Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 33 of 211
Found at i:8775039 original size:21 final size:21
Alignment explanation
Indices: 8775014--8775057 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
8775004 AGCCGTGTAA
*
8775014 TAGTCGATTTTTGTGAAAAAT
1 TAGTCAATTTTTGTGAAAAAT
*
8775035 TAGTCAATTTTTTTGAAAAAT
1 TAGTCAATTTTTGTGAAAAAT
8775056 TA
1 TA
8775058 TGTCCCAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (21 bp):
TAGTCAATTTTTGTGAAAAAT
Found at i:8788066 original size:5 final size:5
Alignment explanation
Indices: 8788056--8788131 Score: 54
Period size: 5 Copynumber: 15.6 Consensus size: 5
8788046 TAAATATATA
* * *
8788056 ATAAT ATAAT ATAAT ATATT AATAAT ATAAT ATAA- AAAAT ACTTAT -TAAT
1 ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT A-TAAT ATAAT
*
8788106 -TAAGT A-AAT TTAAT ATAAT AT-AT ATA
1 ATAA-T ATAAT ATAAT ATAAT ATAAT ATA
8788132 TTTTAAATTA
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
4 14 0.25
5 36 0.64
6 6 0.11
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:8789641 original size:24 final size:21
Alignment explanation
Indices: 8789573--8789657 Score: 64
Period size: 24 Copynumber: 3.8 Consensus size: 21
8789563 TGAATTATAA
*
8789573 TAAA-ATAATATATATAATATATA
1 TAAATATAA-ATATAT-A-ATATG
* *
8789596 TAAATATACATATTTTAATATG
1 TAAATATAAATA-TATAATATG
8789618 TGAAAATATAAATATATAAGTATG
1 T--AAATATAAATATATAA-TATG
*
8789642 TACATATAAATATATA
1 TAAATATAAATATATA
8789658 CTTATAAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
22 19 0.37
23 12 0.24
24 20 0.39
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (21 bp):
TAAATATAAATATATAATATG
Found at i:8789902 original size:41 final size:41
Alignment explanation
Indices: 8789826--8789914 Score: 112
Period size: 41 Copynumber: 2.2 Consensus size: 41
8789816 TATAGATATA
* *
8789826 TATAAGAATTATGAAATATATGTAAGTATATATATATAGGTT
1 TATAAAAATTATGAAATATATGTAAGTATAGATATATAGG-T
8789868 TATAAAAATTA-GAAATATAATCGT-A-TATAGATATATAGGT
1 TATAAAAATTATGAAATAT-AT-GTAAGTATAGATATATAGGT
8789908 TATAAAA
1 TATAAAA
8789915 TATGAAGAGT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
40 8 0.19
41 20 0.47
42 13 0.30
43 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.12, T:0.37
Consensus pattern (41 bp):
TATAAAAATTATGAAATATATGTAAGTATAGATATATAGGT
Found at i:8791710 original size:41 final size:44
Alignment explanation
Indices: 8791660--8791770 Score: 113
Period size: 45 Copynumber: 2.6 Consensus size: 44
8791650 GGTCCGCTCC
* * *
8791660 ACTGTAACTTCAGGGAGATAAGACT-C-ATCGT-GGTCTACTT-T
1 ACTGCAACTTCAGAGAGATAAGACTGCTATCGTCAGTCTA-TTCT
* *
8791701 ACTGCAACTTCAGAGAGATAATATCTGCTATCTTCAGTCTATTCT
1 ACTGCAACTTCAGAGAGATAAGA-CTGCTATCGTCAGTCTATTCT
* *
8791746 ACTGCAACATCAGTGAGATAAGACT
1 ACTGCAACTTCAGAGAGATAAGACT
8791771 TGTAGCTTCA
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
41 20 0.35
42 2 0.04
43 1 0.02
44 8 0.14
45 26 0.46
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (44 bp):
ACTGCAACTTCAGAGAGATAAGACTGCTATCGTCAGTCTATTCT
Found at i:8791942 original size:44 final size:44
Alignment explanation
Indices: 8791880--8791994 Score: 115
Period size: 43 Copynumber: 2.6 Consensus size: 44
8791870 GACTCATGTC
* * *
8791880 TTCAACTTGCCCCACTGCAACTTCAAAGGGATAAGACTTGTAAT
1 TTCAACCTGCCCTACTGCAACTTCAAAGGGACAAGACTTGTAAT
* * * * ** *
8791924 TTCAACCTGCCCTGCTGCAATTTC-AGGGGGCAAGGTTTGTTAT
1 TTCAACCTGCCCTACTGCAACTTCAAAGGGACAAGACTTGTAAT
* *
8791967 TTCAACCTGCTCTACTGCAACTTAAAAG
1 TTCAACCTGCCCTACTGCAACTTCAAAG
8791995 AGCTAAGGTT
Statistics
Matches: 55, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
43 33 0.60
44 22 0.40
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (44 bp):
TTCAACCTGCCCTACTGCAACTTCAAAGGGACAAGACTTGTAAT
Found at i:8792198 original size:44 final size:43
Alignment explanation
Indices: 8792017--8792199 Score: 163
Period size: 44 Copynumber: 4.1 Consensus size: 43
8792007 TAGCCTATAG
* * * *
8792017 CTTCAATCTGTTCCATTGCAACTTCAGGAAAATAAGATTTGCTAT
1 CTTCAATCTGATCCACTGCAACTTCAGGGAGATAAGA-TTG-TAT
* * * * **
8792062 CTTTAATATGGTCCACTGCAACTTCAGGGAGAT-AGAATCCAT
1 CTTCAATCTGATCCACTGCAACTTCAGGGAGATAAGATTGTAT
* * * *
8792104 CATTTTAATCT-ATTCCACTGCAACTTCAGGGAGGTAGGATTAGTAA
1 C--TTCAATCTGA-TCCACTGCAACTTCAGGGAGATAAGATT-GTAT
8792150 CTTCAATCTGATCCACTGCAACTTCAGGGAGATAAGACTTGTAT
1 CTTCAATCTGATCCACTGCAACTTCAGGGAGATAAGA-TTGTAT
8792194 CTTCAA
1 CTTCAA
8792200 CTTGCCCCAT
Statistics
Matches: 110, Mismatches: 21, Indels: 15
0.75 0.14 0.10
Matches are distributed among these distances:
42 3 0.03
43 1 0.01
44 71 0.65
45 33 0.30
46 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (43 bp):
CTTCAATCTGATCCACTGCAACTTCAGGGAGATAAGATTGTAT
Found at i:8792516 original size:90 final size:89
Alignment explanation
Indices: 8792429--8792610 Score: 217
Period size: 89 Copynumber: 2.0 Consensus size: 89
8792419 CTCGATCTGT
* * * * * *
8792429 TTCATTGCTAGTACAAGAATACTAGATCTGCAAT-CTTTTAGTCTGCTCCACTGCAAACTCAG-G
1 TTCACTGCCAGTACAAGAAGACGAGATCTG--ATGCTTTTAGTATACTCCACTGCAAACTCAGAG
8792492 AAGGTC-AGGCTTGTGTCTTTGATCTAC
64 -AGG-CGAGGCTTGTGTCTTTGATCTAC
* * *
8792519 TTCACTGCCAGTACAAGAAGACGAGATTTGTTGCTTTTAGTATACTCCGCTGCAAACTCAGAGAG
1 TTCACTGCCAGTACAAGAAGACGAGATCTGATGCTTTTAGTATACTCCACTGCAAACTCAGAGAG
*
8792584 GCGAGTCTTGTGTCTTTGATCTAC
66 GCGAGGCTTGTGTCTTTGATCTAC
8792608 TTC
1 TTC
8792611 TCTATCGGTA
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
88 2 0.03
89 51 0.65
90 26 0.33
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (89 bp):
TTCACTGCCAGTACAAGAAGACGAGATCTGATGCTTTTAGTATACTCCACTGCAAACTCAGAGAG
GCGAGGCTTGTGTCTTTGATCTAC
Found at i:8794126 original size:19 final size:19
Alignment explanation
Indices: 8794104--8794146 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
8794094 TTTATTTTTA
8794104 TTTTTATT-TTTCTTTTCCT
1 TTTTTATTATTT-TTTTCCT
* *
8794123 TTTTTGTTATTTTTTTTCT
1 TTTTTATTATTTTTTTCCT
8794142 TTTTT
1 TTTTT
8794147 TTGAACATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.05, C:0.09, G:0.02, T:0.84
Consensus pattern (19 bp):
TTTTTATTATTTTTTTCCT
Found at i:8799115 original size:16 final size:17
Alignment explanation
Indices: 8799086--8799118 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8799076 ATAATAACAA
8799086 AAAAATAGATAAAATAT
1 AAAAATAGATAAAATAT
*
8799103 AAAAATATA-AAAATAT
1 AAAAATAGATAAAATAT
8799119 GTATATGTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (17 bp):
AAAAATAGATAAAATAT
Found at i:8799186 original size:24 final size:24
Alignment explanation
Indices: 8799159--8799207 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
8799149 ATATGTGAAT
8799159 TATA-ATAAA-ATA-ATATATATAA
1 TATATATAAATATACATAT-TATAA
*
8799181 TATATATAAATATACATATTTTAA
1 TATATATAAATATACATATTATAA
8799205 TAT
1 TAT
8799208 GTGAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 4 0.17
23 5 0.22
24 10 0.43
25 4 0.17
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
TATATATAAATATACATATTATAA
Found at i:8799232 original size:24 final size:21
Alignment explanation
Indices: 8799164--8799248 Score: 64
Period size: 24 Copynumber: 3.8 Consensus size: 21
8799154 TGAATTATAA
*
8799164 TAAA-ATAATATATATAATATATA
1 TAAATATAA-ATATAT-A-ATATG
* *
8799187 TAAATATACATATTTTAATATG
1 TAAATATAAATA-TATAATATG
8799209 TGAAAATATAAATATATAAGTATG
1 T--AAATATAAATATATAA-TATG
*
8799233 TACATATAAATATATA
1 TAAATATAAATATATA
8799249 CTTATAAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
22 19 0.37
23 12 0.24
24 20 0.39
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (21 bp):
TAAATATAAATATATAATATG
Found at i:8799319 original size:10 final size:10
Alignment explanation
Indices: 8799292--8799345 Score: 53
Period size: 10 Copynumber: 5.8 Consensus size: 10
8799282 TAAGTATGTG
*
8799292 TATATAAAT-
1 TATAAAAATA
8799301 TAT-AAAATA
1 TATAAAAATA
8799310 TATAAAAATA
1 TATAAAAATA
*
8799320 T-T-AAATTA
1 TATAAAAATA
*
8799328 TATGAAAATA
1 TATAAAAATA
8799338 TATAAAAA
1 TATAAAAA
8799346 AAACATATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
8 10 0.27
9 8 0.22
10 19 0.51
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (10 bp):
TATAAAAATA
Found at i:8805039 original size:13 final size:11
Alignment explanation
Indices: 8805010--8805034 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8805000 ACATTATCTC
8805010 TTCTTTTTTTT
1 TTCTTTTTTTT
8805021 TTCTTTTTTTT
1 TTCTTTTTTTT
8805032 TTC
1 TTC
8805035 ACTTTCAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:8807302 original size:12 final size:13
Alignment explanation
Indices: 8807285--8807334 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
8807275 TTGACCTCTC
8807285 ATTTT-CTTTTTT
1 ATTTTCCTTTTTT
8807297 ATTTTCCTTTTTT
1 ATTTTCCTTTTTT
*
8807310 -TTCTCTCCTTTTTC
1 ATT-T-TCCTTTTTT
*
8807324 ATTTTCATTTT
1 ATTTTCCTTTT
8807335 GACCTTGATT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
12 7 0.22
13 14 0.44
14 9 0.28
15 2 0.06
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (13 bp):
ATTTTCCTTTTTT
Found at i:8807388 original size:34 final size:35
Alignment explanation
Indices: 8807339--8807412 Score: 100
Period size: 34 Copynumber: 2.1 Consensus size: 35
8807329 CATTTTGACC
8807339 TTGATTTTTGATTTTTCTTTT-T-CTTCTTTTTGTT
1 TTGATTTTTGATTTTTCTTTTCTCCTTCTTTTT-TT
8807373 TTGA-TTTTGATTTTTTCTTTTGCTCCTTCTTTTTTT
1 TTGATTTTTGA-TTTTTCTTTT-CTCCTTCTTTTTTT
8807409 TTGA
1 TTGA
8807413 ATTGGATCTG
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
33 6 0.17
34 14 0.39
36 7 0.19
37 9 0.25
ACGTcount: A:0.07, C:0.11, G:0.09, T:0.73
Consensus pattern (35 bp):
TTGATTTTTGATTTTTCTTTTCTCCTTCTTTTTTT
Found at i:8811630 original size:28 final size:27
Alignment explanation
Indices: 8811599--8811691 Score: 80
Period size: 29 Copynumber: 3.3 Consensus size: 27
8811589 AATATATGTA
*
8811599 AATTAAAAAGTTAAAATAAATTTGAATG
1 AATTAAAATGTTAAAAT-AATTTGAATG
* * * *
8811627 AATTGACAATGTTGAAATAAGTTGAAATA
1 AATT-AAAATGTTAAAATAATTTG-AATG
*
8811656 AATTAAAGATGTTAAAAT-ATTTGAAAG
1 AATTAAA-ATGTTAAAATAATTTGAATG
*
8811683 AAATAAAAT
1 AATTAAAAT
8811692 ATCTATATAA
Statistics
Matches: 51, Mismatches: 11, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
26 2 0.04
27 8 0.16
28 15 0.29
29 26 0.51
ACGTcount: A:0.55, C:0.01, G:0.13, T:0.31
Consensus pattern (27 bp):
AATTAAAATGTTAAAATAATTTGAATG
Found at i:8811988 original size:22 final size:22
Alignment explanation
Indices: 8811959--8812006 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
8811949 ACAAAAATAC
*
8811959 ATAT-AAAATAAAATAATGCAT
1 ATATAAAAATAAAACAATGCAT
* *
8811980 ATATAAAAATAAACCAATGTAT
1 ATATAAAAATAAAACAATGCAT
8812002 ATATA
1 ATATA
8812007 TATGTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.29
Consensus pattern (22 bp):
ATATAAAAATAAAACAATGCAT
Found at i:8825581 original size:24 final size:24
Alignment explanation
Indices: 8825554--8825599 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
8825544 CAATCTATCT
* *
8825554 ATAGTAGTCTCAGTATATACTACC
1 ATAGCAGTCTCAGGATATACTACC
*
8825578 ATAGCAGTTTCAGGATATACTA
1 ATAGCAGTCTCAGGATATACTA
8825600 TCAAAAATAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (24 bp):
ATAGCAGTCTCAGGATATACTACC
Found at i:8826905 original size:18 final size:17
Alignment explanation
Indices: 8826879--8826912 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8826869 TATGTTACAT
8826879 GTCCATGTGGGCCCACAC
1 GTCCATGT-GGCCCACAC
*
8826897 GTCCGTGTGGCCCACA
1 GTCCATGTGGCCCACA
8826913 TGGTCTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.38, G:0.29, T:0.18
Consensus pattern (17 bp):
GTCCATGTGGCCCACAC
Found at i:8842167 original size:21 final size:21
Alignment explanation
Indices: 8842138--8842185 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
8842128 TTTTTTTTTG
*
8842138 TTTGATGAT-GATAAATAAAT
1 TTTGTTGATAGATAAATAAAT
* *
8842158 ATTTGTTGATAGATTATTAAAT
1 -TTTGTTGATAGATAAATAAAT
8842180 TTTGTT
1 TTTGTT
8842186 AAGTAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (21 bp):
TTTGTTGATAGATAAATAAAT
Found at i:8847318 original size:27 final size:27
Alignment explanation
Indices: 8847283--8847609 Score: 367
Period size: 27 Copynumber: 12.1 Consensus size: 27
8847273 ATTCGTGGGT
*
8847283 AAATAACCGAAATACCCTCGATAGGTA
1 AAATGACCGAAATACCCTCGATAGGTA
*
8847310 AAATGACCGAAATACGCTCGATAGGTA
1 AAATGACCGAAATACCCTCGATAGGTA
* *
8847337 AAATGACCGAAATACCCTAGATGGGTA
1 AAATGACCGAAATACCCTCGATAGGTA
**
8847364 AAATGACC-AAATACATTCGATAGGTA
1 AAATGACCGAAATACCCTCGATAGGTA
* * *
8847390 AAATGACCAAAATACCCTCAATGGGTA
1 AAATGACCGAAATACCCTCGATAGGTA
* * *
8847417 AATTGATCGAAATACCCTCGATGGGTA
1 AAATGACCGAAATACCCTCGATAGGTA
* *
8847444 AAATGATCAAAATACCCTCGA-AGGGTA
1 AAATGACCGAAATACCCTCGATA-GGTA
8847471 AAATGACCGAAATACCCTCGATAGGTA
1 AAATGACCGAAATACCCTCGATAGGTA
* *
8847498 AAATAACCGAAATACCCTCGATGGGTA
1 AAATGACCGAAATACCCTCGATAGGTA
* * *
8847525 AAATAACCGAAATATCCTCGATGGGTA
1 AAATGACCGAAATACCCTCGATAGGTA
* *
8847552 AAATAACCAAAATA-CCTCCGA-AGGGTA
1 AAATGACCGAAATACCCT-CGATA-GGTA
* * *
8847579 AAATAACCAAAATACCC-CCATAAGGTA
1 AAATGACCGAAATACCCTCGAT-AGGTA
8847606 AAAT
1 AAAT
8847610 AACTGTTATA
Statistics
Matches: 264, Mismatches: 28, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
26 27 0.10
27 233 0.88
28 4 0.02
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.19
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCGATAGGTA
Found at i:8852557 original size:27 final size:27
Alignment explanation
Indices: 8852526--8852657 Score: 115
Period size: 27 Copynumber: 4.9 Consensus size: 27
8852516 AATACTTTGG
*
8852526 TTTACAAAATTACTGAAATACCCTTGA
1 TTTACAAAATTACTGAAATACCCTCGA
* * * *
8852553 TTTACAAAATTATTGAAATACCATTGG
1 TTTACAAAATTACTGAAATACCCTCGA
* *
8852580 TTTACAAAATTTCTAAAATACCCTCGA
1 TTTACAAAATTACTGAAATACCCTCGA
* ** ** *
8852607 ATTGTAAAATTACCAAAATACCC-CCA
1 TTTACAAAATTACTGAAATACCCTCGA
*
8852633 GTTTACAAAATTACCG-AATACCCTC
1 -TTTACAAAATTACTGAAATACCCTC
8852658 AGTTTTTGAA
Statistics
Matches: 84, Mismatches: 19, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
26 9 0.11
27 75 0.89
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCCTCGA
Found at i:8852626 original size:54 final size:54
Alignment explanation
Indices: 8852522--8852646 Score: 133
Period size: 54 Copynumber: 2.3 Consensus size: 54
8852512 TTAGAATACT
* * * ***
8852522 TTGGTTTACAAAATTACTGAAATACCCTTGATTTACAAAATTATTGAAATACCA
1 TTGGTTTACAAAATTACTAAAATACCCTCGAATTACAAAATTACCAAAATACCA
* ** *
8852576 TTGGTTTACAAAATTTCTAAAATACCCTCGAATTGTAAAATTACCAAAATACCC
1 TTGGTTTACAAAATTACTAAAATACCCTCGAATTACAAAATTACCAAAATACCA
***
8852630 CCAGTTTACAAAATTAC
1 TTGGTTTACAAAATTAC
8852647 CGAATACCCT
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (54 bp):
TTGGTTTACAAAATTACTAAAATACCCTCGAATTACAAAATTACCAAAATACCA
Found at i:8852728 original size:27 final size:28
Alignment explanation
Indices: 8852584--8852737 Score: 133
Period size: 27 Copynumber: 5.6 Consensus size: 28
8852574 CATTGGTTTA
* * *
8852584 CAAAATTTCTAAAATACCCTC-GAATTG
1 CAAAATTACCAAAATACCCTCAGATTTG
* * *
8852611 TAAAATTACCAAAATACCCCCAG-TTTA
1 CAAAATTACCAAAATACCCTCAGATTTG
* *
8852638 CAAAATTACC-GAATACCCTCAGTTTTTG
1 CAAAATTACCAAAATACCCTCAG-ATTTG
* *
8852666 --AAATTGCCAAAAGTACCC-CTGATTTG
1 CAAAATTACCAAAA-TACCCTCAGATTTG
8852692 CAAAAGTTACCAAAATACCCTCAG-TTTG
1 CAAAA-TTACCAAAATACCCTCAGATTTG
*
8852720 GAAAATTACCAAAATACC
1 CAAAATTACCAAAATACC
8852738 TTATAGGGTA
Statistics
Matches: 101, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
26 21 0.21
27 45 0.45
28 25 0.25
29 10 0.10
ACGTcount: A:0.40, C:0.24, G:0.09, T:0.27
Consensus pattern (28 bp):
CAAAATTACCAAAATACCCTCAGATTTG
Found at i:8853077 original size:27 final size:27
Alignment explanation
Indices: 8853039--8853094 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
8853029 TACTGATATG
* *
8853039 GTATTAGGCTAAGGCCCACCTTGTTCT
1 GTATTAGGCTAAAGCCCACATTGTTCT
*
8853066 GTATTGGGCTAAAGCCCACATTGTTCT
1 GTATTAGGCTAAAGCCCACATTGTTCT
8853093 GT
1 GT
8853095 TCTGTTATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (27 bp):
GTATTAGGCTAAAGCCCACATTGTTCT
Found at i:8857182 original size:28 final size:27
Alignment explanation
Indices: 8857150--8857220 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 27
8857140 TTAATAAGTA
*
8857150 CGCACACTTAGTGCTTAAT-AATCACACT
1 CGCACACTTAGTGCTT--TCAATCAAACT
*
8857178 CGCACACTTAGTGCATTTCAATTAAACT
1 CGCACACTTAGTGC-TTTCAATCAAACT
8857206 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
8857221 AATCTCATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 2 0.05
28 35 0.90
29 2 0.05
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.30
Consensus pattern (27 bp):
CGCACACTTAGTGCTTTCAATCAAACT
Found at i:8860448 original size:12 final size:13
Alignment explanation
Indices: 8860431--8860460 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
8860421 CCTCATTTTG
8860431 TTTTATTTTC-TT
1 TTTTATTTTCATT
8860443 TTTTATTTTCATT
1 TTTTATTTTCATT
8860456 TTTTA
1 TTTTA
8860461 AGTTCAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTATTTTCATT
Found at i:8860590 original size:24 final size:23
Alignment explanation
Indices: 8860557--8860657 Score: 75
Period size: 24 Copynumber: 4.3 Consensus size: 23
8860547 TAAAAACGTA
8860557 TTAAATTTTAAATCTAATATTATT
1 TTAAA-TTTAAATCTAATATTATT
*
8860581 TTAATATTT-AAGCTTAATATTATT
1 TTAA-ATTTAAATC-TAATATTATT
* *
8860605 TTGAATTCATAAT-TAATATTA-T
1 TTAAATTTA-AATCTAATATTATT
* *
8860627 TTAAACTTGT-AATGTACTATTATT
1 TTAAA-TT-TAAATCTAATATTATT
8860651 TTAAATT
1 TTAAATT
8860658 ATCATCAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
22 8 0.13
23 25 0.40
24 26 0.42
25 3 0.05
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.52
Consensus pattern (23 bp):
TTAAATTTAAATCTAATATTATT
Found at i:8861313 original size:18 final size:17
Alignment explanation
Indices: 8861280--8861313 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
8861270 ATGGTATTGT
8861280 TTATTTGCATTAATTAA
1 TTATTTGCATTAATTAA
*
8861297 TTATTTGTCATTCATTA
1 TTATTTG-CATTAATTA
8861314 GACTGCAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.09, G:0.06, T:0.56
Consensus pattern (17 bp):
TTATTTGCATTAATTAA
Found at i:8862461 original size:13 final size:13
Alignment explanation
Indices: 8862443--8862467 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8862433 AACTGAACTC
8862443 GGTAGAACCTCTA
1 GGTAGAACCTCTA
8862456 GGTAGAACCTCT
1 GGTAGAACCTCT
8862468 CCGCACCCGT
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:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (13 bp):
GGTAGAACCTCTA
Found at i:8870465 original size:1 final size:1
Alignment explanation
Indices: 8870459--8870528 Score: 50
Period size: 1 Copynumber: 70.0 Consensus size: 1
8870449 GCAGTAGAGG
* * * * * * * * * *
8870459 AAAAAAAAAGAAAAAAATACAAAAATACAAAAAAAATAAAAAAAAAACAAAAAACAAAAAGAAAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
8870524 AAAAA
1 AAAAA
8870529 CTTTTACCAG
Statistics
Matches: 49, Mismatches: 20, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.86, C:0.07, G:0.03, T:0.04
Consensus pattern (1 bp):
A
Found at i:8870491 original size:19 final size:17
Alignment explanation
Indices: 8870461--8870528 Score: 68
Period size: 18 Copynumber: 3.8 Consensus size: 17
8870451 AGTAGAGGAA
8870461 AAAAAAAGAAAAAAATAC
1 AAAAAAA-AAAAAAATAC
8870479 AAAAATACAAAAAAAATA-
1 AAAAA-A-AAAAAAAATAC
8870497 AAAAAAAAACAAAAA-AC
1 AAAAAAAAA-AAAAATAC
8870514 AAAAAGAAACAAAAA
1 AAAAA-AAA-AAAAA
8870529 CTTTTACCAG
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
16 4 0.09
17 11 0.25
18 17 0.39
19 11 0.25
20 1 0.02
ACGTcount: A:0.85, C:0.07, G:0.03, T:0.04
Consensus pattern (17 bp):
AAAAAAAAAAAAAATAC
Found at i:8870499 original size:27 final size:26
Alignment explanation
Indices: 8870460--8870528 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 26
8870450 CAGTAGAGGA
* *
8870460 AAAAAAAAGAAAAAAATACAAAAATAC
1 AAAAAAAACAAAAAAAAACAAAAA-AC
*
8870487 AAAAAAAATAAAAAAAAAACAAAAAAC
1 AAAAAAAA-CAAAAAAAAACAAAAAAC
8870514 AAAAAGAAACAAAAA
1 AAAAA-AAACAAAAA
8870529 CTTTTACCAG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 20 0.54
28 17 0.46
ACGTcount: A:0.86, C:0.07, G:0.03, T:0.04
Consensus pattern (26 bp):
AAAAAAAACAAAAAAAAACAAAAAAC
Found at i:8870500 original size:28 final size:26
Alignment explanation
Indices: 8870459--8870528 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 26
8870449 GCAGTAGAGG
*
8870459 AAAAAAAAAGAAAAAAATACAAAAATAC
1 AAAAAAAAA-AAAAAAAAACAAAAA-AC
8870487 AAAAAAAATAAAAAAAAAACAAAAAAC
1 AAAAAAAA-AAAAAAAAAACAAAAAAC
* *
8870514 AAAAAGAAACAAAAA
1 AAAAAAAAAAAAAAA
8870529 CTTTTACCAG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 6 0.16
27 9 0.24
28 22 0.58
29 1 0.03
ACGTcount: A:0.86, C:0.07, G:0.03, T:0.04
Consensus pattern (26 bp):
AAAAAAAAAAAAAAAAAACAAAAAAC
Found at i:8872431 original size:51 final size:50
Alignment explanation
Indices: 8872297--8872570 Score: 361
Period size: 51 Copynumber: 5.4 Consensus size: 50
8872287 TTCCCTGGTG
* *
8872297 TTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCG
1 TTGCAGTGGAACAAATTAAAGCTGAAGGCAGCGAATCTTATTT-CTTGGCA
* * * *
8872348 TTACA-TGGAACAGATTAAAGTTGAAGGCAGCGAATCTTATTTCTATGGAA
1 TTGCAGTGGAACAAATTAAAGCTGAAGGCAGCGAATCTTATTTCT-TGGCA
* * *
8872398 TTGTAGTGGAACAGATTAAAGCTGAAGGTAGCGAATCTTATTTCCCTTGGCA
1 TTGCAGTGGAACAAATTAAAGCTGAAGGCAGCGAATCTTATTT--CTTGGCA
* * * **
8872450 TTGCAGTGGAACAAATTAAAGCTGAAGGCAACGAATCTTTTTTCCCTGGTG
1 TTGCAGTGGAACAAATTAAAGCTGAAGGCAGCGAATCTTATTT-CTTGGCA
8872501 TTGCAGTGGAACAAATTAAAGCTGAAGGCAGCGAATCTTATTTCTCTGGCA
1 TTGCAGTGGAACAAATTAAAGCTGAAGGCAGCGAATCTTATTTCT-TGGCA
8872552 TTGCAGTGGAACAAATTAA
1 TTGCAGTGGAACAAATTAA
8872571 GGGTGCGTTT
Statistics
Matches: 196, Mismatches: 22, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
49 2 0.01
50 43 0.22
51 107 0.55
52 42 0.21
53 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (50 bp):
TTGCAGTGGAACAAATTAAAGCTGAAGGCAGCGAATCTTATTTCTTGGCA
Found at i:8872519 original size:103 final size:103
Alignment explanation
Indices: 8872283--8872570 Score: 429
Period size: 103 Copynumber: 2.8 Consensus size: 103
8872273 TATGGAAAAT
8872283 TTTTTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTT-CCTTGGC
1 TTTTTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTTGGC
* * * * *
8872347 GTTACA-TGGAACAGATTAAAGTTGAAGGCAGCGAATC
66 ATTGCAGTGGAACAAATTAAAGCTGAAGGCAACGAATC
* ** ** * *
8872384 TTATTTCTATGGAATTGTAGTGGAACAGATTAAAGCTGAAGGTAGCGAATCTTATTTCCCTTGGC
1 TTTTTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTTGGC
8872449 ATTGCAGTGGAACAAATTAAAGCTGAAGGCAACGAATC
66 ATTGCAGTGGAACAAATTAAAGCTGAAGGCAACGAATC
* *
8872487 TTTTTTCCCTGGTGTTGCAGTGGAACAAATTAAAGCTGAAGGCAGCGAATCTTATTTCTC-TGGC
1 TTTTTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTTGGC
8872551 ATTGCAGTGGAACAAATTAA
66 ATTGCAGTGGAACAAATTAA
8872571 GGGTGCGTTT
Statistics
Matches: 164, Mismatches: 21, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
101 50 0.30
102 35 0.21
103 79 0.48
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (103 bp):
TTTTTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTTGGC
ATTGCAGTGGAACAAATTAAAGCTGAAGGCAACGAATC
Found at i:8874668 original size:13 final size:14
Alignment explanation
Indices: 8874650--8874678 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
8874640 TGATAGGATA
8874650 TTGAATCC-TTTTT
1 TTGAATCCATTTTT
8874663 TTGAATCCATTTTT
1 TTGAATCCATTTTT
8874677 TT
1 TT
8874679 TTTGGGGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.17, C:0.14, G:0.07, T:0.62
Consensus pattern (14 bp):
TTGAATCCATTTTT
Found at i:8875104 original size:32 final size:33
Alignment explanation
Indices: 8875068--8875154 Score: 90
Period size: 33 Copynumber: 2.7 Consensus size: 33
8875058 ACTTTGCCGA
* *
8875068 AAAATATTTT-CAGGAAATC-TGCCAAACAGCAG
1 AAAATATTTTACAGCAAATCAT-CCAAACACCAG
*
8875100 AAAATATTTTACA-CAGATTCATCCAAACACCAG
1 AAAATATTTTACAGCA-AATCATCCAAACACCAG
* *
8875133 AAAATATTTTCCAGTAAATCAT
1 AAAATATTTTACAGCAAATCAT
8875155 TTTACAGAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
32 11 0.24
33 32 0.71
34 2 0.04
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.26
Consensus pattern (33 bp):
AAAATATTTTACAGCAAATCATCCAAACACCAG
Found at i:8875151 original size:14 final size:15
Alignment explanation
Indices: 8875129--8875205 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
8875119 CATCCAAACA
8875129 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
8875143 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
8875158 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
8875178 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
8875192 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
8875206 ACTGGCAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:8875170 original size:20 final size:20
Alignment explanation
Indices: 8875145--8875184 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
8875135 AATATTTTCC
*
8875145 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
8875165 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
8875185 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:8875190 original size:34 final size:35
Alignment explanation
Indices: 8875133--8875199 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
8875123 CAAACACCAG
*
8875133 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
8875168 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
8875200 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:8875206 original size:14 final size:14
Alignment explanation
Indices: 8875168--8875207 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
8875158 ACAGAAAAGT
*
8875168 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
8875182 AAATCATTTTACGG
1 AAAACATTTTACAG
8875196 AAAACATTTTAC
1 AAAACATTTTAC
8875208 TGGCAAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:8875302 original size:51 final size:51
Alignment explanation
Indices: 8875226--8875717 Score: 406
Period size: 51 Copynumber: 10.1 Consensus size: 51
8875216 AAACGGACCC
* * * *
8875226 TAAAGCTGAAAGTAGCAAATCTTATTTCCCTAGCGTTGTAGTGGAACAGAT
1 TAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGTAGTGGAACAGAT
* * *
8875277 TAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCATTGCAGTGGAATAGAT
1 TAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGTAGTGGAACAGAT
* * * *
8875328 TAAAGCTGAAGGTAGTGAATCTTTTTTCCCTGGTGTTGTAGTGGAACAGAT
1 TAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGTAGTGGAACAGAT
* * * * * *
8875379 TAAAGTTGAAGGCAGCAAATCTTTTTTCCCTAGC---GT--TGCAATAGAT
1 TAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGTAGTGGAACAGAT
* * * *
8875425 TAAAGCTAAAGGCAGCGAATCTTATTTCCCTGGCATTGCAGTGGAACAGAA
1 TAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGTAGTGGAACAGAT
* *** *
8875476 TAAAGCTGAAGGTAATAAATCTTTTTTCCCT-G-G-TGT--T-G--CAG--
1 TAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGTAGTGGAACAGAT
* * * *
8875517 TAGAA-CAGAAGGCAACGAATCTTATTTCCCTGGCGTTGGAATGGAACAGAT
1 TA-AAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGTAGTGGAACAGAT
* * * *
8875568 TAAAGCTGAAAGCAGTGAATCTTTTTTCCCTGGTGTTGTAGTGG---A-A-
1 TAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGTAGTGGAACAGAT
* * * *
8875614 T--A---GAATGCAACGAATATTATTTCCCTGGCGTTGCAGTGGAACAGAT
1 TAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGTAGTGGAACAGAT
* * * * *
8875660 TAAAGCTGAAGGTAGCGAATCTTTTTTCCCTGGCATTGCAGTGGAATAGAT
1 TAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGTAGTGGAACAGAT
8875711 TAAAGCT
1 TAAAGCT
8875718 ACAAATTGTG
Statistics
Matches: 347, Mismatches: 67, Indels: 54
0.74 0.14 0.12
Matches are distributed among these distances:
41 53 0.15
42 3 0.01
43 4 0.01
44 4 0.01
45 2 0.01
46 41 0.12
47 2 0.01
48 6 0.02
49 4 0.01
50 3 0.01
51 225 0.65
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (51 bp):
TAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGTAGTGGAACAGAT
Found at i:8875428 original size:46 final size:46
Alignment explanation
Indices: 8875375--8875464 Score: 126
Period size: 46 Copynumber: 2.0 Consensus size: 46
8875365 GTAGTGGAAC
* * * *
8875375 AGATTAAAGTTGAAGGCAGCAAATCTTTTTTCCCTAGCGTTGCAAT
1 AGATTAAAGCTAAAGGCAGCAAATCTTATTTCCCTAGCATTGCAAT
* *
8875421 AGATTAAAGCTAAAGGCAGCGAATCTTATTTCCCTGGCATTGCA
1 AGATTAAAGCTAAAGGCAGCAAATCTTATTTCCCTAGCATTGCA
8875465 GTGGAACAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (46 bp):
AGATTAAAGCTAAAGGCAGCAAATCTTATTTCCCTAGCATTGCAAT
Found at i:8875545 original size:41 final size:41
Alignment explanation
Indices: 8875493--8875658 Score: 134
Period size: 41 Copynumber: 3.8 Consensus size: 41
8875483 GAAGGTAATA
* * *
8875493 AATCTTTTTTCCCTGGTGTTGCAGTAGAACAGAAGGCAACG
1 AATCTTATTTCCCTGGCGTTGCAGTGGAACAGAAGGCAACG
* * *
8875534 AATCTTATTTCCCTGGCGTTGGAATGGAACAGATTAAAGCTGAAAGCAGTG
1 AATCTTATTTCCCTGGCGTTGCAGTGGAACAG----AAG--GCAA-C---G
* * * * *
8875585 AATCTTTTTTCCCTGGTGTTGTAGTGGAATAGAATGCAACG
1 AATCTTATTTCCCTGGCGTTGCAGTGGAACAGAAGGCAACG
*
8875626 AATATTATTTCCCTGGCGTTGCAGTGGAACAGA
1 AATCTTATTTCCCTGGCGTTGCAGTGGAACAGA
8875659 TTAAAGCTGA
Statistics
Matches: 97, Mismatches: 18, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
41 56 0.58
44 1 0.01
45 6 0.06
47 5 0.05
48 1 0.01
51 28 0.29
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (41 bp):
AATCTTATTTCCCTGGCGTTGCAGTGGAACAGAAGGCAACG
Found at i:8875703 original size:92 final size:92
Alignment explanation
Indices: 8875344--8875709 Score: 426
Period size: 92 Copynumber: 3.9 Consensus size: 92
8875334 TGAAGGTAGT
* * * *
8875344 GAATCTTTTTTCCCTGGTGTTGTAGTGGAACAGATTAAAGTTGAAGGCAGCAAATCTTTTTTCCC
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCAAATCTTTTTTCCC
* * * *
8875409 TAGCGTTGCAATAGATTAAAGCTAAAGGCAGC
66 TGGCGTTGCAGTAGA--ATAG---AAGGCAAC
* * * **
8875441 GAATCTTATTTCCCTGGCATTGCAGTGGAACAGAATAAAGCTGAAGGTAATAAATCTTTTTTCCC
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCAAATCTTTTTTCCC
* *
8875506 TGGTGTTGCAGTAGAACAGAAGGCAAC
66 TGGCGTTGCAGTAGAATAGAAGGCAAC
* * * **
8875533 GAATCTTATTTCCCTGGCGTTGGAATGGAACAGATTAAAGCTGAAAGCAGTGAATCTTTTTTCCC
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCAAATCTTTTTTCCC
* * * *
8875598 TGGTGTTGTAGTGGAATAGAATGCAAC
66 TGGCGTTGCAGTAGAATAGAAGGCAAC
* * *
8875625 GAATATTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGTAGCGAATCTTTTTTCCC
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCAAATCTTTTTTCCC
* *
8875690 TGGCATTGCAGTGGAATAGA
66 TGGCGTTGCAGTAGAATAGA
8875710 TTAAAGCTAC
Statistics
Matches: 234, Mismatches: 35, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
92 163 0.70
95 3 0.01
97 68 0.29
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (92 bp):
GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCAAATCTTTTTTCCC
TGGCGTTGCAGTAGAATAGAAGGCAAC
Found at i:8883017 original size:24 final size:24
Alignment explanation
Indices: 8882989--8883041 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
8882979 TCTTTCTAGA
* *
8882989 ATATTTAGTATTTATTAGTATAAT
1 ATATTTAGAATTTATTAGCATAAT
8883013 ATATTTAGAATTTATTAGCATAAT
1 ATATTTAGAATTTATTAGCATAAT
8883037 ATATT
1 ATATT
8883042 AGGCATAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.51
Consensus pattern (24 bp):
ATATTTAGAATTTATTAGCATAAT
Found at i:8885986 original size:8 final size:8
Alignment explanation
Indices: 8885973--8886004 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
8885963 GTTAAAATAT
8885973 ATATTATA
1 ATATTATA
8885981 ATATTATA
1 ATATTATA
8885989 ATATTATA
1 ATATTATA
8885997 ATATTATA
1 ATATTATA
8886005 TCTTAATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATATTATA
Found at i:8886815 original size:24 final size:24
Alignment explanation
Indices: 8886788--8886834 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
8886778 ATTGAAATGG
8886788 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
8886812 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
8886835 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:8886832 original size:15 final size:15
Alignment explanation
Indices: 8886812--8886864 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 15
8886802 TGATGAATTT
8886812 ATTGAATTTATATTG
1 ATTGAATTTATATTG
8886827 ATTGAATTGGTATATAT-
1 ATTGAATT--TATAT-TG
8886844 ATTGAA--TATATTG
1 ATTGAATTTATATTG
8886857 ATTGAATT
1 ATTGAATT
8886865 GTTGTAATTG
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
12 1 0.03
13 11 0.34
15 8 0.25
17 11 0.34
18 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:8893636 original size:3 final size:3
Alignment explanation
Indices: 8893630--8893668 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
8893620 CATCATCATC
8893630 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8893669 TATTTTGGCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:8899280 original size:28 final size:28
Alignment explanation
Indices: 8899240--8899296 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
8899230 CAAAGCCGAA
*
8899240 ATTTGTCAGGAAGGTGGAGAGAAAACTG
1 ATTTGTCAAGAAGGTGGAGAGAAAACTG
8899268 ATTTGTCAAGAAGGTGGAGAGAAAACTG
1 ATTTGTCAAGAAGGTGGAGAGAAAACTG
8899296 A
1 A
8899297 CTCTTTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.33, T:0.21
Consensus pattern (28 bp):
ATTTGTCAAGAAGGTGGAGAGAAAACTG
Found at i:8908884 original size:44 final size:44
Alignment explanation
Indices: 8908836--8909284 Score: 623
Period size: 44 Copynumber: 10.2 Consensus size: 44
8908826 ACTATTGCTT
* *
8908836 AGGGAGACAGGA-TCTACAATCTTCAACCTATTCCACTGCTGTTC
1 AGGGAGATAGGACT-TACAATCTTCAACCTATTCCACTGCTGGTC
* * * * *
8908880 AGGGAGATAAGACATACAATCTTCCACCTATTCCACTGTTGTTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* * * *
8908924 AGGGAGCTAGGACTTACAATCTTCCACCCATTCCACTGCTGTTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* * *
8908968 AGGGAGCTAGGACTTACAATCTTCCACCTATTCCACTACT-GTCC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGT-C
* * *
8909012 AGAGAGATATGACTTACAATCTTCCACCTATTCCACTGCTGGTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* *
8909056 AGGGAGATAGGACTTACAATCTTCCACTTATTCCACTGCTGGTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* * * *
8909100 AGGGAGATAGGAGTTGCAATCTTCAACCTATTTCACTACTGGTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
*
8909144 AGGGAGATAGGACTTACAATCTTCAACCTATTTCACTGCTGGTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
8909188 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* * *
8909232 AGAGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGGCC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
8909276 AGGGAGATA
1 AGGGAGATA
8909285 AGGCTTTGTG
Statistics
Matches: 368, Mismatches: 34, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
43 1 0.00
44 365 0.99
45 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (44 bp):
AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
Found at i:8929041 original size:23 final size:22
Alignment explanation
Indices: 8929015--8929059 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
8929005 ATGCATTTAC
8929015 TATTTACTTTCTTA-TTATTTCTT
1 TATTT-CTTT-TTAGTTATTTCTT
8929038 TATTTCTTTTTAGTTTATTTCT
1 TATTTCTTTTTAG-TTATTTCT
8929060 ATCATTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 3 0.15
22 4 0.20
23 13 0.65
ACGTcount: A:0.16, C:0.11, G:0.02, T:0.71
Consensus pattern (22 bp):
TATTTCTTTTTAGTTATTTCTT
Found at i:8931299 original size:17 final size:18
Alignment explanation
Indices: 8931279--8931317 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
8931269 TAAAAGAATT
8931279 AAAAAAAGAAACA-AAGG
1 AAAAAAAGAAACAGAAGG
*
8931296 -AAAAACGAAACAGAAGG
1 AAAAAAAGAAACAGAAGG
8931313 AAAAA
1 AAAAA
8931318 GAAAGAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 11 0.58
17 4 0.21
18 4 0.21
ACGTcount: A:0.74, C:0.08, G:0.18, T:0.00
Consensus pattern (18 bp):
AAAAAAAGAAACAGAAGG
Found at i:8931344 original size:15 final size:14
Alignment explanation
Indices: 8931281--8931335 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
8931271 AAAGAATTAA
*
8931281 AAAAAGAAACAAAGG
1 AAAAAGAAAGAAA-G
*
8931296 AAAAACGAAACAGAAGG
1 AAAAA-G-AA-AGAAAG
8931313 AAAAAGAAAGAAAG
1 AAAAAGAAAGAAAG
8931327 AAAAAGAAA
1 AAAAAGAAA
8931336 AGGGAGAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
14 14 0.41
15 7 0.21
16 2 0.06
17 8 0.24
18 3 0.09
ACGTcount: A:0.75, C:0.05, G:0.20, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAGAAAG
Found at i:8932384 original size:23 final size:23
Alignment explanation
Indices: 8932357--8932406 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
8932347 GCTTTCTGAA
* *
8932357 ATATGGCTCTCTAGAGCTTCCCG
1 ATATGGCTCGCTAGAACTTCCCG
* *
8932380 ATATGGCTCGCTTGAACTTCTCG
1 ATATGGCTCGCTAGAACTTCCCG
8932403 ATAT
1 ATAT
8932407 ATGGCTCTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (23 bp):
ATATGGCTCGCTAGAACTTCCCG
Found at i:8940486 original size:50 final size:50
Alignment explanation
Indices: 8940411--8940512 Score: 143
Period size: 50 Copynumber: 2.0 Consensus size: 50
8940401 CATGGTTTGA
* *
8940411 ATTTTGTCATTGTTTAAGTAATGAAAGCGTA-AAAATTTATACCTTAGAT
1 ATTTTATCATTGTTTAAGTAATGAAAGCGTATAAAATTTATACATTAGAT
* * *
8940460 ATTTTATCATTGTTTTAAGTAATGAAAGTGTATAAATTTTATAGATTAGAT
1 ATTTTATCATTG-TTTAAGTAATGAAAGCGTATAAAATTTATACATTAGAT
8940511 AT
1 AT
8940513 AAAGTATTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 11 0.24
50 18 0.39
51 17 0.37
ACGTcount: A:0.37, C:0.05, G:0.14, T:0.44
Consensus pattern (50 bp):
ATTTTATCATTGTTTAAGTAATGAAAGCGTATAAAATTTATACATTAGAT
Found at i:8942205 original size:32 final size:30
Alignment explanation
Indices: 8942151--8942230 Score: 92
Period size: 32 Copynumber: 2.6 Consensus size: 30
8942141 TAATTTGTCC
* *
8942151 TCTGAACTTG-TC-CAAAGTACCTAGTTGATG
1 TCTGAACTTGTTCAAAAAGTACCTAATTG--G
8942181 TCTGAACTTGTTCAAAAAGTACCTAATTGG
1 TCTGAACTTGTTCAAAAAGTACCTAATTGG
8942211 TACTTGAACTTGTTCAAAAA
1 T-C-TGAACTTGTTCAAAAA
8942231 ATTGTACATT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
30 12 0.27
31 3 0.07
32 29 0.66
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (30 bp):
TCTGAACTTGTTCAAAAAGTACCTAATTGG
Found at i:8944619 original size:22 final size:22
Alignment explanation
Indices: 8944572--8944628 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 22
8944562 AAATATGAGT
* *
8944572 TTTATAGAGAAAAACTTAGGTT
1 TTTATAGAGAAAAACCTAGGTC
*
8944594 TTTATA-AGGAAAAACCTATGTC
1 TTTATAGA-GAAAAACCTAGGTC
* *
8944616 TTTACATAGAAAA
1 TTTATAGAGAAAA
8944629 TTCTAAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 1 0.03
22 27 0.93
23 1 0.03
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (22 bp):
TTTATAGAGAAAAACCTAGGTC
Found at i:8954889 original size:10 final size:9
Alignment explanation
Indices: 8954857--8954900 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 9
8954847 ATGTATATAC
8954857 TTTTTAAAT
1 TTTTTAAAT
*
8954866 TTTTCATAAT
1 TTTTTA-AAT
8954876 TTTTTAAATT
1 TTTTTAAA-T
*
8954886 TTTTTAAAA
1 TTTTTAAAT
8954895 TTTTTA
1 TTTTTA
8954901 TAAACCACGC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 13 0.43
10 17 0.57
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (9 bp):
TTTTTAAAT
Found at i:8955535 original size:31 final size:31
Alignment explanation
Indices: 8955500--8955563 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
8955490 CTTAACAACC
*
8955500 CAATGACTTAAATAAAAACTTTTGAATAGTT
1 CAATGACTTAAATAAAAACTTTTCAATAGTT
*
8955531 CAATGACTTAAATGAAAACTTTTCAATAGTT
1 CAATGACTTAAATAAAAACTTTTCAATAGTT
8955562 CA
1 CA
8955564 GTGATCAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.34
Consensus pattern (31 bp):
CAATGACTTAAATAAAAACTTTTCAATAGTT
Found at i:8955583 original size:30 final size:31
Alignment explanation
Indices: 8955500--8955573 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
8955490 CTTAACAACC
* * *
8955500 CAATGACTTAAATAAAAACTTTTGAATAGTT
1 CAATGACTCAAATGAAAACTTTTCAATAGTT
*
8955531 CAATGACTTAAATGAAAACTTTTCAATAGTT
1 CAATGACTCAAATGAAAACTTTTCAATAGTT
*
8955562 CAGTGA-TCAAAT
1 CAATGACTCAAAT
8955574 TGTAACTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 5 0.13
31 34 0.87
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (31 bp):
CAATGACTCAAATGAAAACTTTTCAATAGTT
Found at i:8965109 original size:2 final size:2
Alignment explanation
Indices: 8965102--8965137 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
8965092 AACACCCTCC
8965102 CT CT CT 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 CT CT CT
8965138 TGGCTCTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:8970261 original size:21 final size:21
Alignment explanation
Indices: 8970235--8970274 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
8970225 CAATCTATTA
8970235 TGTTTGTAGGTTTATAAAAAT
1 TGTTTGTAGGTTTATAAAAAT
*
8970256 TGTTTGTGGGTTTATAAAA
1 TGTTTGTAGGTTTATAAAA
8970275 TATGTATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (21 bp):
TGTTTGTAGGTTTATAAAAAT
Found at i:8978640 original size:33 final size:32
Alignment explanation
Indices: 8978564--8978645 Score: 85
Period size: 33 Copynumber: 2.5 Consensus size: 32
8978554 AGTATAGATA
* * * *
8978564 CATGTGTAAAACCATAGCTAGGCTATGGCATT
1 CATGTGTAAGACCATAACTAGGCTATGACATG
*
8978596 C-TGATGATAAGACCATAACTAGGTTATGACAATG
1 CATG-TG-TAAGACCATAACTAGGCTATGAC-ATG
8978630 CATGTGTAAGACCATA
1 CATGTGTAAGACCATA
8978646 GTTGGACTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
31 2 0.05
32 3 0.07
33 29 0.71
34 5 0.12
35 2 0.05
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (32 bp):
CATGTGTAAGACCATAACTAGGCTATGACATG
Found at i:8979945 original size:21 final size:21
Alignment explanation
Indices: 8979921--8979970 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
8979911 TAATTATTCA
8979921 TATATGTTTTCACTATTTACT
1 TATATGTTTTCACTATTTACT
*
8979942 TATATGTTTTCAGTATTTACT
1 TATATGTTTTCACTATTTACT
8979963 TATATGTT
1 TATATGTT
8979971 CCTTCAAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.24, C:0.10, G:0.08, T:0.58
Consensus pattern (21 bp):
TATATGTTTTCACTATTTACT
Found at i:8986328 original size:48 final size:46
Alignment explanation
Indices: 8986276--8986389 Score: 131
Period size: 48 Copynumber: 2.4 Consensus size: 46
8986266 AGGTGGAAGA
* * *
8986276 ATGTGGTAGCTTATCTGCAAAAGTGGTGGCTTGTCCACAAATTTTG-TT
1 ATGTGGCAG-TTATCTGCAAAAGTCGAGGCTTGTCCAC-AA-TTTGATT
*
8986324 ATGTGGCAGTATATCTACAAAAGTCGAGGCTTGTCCACAATTTGATT
1 ATGTGGCAGT-TATCTGCAAAAGTCGAGGCTTGTCCACAATTTGATT
*
8986371 ATGTGACAGTTTATCTGCA
1 ATGTGGCAG-TTATCTGCA
8986390 TTACCATGAC
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
46 4 0.07
47 20 0.35
48 33 0.58
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (46 bp):
ATGTGGCAGTTATCTGCAAAAGTCGAGGCTTGTCCACAATTTGATT
Found at i:8986386 original size:47 final size:48
Alignment explanation
Indices: 8986286--8986386 Score: 134
Period size: 48 Copynumber: 2.1 Consensus size: 48
8986276 ATGTGGTAGC
* * * *
8986286 TTATCTGCAAAAGTGGTGGCTTGTCCACAAATTTTGTTATGTGGCAGT
1 TTATCTACAAAAGTCGAGGCTTGTCCACAAATTTTGTTATGTGACAGT
*
8986334 ATATCTACAAAAGTCGAGGCTTGTCCAC-AA-TTTGATTATGTGACAGT
1 TTATCTACAAAAGTCGAGGCTTGTCCACAAATTTTG-TTATGTGACAGT
8986381 TTATCT
1 TTATCT
8986387 GCATTACCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
46 4 0.09
47 18 0.39
48 24 0.52
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.37
Consensus pattern (48 bp):
TTATCTACAAAAGTCGAGGCTTGTCCACAAATTTTGTTATGTGACAGT
Found at i:8989492 original size:11 final size:11
Alignment explanation
Indices: 8989476--8989500 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8989466 ATCTTTATTA
8989476 TTTAGAACTTG
1 TTTAGAACTTG
8989487 TTTAGAACTTG
1 TTTAGAACTTG
8989498 TTT
1 TTT
8989501 TCAAAGTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (11 bp):
TTTAGAACTTG
Found at i:8998041 original size:25 final size:25
Alignment explanation
Indices: 8998011--8998058 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
8998001 ACATACCATA
*
8998011 GCTCTTTGTGAGCGTCCCGATATAG
1 GCTCTTTATGAGCGTCCCGATATAG
* *
8998036 GCTCTTTATGAGCTTCCTGATAT
1 GCTCTTTATGAGCGTCCCGATAT
8998059 GCCTCGCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.38
Consensus pattern (25 bp):
GCTCTTTATGAGCGTCCCGATATAG
Found at i:9000460 original size:22 final size:22
Alignment explanation
Indices: 9000432--9000479 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
9000422 TCTAGTCGCT
9000432 ATGTTGCAACACAGGGAGTGTG
1 ATGTTGCAACACAGGGAGTGTG
*
9000454 ATGTTGCAACGCAGGGAGTGTG
1 ATGTTGCAACACAGGGAGTGTG
9000476 ATGT
1 ATGT
9000480 CACAACATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.25, C:0.12, G:0.38, T:0.25
Consensus pattern (22 bp):
ATGTTGCAACACAGGGAGTGTG
Found at i:9000485 original size:22 final size:22
Alignment explanation
Indices: 9000438--9000486 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
9000428 CGCTATGTTG
**
9000438 CAACACAGGGAGTGTGATGTTG
1 CAACACAGGGAGTGTGATGTCA
*
9000460 CAACGCAGGGAGTGTGATGTCA
1 CAACACAGGGAGTGTGATGTCA
9000482 CAACA
1 CAACA
9000487 TAGGAGCAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.18, G:0.33, T:0.18
Consensus pattern (22 bp):
CAACACAGGGAGTGTGATGTCA
Found at i:9004036 original size:29 final size:29
Alignment explanation
Indices: 9004002--9004101 Score: 146
Period size: 29 Copynumber: 3.3 Consensus size: 29
9003992 TATATACAAT
*
9004002 ATATATATGCGCGGGTTTTGTTATATATA
1 ATATATATGCGTGGGTTTTGTTATATATA
*
9004031 ATATATATGCGTGGGTTTTGATATATATA
1 ATATATATGCGTGGGTTTTGTTATATATA
*
9004060 ATATATATGCGTGGGTCTTGATTATATATATA
1 ATATATATGCGTGGGTTTTG--T-TATATATA
9004092 ATATATATGC
1 ATATATATGC
9004102 ATATATGAGT
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
29 46 0.72
32 18 0.28
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (29 bp):
ATATATATGCGTGGGTTTTGTTATATATA
Found at i:9004451 original size:18 final size:18
Alignment explanation
Indices: 9004383--9004453 Score: 79
Period size: 18 Copynumber: 3.9 Consensus size: 18
9004373 CATGTTAACT
* *
9004383 TGGCGAATTATATTACTA
1 TGGCGAATTGTATTAATA
* *
9004401 TGGCGAATTGTGTTAATT
1 TGGCGAATTGTATTAATA
* * *
9004419 TGGTGATTTGCATTAATA
1 TGGCGAATTGTATTAATA
9004437 TGGCGAATTGTATTAAT
1 TGGCGAATTGTATTAAT
9004454 TTGCCAAACT
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (18 bp):
TGGCGAATTGTATTAATA
Found at i:9005141 original size:17 final size:17
Alignment explanation
Indices: 9005121--9005186 Score: 105
Period size: 17 Copynumber: 3.9 Consensus size: 17
9005111 CGATGTGGTA
*
9005121 TGAATGAATTATTATAT
1 TGAATGAACTATTATAT
9005138 TGAATGAACTATTATAT
1 TGAATGAACTATTATAT
*
9005155 TGTATGAACTATTATAT
1 TGAATGAACTATTATAT
*
9005172 TGAATGAACTGTTAT
1 TGAATGAACTATTAT
9005187 TATGCATGGA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 45 1.00
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.44
Consensus pattern (17 bp):
TGAATGAACTATTATAT
Found at i:9005839 original size:22 final size:23
Alignment explanation
Indices: 9005814--9005857 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
9005804 TGAACTAATT
9005814 AAATG-ATGATGATTTT-ATGAAG
1 AAATGCATGATG-TTTTAATGAAG
9005836 AAATGCATGATGTTTTAATGAA
1 AAATGCATGATGTTTTAATGAA
9005858 TCTTCCTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.41, C:0.02, G:0.20, T:0.36
Consensus pattern (23 bp):
AAATGCATGATGTTTTAATGAAG
Found at i:9021225 original size:36 final size:36
Alignment explanation
Indices: 9021178--9021249 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
9021168 GAGTGAGACA
9021178 TTGAATGTGATGGAAAAGGTGTAGTGGAGGTAGGTG
1 TTGAATGTGATGGAAAAGGTGTAGTGGAGGTAGGTG
* *
9021214 TTGAATGTGATGGGATAGGTGTAGTGGAGGTAGGTG
1 TTGAATGTGATGGAAAAGGTGTAGTGGAGGTAGGTG
9021250 GCGTATTTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.25, C:0.00, G:0.46, T:0.29
Consensus pattern (36 bp):
TTGAATGTGATGGAAAAGGTGTAGTGGAGGTAGGTG
Found at i:9026735 original size:25 final size:25
Alignment explanation
Indices: 9026700--9026748 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
9026690 GTATATTTAA
*
9026700 TAATTAGTAATTTAATTTTAAAAAG
1 TAATTAATAATTTAATTTTAAAAAG
*
9026725 TAATTAATAATTTATTTTTAAAAA
1 TAATTAATAATTTAATTTTAAAAA
9026749 TATTAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (25 bp):
TAATTAATAATTTAATTTTAAAAAG
Found at i:9027809 original size:19 final size:19
Alignment explanation
Indices: 9027770--9027809 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
9027760 CTTATTTATC
9027770 ATTTTATTTTTTTAGAATTA
1 ATTTTATTTTTTTAG-ATTA
9027790 ATTTTAGTTTTTTTAG-TTA
1 ATTTTA-TTTTTTTAGATTA
9027809 A
1 A
9027810 AGGGAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 9 0.47
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (19 bp):
ATTTTATTTTTTTAGATTA
Found at i:9028032 original size:48 final size:48
Alignment explanation
Indices: 9027975--9028074 Score: 200
Period size: 48 Copynumber: 2.1 Consensus size: 48
9027965 AAAATTATCT
9027975 TTTTAATTTCCTTTAATTTTATTCATTTTCTAGAACTAATTGTAAATA
1 TTTTAATTTCCTTTAATTTTATTCATTTTCTAGAACTAATTGTAAATA
9028023 TTTTAATTTCCTTTAATTTTATTCATTTTCTAGAACTAATTGTAAATA
1 TTTTAATTTCCTTTAATTTTATTCATTTTCTAGAACTAATTGTAAATA
9028071 TTTT
1 TTTT
9028075 CCCACTAAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.30, C:0.10, G:0.04, T:0.56
Consensus pattern (48 bp):
TTTTAATTTCCTTTAATTTTATTCATTTTCTAGAACTAATTGTAAATA
Found at i:9028158 original size:21 final size:21
Alignment explanation
Indices: 9028088--9028159 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
9028078 ACTAAATTAA
9028088 AAGGAAAAACTTGAGG-TTTTAC
1 AAGG-AAAACTTG-GGTTTTTAC
* * * *
9028110 AAGGAATTACATGGGTGTTTAT
1 AAGGAA-AACTTGGGTTTTTAC
*
9028132 AGGGAAAACTTGGGTTTTTAC
1 AAGGAAAACTTGGGTTTTTAC
*
9028153 ATGGAAA
1 AAGGAAA
9028160 TTATTTTTTC
Statistics
Matches: 38, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
21 21 0.55
22 17 0.45
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (21 bp):
AAGGAAAACTTGGGTTTTTAC
Found at i:9028388 original size:13 final size:14
Alignment explanation
Indices: 9028370--9028402 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
9028360 CAATATGTGA
9028370 ATAGTTTTTAA-TG
1 ATAGTTTTTAACTG
9028383 ATAGTTTTTAACTG
1 ATAGTTTTTAACTG
9028397 -TAGTTT
1 ATAGTTT
9028403 GGTAACCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 17 0.89
14 2 0.11
ACGTcount: A:0.27, C:0.03, G:0.15, T:0.55
Consensus pattern (14 bp):
ATAGTTTTTAACTG
Found at i:9032917 original size:44 final size:43
Alignment explanation
Indices: 9032882--9033547 Score: 661
Period size: 44 Copynumber: 15.1 Consensus size: 43
9032872 GACATGGTCT
9032882 GCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCC
1 GCTATCT-TGATCTACTTCATGTCAATACATGAAGACAAGATCC
** *** ** *** *
9032926 ATTATCTTCGATCTACTTCACCACCCGTATGGGAAGACAAGATCT
1 GCTATCTT-GATCTACTTCA-TGTCAATACATGAAGACAAGATCC
* *
9032971 G-TCATCTTTGATCTACTTCATCTTAATACATGAAGACAAGATCC
1 GCT-ATC-TTGATCTACTTCATGTCAATACATGAAGACAAGATCC
*
9033015 ACTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCC
1 GCTATCT-TGATCTACTTCATGTCAATACATGAAGACAAGATCC
** *
9033059 ATTATCTTCGATCTACTTCATGTCAATACATGTAGACAAGATCC
1 GCTATCTT-GATCTACTTCATGTCAATACATGAAGACAAGATCC
* * * *
9033103 GCTATCTTCGATCTACTTTATATCAATACGTGAAGACAAGATCT
1 GCTATCTT-GATCTACTTCATGTCAATACATGAAGACAAGATCC
9033147 GCTATCTTGGATCTACTTCATGTCAATACATGAAGACAAGATCC
1 GCTATCTT-GATCTACTTCATGTCAATACATGAAGACAAGATCC
** *
9033191 ATTATCTCTGATCTACTTTATGTCAATACATGAAGACAAGATCC
1 GCTATCT-TGATCTACTTCATGTCAATACATGAAGACAAGATCC
* *
9033235 GCTATCTTCGATCTACTCCATGTCAATACATGAAGACAAGATTC
1 GCTATCTT-GATCTACTTCATGTCAATACATGAAGACAAGATCC
** *
9033279 ATTATCTCTGATCTACTTCATGTCAATACATGAAGATAAGATCC
1 GCTATCT-TGATCTACTTCATGTCAATACATGAAGACAAGATCC
** *** * *** *
9033323 ATTATCTTTGATCTACTTCACCACCAGTATGGGAAGATAAGATCC
1 GCTATC-TTGATCTACTTCA-TGTCAATACATGAAGACAAGATCC
*
9033368 GCTATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATGC
1 GCTATCTT-GATCTACTTCATGTCAATACATGAAGACAAGATCC
** *
9033412 ATTATCTCTGATCTACTTCATGTCAATGCATGAAGACAAGATCC
1 GCTATCT-TGATCTACTTCATGTCAATACATGAAGACAAGATCC
* *** ** *** *
9033456 -ATCATCTTCGATCTACTTCACCACCGGTATGGGAAGACAAGATCT
1 GCT-ATCTT-GATCTACTTCA-TGTCAATACATGAAGACAAGATCC
9033501 GCTATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCC
1 GCTATCTT-GATCTACTTCATGTCAATACATGAAGACAAGATCC
9033545 GCT
1 GCT
9033548 GCTTTTCAAC
Statistics
Matches: 509, Mismatches: 95, Indels: 36
0.80 0.15 0.06
Matches are distributed among these distances:
43 6 0.01
44 403 0.79
45 97 0.19
46 3 0.01
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (43 bp):
GCTATCTTGATCTACTTCATGTCAATACATGAAGACAAGATCC
Found at i:9033020 original size:133 final size:133
Alignment explanation
Indices: 9032883--9033544 Score: 920
Period size: 133 Copynumber: 5.0 Consensus size: 133
9032873 ACATGGTCTG
9032883 CTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACC
1 CTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACC
* * * * *
9032948 ACCCGTATGGGAAGACAAGATCTG-TCATCTTTGATCTACTTCATCTTAATACATGAAGACAAGA
66 ACCAGTATGGGAAGACAAGATCCGCT-ATCTTCGATCTACTTCATGTCAATACATGAAGACAAGA
9033012 TCCA
130 TCCA
*
9033016 CTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCA-T
1 CTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACC
** * *** * * * *
9033080 GTCAATACATGTAGACAAGATCCGCTATCTTCGATCTACTTTATATCAATACGTGAAGACAAGAT
66 ACCAGTATGGGAAGACAAGATCCGCTATCTTCGATCTACTTCATGTCAATACATGAAGACAAGAT
**
9033145 CTG
131 CCA
*
9033148 CTATCT-TGGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATC-TCTGATCTACTTTA
1 CTATCTCT-GATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTC-GATCTACTTCA
*** * *** *
9033211 -TGTCAATACATGAAGACAAGATCCGCTATCTTCGATCTACTCCATGTCAATACATGAAGACAAG
64 CCACCAGTATGGGAAGACAAGATCCGCTATCTTCGATCTACTTCATGTCAATACATGAAGACAAG
*
9033275 ATTCA
129 ATCCA
* * *
9033280 TTATCTCTGATCTACTTCATGTCAATACATGAAGATAAGATCCATTATCTTTGATCTACTTCACC
1 CTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACC
*
9033345 ACCAGTATGGGAAGATAAGATCCGCTATCTTCGATCTACTTCATGTCAATACATGAAGACAAGAT
66 ACCAGTATGGGAAGACAAGATCCGCTATCTTCGATCTACTTCATGTCAATACATGAAGACAAGAT
*
9033410 GCA
131 CCA
* * *
9033413 TTATCTCTGATCTACTTCATGTCAATGCATGAAGACAAGATCCATCATCTTCGATCTACTTCACC
1 CTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACC
* *
9033478 ACCGGTATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCATGTCAATACATGAAGACAAGAT
66 ACCAGTATGGGAAGACAAGATCCGCTATCTTCGATCTACTTCATGTCAATACATGAAGACAAGAT
9033543 CC
131 CC
9033545 GCTGCTTTTC
Statistics
Matches: 475, Mismatches: 48, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
131 3 0.01
132 223 0.47
133 249 0.52
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (133 bp):
CTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACC
ACCAGTATGGGAAGACAAGATCCGCTATCTTCGATCTACTTCATGTCAATACATGAAGACAAGAT
CCA
Found at i:9034855 original size:14 final size:15
Alignment explanation
Indices: 9034832--9034877 Score: 62
Period size: 14 Copynumber: 3.3 Consensus size: 15
9034822 AGCCTCTCTA
9034832 TTTT-ACTTTTTCCT
1 TTTTCACTTTTTCCT
9034846 TTTTCA-TTTTTCC-
1 TTTTCACTTTTTCCT
*
9034859 TTTTCACTTTTTCAT
1 TTTTCACTTTTTCCT
9034874 TTTT
1 TTTT
9034878 TTCATTTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 6 0.21
14 17 0.61
15 5 0.18
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTCACTTTTTCCT
Found at i:9037975 original size:17 final size:17
Alignment explanation
Indices: 9037953--9037988 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
9037943 TTCTATAATG
*
9037953 AAATGTCATGCAGTCAA
1 AAATGTCATGCAGCCAA
9037970 AAATGTCATGCAGCCAA
1 AAATGTCATGCAGCCAA
9037987 AA
1 AA
9037989 CAAAACACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.19
Consensus pattern (17 bp):
AAATGTCATGCAGCCAA
Found at i:9046603 original size:21 final size:21
Alignment explanation
Indices: 9046562--9046604 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
9046552 TAACATTTTC
*
9046562 ATCTTAAAAAAATTATATAAA
1 ATCTTAAAAAAACTATATAAA
*
9046583 ATCTTAAAATTAACTAT-TAAA
1 ATCTTAAAA-AAACTATATAAA
9046604 A
1 A
9046605 ATAATACAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (21 bp):
ATCTTAAAAAAACTATATAAA
Found at i:9048299 original size:7 final size:8
Alignment explanation
Indices: 9048282--9048329 Score: 51
Period size: 8 Copynumber: 5.4 Consensus size: 8
9048272 AGATAATGCC
9048282 AAAGAAAA
1 AAAGAAAA
9048290 AAAGAAAA
1 AAAGAAAA
9048298 AAAGAAAGTTA
1 AAAGAAA---A
9048309 AAAGAACATA
1 AAAGAA-A-A
9048319 AAAGAAAA
1 AAAGAAAA
9048327 AAA
1 AAA
9048330 TTAAATTACT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
8 19 0.53
9 1 0.03
10 8 0.22
11 7 0.19
12 1 0.03
ACGTcount: A:0.79, C:0.02, G:0.12, T:0.06
Consensus pattern (8 bp):
AAAGAAAA
Found at i:9051975 original size:26 final size:24
Alignment explanation
Indices: 9051941--9052041 Score: 96
Period size: 26 Copynumber: 4.0 Consensus size: 24
9051931 AAGACAAATG
9051941 AAATAAAATAAAATAAAAAACAATTTA
1 AAAT-AAAT-AAATAAAAAA-AATTTA
* * *
9051968 AAGTAAAT-AATATAAAAAGTTTA
1 AAATAAATAAATAAAAAAAATTTA
*
9051991 AAATAAATAATATATGAAAAAATTTA
1 AAATAAATAA-ATA-AAAAAAATTTA
9052017 AAATAAATAAATAAATAACAAATTT
1 AAATAAATAAATAAA-AA-AAATTT
9052042 GCAAAAAGTT
Statistics
Matches: 62, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
23 12 0.19
24 10 0.16
25 8 0.13
26 29 0.47
27 3 0.05
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (24 bp):
AAATAAATAAATAAAAAAAATTTA
Found at i:9051997 original size:23 final size:21
Alignment explanation
Indices: 9051944--9052031 Score: 79
Period size: 23 Copynumber: 3.8 Consensus size: 21
9051934 ACAAATGAAA
9051944 TAAAATAAAATAAA-AAACAATT
1 TAAAAT-AAATAAATAAA-AATT
*
9051966 TAAAGTAAATAATATAAAAAGTT
1 TAAAATAAATAA-ATAAAAA-TT
9051989 TAAAATAAATAATATATGAAAAAATT
1 TAAAATAAAT-A-A-AT--AAAAATT
9052015 TAAAATAAATAAATAAA
1 TAAAATAAATAAATAAA
9052032 TAACAAATTT
Statistics
Matches: 57, Mismatches: 2, Indels: 15
0.77 0.03 0.20
Matches are distributed among these distances:
21 9 0.16
22 8 0.14
23 16 0.28
24 2 0.04
25 5 0.09
26 12 0.21
27 5 0.09
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.27
Consensus pattern (21 bp):
TAAAATAAATAAATAAAAATT
Found at i:9054009 original size:30 final size:30
Alignment explanation
Indices: 9053946--9054009 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
9053936 AAAAAGTCTT
*
9053946 TTTTTTTTTAAATTTACTGAAATGGGCCAA
1 TTTTTTTTTAAATTTACTGAAATGAGCCAA
* * *
9053976 TTTTTTTTTATTATTTACTGGAATGATCC-A
1 TTTTTTTTTA-AATTTACTGAAATGAGCCAA
9054006 TTTT
1 TTTT
9054010 CCGGGAAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 15 0.52
31 14 0.48
ACGTcount: A:0.25, C:0.09, G:0.11, T:0.55
Consensus pattern (30 bp):
TTTTTTTTTAAATTTACTGAAATGAGCCAA
Found at i:9054467 original size:126 final size:126
Alignment explanation
Indices: 9054226--9054577 Score: 564
Period size: 126 Copynumber: 2.8 Consensus size: 126
9054216 ATTATTTCGA
*
9054226 GTTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACCAGGATGTTATTTGAGAAGAAATTG
1 GTTGACGTTTCTGAG-CAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTG
* * *
9054290 TGAAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
65 TGAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGCAGGTAATGTAAGAAATAATTTTTTT
* * * * *
9054352 -TCTGATGTTTCTGAGCAAATAGTATAAAATTGTTTCTACGAGAATGCTATTTGAGAAGAAATTG
1 GT-TGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTG
* *
9054416 TGAAATCGCACCCTCGTGGACGCGATTTTGCTACAGCAGGTAATGTTAGAAATAATTTTTTT
65 TGAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGCAGGTAATGTAAGAAATAATTTTTTT
*
9054478 GTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTAT
1 GTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
9054543 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAG
66 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAG
9054578 TAACAAGTTT
Statistics
Matches: 205, Mismatches: 18, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
125 1 0.00
126 202 0.99
127 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (126 bp):
GTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGCAGGTAATGTAAGAAATAATTTTTTT
Found at i:9057710 original size:10 final size:10
Alignment explanation
Indices: 9057695--9057719 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
9057685 CAAATCTAAC
9057695 ATTATGTAAA
1 ATTATGTAAA
9057705 ATTATGTAAA
1 ATTATGTAAA
9057715 ATTAT
1 ATTAT
9057720 TAAGCCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:9057798 original size:56 final size:55
Alignment explanation
Indices: 9057711--9058039 Score: 450
Period size: 56 Copynumber: 5.9 Consensus size: 55
9057701 TAAAATTATG
9057711 TAAAATTATTAAGCCAAAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAAC
1 TAAAATTATTAAGCC--AAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAAC
* **
9057768 TAAAATTATTAAGTCCAGAAATTGTGTTAATGGTTAGTAAAA-TTATCAAA-ATATG
1 TAAAATTATTAAG-CCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATA-AAC
* * * *
9057823 TAAAACTATTAAGCCAAAAATTGTATTAACGGTTAGTAAAATTTATGAAATAAAC
1 TAAAATTATTAAGCCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAAC
* **
9057878 TAAAATTATTAAGTCCAGAAATTGTGTTAATGGTTAGTAAAA-TTATCAAA-ATATG
1 TAAAATTATTAAG-CCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATA-AAC
* * *
9057933 TAAAATTATTAAGCCAAAAATTGTATTAATGGTTAGTAAAATTTATGACATAAAC
1 TAAAATTATTAAGCCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAAC
9057988 TAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAAT
1 TAAAATTATTAAG-CCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAAT
9058040 TAAGTTACGT
Statistics
Matches: 237, Mismatches: 26, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
54 53 0.22
55 82 0.35
56 87 0.37
57 13 0.05
58 2 0.01
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (55 bp):
TAAAATTATTAAGCCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAAC
Found at i:9057902 original size:110 final size:110
Alignment explanation
Indices: 9057702--9058038 Score: 584
Period size: 110 Copynumber: 3.0 Consensus size: 110
9057692 AACATTATGT
* *
9057702 AAAATTATGTAAAATTATTAAGCCAAAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAA
1 AAAA-TATGTAAAATTATTAAGCC--AAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAA
9057767 CTAAAATTATTAAGTCCAGAAATTGTGTTAATGGTTAGTAAAATTATC
63 CTAAAATTATTAAGTCCAGAAATTGTGTTAATGGTTAGTAAAATTATC
* *
9057815 AAAATATGTAAAACTATTAAGCCAAAAATTGTATTAACGGTTAGTAAAATTTATGAAATAAACTA
1 AAAATATGTAAAATTATTAAGCCAAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAACTA
9057880 AAATTATTAAGTCCAGAAATTGTGTTAATGGTTAGTAAAATTATC
66 AAATTATTAAGTCCAGAAATTGTGTTAATGGTTAGTAAAATTATC
*
9057925 AAAATATGTAAAATTATTAAGCCAAAAATTGTATTAATGGTTAGTAAAATTTATGACATAAACTA
1 AAAATATGTAAAATTATTAAGCCAAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAACTA
*
9057990 AAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTTATC
66 AAATTATTAAGTCCAGAAATTGTGTTAATGGTTAGTAAAA-TTATC
9058036 AAA
1 AAA
9058039 TTAAGTTACG
Statistics
Matches: 215, Mismatches: 8, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
110 185 0.86
111 8 0.04
112 18 0.08
113 4 0.02
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.35
Consensus pattern (110 bp):
AAAATATGTAAAATTATTAAGCCAAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAACTA
AAATTATTAAGTCCAGAAATTGTGTTAATGGTTAGTAAAATTATC
Found at i:9058059 original size:6 final size:6
Alignment explanation
Indices: 9058048--9058091 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
9058038 ATTAAGTTAC
*
9058048 GTTAGG GTTAGG GTTAGG GTTTA-A GTTA-G GTTAGG GTTAGG GTT
1 GTTAGG GTTAGG GTTAGG G-TTAGG GTTAGG GTTAGG GTTAGG GTT
9058092 TTTAATTAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 7 0.21
6 24 0.71
7 3 0.09
ACGTcount: A:0.18, C:0.00, G:0.43, T:0.39
Consensus pattern (6 bp):
GTTAGG
Found at i:9058072 original size:29 final size:28
Alignment explanation
Indices: 9058037--9058619 Score: 600
Period size: 29 Copynumber: 19.7 Consensus size: 28
9058027 AAATTTATCA
* **
9058037 AATTAAGTTACGTTAGGGTTAGGGTTAGG
1 AATTAAGTTAGGTTAGGGTTAGGGTT-TT
**
9058066 GTTTAAGTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGG-TTTT
9058095 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGG-TTTT
*
9058124 AATTAATTTAGGTTAGGGTTAGGGTTTTTAGTT
1 AATTAAGTTAGGTTAGGGTTAGGG---TT--TT
*
9058157 AATTTAGGTTAGGGTTAGGGTTAGGGTTTTT
1 AA-TTAAGTTA-GGTTAGGGTTAGGG-TTTT
*
9058188 AATTAAGTTAGGTTAGTGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGG-TTTT
9058217 AATTAAGTTAGGTTAGGATTAGGGTTAGGGTTTTT
1 AATT-A---A-GTTAGG-TTAGGGTTAGGG-TTTT
* *
9058252 AATTAATTTAGGTTAGTGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGG-TTTT
*
9058281 AATTAAGTTAGGTTAGGATTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGG-TTTT
* *
9058310 AGTTAATTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGG-TTTT
9058339 AATTAAGTTAGGTTAGGGTTAGGGTTAGAGTTTTT
1 AATTAAGTTAGGTTAGGGTTA--G---G-G-TTTT
*
9058374 AATTAAGTTAGATTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGG-TTTT
*
9058403 AATTAAGTTAGGGTTAGGGTTAGAGTTTT
1 AATTAAGTTA-GGTTAGGGTTAGGGTTTT
9058432 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGG-TTTT
* *
9058461 AGTTAGGTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGG-TTTT
* *
9058490 AGTTAATTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGG-TTTT
* * *
9058519 AGTTAATTTAGGTTAGGGTTAGGTTTTTT
1 AATTAAGTTAGGTTAGGGTTAGG-GTTTT
*
9058548 AATTAATTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGG-TTTT
9058577 AATTAAGTTAGGTTAGGG-T----TTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTT
9058600 AATTAAGTTAGGTTAGGGTT
1 AATTAAGTTAGGTTAGGGTT
9058620 TTCAATTAAA
Statistics
Matches: 495, Mismatches: 35, Indels: 53
0.85 0.06 0.09
Matches are distributed among these distances:
23 22 0.04
24 1 0.00
28 14 0.03
29 338 0.68
30 28 0.06
31 9 0.02
33 9 0.02
34 14 0.03
35 60 0.12
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (28 bp):
AATTAAGTTAGGTTAGGGTTAGGGTTTT
Found at i:9058199 original size:93 final size:92
Alignment explanation
Indices: 9058067--9058596 Score: 714
Period size: 87 Copynumber: 5.8 Consensus size: 92
9058057 AGGGTTAGGG
*
9058067 TTTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAATT
1 TTTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAATT
*
9058132 TAGGTTAGGGTTAGGGTTTTTAGTTAA
66 TAGGTTAGGGTTAGGGTTTTTAATTAA
*
9058159 TTTAGGTTAGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGTGTTAGGGTTTTTAATTAAG
1 TTTAGGTTA-GGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAA-
9058224 TTAGGTTAGGATTAGGGTTAGGGTTTTTAATTAA
64 -T---TTAGG-TTAGGGTTAGGGTTTTTAATTAA
* *
9058258 TTTAGGTTA-G-T---GTTAGGGTTTTTAATTAAGTTAGGTTAGGATTAGGGTTTTTAGTTAATT
1 TTTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAATT
9058318 TAGGTTAGGGTTAGGGTTTTTAATTAA
66 TAGGTTAGGGTTAGGGTTTTTAATTAA
* * * *
9058345 GTTAGGTTAGGGTTAGGGTTAGAGTTTTTAATTAAGTTAGATTAGGGTTAGGGTTTTTAATTAAG
1 TTTAGGTTA-GGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAT
*
9058410 TTAGGGTTAGGGTTAGAG-TTTTAATT-A
65 TTA-GGTTAGGGTTAGGGTTTTTAATTAA
* * *
9058437 ---A-GTTAGGTTAGGGTTAGGGTTTTTAGTTAGGTTAGGTTAGGGTTAGGGTTTTTAGTTAATT
1 TTTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAATT
*
9058498 TAGGTTAGGGTTAGGGTTTTTAGTTAA
66 TAGGTTAGGGTTAGGGTTTTTAATTAA
* * *
9058525 --T---TTAGGTTAGGGTTAGGTTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAAGT
1 TTTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAATT
9058585 TAGGTTAGGGTT
66 TAGGTTAGGGTT
9058597 TTTAATTAAG
Statistics
Matches: 394, Mismatches: 27, Indels: 39
0.86 0.06 0.08
Matches are distributed among these distances:
86 13 0.03
87 155 0.39
88 10 0.03
89 2 0.01
90 1 0.00
91 1 0.00
92 9 0.02
93 151 0.38
94 13 0.03
95 1 0.00
96 1 0.00
97 1 0.00
98 5 0.01
99 31 0.08
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (92 bp):
TTTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAATT
TAGGTTAGGGTTAGGGTTTTTAATTAA
Found at i:9058292 original size:18 final size:18
Alignment explanation
Indices: 9058205--9058263 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
9058195 TTAGGTTAGT
9058205 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*** *
9058223 GTTA-GG-TTAGGATTAGG
1 GTTAGGGTTTTTAATTA-A
9058240 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
9058258 TTTAGG
1 GTTAGG
9058264 TTAGTGTTAG
Statistics
Matches: 29, Mismatches: 9, Indels: 6
0.66 0.20 0.14
Matches are distributed among these distances:
16 6 0.21
17 6 0.21
18 11 0.38
19 6 0.21
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.46
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:9058633 original size:23 final size:23
Alignment explanation
Indices: 9058550--9058634 Score: 125
Period size: 23 Copynumber: 3.6 Consensus size: 23
9058540 GGTTTTTTAA
*
9058550 TTAATTTAGGTTAGGGTTAGGGTTT
1 TTAA-TTAAGTTA-GGTTAGGGTTT
9058575 TTAATTAAGTTAGGTTAGGGTTT
1 TTAATTAAGTTAGGTTAGGGTTT
9058598 TTAATTAAGTTAGGTTAGGGTTT
1 TTAATTAAGTTAGGTTAGGGTTT
* *
9058621 TCAATTAAATTAGG
1 TTAATTAAGTTAGG
9058635 GTATTTATTT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
23 46 0.81
24 7 0.12
25 4 0.07
ACGTcount: A:0.27, C:0.01, G:0.26, T:0.46
Consensus pattern (23 bp):
TTAATTAAGTTAGGTTAGGGTTT
Found at i:9058713 original size:26 final size:25
Alignment explanation
Indices: 9058683--9058731 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
9058673 CTTCAAAAAT
9058683 TTCTATGCGTATTACATCAAATAAAC
1 TTCTAT-CGTATTACATCAAATAAAC
**
9058709 TTCTATTTTATTACATCAAATAA
1 TTCTATCGTATTACATCAAATAA
9058732 TAAATTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.41
Consensus pattern (25 bp):
TTCTATCGTATTACATCAAATAAAC
Found at i:9059172 original size:18 final size:18
Alignment explanation
Indices: 9059128--9059173 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
9059118 TATTCAGAAA
* *
9059128 AGGATACATGTAAGGGTT
1 AGGATACATATAAGGGCT
*
9059146 AGGGTACATATAAGGGCT
1 AGGATACATATAAGGGCT
*
9059164 AGGAAACATA
1 AGGATACATA
9059174 CCTGGCATCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.22
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:9059828 original size:7 final size:7
Alignment explanation
Indices: 9059818--9059842 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9059808 TTATATACAT
9059818 AATACTA
1 AATACTA
9059825 AATACTA
1 AATACTA
9059832 AATACTA
1 AATACTA
9059839 AATA
1 AATA
9059843 TCAATCGACT
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:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:9060826 original size:15 final size:16
Alignment explanation
Indices: 9060801--9060831 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
9060791 ATAATTATCT
9060801 AAAAATACTTAAATAA
1 AAAAATACTTAAATAA
9060817 AAAAAT-CTTAAATAA
1 AAAAATACTTAAATAA
9060832 TAATTACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAATACTTAAATAA
Found at i:9060966 original size:29 final size:30
Alignment explanation
Indices: 9060924--9060988 Score: 114
Period size: 29 Copynumber: 2.2 Consensus size: 30
9060914 ACCATTGATG
9060924 AAAATATAAAAAAATTTAAAATTATTTTAA
1 AAAATATAAAAAAATTTAAAATTATTTTAA
*
9060954 AAAATAT-AAAAAATTTATAATTATTTTAA
1 AAAATATAAAAAAATTTAAAATTATTTTAA
9060983 AAAATA
1 AAAATA
9060989 GATTTGAGAG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 27 0.79
30 7 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (30 bp):
AAAATATAAAAAAATTTAAAATTATTTTAA
Found at i:9061027 original size:51 final size:50
Alignment explanation
Indices: 9060972--9061117 Score: 160
Period size: 51 Copynumber: 3.0 Consensus size: 50
9060962 AAAAATTTAT
9060972 AATTATTTTAAAAAATAGATTTGAGAGAATTTTGGAAGGAAATTGAGAGGA
1 AATTATTTT-AAAAATAGATTTGAGAGAATTTTGGAAGGAAATTGAGAGGA
** * * *
9061023 AATTAAAATTAAATATGGGTTTGAGAGAATTTTGGAAGGAAATTGAGA--A
1 AATT-ATTTTAAAAATAGATTTGAGAGAATTTTGGAAGGAAATTGAGAGGA
** *
9061072 AATT-TTGGAAGAA-A-A-TTGAGAGAATTTTGGAAGGAAATTGAGAGGA
1 AATTATTTTAAAAATAGATTTGAGAGAATTTTGGAAGGAAATTGAGAGGA
9061118 TTAGAGAGGA
Statistics
Matches: 79, Mismatches: 13, Indels: 11
0.77 0.13 0.11
Matches are distributed among these distances:
44 28 0.35
46 1 0.01
47 3 0.04
49 5 0.06
51 39 0.49
52 3 0.04
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (50 bp):
AATTATTTTAAAAATAGATTTGAGAGAATTTTGGAAGGAAATTGAGAGGA
Found at i:9061068 original size:22 final size:22
Alignment explanation
Indices: 9061043--9061115 Score: 128
Period size: 22 Copynumber: 3.3 Consensus size: 22
9061033 AAATATGGGT
9061043 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
* *
9061065 TTGAGAAAATTTTGGAAGAAAA
1 TTGAGAGAATTTTGGAAGGAAA
9061087 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
9061109 TTGAGAG
1 TTGAGAG
9061116 GATTAGAGAG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.27
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:9067981 original size:21 final size:21
Alignment explanation
Indices: 9067951--9067990 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9067941 AATAAATACC
*
9067951 AAAAATTTATTTTAAAAATTA
1 AAAAAATTATTTTAAAAATTA
*
9067972 AAAAAATTATTTTGAAAAT
1 AAAAAATTATTTTAAAAAT
9067991 ATTTTAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (21 bp):
AAAAAATTATTTTAAAAATTA
Found at i:9068033 original size:11 final size:11
Alignment explanation
Indices: 9068019--9068092 Score: 68
Period size: 11 Copynumber: 6.9 Consensus size: 11
9068009 ATTAAAAATG
9068019 TATTTTAAAAA
1 TATTTTAAAAA
9068030 TATTTTAAAAA
1 TATTTTAAAAA
9068041 TATTTT--AAA
1 TATTTTAAAAA
*
9068050 -A-TTAAAAAA
1 TATTTTAAAAA
9068059 T-TTTTAAAAAAA
1 TATTTT--AAAAA
*
9068071 GTATTTTAAAAG
1 -TATTTTAAAAA
9068083 TATTTTAAAA
1 TATTTTAAAA
9068093 TTTAAAAAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
7 2 0.04
8 1 0.02
9 6 0.12
10 2 0.04
11 27 0.52
12 9 0.17
13 1 0.02
14 4 0.08
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:9068041 original size:51 final size:51
Alignment explanation
Indices: 9067973--9068112 Score: 169
Period size: 51 Copynumber: 2.7 Consensus size: 51
9067963 TAAAAATTAA
*
9067973 AAAAATTATTTTGAAAATATTTTAAAATTAAAAAAAATT-AAAAATGTATTTT
1 AAAAA-TATTTT-AAAATATTTTAAAATTAAAAAAAATTAAAAAAAGTATTTT
**
9068025 AAAAATATTTTAAAAATATTTTAAAATTAAAAAATTTTTAAAAAAAGTATTTT
1 AAAAATATTTT-AAAATATTTTAAAATTAAAAAA-AATTAAAAAAAGTATTTT
* * *
9068078 AAAAGTATTTT-AAA-ATTTAAAAAATAAAAAAAATT
1 AAAAATATTTTAAAATATTTTAAAATTAAAAAAAATT
9068113 TATTATATTC
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
49 2 0.03
50 15 0.19
51 31 0.40
52 7 0.09
53 22 0.29
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.39
Consensus pattern (51 bp):
AAAAATATTTTAAAATATTTTAAAATTAAAAAAAATTAAAAAAAGTATTTT
Found at i:9068051 original size:41 final size:41
Alignment explanation
Indices: 9067958--9068102 Score: 152
Period size: 42 Copynumber: 3.5 Consensus size: 41
9067948 ACCAAAAATT
* *
9067958 TATTTTAAAAATTAAAAAAATTATTTTGAAAATATTTTAAAAT
1 TATTTT-AAAATT-AAAAAATTATTTTAAAAATATTTTAAAAA
***
9068001 TA-AAAAAAATT-AAAAATGTATTTTAAAAATATTTTAAAAA
1 TATTTTAAAATTAAAAAAT-TATTTTAAAAATATTTTAAAAA
* *
9068041 TATTTTAAAATTAAAAAATT-TTTAAAAAAAGTATTTTAAAAG
1 TATTTTAAAATTAAAAAATTATTT-TAAAAA-TATTTTAAAAA
9068083 TATTTTAAAATTTAAAAAAT
1 TATTTTAAAA-TTAAAAAAT
9068103 AAAAAAAATT
Statistics
Matches: 86, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
39 6 0.07
40 25 0.29
41 18 0.21
42 26 0.30
43 11 0.13
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (41 bp):
TATTTTAAAATTAAAAAATTATTTTAAAAATATTTTAAAAA
Found at i:9081570 original size:25 final size:24
Alignment explanation
Indices: 9081522--9081573 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
9081512 GACATTTTAA
* *
9081522 ATTAGTACTAAGGTTATTGGTATT
1 ATTAGTACTAAAGTTATTGATATT
*
9081546 ATTAGTACTAATATTTATTGATATT
1 ATTAGTACTAA-AGTTATTGATATT
9081571 ATT
1 ATT
9081574 GATATGTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (24 bp):
ATTAGTACTAAAGTTATTGATATT
Found at i:9083672 original size:5 final size:5
Alignment explanation
Indices: 9083662--9083735 Score: 82
Period size: 5 Copynumber: 14.8 Consensus size: 5
9083652 AAATTCAATA
* *
9083662 TATAT TATAT TAAAT TATAAT TA-AT TA-AT TAT-T AAGTAT ATATAT
1 TATAT TATAT TATAT TAT-AT TATAT TATAT TATAT TA-TAT -TATAT
9083707 TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATA
9083736 ATAAAACAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
4 10 0.17
5 41 0.68
6 8 0.13
7 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (5 bp):
TATAT
Found at i:9083829 original size:20 final size:19
Alignment explanation
Indices: 9083777--9083821 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
9083767 AGACAAGCAA
9083777 AAAGAAACAGAAA-GGAAAG
1 AAAGAAA-AGAAAGGGAAAG
9083796 AAAGAAAAGAAAAGGGAAAG
1 AAAGAAAAG-AAAGGGAAAG
9083816 AAAGAA
1 AAAGAA
9083822 GGAGAAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.08
19 10 0.42
20 12 0.50
ACGTcount: A:0.71, C:0.02, G:0.27, T:0.00
Consensus pattern (19 bp):
AAAGAAAAGAAAGGGAAAG
Found at i:9097153 original size:16 final size:16
Alignment explanation
Indices: 9097132--9097183 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
9097122 TTTGGTTCGC
9097132 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
9097148 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
9097164 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
9097180 TGTA
1 TGTA
9097184 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:9097230 original size:45 final size:44
Alignment explanation
Indices: 9097164--9097258 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
9097154 GGATTAGAGG
* *
9097164 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
9097209 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
9097253 TGTAAT
1 TGTAAT
9097259 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:9097441 original size:18 final size:17
Alignment explanation
Indices: 9097420--9097454 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9097410 TTATTATTTA
*
9097420 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
9097438 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
9097455 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:9097448 original size:28 final size:27
Alignment explanation
Indices: 9097378--9097450 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
9097368 TTTATTATCA
*
9097378 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
9097406 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
9097433 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
9097451 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Done.