCGGGATATGGCATCGGTATGATATGTGATCCGTGTAAG
Found at i:19877473 original size:3 final size:3
Alignment explanation
Indices: 19877450--19877628 Score: 79
Period size: 3 Copynumber: 60.3 Consensus size: 3
19877440 GCGGAGAGTG
* * *
19877450 TTA TTT TTA ATA TTT TTA TTA TTA -TA TT- TTA TTA CTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
* * *
19877494 TTA -TA TTA -CA TTTA TT- TTA TTA CTG TTA TTA TTA TT- TTA -TA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** *
19877535 TATA TTTA CTA CCA TTA TTTA TTTA TTTA TTA TTA TTA TTA TTA GTA
1 T-TA -TTA TTA TTA TTA -TTA -TTA -TTA TTA TTA TTA TTA TTA TTA
** * * * * *
19877582 ACA -TA CTG TTA TTT TTA TTA TT- TTA TTA TTT TTA TTT TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19877628 T
1 T
19877629 CATGGTACTA
Statistics
Matches: 133, Mismatches: 29, Indels: 28
0.70 0.15 0.15
Matches are distributed among these distances:
2 16 0.12
3 97 0.73
4 19 0.14
5 1 0.01
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:19877477 original size:23 final size:24
Alignment explanation
Indices: 19877451--19877500 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
19877441 CGGAGAGTGT
*
19877451 TATTTTTAATA-TTTTTATTATTA
1 TATTTTTAATACTTATTATTATTA
*
19877474 TA-TTTTATTACTTATTATTATTA
1 TATTTTTAATACTTATTATTATTA
19877497 TATT
1 TATT
19877501 ACATTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 7 0.30
23 15 0.65
24 1 0.04
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (24 bp):
TATTTTTAATACTTATTATTATTA
Found at i:19877528 original size:20 final size:18
Alignment explanation
Indices: 19877468--19877533 Score: 70
Period size: 14 Copynumber: 3.8 Consensus size: 18
19877458 AATATTTTTA
19877468 TTATTA-TATTTTATTAC
1 TTATTATTATTTTATTAC
*
19877485 TTATTATTATTATATTAC
1 TTATTATTATTTTATTAC
19877503 --A-T-TTATTTTATTAC
1 TTATTATTATTTTATTAC
19877517 TGTTATTATTATTTTAT
1 --TTATTATTATTTTAT
19877534 ATATATTTAC
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
14 11 0.28
15 1 0.03
16 1 0.03
17 6 0.15
18 11 0.28
19 1 0.03
20 9 0.22
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.65
Consensus pattern (18 bp):
TTATTATTATTTTATTAC
Found at i:19877541 original size:31 final size:32
Alignment explanation
Indices: 19877466--19877541 Score: 102
Period size: 31 Copynumber: 2.4 Consensus size: 32
19877456 TTAATATTTT
19877466 TATTAT-TATATTTTATTACTTATTATTATTA
1 TATTATATATATTTTATTACTTATTATTATTA
* * *
19877497 TATTACATTTATTTTATTAC-TGTTATTATTA
1 TATTATATATATTTTATTACTTATTATTATTA
*
19877528 TTTTATATATATTT
1 TATTATATATATTT
19877542 ACTACCATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 26 0.68
32 12 0.32
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (32 bp):
TATTATATATATTTTATTACTTATTATTATTA
Found at i:19877572 original size:21 final size:22
Alignment explanation
Indices: 19877455--19877576 Score: 57
Period size: 23 Copynumber: 5.8 Consensus size: 22
19877445 GAGTGTTATT
* *
19877455 TTTAATATTTTTATTAT-TATA
1 TTTATTATTATTATTATATATA
19877476 TTTTATTACTTATTATTAT-TATA
1 -TTTATTA-TTATTATTATATATA
* *
19877499 TTACATTTATT-TTATTACTGT-TA
1 TT-TA-TTATTATTATTA-TATATA
19877522 -TTATTATT-TTA-TATATA--
1 TTTATTATTATTATTATATATA
* ** *
19877539 TTTACTACCATTATT-TATTTA
1 TTTATTATTATTATTATATATA
19877560 TTTATTATTATTATTAT
1 TTTATTATTATTATTAT
19877577 TAGTAACATA
Statistics
Matches: 76, Mismatches: 12, Indels: 24
0.68 0.11 0.21
Matches are distributed among these distances:
18 7 0.09
19 8 0.11
20 9 0.12
21 13 0.17
22 16 0.21
23 19 0.25
24 4 0.05
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (22 bp):
TTTATTATTATTATTATATATA
Found at i:19878875 original size:20 final size:21
Alignment explanation
Indices: 19878845--19878883 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
19878835 TAGTTTCGAC
19878845 AAATATTATATAAATTTTAAA
1 AAATATTATATAAATTTTAAA
19878866 AAAT-TTATATAAATTTTA
1 AAATATTATATAAATTTTA
19878884 TATTTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATATTATATAAATTTTAAA
Found at i:19878885 original size:11 final size:11
Alignment explanation
Indices: 19878845--19878886 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
19878835 TAGTTTCGAC
*
19878845 AAATATTATAT
1 AAATTTTATAT
19878856 AAATTTTA-A-
1 AAATTTTATAT
*
19878865 AAAATTTATAT
1 AAATTTTATAT
19878876 AAATTTTATAT
1 AAATTTTATAT
19878887 TTTATAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 7 0.27
10 2 0.08
11 17 0.65
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AAATTTTATAT
Found at i:19879641 original size:23 final size:23
Alignment explanation
Indices: 19879599--19879643 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
19879589 ATTAATTTTA
19879599 ATTTTTATTATATAAAAATAAAT
1 ATTTTTATTATATAAAAATAAAT
19879622 ATTTTATATT-TA-AAATAATAAA
1 ATTTT-TATTATATAAA-AATAAA
19879644 ATTAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 3 0.15
23 13 0.65
24 4 0.20
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
ATTTTTATTATATAAAAATAAAT
Found at i:19886953 original size:42 final size:42
Alignment explanation
Indices: 19886894--19886982 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
19886884 TCCTAATGTG
*
19886894 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAATATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
*
19886936 GAAAATAGTTCTCTTATTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
*
19886978 TAAAA
1 GAAAA
19886983 AAATTTCTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
Found at i:19887029 original size:19 final size:18
Alignment explanation
Indices: 19887007--19887046 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
19886997 TGAATAAAAC
19887007 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
19887026 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
19887044 TTA
1 TTA
19887047 AAATATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:19890976 original size:19 final size:18
Alignment explanation
Indices: 19890954--19890993 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
19890944 TGAATAAAAC
19890954 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
19890973 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
19890991 TTA
1 TTA
19890994 AAATATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:19891022 original size:15 final size:15
Alignment explanation
Indices: 19891002--19891030 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19890992 TAAAATATAT
19891002 ATACATATTTCAACA
1 ATACATATTTCAACA
19891017 ATACATATTTCAAC
1 ATACATATTTCAAC
19891031 TATATACTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (15 bp):
ATACATATTTCAACA
Found at i:19899410 original size:16 final size:16
Alignment explanation
Indices: 19899383--19899424 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
19899373 TGGATTATTT
19899383 TTTAATGGAACATATAA
1 TTTAA-GGAACATATAA
19899400 TTTAAGGAACATATAA
1 TTTAAGGAACATATAA
*
19899416 TTTAGGGAA
1 TTTAAGGAA
19899425 AATAATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 19 0.79
17 5 0.21
ACGTcount: A:0.45, C:0.05, G:0.17, T:0.33
Consensus pattern (16 bp):
TTTAAGGAACATATAA
Found at i:19907677 original size:27 final size:27
Alignment explanation
Indices: 19907622--19907678 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
19907612 GTACTTCATG
19907622 TTATTTTTTCTTAATTTTTATTAACTT
1 TTATTTTTTCTTAATTTTTATTAACTT
*
19907649 TTATTTTTT-TTGAATATTTTA-TAATTT
1 TTATTTTTTCTT-AAT-TTTTATTAACTT
19907676 TTA
1 TTA
19907679 AATCATTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 2 0.07
27 20 0.74
28 5 0.19
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.70
Consensus pattern (27 bp):
TTATTTTTTCTTAATTTTTATTAACTT
Found at i:19908142 original size:9 final size:9
Alignment explanation
Indices: 19908128--19908158 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
19908118 TTATTTCAGT
19908128 TTTTTAAAA
1 TTTTTAAAA
19908137 TTTTTAAAA
1 TTTTTAAAA
*
19908146 TCTTTAAAA
1 TTTTTAAAA
19908155 TTTT
1 TTTT
19908159 AAATTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:19909381 original size:17 final size:18
Alignment explanation
Indices: 19909361--19909395 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
19909351 ATAAATTTTA
19909361 TTAAA-TTATAATTATTT
1 TTAAATTTATAATTATTT
19909378 TTAAATTTATAATTATTT
1 TTAAATTTATAATTATTT
19909396 AATAATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTAAATTTATAATTATTT
Found at i:19912398 original size:19 final size:19
Alignment explanation
Indices: 19912357--19912400 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
19912347 GCAATTAAAT
* *
19912357 TTTTTTATAATTTTATACT
1 TTTTTAATAATTTTATACA
19912376 TTTTTAATAATTTTA-ACGA
1 TTTTTAATAATTTTATAC-A
19912395 TTTTTA
1 TTTTTA
19912401 TTTTTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTTAATAATTTTATACA
Found at i:19916477 original size:14 final size:14
Alignment explanation
Indices: 19916458--19916488 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
19916448 TATAAAGAGC
*
19916458 TAAAAATGTTTTTT
1 TAAAAATATTTTTT
19916472 TAAAAATATTTTTT
1 TAAAAATATTTTTT
19916486 TAA
1 TAA
19916489 TTTCTAGAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (14 bp):
TAAAAATATTTTTT
Found at i:19921404 original size:31 final size:31
Alignment explanation
Indices: 19921366--19921428 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
19921356 AACATTGATG
19921366 AAATTAGGTTAAGTGGGTTAGCCAAATTATT
1 AAATTAGGTTAAGTGGGTTAGCCAAATTATT
19921397 AAATTAGGTTAAGTGGGTTAGCCAAATTATT
1 AAATTAGGTTAAGTGGGTTAGCCAAATTATT
19921428 A
1 A
19921429 CTGAAAAGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.35
Consensus pattern (31 bp):
AAATTAGGTTAAGTGGGTTAGCCAAATTATT
Found at i:19921637 original size:35 final size:35
Alignment explanation
Indices: 19921598--19921674 Score: 106
Period size: 35 Copynumber: 2.2 Consensus size: 35
19921588 CATGCTCACG
19921598 ATTTGAGT-GAAATTTTCTT-TAACAAATTTATAAAA
1 ATTTGA-TAGAAATTTT-TTGTAACAAATTTATAAAA
*
19921633 ATTTGATAGAAATTTTTTGTAACAAGTTTATAAAA
1 ATTTGATAGAAATTTTTTGTAACAAATTTATAAAA
19921668 A-TTGATA
1 ATTTGATA
19921675 TTAAAAATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
34 9 0.23
35 30 0.77
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (35 bp):
ATTTGATAGAAATTTTTTGTAACAAATTTATAAAA
Found at i:19928658 original size:47 final size:47
Alignment explanation
Indices: 19928589--19928682 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
19928579 AAAGATAGAT
* *
19928589 TCTAACAGTCCATTAATTCAATTAATCTATCCGGTTAGAATAAATAA
1 TCTAACAGTCCATCAATTCAATTAATCTATCCGGTTAAAATAAATAA
* * *
19928636 TCTAACAGTTCATCACTTCAATTAATCTATTCGGTTAAAATAAATAA
1 TCTAACAGTCCATCAATTCAATTAATCTATCCGGTTAAAATAAATAA
19928683 ATTATTATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.35
Consensus pattern (47 bp):
TCTAACAGTCCATCAATTCAATTAATCTATCCGGTTAAAATAAATAA
Found at i:19929927 original size:14 final size:14
Alignment explanation
Indices: 19929908--19929956 Score: 71
Period size: 14 Copynumber: 3.3 Consensus size: 14
19929898 TATAACAATT
19929908 TTATATAATAAAAA
1 TTATATAATAAAAA
19929922 TTATATAATAAATGAA
1 TTATATAATAAA--AA
19929938 TTTATATAATAAAAA
1 -TTATATAATAAAAA
19929953 TTAT
1 TTAT
19929957 TTTATTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
14 16 0.50
15 2 0.06
16 2 0.06
17 12 0.38
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (14 bp):
TTATATAATAAAAA
Found at i:19930639 original size:7 final size:7
Alignment explanation
Indices: 19930627--19930652 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
19930617 ATTACAAAAA
19930627 AAATTGT
1 AAATTGT
19930634 AAATTGT
1 AAATTGT
19930641 AAATTGT
1 AAATTGT
19930648 AAATT
1 AAATT
19930653 TATATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (7 bp):
AAATTGT
Found at i:19930687 original size:25 final size:25
Alignment explanation
Indices: 19930609--19930688 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
19930599 TTTTCATATA
19930609 AAATTAAAATTACAAAAAAAATTGT
1 AAATTAAAATTACAAAAAAAATTGT
* ** *** *
19930634 AAATTGTAAATT-GTAAATTTATAT-A
1 AAATT-AAAATTACAAAAAAAAT-TGT
19930659 AAATTAAAATTACAAAAAAAATTGT
1 AAATTAAAATTACAAAAAAAATTGT
19930684 AAATT
1 AAATT
19930689 GTAAATTGTT
Statistics
Matches: 37, Mismatches: 14, Indels: 8
0.63 0.24 0.14
Matches are distributed among these distances:
24 6 0.16
25 25 0.68
26 6 0.16
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.34
Consensus pattern (25 bp):
AAATTAAAATTACAAAAAAAATTGT
Found at i:19932718 original size:23 final size:23
Alignment explanation
Indices: 19932675--19932720 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
19932665 AGTATTATCC
* *
19932675 TTTAAATATTTTATCTTTCAAAT
1 TTTAAAAATTATATCTTTCAAAT
19932698 TTTAAAAATTATAT-TTATCAAAT
1 TTTAAAAATTATATCTT-TCAAAT
19932721 AATCTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (23 bp):
TTTAAAAATTATATCTTTCAAAT
Found at i:19936742 original size:25 final size:24
Alignment explanation
Indices: 19936695--19936743 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
19936685 TTATTAAATG
*
19936695 TCTAACAACGAAAAACATGAAAAA
1 TCTAACAACGAAAAACATAAAAAA
* *
19936719 TCTAACTAACGAATAATATAAAAAA
1 TCTAAC-AACGAAAAACATAAAAAA
19936744 CATGTTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.61, C:0.14, G:0.06, T:0.18
Consensus pattern (24 bp):
TCTAACAACGAAAAACATAAAAAA
Found at i:19939790 original size:19 final size:19
Alignment explanation
Indices: 19939745--19939791 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
19939735 AACCATTATA
19939745 AAAATTTATAAAAAAACATT
1 AAAA-TTATAAAAAAACATT
*
19939765 AAGAATTAT-AAAAATCATTT
1 AA-AATTATAAAAAAACA-TT
19939785 AAAATTA
1 AAAATTA
19939792 CAATAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 12 0.50
20 10 0.42
21 2 0.08
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (19 bp):
AAAATTATAAAAAAACATT
Found at i:19939803 original size:19 final size:19
Alignment explanation
Indices: 19939763--19939812 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
19939753 TAAAAAAACA
*
19939763 TTAAGAATTATAAAAATCAT
1 TTAA-AATTACAAAAATCAT
19939783 TTAAAATTACAATAAAT-AT
1 TTAAAATTACAA-AAATCAT
*
19939802 TT-GAATTACAA
1 TTAAAATTACAA
19939813 GTTAATTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 8 0.30
19 11 0.41
20 8 0.30
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (19 bp):
TTAAAATTACAAAAATCAT
Found at i:19940003 original size:19 final size:20
Alignment explanation
Indices: 19939981--19940018 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19939971 TTAAGTTTTG
19939981 ATAAATT-TAATATTTTTAA
1 ATAAATTATAATATTTTTAA
*
19940000 ATAAATTATTATATTTTTA
1 ATAAATTATAATATTTTTA
19940019 TTGATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATAAATTATAATATTTTTAA
Found at i:19940763 original size:20 final size:20
Alignment explanation
Indices: 19940740--19940777 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
19940730 AATACATTTA
* *
19940740 AAAACATAAAAATAAATATT
1 AAAACAAAAAAACAAATATT
19940760 AAAACAAAAAAACAAATA
1 AAAACAAAAAAACAAATA
19940778 AAAAATGAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (20 bp):
AAAACAAAAAAACAAATATT
Found at i:19941013 original size:17 final size:17
Alignment explanation
Indices: 19940968--19941015 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
19940958 TACTAAAGTT
*
19940968 ATTTAAAATTAAAAATA
1 ATTTAATATTAAAAATA
*** *
19940985 AAAAAATTTTAAAAATA
1 ATTTAATATTAAAAATA
19941002 ATTTAATATTAAAA
1 ATTTAATATTAAAA
19941016 TTGGGCCGGG
Statistics
Matches: 22, Mismatches: 9, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATTTAATATTAAAAATA
Found at i:19958556 original size:19 final size:19
Alignment explanation
Indices: 19958534--19958579 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
19958524 GTTTTTTTTT
19958534 AATTTAATTTCTTT-T-ATA
1 AATTTAATTT-TTTATAATA
19958552 GAATTTAATTTTTTATAATA
1 -AATTTAATTTTTTATAATA
19958572 AATTTAAT
1 AATTTAAT
19958580 AACATTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.12
19 19 0.76
20 3 0.12
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (19 bp):
AATTTAATTTTTTATAATA
Found at i:19972577 original size:16 final size:16
Alignment explanation
Indices: 19972558--19972588 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19972548 TTGAAAAAGT
19972558 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
19972574 TTTCAAATTTATATG
1 TTTCAAATATATATG
19972589 CTCTAACATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:19974860 original size:3 final size:3
Alignment explanation
Indices: 19974852--19974890 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
19974842 TAAAGTTGAC
* *
19974852 ATT ATT ATT ACT ATT ACT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
19974891 GTTGCTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:19975713 original size:108 final size:107
Alignment explanation
Indices: 19975438--19975834 Score: 611
Period size: 108 Copynumber: 3.7 Consensus size: 107
19975428 AAGGAAAACA
* * * *
19975438 TTTCAAAATAAAGCAATATTTTGCGTTCGGAAGTTCGAGGAGCGTGCCCTAAGGTACTGGGTTTC
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTC
*
19975503 GATTTCTCGTTCGACCAATTAGCTAAATATCCTTTTAAAAACT
66 GATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAA-T
* *
19975546 TTTCAAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCCAAGGTACTGGGTTT
1 TTTC-AAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
* *
19975611 CGATTTCTCGTTCCACCAAAT-GACTTAATATCCTTTTCAAAAAT
65 CGATTTCTCGTTCGACCAAATAG-CTAAATATCCTTTT-AAAAAT
*
19975655 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTTGAGGAACGTGCCCTAAGGTACTGGGTTTC
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTC
19975720 GATTTCTCGTTCGACCAAATAGCTAAATATCCTTTT-AAAA-
66 GATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAAT
* * * *
19975760 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAATGTGCTCTAAGGTGCTGGGTTTC
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTC
19975825 GATTTCTCGT
66 GATTTCTCGT
19975835 CTAACCAAAT
Statistics
Matches: 266, Mismatches: 19, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
105 70 0.26
106 4 0.02
108 95 0.36
109 92 0.35
110 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (107 bp):
TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTC
GATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAAT
Found at i:19979169 original size:28 final size:25
Alignment explanation
Indices: 19979115--19979171 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 25
19979105 AAGATTCAAC
19979115 ATAAATAAAATATAAACAATTTGAA
1 ATAAATAAAATATAAACAATTTGAA
* *
19979140 ATAAAGTAATATATAAAGCAAATTTTAA
1 ATAAA-TAAAATATAAA-C-AATTTGAA
19979168 ATAA
1 ATAA
19979172 TTAATATGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 5 0.19
26 10 0.37
27 1 0.04
28 11 0.41
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.30
Consensus pattern (25 bp):
ATAAATAAAATATAAACAATTTGAA
Found at i:19979882 original size:17 final size:18
Alignment explanation
Indices: 19979862--19979906 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
19979852 CATGAATATA
* *
19979862 AATA-TAATACTAATGGT
1 AATAGTAATAATAATGAT
19979879 AATAGT-ATAATAATGAT
1 AATAGTAATAATAATGAT
19979896 AATAGTAATAA
1 AATAGTAATAA
19979907 AAAACAACGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 19 0.79
18 5 0.21
ACGTcount: A:0.53, C:0.02, G:0.11, T:0.33
Consensus pattern (18 bp):
AATAGTAATAATAATGAT
Found at i:19982047 original size:78 final size:78
Alignment explanation
Indices: 19981957--19982112 Score: 278
Period size: 78 Copynumber: 2.0 Consensus size: 78
19981947 TGGAAAATAG
19981957 GCTCATTAAGGATTCTAAACATATAAATTTAAGCCCCTAATTATTTTTCTCCAA-TTTTTTATGA
1 GCTCATTAAGGATTCTAAACATATAAATTTAAGCCCCTAATTATTTTTCTCCAATTTTTTTATGA
19982021 TTTTTCCAAAGTCA
66 -TTTTCCAAAGTCA
* *
19982035 GCTCATTAAGGATTCTAAACATATAAATTTAATCCCGTAATTATTTTTCTCCAATTTTTTTATGA
1 GCTCATTAAGGATTCTAAACATATAAATTTAAGCCCCTAATTATTTTTCTCCAATTTTTTTATGA
19982100 TTTTCCAAAGTCA
66 TTTTCCAAAGTCA
19982113 AAACAGGGAA
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
78 65 0.87
79 10 0.13
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.43
Consensus pattern (78 bp):
GCTCATTAAGGATTCTAAACATATAAATTTAAGCCCCTAATTATTTTTCTCCAATTTTTTTATGA
TTTTCCAAAGTCA
Found at i:19983354 original size:3 final size:3
Alignment explanation
Indices: 19983348--19983391 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
19983338 AATAATAATA
19983348 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
19983392 AAAAAATAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:19984330 original size:16 final size:16
Alignment explanation
Indices: 19984298--19984343 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
19984288 ATCGATTTGA
19984298 AAAGAAAAGA-AAGAAAG
1 AAAGAAAA-ATAA-AAAG
19984315 TAAA-AAAAATAAAAAG
1 -AAAGAAAAATAAAAAG
19984331 AAAGAAAAATAAA
1 AAAGAAAAATAAA
19984344 TAAATAGCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.12
16 14 0.54
17 6 0.23
18 3 0.12
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (16 bp):
AAAGAAAAATAAAAAG
Found at i:19984330 original size:20 final size:20
Alignment explanation
Indices: 19984307--19984347 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
19984297 AAAAGAAAAG
19984307 AAAGAAAGTAAAAA-AAATAA
1 AAAGAAAG-AAAAATAAATAA
19984327 AAAGAAAGAAAAATAAATAA
1 AAAGAAAGAAAAATAAATAA
19984347 A
1 A
19984348 TAGCGGTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (20 bp):
AAAGAAAGAAAAATAAATAA
Found at i:19985109 original size:44 final size:43
Alignment explanation
Indices: 19985011--19985133 Score: 122
Period size: 44 Copynumber: 2.8 Consensus size: 43
19985001 TACTCGTAGT
* * ** * *
19985011 TTTAACCTG-TCCCACTGCAACTTCAGGGGGGTAAGGTTTGTGGC
1 TTTAACCTGCT-CCACTGCAACTTCA-GGAGATAAGACTAGTGAC
* *
19985055 TTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTAGTGAC
1 TTTAACCTGCTCCACTGCAACTTCAGG-AGATAAGACTAGTGAC
*
19985099 TTTAACCTGCTCCACTACAACTTCAAGGAGATAAG
1 TTTAACCTGCTCCACTGCAACTTC-AGGAGATAAG
19985134 GTTTGTTTTG
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
43 2 0.03
44 59 0.91
45 4 0.06
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (43 bp):
TTTAACCTGCTCCACTGCAACTTCAGGAGATAAGACTAGTGAC
Found at i:19988104 original size:9 final size:9
Alignment explanation
Indices: 19988086--19988122 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
19988076 AATGTTTAAA
*
19988086 TATATGTAT
1 TATATATAT
19988095 TATATATAT
1 TATATATAT
19988104 TATATATAT
1 TATATATAT
19988113 TATATTATAT
1 TATA-TATAT
19988123 AATAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 21 0.81
10 5 0.19
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (9 bp):
TATATATAT
Found at i:19989078 original size:14 final size:15
Alignment explanation
Indices: 19989046--19989092 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
19989036 ATTGTTTACT
*
19989046 TATTATTTA-AGTAAA
1 TATTATTTATA-TTAA
19989061 TATTA-TTATATTAA
1 TATTATTTATATTAA
19989075 TATTATTTTATATTAA
1 TATTA-TTTATATTAA
19989091 TA
1 TA
19989093 AAATAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 11 0.39
15 6 0.21
16 11 0.39
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
TATTATTTATATTAA
Found at i:19989087 original size:16 final size:17
Alignment explanation
Indices: 19989061--19989092 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
19989051 TTTAAGTAAA
19989061 TATTATTATATTAATAT
1 TATTATTATATTAATAT
19989078 TATT-TTATATTAATA
1 TATTATTATATTAATA
19989093 AAATAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTATTATATTAATAT
Found at i:19989613 original size:12 final size:11
Alignment explanation
Indices: 19989593--19989644 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
19989583 GGTAAGATTA
*
19989593 AAATTGAAATT
1 AAATAGAAATT
19989604 AAAGTAGAAATT
1 AAA-TAGAAATT
*
19989616 GAATAGAAATT
1 AAATAGAAATT
*
19989627 GAATAAGAAATTT
1 AAAT-AGAAA-TT
19989640 AAATA
1 AAATA
19989645 TTAAATGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
11 15 0.43
12 15 0.43
13 5 0.14
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (11 bp):
AAATAGAAATT
Found at i:19989624 original size:11 final size:11
Alignment explanation
Indices: 19989598--19989638 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
19989588 GATTAAAATT
*
19989598 GAAATTAAAGTA
1 GAAATTGAA-TA
19989610 GAAATTGAATA
1 GAAATTGAATA
19989621 GAAATTGAATAA
1 GAAATTGAAT-A
19989633 GAAATT
1 GAAATT
19989639 TAAATATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 12 0.44
12 15 0.56
ACGTcount: A:0.56, C:0.00, G:0.17, T:0.27
Consensus pattern (11 bp):
GAAATTGAATA
Found at i:19990011 original size:24 final size:22
Alignment explanation
Indices: 19989978--19990037 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 22
19989968 TTTACAATTG
* *
19989978 AAATGGATTGATTTGGTATGTGAT
1 AAATGTATTGATTT-ATATG-GAT
19990002 AAATGTATTGAATTTATATGGAT
1 AAATGTATTG-ATTTATATGGAT
*
19990025 ATATGTGATTGAT
1 AAATGT-ATTGAT
19990038 GTGTAAATTG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 10 0.32
24 17 0.55
25 4 0.13
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.43
Consensus pattern (22 bp):
AAATGTATTGATTTATATGGAT
Found at i:19990348 original size:44 final size:44
Alignment explanation
Indices: 19990299--19990390 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 44
19990289 TGTTTGGGGA
* *
19990299 TACTTCGACCTT-TAGTCGATGAGGCACTATAAGTGTCGTACTGT
1 TACTTCGA-CTTCGAGTCGATGAGGCACCATAAGTGTCGTACTGT
**
19990343 TACTTCGACTTCGAGTCGATGAGGCACCATGTGTGTCGTACTGT
1 TACTTCGACTTCGAGTCGATGAGGCACCATAAGTGTCGTACTGT
19990387 TACT
1 TACT
19990391 GTTACTTTGG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 3 0.07
44 40 0.93
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.34
Consensus pattern (44 bp):
TACTTCGACTTCGAGTCGATGAGGCACCATAAGTGTCGTACTGT
Found at i:19990585 original size:18 final size:18
Alignment explanation
Indices: 19990560--19990622 Score: 90
Period size: 18 Copynumber: 3.5 Consensus size: 18
19990550 TGACTGACTA
*
19990560 TTACTGAATGATTGATTG
1 TTACTGAATAATTGATTG
* *
19990578 TTATTGAATAACTGATTG
1 TTACTGAATAATTGATTG
*
19990596 CTACTGAATAATTGATTG
1 TTACTGAATAATTGATTG
19990614 TTACTGAAT
1 TTACTGAAT
19990623 GATACTAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (18 bp):
TTACTGAATAATTGATTG
Found at i:19990620 original size:28 final size:28
Alignment explanation
Indices: 19990588--19990641 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
19990578 TTATTGAATA
* *
19990588 ACTGATTGCTACTGAAT-AATTGATTGTT
1 ACTGAATGATACT-AATAAATTGATTGTT
19990616 ACTGAATGATACTAATAAATTGATTG
1 ACTGAATGATACTAATAAATTGATTG
19990642 ATATTGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 3 0.13
28 20 0.87
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (28 bp):
ACTGAATGATACTAATAAATTGATTGTT
Found at i:19994436 original size:125 final size:124
Alignment explanation
Indices: 19994199--19994889 Score: 695
Period size: 125 Copynumber: 5.5 Consensus size: 124
19994189 AGCATAAGGA
*
19994199 AATATTTCGTGTTTGGAAGTTGGAGAAATCGTGCCCAATCGTGCTGGG-TTACGACTTTTTCATT
1 AATATTTCGTGTTTGGAAGTTTGAGAAATCGTGCCCAATCGTGCTGGGCTT-CGA-TTTTTCATT
* * * * * * * * *
19994263 CAATTGAACTAGGGAATATCCTTGTGAGATTTCATCCATGTTTCTT-AAATGGAAACGAGGC
64 CGACTAAAATACGGAATATCCTTTTGAAATTTCATCCATGTTTTTTAAAAT-AAAACGAGGC
* * ** *
19994324 AATATTTCGTGTTTGGGAGTTCGAGGGATCGTGCCCAATCGTGCTGGGCTTCGATTTTTCGTTC-
1 AATATTTCGTGTTTGGAAGTTTGAGAAATCGTGCCCAATCGTGCTGGGCTTCGATTTTTCATTCG
* ** *
19994388 AGCTAAAATACGGAATATCCTTTGGAAATTTTGTCCATGTTTTTTTAAAAAAATTAAAATGAGGC
66 A-CTAAAATACGGAATATCCTTTTGAAATTTCATCCATG-TTTTTT---AAAA-TAAAACGAGGC
* * * * * *
19994453 AATATGTCGTATTTGGGGAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGTTTTTTTCATT
1 AATATTTCGTGTTT-GGAAGTTTGAGAAATCGTGCCCAATCGTGCTGGGCTTCG-ATTTTTCATT
** *
19994518 CGACTAAAATATAGAATATCCTTTTTTGAAATTTCATCCACGTTTTCTTAAAATAAAACGAGGC
64 CGACTAAAATACGGAATATCC--TTTTGAAATTTCATCCATGTTTT-TTAAAATAAAACGAGGC
* * * * *
19994582 AATATTTCGTGTTTGGAAGTTTGGGAAGTTGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTCG
1 AATATTTCGTGTTTGGAAGTTTGAGAAATCGTGCCCAATCGTGCTGGGCTTCGATTTTTCATTCG
* **
19994647 ACTAAAATATGGAATATCCTTTTTGAAATTTCATCCACATTTTCTTAAAATAAAACGAGGC
66 ACTAAAATACGGAATATCC-TTTTGAAATTTCATCCATGTTTT-TTAAAATAAAACGAGGC
* * * * * *
19994708 AATATTTCGTGTTTGGAAGTTTGGGGAGTCGTGCCCAATCGTGCTGAGCTTCAATTTTCCATTCG
1 AATATTTCGTGTTTGGAAGTTTGAGAAATCGTGCCCAATCGTGCTGGGCTTCGATTTTTCATTCG
* * * * * *
19994773 ACTAAAATACAGAATATCCTTTTAAAATTTCGTCCATGTTTTCTCAAATTAAAATGAGGC
66 ACTAAAATACGGAATATCCTTTTGAAATTTCATCCATGTTTT-TTAAAATAAAACGAGGC
* * * * * * * * *
19994833 AATGTTTCGTATTTGAAAATTCGATAAATCGTGCCCAATCGTACTAGGTTTCGATTT
1 AATATTTCGTGTTTGGAAGTTTGAGAAATCGTGCCCAATCGTGCTGGGCTTCGATTT
19994890 ATCGTTTGGG
Statistics
Matches: 482, Mismatches: 70, Indels: 28
0.83 0.12 0.05
Matches are distributed among these distances:
123 1 0.00
124 37 0.08
125 129 0.27
126 122 0.25
127 28 0.06
128 32 0.07
129 45 0.09
130 41 0.09
131 25 0.05
132 5 0.01
133 17 0.04
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.36
Consensus pattern (124 bp):
AATATTTCGTGTTTGGAAGTTTGAGAAATCGTGCCCAATCGTGCTGGGCTTCGATTTTTCATTCG
ACTAAAATACGGAATATCCTTTTGAAATTTCATCCATGTTTTTTAAAATAAAACGAGGC
Found at i:19994690 original size:126 final size:125
Alignment explanation
Indices: 19994199--19994874 Score: 682
Period size: 126 Copynumber: 5.3 Consensus size: 125
19994189 AGCATAAGGA
* *
19994199 AATATTTCGTGTTTGGAAG-TTGGAGAAATCGTGCCCAATCGTGCTGGG-TTACGACTTTTTCAT
1 AATATTTCGTGTTTGGAAGTTTGG-GAAGTCGTGCCCAATCGTGCTGGGCTT-C-AATTTTTCAT
* * * * * * * * *
19994262 TCAATTGAACTAGGGAATATCCTTGTGAGATTTCATCCATG-TTTCTT-AAATGGAAACGAGGC
63 TCGACTAAAATACGGAATATCCTTTTGAAATTTCATCCACGTTTTCTTAAAAT-AAAACGAGGC
* * * * *
19994324 AATATTTCGTGTTTGGGAGTTCGAGGGA-TCGTGCCCAATCGTGCTGGGCTTCGATTTTTCGTTC
1 AATATTTCGTGTTTGGAAGTTTG-GGAAGTCGTGCCCAATCGTGCTGGGCTTCAATTTTTCATTC
* ** * * *
19994388 -AGCTAAAATACGGAATATCCTTTGGAAATTTTGTCCATGTTTTTTTAAAAAAATTAAAATGAGG
65 GA-CTAAAATACGGAATATCCTTTTGAAATTTCATCCACGTTTTCTT---AAAA-TAAAACGAGG
19994452 C
125 C
* * * * * **
19994453 AATATGTCGTATTTGGGGAGTTTGAG-AGATCGTGCCCAATCGTGCTGGGTTTCGTTTTTTTCAT
1 AATATTTCGTGTTT-GGAAGTTTGGGAAG-TCGTGCCCAATCGTGCTGGGCTTC-AATTTTTCAT
**
19994517 TCGACTAAAATATAGAATATCCTTTTTTGAAATTTCATCCACGTTTTCTTAAAATAAAACGAGGC
63 TCGACTAAAATACGGAATATCC--TTTTGAAATTTCATCCACGTTTTCTTAAAATAAAACGAGGC
* *
19994582 AATATTTCGTGTTTGGAAGTTTGGGAAGTTGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTCG
1 AATATTTCGTGTTTGGAAGTTTGGGAAGTCGTGCCCAATCGTGCTGGGCTTCAATTTTTCATTCG
* *
19994647 ACTAAAATATGGAATATCCTTTTTGAAATTTCATCCACATTTTCTTAAAATAAAACGAGGC
66 ACTAAAATACGGAATATCC-TTTTGAAATTTCATCCACGTTTTCTTAAAATAAAACGAGGC
* * *
19994708 AATATTTCGTGTTTGGAAGTTTGGGGAGTCGTGCCCAATCGTGCTGAGCTTCAATTTTCCATTCG
1 AATATTTCGTGTTTGGAAGTTTGGGAAGTCGTGCCCAATCGTGCTGGGCTTCAATTTTTCATTCG
* * * * * * *
19994773 ACTAAAATACAGAATATCCTTTTAAAATTTCGTCCATGTTTTCTCAAATTAAAATGAGGC
66 ACTAAAATACGGAATATCCTTTTGAAATTTCATCCACGTTTTCTTAAAATAAAACGAGGC
* * * * * ** *
19994833 AATGTTTCGTATTTGAAAATTCGATAAATCGTGCCCAATCGT
1 AATATTTCGTGTTTGGAAGTTTGGGAAGTCGTGCCCAATCGT
19994875 ACTAGGTTTC
Statistics
Matches: 467, Mismatches: 66, Indels: 36
0.82 0.12 0.06
Matches are distributed among these distances:
123 1 0.00
124 37 0.08
125 111 0.24
126 126 0.27
127 29 0.06
128 32 0.07
129 48 0.10
130 36 0.08
131 25 0.05
132 1 0.00
133 21 0.04
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (125 bp):
AATATTTCGTGTTTGGAAGTTTGGGAAGTCGTGCCCAATCGTGCTGGGCTTCAATTTTTCATTCG
ACTAAAATACGGAATATCCTTTTGAAATTTCATCCACGTTTTCTTAAAATAAAACGAGGC
Found at i:20007409 original size:30 final size:31
Alignment explanation
Indices: 20007354--20007412 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
20007344 CACCCTTGAA
* * *
20007354 ATATTTGCACTATTGATCCTTCAAATTTTCT
1 ATATTTACACTATTAATCCCTCAAATTTTCT
20007385 ATATTTACACT-TTAATCCCTCAAATTTT
1 ATATTTACACTATTAATCCCTCAAATTTT
20007413 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.29, C:0.20, G:0.03, T:0.47
Consensus pattern (31 bp):
ATATTTACACTATTAATCCCTCAAATTTTCT
Found at i:20007420 original size:30 final size:31
Alignment explanation
Indices: 20007354--20007422 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
20007344 CACCCTTGAA
* * * *
20007354 ATATTTGCACTATTGATCCTTCAAATTTTCT
1 ATATTTACACTATTAATCCCTCAAATTTTCG
20007385 ATATTTACACT-TTAATCCCTCAAATTTT-G
1 ATATTTACACTATTAATCCCTCAAATTTTCG
20007414 AGTATTTAC
1 A-TATTTAC
20007423 TCTTAGACAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 1 0.03
30 22 0.67
31 10 0.30
ACGTcount: A:0.29, C:0.19, G:0.06, T:0.46
Consensus pattern (31 bp):
ATATTTACACTATTAATCCCTCAAATTTTCG
Found at i:20007795 original size:15 final size:15
Alignment explanation
Indices: 20007775--20007804 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20007765 AGAAAGATGC
20007775 ATGCATTTATCATGA
1 ATGCATTTATCATGA
*
20007790 ATGCATTTATTATGA
1 ATGCATTTATCATGA
20007805 GAATATTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.43
Consensus pattern (15 bp):
ATGCATTTATCATGA
Found at i:20012337 original size:19 final size:20
Alignment explanation
Indices: 20012300--20012344 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
20012290 TTACCTTTAT
** *
20012300 TAATTTAAAATTTTTAAAAA
1 TAATTTAAAAACTTAAAAAA
20012320 -AATTTAAAAACTTAAAAAA
1 TAATTTAAAAACTTAAAAAA
20012339 TAATTT
1 TAATTT
20012345 TATATTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
TAATTTAAAAACTTAAAAAA
Found at i:20014909 original size:131 final size:130
Alignment explanation
Indices: 20014537--20014917 Score: 348
Period size: 131 Copynumber: 2.9 Consensus size: 130
20014527 GAAAGAGATA
* * * ** * * *
20014537 TTCGATTATTTTGAACAAACGGGAGATTGCAACGCAGCACGATAGGGCGCT-ATTCCCCGAATTG
1 TTCGATTGTTTTGAACAAACGAGAAACCGCAACCCAGCACGATAGGGC-ATGATT-CCTGAATTG
* * * *
20014601 CCAAACATCGAGCATT-TCTTCCGTTTTAAAGAGTTTTTAGAAAACGA-GAGTGAAATTCCAAAG
64 CCAAACACCGAG-ATTGCCTT-CGTTTTAAAGGGTTTTTAGAAAAC-ATGAGTGAAATACCAAAG
20014664 GAATC
126 GAATC
* * * *
20014669 TTCGATTGTTTTGAACGAACGA-AAATGCGCAA-CCAGCACGATAGGGCACGATT-CTCAAATTG
1 TTCGATTGTTTTGAACAAACGAGAAA-CCGCAACCCAGCACGATAGGGCATGATTCCT-GAATTG
** * *
20014731 CCAAACATCTAAGATCGCCTTCGTTTTGGAA-GGTTTTTA-ATAAACATGAGTGAAA-ACCTAAA
64 CCAAACA-CCGAGATTGCCTTCGTTTT-AAAGGGTTTTTAGA-AAACATGAGTGAAATACC-AAA
* *
20014793 TGAATG
125 GGAATC
* **
20014799 TTCGATTGTTTTGAACAAACGAGAAACCACAACCCAGCACGATAGGGCATGATTCCTGAATTATC
1 TTCGATTGTTTTGAACAAACGAGAAACCGCAACCCAGCACGATAGGGCATGATTCCTGAATTGCC
* *
20014864 AAACACCGAGTATTGCCTTCGTTTTAAAGGGTTTTTAGAAGACATGGGTGAAAT
66 AAACACCGAG-ATTGCCTTCGTTTTAAAGGGTTTTTAGAAAACATGAGTGAAAT
20014918 TTTGGAGGGA
Statistics
Matches: 199, Mismatches: 34, Indels: 32
0.75 0.13 0.12
Matches are distributed among these distances:
129 5 0.03
130 76 0.38
131 92 0.46
132 26 0.13
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (130 bp):
TTCGATTGTTTTGAACAAACGAGAAACCGCAACCCAGCACGATAGGGCATGATTCCTGAATTGCC
AAACACCGAGATTGCCTTCGTTTTAAAGGGTTTTTAGAAAACATGAGTGAAATACCAAAGGAATC
Found at i:20016098 original size:15 final size:15
Alignment explanation
Indices: 20016080--20016108 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
20016070 AAAATAATTT
20016080 TATACAAAACATATA
1 TATACAAAACATATA
20016095 TATACAAAACATAT
1 TATACAAAACATAT
20016109 TATCATAACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (15 bp):
TATACAAAACATATA
Found at i:20018030 original size:15 final size:15
Alignment explanation
Indices: 20018012--20018040 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
20018002 AAAATAATTT
20018012 TATACAAAACATATA
1 TATACAAAACATATA
20018027 TATACAAAACATAT
1 TATACAAAACATAT
20018041 TATCATAACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (15 bp):
TATACAAAACATATA
Found at i:20020079 original size:132 final size:132
Alignment explanation
Indices: 20019842--20020097 Score: 343
Period size: 132 Copynumber: 1.9 Consensus size: 132
20019832 TGCTATATTA
* * * * *
20019842 AGCCTATTCTACTACAATTTCAGGGAGCTAGGATGATGGCTTGAATCTGCTTCACTGTAACTTCA
1 AGCCTACTCCACTACAATTTCAAGGAGCTAGGACGATGGCTTAAATCTGCTTCACTGTAACTTCA
* * * *
20019907 GGAATACTAGATTCACCGTCTTTGATCTGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATT
66 GGAAGACAAGATTCACCGTCTTCGATCTACTCCACTGCAACTTCAGGGAAACAAGATCTAAAATT
20019972 TC
131 TC
* * *
20019974 AGCCTACTCCACTACAACTTT-AAGGAGCTAGGCCGGTGGCTTAAATCTGCTTCACTGTAACTTT
1 AGCCTACTCCACTACAA-TTTCAAGGAGCTAGGACGATGGCTTAAATCTGCTTCACTGTAACTTC
* ** * *
20020038 AGGAAGCCAAGATTTTCCGTCTTCGATCTACTTCACTGCAACTTCAGGGAAACGAGATCT
65 AGGAAGACAAGATTCACCGTCTTCGATCTACTCCACTGCAACTTCAGGGAAACAAGATCT
20020098 GTAGAATTTA
Statistics
Matches: 106, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
132 103 0.97
133 3 0.03
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
AGCCTACTCCACTACAATTTCAAGGAGCTAGGACGATGGCTTAAATCTGCTTCACTGTAACTTCA
GGAAGACAAGATTCACCGTCTTCGATCTACTCCACTGCAACTTCAGGGAAACAAGATCTAAAATT
TC
Found at i:20033012 original size:15 final size:15
Alignment explanation
Indices: 20032994--20033022 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
20032984 AAAATAATTT
20032994 TATACAAAACATATA
1 TATACAAAACATATA
20033009 TATACAAAACATAT
1 TATACAAAACATAT
20033023 TATCATAACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (15 bp):
TATACAAAACATATA
Found at i:20035889 original size:18 final size:21
Alignment explanation
Indices: 20035868--20035909 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
20035858 TACAGTTGGA
*
20035868 ATTC-ATTTGTAT-TAT-ATT
1 ATTCAATTTGAATATATCATT
20035886 ATTCAATTTGAATATATCATT
1 ATTCAATTTGAATATATCATT
20035907 ATT
1 ATT
20035910 TAAATCCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 4 0.20
19 7 0.35
20 3 0.15
21 6 0.30
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (21 bp):
ATTCAATTTGAATATATCATT
Found at i:20037723 original size:25 final size:25
Alignment explanation
Indices: 20037693--20037741 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
20037683 ATTAAAATGT
20037693 AAGTATTATATTAAAATAAATTTTA
1 AAGTATTATATTAAAATAAATTTTA
20037718 AAGTATTATATTAAAATAAATTTT
1 AAGTATTATATTAAAATAAATTTT
20037742 GGTTTAGTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (25 bp):
AAGTATTATATTAAAATAAATTTTA
Found at i:20039661 original size:54 final size:54
Alignment explanation
Indices: 20039579--20039686 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
20039569 ACAGTCTTTG
20039579 GTGTTCAATTGTATAAAAAATGCCTATGCCATATCACCGCATGTAAAAAAAACA
1 GTGTTCAATTGTATAAAAAATGCCTATGCCATATCACCGCATGTAAAAAAAACA
20039633 GTGTTCAATTGTATAAAAAATGCCTATGCCATATCACCGCATGTAAAAAAAACA
1 GTGTTCAATTGTATAAAAAATGCCTATGCCATATCACCGCATGTAAAAAAAACA
20039687 TGTCAAATTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.26
Consensus pattern (54 bp):
GTGTTCAATTGTATAAAAAATGCCTATGCCATATCACCGCATGTAAAAAAAACA
Found at i:20042133 original size:18 final size:18
Alignment explanation
Indices: 20042112--20042147 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
20042102 CAATTAAACC
20042112 ATTTGATTGATATATTTA
1 ATTTGATTGATATATTTA
* *
20042130 ATTTGATTTATTTATTTA
1 ATTTGATTGATATATTTA
20042148 TAATTGAGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (18 bp):
ATTTGATTGATATATTTA
Found at i:20042144 original size:4 final size:4
Alignment explanation
Indices: 20042124--20042193 Score: 54
Period size: 4 Copynumber: 16.8 Consensus size: 4
20042114 TTGATTGATA
* * *
20042124 TATT TAATT TGATT TATT TATT TA-T AATT GAGTAT TA-T TATA TATT
1 TATT T-ATT T-ATT TATT TATT TATT TATT TA-T-T TATT TATT TATT
20042170 TATT TGATT TATT TATT TATT TAT
1 TATT T-ATT TATT TATT TATT TAT
20042194 AAATAAATCA
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
3 5 0.09
4 34 0.63
5 13 0.24
6 2 0.04
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (4 bp):
TATT
Found at i:20042252 original size:18 final size:18
Alignment explanation
Indices: 20042231--20042273 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
20042221 ATAATTTAAA
20042231 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
20042249 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
20042267 ATGTAAA
1 ATATAAA
20042274 AACAGTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:20042993 original size:10 final size:9
Alignment explanation
Indices: 20042972--20043009 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
20042962 GGGTTATTAA
20042972 TTTTTTTA-
1 TTTTTTTAT
20042980 -TTTTTTAT
1 TTTTTTTAT
20042988 TTTTTTTAT
1 TTTTTTTAT
20042997 TTTTTTTACT
1 TTTTTTTA-T
20043007 TTT
1 TTT
20043010 GCTACTTGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 7 0.26
9 16 0.59
10 4 0.15
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:20043033 original size:18 final size:17
Alignment explanation
Indices: 20042968--20043033 Score: 53
Period size: 18 Copynumber: 3.8 Consensus size: 17
20042958 AGTTGGGTTA
20042968 TTAATTTTTTTA-TTTT
1 TTAATTTTTTTACTTTT
* *
20042984 TTATTTTTTTTATTTTTT
1 TTAATTTTTTTA-CTTTT
* ** *
20043002 TTACTTTTGCTACTTGCT
1 TTAATTTTTTTACTT-TT
20043020 TTAATTTTTTTACT
1 TTAATTTTTTTACT
20043034 ATTATTTTTT
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
16 11 0.29
17 2 0.05
18 25 0.66
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.74
Consensus pattern (17 bp):
TTAATTTTTTTACTTTT
Found at i:20046237 original size:18 final size:18
Alignment explanation
Indices: 20046216--20046250 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
20046206 ATTTGACAGT
*
20046216 CCAACTAGATTTTAAGTG
1 CCAAATAGATTTTAAGTG
20046234 CCAAATAGATTTTAAGT
1 CCAAATAGATTTTAAGT
20046251 ATATCTGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.34
Consensus pattern (18 bp):
CCAAATAGATTTTAAGTG
Found at i:20051337 original size:187 final size:187
Alignment explanation
Indices: 20051022--20051396 Score: 734
Period size: 187 Copynumber: 2.0 Consensus size: 187
20051012 CAGCTGTAAT
20051022 TGTTGCACTTCCAACTTTAATATGTTGATATTGATATTATTATTAATGTAAAAAGACATAGTTTT
1 TGTTGCACTTCCAACTTTAATATGTTGATATTGATATTATTATTAATGTAAAAAGACATAGTTTT
20051087 AAGTGTGCTTAAGCACGCTTTACCTTTTTATTTAAGGATTAAATAAAATTTATGAATAGTTCAAT
66 AAGTGTGCTTAAGCACGCTTTACCTTTTTATTTAAGGATTAAATAAAATTTATGAATAGTTCAAT
20051152 AAAAAAATTTAATACATATATATACGGGCTCATCTATCATTAATGATAATATGATAC
131 AAAAAAATTTAATACATATATATACGGGCTCATCTATCATTAATGATAATATGATAC
20051209 TGTTGCACTTCCAACTTTAAT-TGGTTGATATTGATATTATTATTAATGTAAAAAGACATAGTTT
1 TGTTGCACTTCCAACTTTAATAT-GTTGATATTGATATTATTATTAATGTAAAAAGACATAGTTT
20051273 TAAGTGTGCTTAAGCACGCTTTACCTTTTTATTTAAGGATTAAATAAAATTTATGAATAGTTCAA
65 TAAGTGTGCTTAAGCACGCTTTACCTTTTTATTTAAGGATTAAATAAAATTTATGAATAGTTCAA
20051338 TAAAAAAATTTAATACATATATATACGGGCTCATCTATCATTAATGATAATATGATAC
130 TAAAAAAATTTAATACATATATATACGGGCTCATCTATCATTAATGATAATATGATAC
20051396 T
1 T
20051397 TCATAAATGA
Statistics
Matches: 187, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
186 1 0.01
187 186 0.99
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.40
Consensus pattern (187 bp):
TGTTGCACTTCCAACTTTAATATGTTGATATTGATATTATTATTAATGTAAAAAGACATAGTTTT
AAGTGTGCTTAAGCACGCTTTACCTTTTTATTTAAGGATTAAATAAAATTTATGAATAGTTCAAT
AAAAAAATTTAATACATATATATACGGGCTCATCTATCATTAATGATAATATGATAC
Found at i:20054043 original size:20 final size:20
Alignment explanation
Indices: 20054018--20054058 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
20054008 TTTTTAATTT
20054018 TAACCATCTAACCATAGAAG
1 TAACCATCTAACCATAGAAG
*
20054038 TAACCATCTAACCATGGAAG
1 TAACCATCTAACCATAGAAG
20054058 T
1 T
20054059 TGACATGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.24, G:0.12, T:0.22
Consensus pattern (20 bp):
TAACCATCTAACCATAGAAG
Found at i:20059355 original size:40 final size:36
Alignment explanation
Indices: 20059310--20059396 Score: 95
Period size: 40 Copynumber: 2.3 Consensus size: 36
20059300 AATATCGTAC
*
20059310 ATATTTTATGTAT-TATTATGATTAATTAGTTTTAAACCAT
1 ATATTTTAT-TATCTATTAT-A-T-ATTACTTTTAAA-CAT
*
20059350 ATATTTTATTATCTATTATATGTTACTTTTAAACAT
1 ATATTTTATTATCTATTATATATTACTTTTAAACAT
20059386 ATATTTATATT
1 ATATTT-TATT
20059397 TTAAAATCGT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
36 9 0.21
37 14 0.33
38 1 0.02
39 4 0.09
40 15 0.35
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (36 bp):
ATATTTTATTATCTATTATATATTACTTTTAAACAT
Found at i:20063734 original size:3 final size:3
Alignment explanation
Indices: 20063726--20063766 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
20063716 CATACCATCC
20063726 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CC- CCA CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
20063767 GCAACAACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.32, C:0.68, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:20064491 original size:33 final size:33
Alignment explanation
Indices: 20064454--20064521 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
20064444 TCCACCTGCT
20064454 CGTGGAGAACCAGCACCGCCCCCCCCTCCTATG
1 CGTGGAGAACCAGCACCGCCCCCCCCTCCTATG
* * * *
20064487 CGTGGGGCACCTGCACCGCCCCCGCCTCCTATG
1 CGTGGAGAACCAGCACCGCCCCCCCCTCCTATG
20064520 CG
1 CG
20064522 GGGGGCTCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.13, C:0.49, G:0.25, T:0.13
Consensus pattern (33 bp):
CGTGGAGAACCAGCACCGCCCCCCCCTCCTATG
Found at i:20064527 original size:33 final size:33
Alignment explanation
Indices: 20064466--20064536 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
20064456 TGGAGAACCA
*
20064466 GCACCGCCCCCCCCTCCTATGCGTGGGGCACCT
1 GCACCGCCCCCCCCTCCTATGCGGGGGGCACCT
* *
20064499 GCACCGCCCCCGCCTCCTATGCGGGGGGCTCCT
1 GCACCGCCCCCCCCTCCTATGCGGGGGGCACCT
*
20064532 CCACC
1 GCACC
20064537 TCCTCCAGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.08, C:0.52, G:0.25, T:0.14
Consensus pattern (33 bp):
GCACCGCCCCCCCCTCCTATGCGGGGGGCACCT
Found at i:20065343 original size:14 final size:14
Alignment explanation
Indices: 20065324--20065353 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
20065314 CCCCCCCCCA
20065324 AAAAAAAAAAAAAC
1 AAAAAAAAAAAAAC
*
20065338 AAAAAAAAAAATAC
1 AAAAAAAAAAAAAC
20065352 AA
1 AA
20065354 GTTGAAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.90, C:0.07, G:0.00, T:0.03
Consensus pattern (14 bp):
AAAAAAAAAAAAAC
Found at i:20073314 original size:5 final size:5
Alignment explanation
Indices: 20073306--20073335 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
20073296 TCATGGGATA
20073306 TGATT TGATT TGATT TGATT TGATT TGATT
1 TGATT TGATT TGATT TGATT TGATT TGATT
20073336 CCTCCATCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
TGATT
Found at i:20075154 original size:8 final size:7
Alignment explanation
Indices: 20075126--20075150 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
20075116 AGGAAAAAGG
20075126 AAAAGAA
1 AAAAGAA
20075133 AAAAGAA
1 AAAAGAA
20075140 AAAAGAA
1 AAAAGAA
20075147 AAAA
1 AAAA
20075151 AGAATTCCTC
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:20079910 original size:51 final size:53
Alignment explanation
Indices: 20079851--20079954 Score: 194
Period size: 51 Copynumber: 2.0 Consensus size: 53
20079841 TTTGTGTTTC
20079851 ATACATTTTTTATTTTGGAAAAAGAAAAACCTTTCAATTGTTT-T-AAATATA
1 ATACATTTTTTATTTTGGAAAAAGAAAAACCTTTCAATTGTTTGTAAAATATA
20079902 ATACATTTTTTATTTTGGAAAAAGAAAAACCTTTCAATTGTTTGTAAAATATA
1 ATACATTTTTTATTTTGGAAAAAGAAAAACCTTTCAATTGTTTGTAAAATATA
20079955 TTTAATGGAA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
51 43 0.84
52 1 0.02
53 7 0.14
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (53 bp):
ATACATTTTTTATTTTGGAAAAAGAAAAACCTTTCAATTGTTTGTAAAATATA
Found at i:20082482 original size:18 final size:17
Alignment explanation
Indices: 20082456--20082489 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
20082446 ATAAAATAAA
*
20082456 ATATTTAAAAATCATTAC
1 ATATATAAAAAT-ATTAC
20082474 ATATATAAAAATATTA
1 ATATATAAAAATATTA
20082490 TAGGAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (17 bp):
ATATATAAAAATATTAC
Found at i:20085305 original size:18 final size:18
Alignment explanation
Indices: 20085254--20085307 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
20085244 AACAAGCCAA
20085254 AAATAATAACAACAAAAAT
1 AAATAAT-ACAACAAAAAT
*
20085273 AAA-AATAAAGGACAAAAAT
1 AAATAATACA--ACAAAAAT
20085292 AAATAATACAACAAAA
1 AAATAATACAACAAAA
20085308 CAGCCAACAG
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
17 2 0.07
18 9 0.30
19 14 0.47
20 5 0.17
ACGTcount: A:0.74, C:0.09, G:0.04, T:0.13
Consensus pattern (18 bp):
AAATAATACAACAAAAAT
Found at i:20086036 original size:33 final size:33
Alignment explanation
Indices: 20085985--20086059 Score: 132
Period size: 33 Copynumber: 2.3 Consensus size: 33
20085975 AGGAAAGAAA
* *
20085985 ATAAGAAAGATAGACTACTTTCCTTCTTAATGC
1 ATAAAAAAAATAGACTACTTTCCTTCTTAATGC
20086018 ATAAAAAAAATAGACTACTTTCCTTCTTAATGC
1 ATAAAAAAAATAGACTACTTTCCTTCTTAATGC
20086051 ATAAAAAAA
1 ATAAAAAAA
20086060 CAAATCATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.31
Consensus pattern (33 bp):
ATAAAAAAAATAGACTACTTTCCTTCTTAATGC
Found at i:20088232 original size:6 final size:6
Alignment explanation
Indices: 20088221--20088259 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
20088211 AACTCCAGGG
* * *
20088221 CCAACA CCAACA CCAGCA CCAGCA CCAGCA CCAACA CCA
1 CCAACA CCAACA CCAACA CCAACA CCAACA CCAACA CCA
20088260 GAAACACCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.41, C:0.51, G:0.08, T:0.00
Consensus pattern (6 bp):
CCAACA
Found at i:20088240 original size:12 final size:12
Alignment explanation
Indices: 20088225--20088260 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
20088215 CCAGGGCCAA
20088225 CACCAACACCAG
1 CACCAACACCAG
*
20088237 CACCAGCACCAG
1 CACCAACACCAG
20088249 CACCAACACCAG
1 CACCAACACCAG
20088261 AAACACCCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.39, C:0.50, G:0.11, T:0.00
Consensus pattern (12 bp):
CACCAACACCAG
Found at i:20088246 original size:18 final size:18
Alignment explanation
Indices: 20088206--20088260 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
20088196 ACCACCACTT
* **
20088206 GCACCAACTCCAGGGCCA
1 GCACCAACACCAGCACCA
*
20088224 ACACCAACACCAGCACCA
1 GCACCAACACCAGCACCA
* *
20088242 GCACCAGCACCAACACCA
1 GCACCAACACCAGCACCA
20088260 G
1 G
20088261 AAACACCCAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.36, C:0.47, G:0.15, T:0.02
Consensus pattern (18 bp):
GCACCAACACCAGCACCA
Found at i:20089951 original size:5 final size:5
Alignment explanation
Indices: 20089941--20089965 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
20089931 TATTTATCAT
20089941 ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA
20089966 TATTATCACG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:20094370 original size:23 final size:23
Alignment explanation
Indices: 20094342--20094435 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
20094332 ATGTGTGTAT
* *
20094342 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
20094365 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
20094388 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
20094411 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
20094434 CT
1 CT
20094436 CTTCTAACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.22, C:0.26, G:0.04, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:20097141 original size:14 final size:15
Alignment explanation
Indices: 20097120--20097154 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
20097110 ACATCAGCAA
20097120 CAAAAAAAATAAATT
1 CAAAAAAAATAAATT
20097135 CAAAAAAAATAAATT
1 CAAAAAAAATAAATT
20097150 CAAAA
1 CAAAA
20097155 GTTAAAAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (15 bp):
CAAAAAAAATAAATT
Found at i:20097207 original size:16 final size:15
Alignment explanation
Indices: 20097186--20097226 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
20097176 AAATGAAGGA
20097186 ATAAAATAATTTTTTT
1 ATAAAAT-ATTTTTTT
*
20097202 ATAAAATTTTTTTTT
1 ATAAAATATTTTTTT
*
20097217 ATAAAGTATT
1 ATAAAATATT
20097227 ATGTTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (15 bp):
ATAAAATATTTTTTT
Found at i:20107024 original size:30 final size:30
Alignment explanation
Indices: 20106985--20107365 Score: 520
Period size: 30 Copynumber: 13.1 Consensus size: 30
20106975 GAATACGCCG
* *
20106985 AATATACTACATATATTTTTTTATTTTTAC
1 AATACACTACATATATTTTTTTATTTTTAA
20107015 AATACACTACATATATTTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTATTTTTAA
20107045 AATACACTACATATA--TTTTTATTTTTAA
1 AATACACTACATATATTTTTTTATTTTTAA
*
20107073 AATACACTACACATATTTTTTTTATTTTTAA
1 AATACACTACATATA-TTTTTTTATTTTTAA
20107104 AATACACTACATATA--TTTTTATTTTTAA
1 AATACACTACATATATTTTTTTATTTTTAA
*
20107132 AATACACTACACATATTTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTATTTTTAA
*
20107162 AATACACTACATATATTTTTTTACTTTTAA
1 AATACACTACATATATTTTTTTATTTTTAA
* * * *
20107192 AATACAATTCATATA--TATATA-TTTTAA
1 AATACACTACATATATTTTTTTATTTTTAA
* *
20107219 AATACACTACATATATTTTTTTATTTCTAG
1 AATACACTACATATATTTTTTTATTTTTAA
20107249 AATACACTACATATA-TTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTATTTTTAA
*
20107278 AATACACTACATATA----TATA-TTTTAA
1 AATACACTACATATATTTTTTTATTTTTAA
20107303 AATACACTACA-AGTATTTTTTTATTTTTAA
1 AATACACTACATA-TATTTTTTTATTTTTAA
* *
20107333 AATCCATTACATATATTTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTATTTTTAA
20107363 AAT
1 AAT
20107366 TTTAAATACA
Statistics
Matches: 313, Mismatches: 23, Indels: 30
0.86 0.06 0.08
Matches are distributed among these distances:
24 1 0.00
25 19 0.06
26 3 0.01
27 19 0.06
28 58 0.19
29 34 0.11
30 151 0.48
31 28 0.09
ACGTcount: A:0.38, C:0.11, G:0.01, T:0.50
Consensus pattern (30 bp):
AATACACTACATATATTTTTTTATTTTTAA
Found at i:20107102 original size:59 final size:59
Alignment explanation
Indices: 20106985--20107365 Score: 496
Period size: 59 Copynumber: 6.5 Consensus size: 59
20106975 GAATACGCCG
* * *
20106985 AATATACTACATATATTTTTTTATTTTTACAATACACTACATATATTTTTTTATTTTTAA
1 AATACACTACATATA-TTTTTTATTTTTAAAATACACTACACATATTTTTTTATTTTTAA
20107045 AATACACTACATATA-TTTTTATTTTTAAAATACACTACACATATTTTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAAAATACACTACACATA-TTTTTTTATTTTTAA
20107104 AATACACTACATATA-TTTTTATTTTTAAAATACACTACACATATTTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAAAATACACTACACATATTTTTTTATTTTTAA
* ** * * *
20107162 AATACACTACATATATTTTTTTACTTTTAAAATACA--ATTCATATATATATA-TTTTAA
1 AATACACTACATATA-TTTTTTATTTTTAAAATACACTACACATATTTTTTTATTTTTAA
* * *
20107219 AATACACTACATATATTTTTTTATTTCTAGAATACACTACATATA-TTTTTTATTTTTAA
1 AATACACTACATATA-TTTTTTATTTTTAAAATACACTACACATATTTTTTTATTTTTAA
*
20107278 AATACACTACATATA---TATA-TTTTAAAATACACTACA-AGTATTTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAAAATACACTACACA-TATTTTTTTATTTTTAA
* *
20107333 AATCCATTACATATATTTTTTTATTTTTAAAAT
1 AATACACTACATATA-TTTTTTATTTTTAAAAT
20107366 TTTAAATACA
Statistics
Matches: 284, Mismatches: 24, Indels: 26
0.85 0.07 0.08
Matches are distributed among these distances:
53 1 0.00
54 17 0.06
55 30 0.11
57 39 0.14
58 70 0.25
59 86 0.30
60 41 0.14
ACGTcount: A:0.38, C:0.11, G:0.01, T:0.50
Consensus pattern (59 bp):
AATACACTACATATATTTTTTATTTTTAAAATACACTACACATATTTTTTTATTTTTAA
Found at i:20107136 original size:117 final size:116
Alignment explanation
Indices: 20106985--20107365 Score: 508
Period size: 117 Copynumber: 3.3 Consensus size: 116
20106975 GAATACGCCG
* *
20106985 AATATACTACATATATTTTTTTATTTTTACAATACACTACATATATTTTTTTATTTTTAAAATAC
1 AATACACTACATATA-TTTTTTATTTTTAAAATACACTACATATATTTTTTTATTTTTAAAATAC
20107050 ACTACATATATTTTTATTTTTAAAATACACTACACATATTTTTTTTATTTTTAA
65 ACTACATATATTTTTA-TTTTAAAATACACTACACATA-TTTTTTTATTTTTAA
*
20107104 AATACACTACATATA-TTTTTATTTTTAAAATACACTACACATATTTTTTTATTTTTAAAATACA
1 AATACACTACATATATTTTTTATTTTTAAAATACACTACATATATTTTTTTATTTTTAAAATACA
** * * *
20107168 CTACATATATTTTTTTACTTTTAAAATACA--ATTCATATATATATA-TTTTAA
66 CTACATATA--TTTTTA-TTTTAAAATACACTACACATATTTTTTTATTTTTAA
* *
20107219 AATACACTACATATATTTTTTTATTTCTAGAATACACTACATATA-TTTTTTATTTTTAAAATAC
1 AATACACTACATATA-TTTTTTATTTTTAAAATACACTACATATATTTTTTTATTTTTAAAATAC
*
20107283 ACTACATATA--TATATTTTAAAATACACTACA-AGTATTTTTTTATTTTTAA
65 ACTACATATATTTTTATTTTAAAATACACTACACA-TATTTTTTTATTTTTAA
* *
20107333 AATCCATTACATATATTTTTTTATTTTTAAAAT
1 AATACACTACATATA-TTTTTTATTTTTAAAAT
20107366 TTTAAATACA
Statistics
Matches: 232, Mismatches: 22, Indels: 21
0.84 0.08 0.08
Matches are distributed among these distances:
111 12 0.05
112 4 0.02
113 8 0.03
114 35 0.15
115 21 0.09
116 34 0.15
117 86 0.37
119 32 0.14
ACGTcount: A:0.38, C:0.11, G:0.01, T:0.50
Consensus pattern (116 bp):
AATACACTACATATATTTTTTATTTTTAAAATACACTACATATATTTTTTTATTTTTAAAATACA
CTACATATATTTTTATTTTAAAATACACTACACATATTTTTTTATTTTTAA
Found at i:20107148 original size:87 final size:87
Alignment explanation
Indices: 20106993--20107365 Score: 474
Period size: 87 Copynumber: 4.3 Consensus size: 87
20106983 CGAATATACT
* *
20106993 ACATATATTTTTTTATTTTTACAATACACTACATATATTTTTTTATTTTTAAAATACACTACATA
1 ACATAT-TTTTTTTATTTTTAAAATACACTACATATA--TTTATA-TTTTAAAATACACTACATA
20107058 TA-TTTTTATTTTTAAAATACACTAC
62 TATTTTTTATTTTTAAAATACACTAC
* *
20107083 ACATATTTTTTTTATTTTTAAAATACACTACATATATTTTTATTTTTAAAATACACTACACATAT
1 ACATATTTTTTTTATTTTTAAAATACACTACATATATTTATA-TTTTAAAATACACTACATATA-
20107148 TTTTTTATTTTTAAAATACACTAC
64 TTTTTTATTTTTAAAATACACTAC
* * * * *
20107172 ATATA-TTTTTTTACTTTTAAAATACAATTCATATATATATATTTTAAAATACACTACATATATT
1 ACATATTTTTTTTATTTTTAAAATACACTACATATATTTATATTTTAAAATACACTACATATA-T
* *
20107236 TTTTTATTTCTAGAATACACT--
65 TTTTTATTTTTAAAATACACTAC
*
20107257 ACATATATTTTTTATTTTTAAAATACACTACATATA--TATATTTTAAAATACACTACA-AGTAT
1 ACATATTTTTTTTATTTTTAAAATACACTACATATATTTATATTTTAAAATACACTACATA-TA-
* *
20107319 TTTTTTATTTTTAAAATCCATTAC
64 TTTTTTATTTTTAAAATACACTAC
*
20107343 ATATA-TTTTTTTATTTTTAAAAT
1 ACATATTTTTTTTATTTTTAAAAT
20107366 TTTAAATACA
Statistics
Matches: 255, Mismatches: 22, Indels: 17
0.87 0.07 0.06
Matches are distributed among these distances:
83 1 0.00
84 42 0.16
85 21 0.08
86 30 0.12
87 68 0.27
88 31 0.12
89 56 0.22
90 6 0.02
ACGTcount: A:0.38, C:0.11, G:0.01, T:0.51
Consensus pattern (87 bp):
ACATATTTTTTTTATTTTTAAAATACACTACATATATTTATATTTTAAAATACACTACATATATT
TTTTATTTTTAAAATACACTAC
Done.