Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 179 of 199
Found at i:52061923 original size:18 final size:18
Alignment explanation
Indices: 52061903--52061963 Score: 95
Period size: 18 Copynumber: 3.4 Consensus size: 18
52061893 GGTATTATTG
* *
52061903 TTGTTGTTGTTGTTGTTG
1 TTGTTATTGTTGTTGTTA
52061921 TTGTTATTGTTGTTGTTA
1 TTGTTATTGTTGTTGTTA
*
52061939 TTGTTATTGTTATTGTTA
1 TTGTTATTGTTGTTGTTA
52061957 TTGTTAT
1 TTGTTAT
52061964 ATTTCTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.10, C:0.00, G:0.23, T:0.67
Consensus pattern (18 bp):
TTGTTATTGTTGTTGTTA
Found at i:52066940 original size:18 final size:19
Alignment explanation
Indices: 52066903--52066940 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
52066893 AAGACTATTA
* *
52066903 AAACATGTCATCTGAGAAT
1 AAACATGTCAGCTAAGAAT
52066922 AAACAT-TCAGCTAAGAAT
1 AAACATGTCAGCTAAGAAT
52066940 A
1 A
52066941 CTATCCTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.47, C:0.16, G:0.13, T:0.24
Consensus pattern (19 bp):
AAACATGTCAGCTAAGAAT
Found at i:52073489 original size:41 final size:41
Alignment explanation
Indices: 52073444--52073588 Score: 247
Period size: 41 Copynumber: 3.5 Consensus size: 41
52073434 GACTTTAAGT
52073444 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
52073485 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
52073526 CTAGCAGGCTAAGTGCCGGTGAT-TGGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCT-GAATCAGGTTATAAAC
*
52073567 CTAGCAGGCTAAGTGCCAGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
52073589 ATATGCTAAA
Statistics
Matches: 100, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
40 1 0.01
41 99 0.99
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:52074653 original size:20 final size:21
Alignment explanation
Indices: 52074628--52074666 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
52074618 ACCGACTGTT
52074628 ATAAAAAAATTAAA-AATGAA
1 ATAAAAAAATTAAATAATGAA
*
52074648 ATAAAAATATTAAATAATG
1 ATAAAAAAATTAAATAATG
52074667 TTAAGAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (21 bp):
ATAAAAAAATTAAATAATGAA
Found at i:52075540 original size:35 final size:37
Alignment explanation
Indices: 52075474--52075550 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 37
52075464 TTAAAAATAT
* *
52075474 TAAAAATATAAAAATATATAAAAACTTATAAATA-TTA
1 TAAAAATAGAAAAATATATAAAAACTCATAAA-ACTTA
* *
52075511 TAAAAATAGAAAAATCTA-ATAAA-TCATAAAACTTA
1 TAAAAATAGAAAAATATATAAAAACTCATAAAACTTA
52075546 TAAAA
1 TAAAA
52075551 TTTAATAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
34 1 0.03
35 14 0.40
36 4 0.11
37 16 0.46
ACGTcount: A:0.65, C:0.05, G:0.01, T:0.29
Consensus pattern (37 bp):
TAAAAATAGAAAAATATATAAAAACTCATAAAACTTA
Found at i:52075616 original size:9 final size:9
Alignment explanation
Indices: 52075412--52075657 Score: 100
Period size: 9 Copynumber: 27.0 Consensus size: 9
52075402 ATAAATTTTT
52075412 TTAT-AAAA
1 TTATAAAAA
*
52075420 TCAT-AAAA
1 TTATAAAAA
52075428 TTATAAAAA
1 TTATAAAAA
* *
52075437 TCAGAACAAA
1 TTATAA-AAA
*
52075447 -TATAACAA
1 TTATAAAAA
*
52075455 -TAT-TAAA
1 TTATAAAAA
52075462 -TATTAAAAA
1 TTA-TAAAAA
52075471 -TATTAAAAA
1 TTA-TAAAAA
52075480 -TATAAAAA
1 TTATAAAAA
52075488 TATATAAAAA
1 T-TATAAAAA
*
52075498 CTTATAAATA
1 -TTATAAAAA
52075508 TTATAAAAA
1 TTATAAAAA
*
52075517 -TAGAAAAA
1 TTATAAAAA
*
52075525 TCTA-ATAAA
1 T-TATAAAAA
* *
52075534 TCATAAAAC
1 TTATAAAAA
*
52075543 TTATAAAAT
1 TTATAAAAA
52075552 TTAATAAAAA
1 TT-ATAAAAA
52075562 TTA-AAAAA
1 TTATAAAAA
* *
52075570 TCGTATTAGAA
1 T--TATAAAAA
*
52075581 TTCTTAAAAAA
1 TT-AT-AAAAA
* *
52075592 TAATAAAAT
1 TTATAAAAA
*
52075601 TTGTAAAAA
1 TTATAAAAA
52075610 TTATAAAAA
1 TTATAAAAA
* *
52075619 ATATTAAAA
1 TTATAAAAA
*
52075628 TTGATATAAAC
1 TT-ATA-AAAA
52075639 TTATAAAAA
1 TTATAAAAA
*
52075648 GTATTAAAAA
1 TTA-TAAAAA
52075658 AATCATAAAA
Statistics
Matches: 180, Mismatches: 39, Indels: 36
0.71 0.15 0.14
Matches are distributed among these distances:
7 4 0.02
8 36 0.20
9 83 0.46
10 43 0.24
11 14 0.08
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.31
Consensus pattern (9 bp):
TTATAAAAA
Found at i:52075626 original size:19 final size:19
Alignment explanation
Indices: 52075466--52075627 Score: 51
Period size: 19 Copynumber: 8.7 Consensus size: 19
52075456 ATTAAATATT
52075466 AAAAATATTAAAAA-TAT-
1 AAAAATATTAAAAATTATA
52075483 AAAAATATATAAAAACTTATA
1 AAAAATAT-TAAAAA-TTATA
* * *
52075504 AATATTA-TAAAAA-TA-G
1 AAAAATATTAAAAATTATA
* *
52075520 AAAAAT-CTAATAAATCATA
1 AAAAATATTAA-AAATTATA
**
52075539 AAACTTA-T-AAAATT-TA
1 AAAAATATTAAAAATTATA
*
52075555 ATAAAA-ATTAAAAAATCGTATT
1 A-AAAATATT-AAAAAT--TATA
* * *
52075577 AGAATTCTTAAAAA--ATA
1 AAAAATATTAAAAATTATA
*
52075594 ATAAAATTTGTAAAAATTATA
1 A-AAAATAT-TAAAAATTATA
52075615 AAAAATATTAAAA
1 AAAAATATTAAAA
52075628 TTGATATAAA
Statistics
Matches: 103, Mismatches: 21, Indels: 40
0.63 0.13 0.24
Matches are distributed among these distances:
16 11 0.11
17 23 0.22
18 12 0.12
19 27 0.26
20 9 0.09
21 17 0.17
22 4 0.04
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAAATATTAAAAATTATA
Found at i:52075642 original size:29 final size:28
Alignment explanation
Indices: 52075585--52075656 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 28
52075575 TTAGAATTCT
*
52075585 TAAAAAATAATAAAATTTGTAAAAATTA
1 TAAAAAATATTAAAATTTGTAAAAATTA
*
52075613 TAAAAAATATTAAAA-TTGATATAAACTTA
1 TAAAAAATATTAAAATTTG-TA-AAAATTA
*
52075642 TAAAAAGTATTAAAA
1 TAAAAAATATTAAAA
52075657 AAATCATAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 3 0.08
28 16 0.41
29 20 0.51
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (28 bp):
TAAAAAATATTAAAATTTGTAAAAATTA
Found at i:52075665 original size:29 final size:29
Alignment explanation
Indices: 52075610--52075666 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
52075600 TTTGTAAAAA
**
52075610 TTATAAAAAATATTAAAATTGATATAAAC
1 TTATAAAAAATATTAAAATAAATATAAAC
*
52075639 TTATAAAAAGTATTAAAA-AAATCATAAA
1 TTATAAAAAATATTAAAATAAAT-ATAAA
52075667 AACTTGAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.32
Consensus pattern (29 bp):
TTATAAAAAATATTAAAATAAATATAAAC
Found at i:52076087 original size:20 final size:20
Alignment explanation
Indices: 52076044--52076089 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
52076034 AGTCCAGTTC
* *
52076044 AATTTTTATGTTTTTTAAAT
1 AATTTTTATGATTTTTAAAG
*
52076064 AATTTTTATGATTTTTATAG
1 AATTTTTATGATTTTTAAAG
52076084 AATTTT
1 AATTTT
52076090 AATACATCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (20 bp):
AATTTTTATGATTTTTAAAG
Found at i:52076141 original size:20 final size:19
Alignment explanation
Indices: 52076118--52076223 Score: 60
Period size: 19 Copynumber: 5.6 Consensus size: 19
52076108 TTTAAATATG
52076118 TTTTATTAATTTTATAATTT
1 TTTTA-TAATTTTATAATTT
* **
52076138 TTTTATAA-TTTATCAGAT
1 TTTTATAATTTTATAATTT
*
52076156 TTTTATAATATTTATAA-GT
1 TTTTATAAT-TTTATAATTT
* *
52076175 TTATATTAATTTCAT-ATTT
1 TTTTA-TAATTTTATAATTT
* *
52076194 TTTAAT-ATTTAAT-ATTT
1 TTTTATAATTTTATAATTT
*
52076211 TTTAATAAATTTT
1 TTTTAT-AATTTT
52076224 TTTTCTAATT
Statistics
Matches: 68, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
17 16 0.24
18 17 0.25
19 20 0.29
20 15 0.22
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTATAATTTTATAATTT
Found at i:52076149 original size:18 final size:18
Alignment explanation
Indices: 52076118--52076218 Score: 50
Period size: 17 Copynumber: 5.4 Consensus size: 18
52076108 TTTAAATATG
52076118 TTTTATTAATTTTATAATTT
1 TTTTA-TAA-TTTATAATTT
52076138 TTTTATAATTTATCAGATTT
1 TTTTATAATTTAT-A-ATTT
* *
52076158 TTATA-ATATTTATAA-GT
1 TTTTATA-ATTTATAATTT
*
52076175 TTATATTAATTTCAT-ATTT
1 TTTTA-TAATTT-ATAATTT
*
52076194 TTTAAT-ATTTA-ATATTT
1 TTTTATAATTTATA-ATTT
*
52076211 TTTAATAA
1 TTTTATAA
52076219 ATTTTTTTTC
Statistics
Matches: 66, Mismatches: 5, Indels: 22
0.71 0.05 0.24
Matches are distributed among these distances:
16 1 0.02
17 20 0.30
18 13 0.20
19 13 0.20
20 19 0.29
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTTATAATTTATAATTT
Found at i:52076170 original size:38 final size:36
Alignment explanation
Indices: 52076118--52076218 Score: 93
Period size: 38 Copynumber: 2.8 Consensus size: 36
52076108 TTTAAATATG
52076118 TTTTATTAAT-TTTATAATTTTTTTATAATTTATCAGAT
1 TTTTA-TAATATTTATAATTTTTTTATAA-TT-TCAGAT
* * *
52076156 TTTTATAATATTTATAA-GTTTATATTAATTTCATAT
1 TTTTATAATATTTATAATTTTTTTA-TAATTTCAGAT
*
52076192 TTTT-TAATATTTA-ATATTTTTTAATAA
1 TTTTATAATATTTATA-ATTTTTTTATAA
52076219 ATTTTTTTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
34 1 0.02
35 13 0.25
36 13 0.25
37 11 0.21
38 15 0.28
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (36 bp):
TTTTATAATATTTATAATTTTTTTATAATTTCAGAT
Found at i:52076208 original size:17 final size:17
Alignment explanation
Indices: 52076183--52076217 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
52076173 GTTTATATTA
*
52076183 ATTTCATATTTTTTAAT
1 ATTTAATATTTTTTAAT
52076200 ATTTAATATTTTTTAAT
1 ATTTAATATTTTTTAAT
52076217 A
1 A
52076218 AATTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTTAATATTTTTTAAT
Found at i:52077290 original size:65 final size:65
Alignment explanation
Indices: 52077176--52077304 Score: 213
Period size: 65 Copynumber: 2.0 Consensus size: 65
52077166 AGTTTATTTT
* * *
52077176 TCAATGCATTTACAATATGGTTCCTTTAATTACATGGCTTTTTTTTGTTTGGTTGCCAAGAAAAA
1 TCAATGCACTTACAATATGGTTCCTTTAATTACATGGCTCTTTTCTGTTTGGTTGCCAAGAAAAA
* *
52077241 TCAATGCACTTACAATATGGTTTCTTTGATTACATGGCTCTTTTCTGTTTGGTTGCCAAGAAAA
1 TCAATGCACTTACAATATGGTTCCTTTAATTACATGGCTCTTTTCTGTTTGGTTGCCAAGAAAA
52077305 CATGGGAACA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 59 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (65 bp):
TCAATGCACTTACAATATGGTTCCTTTAATTACATGGCTCTTTTCTGTTTGGTTGCCAAGAAAAA
Found at i:52078148 original size:6 final size:6
Alignment explanation
Indices: 52078135--52078175 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
52078125 AATATAATAC
* *
52078135 TTAT-T TTATAT TTATAT TTGTAT TTGTAT TTATAT TTATAT
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT
52078176 AACACTACCA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
5 4 0.12
6 29 0.88
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (6 bp):
TTATAT
Found at i:52082241 original size:20 final size:21
Alignment explanation
Indices: 52082191--52082242 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
52082181 TTATTCGTTC
* *
52082191 AATTAATATTAGATTGAATTTT
1 AATTAA-ATTAGATTGAAATTA
52082213 AA-TATAATT-GATTGAAATTA
1 AATTA-AATTAGATTGAAATTA
52082233 AATTAAATTA
1 AATTAAATTA
52082243 AAAAACTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
20 15 0.60
21 7 0.28
22 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (21 bp):
AATTAAATTAGATTGAAATTA
Found at i:52084974 original size:7 final size:7
Alignment explanation
Indices: 52084962--52084991 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
52084952 TCGTTGAAAC
52084962 ACCACCG
1 ACCACCG
52084969 ACCACCG
1 ACCACCG
52084976 ACCACCG
1 ACCACCG
52084983 ACCACCG
1 ACCACCG
52084990 AC
1 AC
52084992 AGTTTCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.30, C:0.57, G:0.13, T:0.00
Consensus pattern (7 bp):
ACCACCG
Found at i:52086267 original size:13 final size:13
Alignment explanation
Indices: 52086249--52086277 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
52086239 ATTTAGTATT
52086249 TATATAATAAATA
1 TATATAATAAATA
52086262 TATATAATAAATA
1 TATATAATAAATA
52086275 TAT
1 TAT
52086278 TTTTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TATATAATAAATA
Found at i:52087058 original size:24 final size:24
Alignment explanation
Indices: 52087008--52087055 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
52086998 AAATACTAAT
** *
52087008 ATTTATATTATTAAATTATTTGTA
1 ATTTATATTATTAAAACATTTATA
52087032 ATTTATATTA-TAAAACATTTATA
1 ATTTATATTATTAAAACATTTATA
52087055 A
1 A
52087056 ATTAAAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
ATTTATATTATTAAAACATTTATA
Found at i:52090742 original size:44 final size:44
Alignment explanation
Indices: 52090679--52091292 Score: 307
Period size: 44 Copynumber: 14.1 Consensus size: 44
52090669 TCATCATTTT
* * * * * *
52090679 AATCCGCTCCGCTACAACTTCAAGGAGATAGGGTTGGTTTCTTC
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTGGTTTATTC
* * *
52090723 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTGGTTTATTT
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTGGTTTATTC
* * * *
52090767 AGTCTGCTCCACTGCAATTTC-AGAGAGATAAGACCT-G---ATGC
1 AATCTGCTCCACTGCAACTTCAAG-GAGATAAGA-TTGGTTTATTC
* ***
52090808 GATCTGC-CCTACTGCAACTTC-AGAGAGATAAGATCCATCATT-TT-
1 AATCTGCTCC-ACTGCAACTTCAAG-GAGATAAGATTGGT--TTATTC
* * *
52090852 AATCCGCTCCGCTGCAACTTCAAGGAGATAGGATTGGTTTATTC
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTGGTTTATTC
* * *
52090896 AATTTGC-CCTACTACAACTTCAGGGAGATAAGATTGGTTTATTC
1 AATCTGCTCC-ACTGCAACTTCAAGGAGATAAGATTGGTTTATTC
* * * * * *
52090940 AGTTTGCTCCACTGCAATTTCAGGGAGATAAGACCT-G---ATGC
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGA-TTGGTTTATTC
* * ***
52090981 AATCTGCTCTACTGCAACTTCAAAGAGATAAGATCCATCATT-TT-
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTGGT--TTATTC
** * * * * *
52091025 AATCCACTCCGCTGCAACTTTAGGGAGATATGATTGGTTTCTTC
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTGGTTTATTC
* * *
52091069 AATCTGTTCCACTACAACTTCAAAGAGATAAGATTGGTTTATTC
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTGGTTTATTC
* * * * * *
52091113 AGTCTACTCCGCTGTAACTTCAAGGGAGATGAA-ACCT-GATT-TT-
1 AATCTGCTCCACTGCAACTTCAA-GGAGAT-AAGA-TTGGTTTATTC
** * * * ** *
52091156 AATCCACTCCACTGCAACTTCAGGGAGATAGGATT-ATTGGCTTT
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTGGTT-TATTC
* * *** *
52091200 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCCATCTTC
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGA-TTGGTTTATTC
* * * * * *
52091245 AGTCTGCTCCATTGCAACTTCAGGGGGATAAGACTTGCTTTCTTC
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGA-TTGGTTTATTC
52091290 AAT
1 AAT
52091293 TTTAATGCCA
Statistics
Matches: 430, Mismatches: 107, Indels: 65
0.71 0.18 0.11
Matches are distributed among these distances:
40 2 0.00
41 62 0.14
42 11 0.03
43 27 0.06
44 261 0.61
45 64 0.15
46 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTGGTTTATTC
Found at i:52090856 original size:173 final size:173
Alignment explanation
Indices: 52090633--52091122 Score: 741
Period size: 173 Copynumber: 2.8 Consensus size: 173
52090623 AAAAGTCTGG
* * * * *
52090633 TGCGATATGCTCTATTGCAGCTTCAGAGAGATAATAT-CATCATTTTAATCCGCTCCGCTACAAC
1 TGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTAATCCGCTCCGCTGCAAC
* * *
52090697 TTCAAGGAGATAGGGTTGGTTTCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTGGTT
66 TTCAAGGAGATAGGATTGGTTTCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTGGTT
*
52090762 TATTTAGTCTGCTCCACTGCAATTTCAGAGAGATAAGACCTGA
131 TATTCAGTCTGCTCCACTGCAATTTCAGAGAGATAAGACCTGA
*
52090805 TGCGATCTGCCCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTAATCCGCTCCGCTGCAAC
1 TGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTAATCCGCTCCGCTGCAAC
* *
52090870 TTCAAGGAGATAGGATTGGTTTATTCAATTTGC-CCTACTACAACTTCAGGGAGATAAGATTGGT
66 TTCAAGGAGATAGGATTGGTTTCTTCAATCTGCTCC-ACTACAACTTCAGGGAGATAAGATTGGT
* *
52090934 TTATTCAGTTTGCTCCACTGCAATTTCAGGGAGATAAGACCTGA
130 TTATTCAGTCTGCTCCACTGCAATTTCAGAGAGATAAGACCTGA
* * *
52090978 TGCAATCTGCTCTACTGCAACTTCAAAGAGATAAGATCCATCATTTTAATCCACTCCGCTGCAAC
1 TGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTAATCCGCTCCGCTGCAAC
* * * * **
52091043 TTTAGGGAGATATGATTGGTTTCTTCAATCTGTTCCACTACAACTTCAAAGAGATAAGATTGGTT
66 TTCAAGGAGATAGGATTGGTTTCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTGGTT
*
52091108 TATTCAGTCTACTCC
131 TATTCAGTCTGCTCC
52091123 GCTGTAACTT
Statistics
Matches: 287, Mismatches: 28, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
172 34 0.12
173 251 0.87
174 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (173 bp):
TGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTAATCCGCTCCGCTGCAAC
TTCAAGGAGATAGGATTGGTTTCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTGGTT
TATTCAGTCTGCTCCACTGCAATTTCAGAGAGATAAGACCTGA
Found at i:52091040 original size:85 final size:85
Alignment explanation
Indices: 52090772--52091054 Score: 286
Period size: 85 Copynumber: 3.3 Consensus size: 85
52090762 TATTTAGTCT
* *
52090772 GCTCCACTGCAATTTCAGAGAGATAAGACCTGATGCGATCTGCCCTACTGCAACTTCAGAGAGAT
1 GCTCCACTGCAATTTCAGGGAGATAAGACCTGATGCAATCTGCCCTACTGCAACTTCAGAGAGAT
52090837 AAGATCCATCATTTTAATCC
66 AAGATCCATCATTTTAATCC
* * * * * * * * *
52090857 GCTCCGCTGCAACTTCAAGGAGATAGGA-TTGGTTTATTCAATTTGCCCTACTACAACTTCAGGG
1 GCTCCACTGCAATTTCAGGGAGATAAGACCT-G---ATGCAATCTGCCCTACTGCAACTTCAGAG
*** * **
52090921 AGATAAGATTGGT--TTATTCAGTTT
62 AGATAAGATCCATCATT-TT-AATCC
* *
52090945 GCTCCACTGCAATTTCAGGGAGATAAGACCTGATGCAATCTGCTCTACTGCAACTTCAAAGAGAT
1 GCTCCACTGCAATTTCAGGGAGATAAGACCTGATGCAATCTGCCCTACTGCAACTTCAGAGAGAT
52091010 AAGATCCATCATTTTAATCC
66 AAGATCCATCATTTTAATCC
* *
52091030 ACTCCGCTGCAACTTT-AGGGAGATA
1 GCTCCACTGCAA-TTTCAGGGAGATA
52091055 TGATTGGTTT
Statistics
Matches: 152, Mismatches: 36, Indels: 20
0.73 0.17 0.10
Matches are distributed among these distances:
84 1 0.01
85 78 0.51
86 7 0.05
87 4 0.03
88 61 0.40
89 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (85 bp):
GCTCCACTGCAATTTCAGGGAGATAAGACCTGATGCAATCTGCCCTACTGCAACTTCAGAGAGAT
AAGATCCATCATTTTAATCC
Found at i:52091333 original size:36 final size:36
Alignment explanation
Indices: 52091265--52091333 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 36
52091255 ATTGCAACTT
* ** *
52091265 CAGGGGGATAAGACTTGCTTTCTTCAATTTTAATGC
1 CAGGGAGATAAGACTTGCTGCCTTCAACTTTAATGC
* *
52091301 CAGGGAGATAAGATTTGCTGCCTTCAGCTTTAA
1 CAGGGAGATAAGACTTGCTGCCTTCAACTTTAA
52091334 CCTGTTCCAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 27 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.33
Consensus pattern (36 bp):
CAGGGAGATAAGACTTGCTGCCTTCAACTTTAATGC
Found at i:52091402 original size:51 final size:51
Alignment explanation
Indices: 52091321--52091446 Score: 137
Period size: 51 Copynumber: 2.5 Consensus size: 51
52091311 AGATTTGCTG
* * * *
52091321 CCTTCAGCTTTAACCTGTTCCACTGCAACACTAGAGAAACAAG-ATTCACTA
1 CCTTCAGCTTTAATCTGTTCCACTACAACACCAAAGAAA-AAGTATTCACTA
* * * * *
52091372 CCTTTAGCTTTAATCTGTTCCACTATAACACCAAAGAGATAGTATTCACTG
1 CCTTCAGCTTTAATCTGTTCCACTACAACACCAAAGAAAAAGTATTCACTA
* *
52091423 CCTTCAGCTTTAATCCGCTCCACT
1 CCTTCAGCTTTAATCTGTTCCACT
52091447 TCAGATTTAA
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
50 2 0.03
51 60 0.97
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.30
Consensus pattern (51 bp):
CCTTCAGCTTTAATCTGTTCCACTACAACACCAAAGAAAAAGTATTCACTA
Found at i:52091653 original size:260 final size:261
Alignment explanation
Indices: 52091301--52091908 Score: 853
Period size: 260 Copynumber: 2.3 Consensus size: 261
52091291 ATTTTAATGC
* * * * * *
52091301 CAGGGAGATAAGATTTGCTGCCTTCAGCTTTAACCTGTTCCACTGCAACACTAGAGAAACAAGAT
1 CAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGCCAGAGAAACAAGAT
*
52091366 TCACTACCTTTAGCTTTAATCTGTTCCACTATAACACCAAAGAGATAGTATTCACTGCCTTCAGC
66 TCACTACCTTTAGCTTTAATCTGTTCCACTATAACACCAAAGAGATAGGATTCACTGCCTTCAGC
52091431 TTTAATCCGCTCCACTTCAGATTTAATCTATTCCACTGCAACGCCAGGGAAACAAGACACGCTAC
131 TTTAATCCGCTCCACTTCAGATTTAATCTATTCCACTGCAACGCCAGGGAAACAAGACACGCTAC
* * * *
52091496 ATTTAGCTTTAATCTATTCCACTACAATGTTAGGGAAATAAGATTCGCT-GCTCTCAGTCTTAAC
196 ATTTAGCTTTAATCGATTCCACTACAATGCTAGGGAAATAAGATTCACTACCT-TCAGTCTTAAC
52091560 G-
260 GT
* * *
52091561 CTAGGGAGATAAGATTCGCTGCCTT-AGCTTTAATCTGCTCTGCTACAATGCCAGAGAAACAAGA
1 C-AGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGCCAGAGAAACAAGA
* * * * *
52091625 TTCGCTACCTTTAGCTTTAATCTGTTCCACTGTAACGCCAAGGAGATAGGATTCGCTGCCTTCAG
65 TTCACTACCTTTAGCTTTAATCTGTTCCACTATAACACCAAAGAGATAGGATTCACTGCCTTCAG
* * * * * **
52091690 CTTTAATCCGCTCTATTTCAGTTTTAATCTATTCCATTGCAATGCCAGGGAAACAAGATTCGCTA
130 CTTTAATCCGCTCCACTTCAGATTTAATCTATTCCACTGCAACGCCAGGGAAACAAGACACGCTA
* * * * *
52091755 CCTTTAGCTTTAATCGGTTCCACTACAATGCTATGGAAATAAGATTCACTACCTTTAGTCTTAAT
195 CATTTAGCTTTAATCGATTCCACTACAATGCTAGGGAAATAAGATTCACTACCTTCAGTCTTAAC
52091820 GT
260 GT
* *
52091822 CAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGCCAAAGAAATAAGAT
1 CAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGCCAGAGAAACAAGAT
* * *
52091887 TTACTGCCTTCAGCTTTAATCT
66 TCACTACCTTTAGCTTTAATCT
52091909 ACTATGACAT
Statistics
Matches: 304, Mismatches: 40, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
260 226 0.74
261 78 0.26
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (261 bp):
CAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGCCAGAGAAACAAGAT
TCACTACCTTTAGCTTTAATCTGTTCCACTATAACACCAAAGAGATAGGATTCACTGCCTTCAGC
TTTAATCCGCTCCACTTCAGATTTAATCTATTCCACTGCAACGCCAGGGAAACAAGACACGCTAC
ATTTAGCTTTAATCGATTCCACTACAATGCTAGGGAAATAAGATTCACTACCTTCAGTCTTAACG
T
Found at i:52091881 original size:87 final size:90
Alignment explanation
Indices: 52091730--52091985 Score: 257
Period size: 87 Copynumber: 2.8 Consensus size: 90
52091720 ATTCCATTGC
* * * * * * * *
52091730 AATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCGGTTCCACTACAATGCTATGGAAAT
1 AATGTCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCTAAGGAAAT
* *
52091795 AAGATTCACTACCTTTAG-T-CT-T
66 AAGATTCACTACCTTCAGTTAATCT
* * * * *
52091817 AATGTCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGCCAAAGAAAT
1 AATGTCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCTAAGGAAAT
* *
52091882 AAGATTTACTGCCTTCAGCTTTAATCT
66 AAGATTCACTACCTTCAG--TTAATCT
* *
52091909 ACTATGACATCAGGGAAATAAGATTCGTTGCTTTCAGCTTTAATCTGTTCCACTGCAACGCTAAG
1 A--ATG---TCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCTAAG
52091974 GAAATAAGATTC
61 GAAATAAGATTC
52091986 GTTATGATAA
Statistics
Matches: 134, Mismatches: 25, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
87 67 0.50
90 1 0.01
91 1 0.01
92 2 0.01
94 3 0.02
97 60 0.45
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (90 bp):
AATGTCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCTAAGGAAAT
AAGATTCACTACCTTCAGTTAATCT
Found at i:52091988 original size:51 final size:51
Alignment explanation
Indices: 52091829--52091986 Score: 157
Period size: 51 Copynumber: 3.2 Consensus size: 51
52091819 TGTCAGGGAG
* * * *
52091829 ATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGCCAAAGAA
1 ATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCTAAGGAA
** * * * *
52091880 ATAAGATTTACTGCCTTCAGCTTTAATC--TACTA-TG--AC-ATCAGGGAA
1 ATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCT-AAGGAA
* *
52091926 ATAAGATTCGTTGCTTTCAGCTTTAATCTGTTCCACTGCAACGCTAAGGAA
1 ATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCTAAGGAA
52091977 ATAAGATTCG
1 ATAAGATTCG
52091987 TTATGATAAC
Statistics
Matches: 82, Mismatches: 18, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
46 30 0.37
48 5 0.06
49 3 0.04
51 43 0.52
52 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (51 bp):
ATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCTAAGGAA
Found at i:52092337 original size:24 final size:24
Alignment explanation
Indices: 52092292--52092354 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
52092282 CGAATTGCCC
*
52092292 CCACTATAATCTTCAAGATTCAAT
1 CCACTGTAATCTTCAAGATTCAAT
* * *
52092316 CCTCTGTAATCTTTAAGGTTCAAT
1 CCACTGTAATCTTCAAGATTCAAT
*
52092340 CCACTGTAATTTTCA
1 CCACTGTAATCTTCA
52092355 GACATAAAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (24 bp):
CCACTGTAATCTTCAAGATTCAAT
Found at i:52111088 original size:41 final size:41
Alignment explanation
Indices: 52111054--52111240 Score: 223
Period size: 41 Copynumber: 4.6 Consensus size: 41
52111044 ACCGACAGTT
* *
52111054 AGCCTGTTAGA-GATAAAGTCTGATATGTTTCACCGGCATCA
1 AGCCTGCTAGACG-TAAAGTCTGATATGTTTCACCGACATCA
* *
52111095 AGCCTGCTAGACGTAAAGTCTGGTATGTTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGATATGTTTCACCGACATCA
* * * * *
52111136 AGCCTGCTAGACGTAATGTCTGGTATGTTTTACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGATATGTTTCACCGACATCA
* * *
52111177 AGCCTGCTAGACGTAATGTCTGGTATGTTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGATATGTTTCACCGACATCA
* * *
52111218 AGCCTACTGGACGTAATGTCTGA
1 AGCCTGCTAGACGTAAAGTCTGA
52111241 ATTACTTTAT
Statistics
Matches: 135, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
41 134 0.99
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGATATGTTTCACCGACATCA
Found at i:52111140 original size:82 final size:82
Alignment explanation
Indices: 52111054--52111240 Score: 277
Period size: 82 Copynumber: 2.3 Consensus size: 82
52111044 ACCGACAGTT
*
52111054 AGCCTGTTAGA-GATAAAGTCTGATATGTTTCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGG
1 AGCCTGCTAGACG-TAAAGTCTGATATGTTTCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGG
52111118 TATGTTTCACCGGCATCA
65 TATGTTTCACCGGCATCA
* * * * *
52111136 AGCCTGCTAGACGTAATGTCTGGTATGTTTTACTGGCATCAAGCCTGCTAGACGTAATGTCTGGT
1 AGCCTGCTAGACGTAAAGTCTGATATGTTTCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGGT
52111201 ATGTTTCACCGGCATCA
66 ATGTTTCACCGGCATCA
* * *
52111218 AGCCTACTGGACGTAATGTCTGA
1 AGCCTGCTAGACGTAAAGTCTGA
52111241 ATTACTTTAT
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
82 94 0.99
83 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (82 bp):
AGCCTGCTAGACGTAAAGTCTGATATGTTTCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGGT
ATGTTTCACCGGCATCA
Found at i:52114217 original size:21 final size:21
Alignment explanation
Indices: 52114191--52114304 Score: 70
Period size: 21 Copynumber: 5.4 Consensus size: 21
52114181 CCAGAAGGGT
*
52114191 TGAACGAAAGCTCATAATAGC
1 TGAACGAAAGCTCATAAGAGC
* * *
52114212 TGAACGGAAA-CCCATAAGGGT
1 TGAAC-GAAAGCTCATAAGAGC
* * *
52114233 TAAACAAAAGCTCAAAAGAGC
1 TGAACGAAAGCTCATAAGAGC
* * * *
52114254 TGAACGAAAACTTATATGAGT
1 TGAACGAAAGCTCATAAGAGC
* *
52114275 TGAAC-AGAAGCTCATGAGAGT
1 TGAACGA-AAGCTCATAAGAGC
*
52114296 TAAACGAAA
1 TGAACGAAA
52114305 AGTAAACATG
Statistics
Matches: 67, Mismatches: 22, Indels: 8
0.69 0.23 0.08
Matches are distributed among these distances:
20 4 0.06
21 58 0.87
22 5 0.07
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.18
Consensus pattern (21 bp):
TGAACGAAAGCTCATAAGAGC
Found at i:52114231 original size:42 final size:42
Alignment explanation
Indices: 52114176--52114264 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
52114166 AAGTGCTAAA
* * * *
52114176 AAAACCCAGAAGGGTTGAACGAAAGCTCATAATAGCTGAACG
1 AAAACCCAGAAGGGTTAAACAAAAGCTCAAAAGAGCTGAACG
* *
52114218 GAAACCCATAAGGGTTAAACAAAAGCTCAAAAGAGCTGAACG
1 AAAACCCAGAAGGGTTAAACAAAAGCTCAAAAGAGCTGAACG
52114260 AAAAC
1 AAAAC
52114265 TTATATGAGT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.12
Consensus pattern (42 bp):
AAAACCCAGAAGGGTTAAACAAAAGCTCAAAAGAGCTGAACG
Found at i:52114286 original size:42 final size:42
Alignment explanation
Indices: 52114151--52114288 Score: 111
Period size: 42 Copynumber: 3.3 Consensus size: 42
52114141 GCTCGAAGGC
* * * * * *
52114151 TGAACAGAAGCACATAAGTGCT-AA-AAAAACCCAGAAGGGT
1 TGAACAGAAGCTCAAAAGAGCTGAACGAAAACCCATAAGAGT
* * * *
52114191 TGAAC-GAAAGCTCATAATAGCTGAACGGAAACCCATAAGGGT
1 TGAACAG-AAGCTCAAAAGAGCTGAACGAAAACCCATAAGAGT
* * ** *
52114233 TAAACAAAAGCTCAAAAGAGCTGAACGAAAACTTATATGAGT
1 TGAACAGAAGCTCAAAAGAGCTGAACGAAAACCCATAAGAGT
52114275 TGAACAGAAGCTCA
1 TGAACAGAAGCTCA
52114289 TGAGAGTTAA
Statistics
Matches: 77, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
39 1 0.01
40 17 0.22
41 2 0.03
42 57 0.74
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.16
Consensus pattern (42 bp):
TGAACAGAAGCTCAAAAGAGCTGAACGAAAACCCATAAGAGT
Found at i:52124439 original size:38 final size:37
Alignment explanation
Indices: 52124389--52124571 Score: 131
Period size: 38 Copynumber: 4.7 Consensus size: 37
52124379 ATAGTATTAT
*
52124389 ATATTATG-ATTTTATTAAATTCATATAAGAATATTTA
1 ATATTAAGAATTTTATTAAATT-ATATAAGAATATTTA
**** *
52124426 ATATTAAGAATTTTATTAAATTATATATTTTTATTAAATT
1 ATATTAAGAATTTTATTAAATTATATAAGAATATT---TA
* * * *
52124466 ATATTTAATAATAATTATTTTAAATTATATTA-TATAGTATTA
1 ATA-TTAAGAAT--TT-TATTAAATTATATAAGAATA-T-TTA
*
52124508 TATATTATG-ATTTTATTAAATTCATATAAGAATATTTA
1 -ATATTAAGAATTTTATTAAATT-ATATAAGAATATTTA
52124546 ATATTAAGAATTTTATT-AATTATATA
1 ATATTAAGAATTTTATTAAATTATATA
52124572 TTTTTATTAA
Statistics
Matches: 114, Mismatches: 18, Indels: 29
0.71 0.11 0.18
Matches are distributed among these distances:
36 5 0.04
37 27 0.24
38 32 0.28
39 8 0.07
40 7 0.06
41 9 0.08
42 4 0.04
43 8 0.07
44 13 0.11
45 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (37 bp):
ATATTAAGAATTTTATTAAATTATATAAGAATATTTA
Found at i:52124587 original size:16 final size:17
Alignment explanation
Indices: 52124556--52124590 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
52124546 ATATTAAGAA
*
52124556 TTTTATTAATTATATAT
1 TTTTATTAAATATATAT
52124573 TTTTATTAAAT-TATAT
1 TTTTATTAAATATATAT
52124589 TT
1 TT
52124591 AATAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTATTAAATATATAT
Found at i:52124639 original size:119 final size:120
Alignment explanation
Indices: 52124371--52124729 Score: 580
Period size: 119 Copynumber: 3.0 Consensus size: 120
52124361 ATTATTAATC
52124371 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
*
52124436 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAAT
66 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
52124491 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
52124556 TTTTATT-AATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
66 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
* * * * * * *
52124610 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAATAA
1 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
* * *
52124675 TATTATTAAATTATATA-TTTAATTATAA-TATATTTAATAATTATTATGTTTAAAT
66 TTTTATTAAATTATATATTTTTATTA-AATTATATTTAATAATAATTATG-TTAAAT
52124730 ATGATTAAAT
Statistics
Matches: 225, Mismatches: 11, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
119 136 0.60
120 89 0.40
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (120 bp):
TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
Found at i:52124693 original size:31 final size:29
Alignment explanation
Indices: 52124658--52124750 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 29
52124648 TCATATAAGA
52124658 ATATTGATTATTAATAATATTATTAAATTAT
1 ATATT-ATTATT-ATAATATTATTAAATTAT
* * *
52124689 ATATT-TAATTATAATA-TATTTAATAAT
1 ATATTATTATTATAATATTATTAAATTAT
*
52124716 -TATTATGT-TTA-AATATGATTAAATTAT
1 ATATTAT-TATTATAATATTATTAAATTAT
*
52124743 TTATTATT
1 ATATTATT
52124751 GATATTAATA
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
26 8 0.16
27 22 0.43
28 12 0.24
29 4 0.08
31 5 0.10
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (29 bp):
ATATTATTATTATAATATTATTAAATTAT
Found at i:52124965 original size:16 final size:16
Alignment explanation
Indices: 52124944--52125011 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
52124934 GATTTGCTAT
52124944 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
52124960 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
52124976 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
52124992 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
52125008 TACA
1 TACA
52125012 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:52125232 original size:18 final size:18
Alignment explanation
Indices: 52125211--52125254 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
52125201 TTTTATCTTT
*
52125211 CATGTTCGTTTTACGGTC
1 CATGTTCATTTTACGGTC
*
52125229 CATGTTCATTTTACGGTT
1 CATGTTCATTTTACGGTC
52125247 CATGTTCA
1 CATGTTCA
52125255 AGGTTCGTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.45
Consensus pattern (18 bp):
CATGTTCATTTTACGGTC
Found at i:52130465 original size:66 final size:66
Alignment explanation
Indices: 52130326--52130458 Score: 266
Period size: 66 Copynumber: 2.0 Consensus size: 66
52130316 TGAACTTGAA
52130326 AACATGATGTATTTGATTATAGTAGCTTCGGTATGTGAAGGGTATGTTAGATATTAGATTGGTGA
1 AACATGATGTATTTGATTATAGTAGCTTCGGTATGTGAAGGGTATGTTAGATATTAGATTGGTGA
52130391 G
66 G
52130392 AACATGATGTATTTGATTATAGTAGCTTCGGTATGTGAAGGGTATGTTAGATATTAGATTGGTGA
1 AACATGATGTATTTGATTATAGTAGCTTCGGTATGTGAAGGGTATGTTAGATATTAGATTGGTGA
52130457 G
66 G
52130458 A
1 A
52130459 TTATGATTAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.29, C:0.05, G:0.29, T:0.38
Consensus pattern (66 bp):
AACATGATGTATTTGATTATAGTAGCTTCGGTATGTGAAGGGTATGTTAGATATTAGATTGGTGA
G
Found at i:52140731 original size:4 final size:4
Alignment explanation
Indices: 52140724--52140760 Score: 56
Period size: 4 Copynumber: 9.0 Consensus size: 4
52140714 AAATAAATAT
*
52140724 GAAA GAAA GAAA GAAA GAAA GAAA GAACA TAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAA-A GAAA GAAA
52140761 AAGGGAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 27 0.90
5 3 0.10
ACGTcount: A:0.73, C:0.03, G:0.22, T:0.03
Consensus pattern (4 bp):
GAAA
Found at i:52141439 original size:25 final size:25
Alignment explanation
Indices: 52141407--52141461 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
52141397 TAATTTAATC
*
52141407 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
52141431 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
52141456 ATATAT
1 ATATAT
52141462 AATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:52141665 original size:26 final size:28
Alignment explanation
Indices: 52141636--52141696 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
52141626 TATGAATTTG
*
52141636 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
52141662 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
52141690 TAAAATT
1 TATAATT
52141697 ATTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:52141698 original size:91 final size:89
Alignment explanation
Indices: 52141602--52141818 Score: 299
Period size: 91 Copynumber: 2.4 Consensus size: 89
52141592 AATTTAAAAT
* * * *
52141602 AATTATAACTAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAA
1 AATTATAA-TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
52141667 TTTAATAATAATATATAATTTCATAA
64 TTTAATAATAATATATAATTTCATAA
* *
52141693 AATTATTGATAATAATTTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
1 AATTA-TAATAATAA-ATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
*
52141758 TTTAATAATGATATATAATTTCATAA
64 TTTAATAATAATATATAATTTCATAA
*
52141784 AATTCTTAATAATAAAATGTTCTTATATGAATTTA
1 AATT-ATAATAAT-AAAT-TTCTTATATGAATTTA
52141819 CTAAAATCAA
Statistics
Matches: 111, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
91 89 0.80
92 22 0.20
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (89 bp):
AATTATAATAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATT
TAATAATAATATATAATTTCATAA
Found at i:52141699 original size:44 final size:42
Alignment explanation
Indices: 52141636--52141778 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 42
52141626 TATGAATTTG
52141636 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTATTATTA-ATATAATTTAATAAT-ATA
* ** *
52141680 TATAATTTCATAA-AATTATTGA-TAATAATTTTTCTTATATGAATTTA
1 TATAATTT-AAAATAATTATT-ATTAAT-A-TAAT-TTA-AT-AATATA
* *
52141727 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTATTATT-AATATAATTTAATAAT-ATA
52141771 TATAATTT
1 TATAATTT
52141779 CATAAAATTC
Statistics
Matches: 77, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
43 5 0.06
44 29 0.38
45 9 0.12
46 9 0.12
47 19 0.25
48 6 0.08
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (42 bp):
TATAATTTAAAATAATTATTATTAATATAATTTAATAATATA
Found at i:52141793 original size:47 final size:47
Alignment explanation
Indices: 52141643--52141799 Score: 128
Period size: 47 Copynumber: 3.4 Consensus size: 47
52141633 TTGTATAATT
* * * * *
52141643 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATTATTAATAATAAATATAATTTAATAATGATATATAATTTCA
* ** * *
52141690 TAAAATTATTGATAAT-AAT-T--TTTCTTATATGAATTTATACAATT--
1 TAAAATTATTAATAATAAATATAATTTAATA-ATG-ATATATA-ATTTCA
* *
52141734 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATTATTAATAATAAATATAATTTAATAATGATATATAATTTCA
*
52141781 TAAAATTCTTAATAATAAA
1 TAAAATTATTAATAATAAA
52141800 ATGTTCTTAT
Statistics
Matches: 81, Mismatches: 20, Indels: 18
0.68 0.17 0.15
Matches are distributed among these distances:
43 5 0.06
44 15 0.19
45 13 0.16
46 12 0.15
47 31 0.38
48 5 0.06
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (47 bp):
TAAAATTATTAATAATAAATATAATTTAATAATGATATATAATTTCA
Found at i:52151072 original size:59 final size:60
Alignment explanation
Indices: 52150969--52151106 Score: 199
Period size: 59 Copynumber: 2.3 Consensus size: 60
52150959 TGAAAGCGCG
* * *
52150969 TGAAAGCTCTCTAAAAGTTGAGTGACAAAATTGCAAGGATTTCATTTTGGGTGACCAAAA
1 TGAAAGGTCCCTAAAAGTTGACTGACAAAATTGCAAGGATTTCATTTTGGGTGACCAAAA
* * *
52151029 TGAAAGGTCCCTAAAAGTTG-CTGACGAGATTGCAAGGATTTCATTTTTGGTGACCAAAA
1 TGAAAGGTCCCTAAAAGTTGACTGACAAAATTGCAAGGATTTCATTTTGGGTGACCAAAA
52151088 TGAAAGAGT-CCTAAAAGTT
1 TGAAAG-GTCCCTAAAAGTT
52151107 TGGAGACCAA
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
59 51 0.72
60 20 0.28
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (60 bp):
TGAAAGGTCCCTAAAAGTTGACTGACAAAATTGCAAGGATTTCATTTTGGGTGACCAAAA
Found at i:52151787 original size:22 final size:22
Alignment explanation
Indices: 52151762--52151804 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
52151752 TCAAAGGTTG
*
52151762 ATTTTGATTTGCAACCAATTTT
1 ATTTTGATTTGAAACCAATTTT
52151784 ATTTTGATTTGAAACCAATTT
1 ATTTTGATTTGAAACCAATTT
52151805 ACCCTGTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (22 bp):
ATTTTGATTTGAAACCAATTTT
Found at i:52153075 original size:89 final size:89
Alignment explanation
Indices: 52152913--52153139 Score: 312
Period size: 89 Copynumber: 2.6 Consensus size: 89
52152903 TTCTAGAGAA
* * * ** * *
52152913 ATTACTATTCAAAAAT-TTTGTATTATTTTTGTATCTGTAAATCAAATTTATTCTGTATTATTTG
1 ATTAATATTCTAAAATGTTTGTATT-TTCTTGTATCTGTAAATTTAATTTAGTCCGTATTATTTG
*
52152977 TTGTTCAAATTTTATATTTTTATGT
65 TTGTTCAAATTTTATATTTTCATGT
* * * *
52153002 ATTCATTTTTTAAAATGTTTGTATTTTCTTGTATCTGAAAATTTAATTTAGTCCGTATTATTTGT
1 ATTAATATTCTAAAATGTTTGTATTTTCTTGTATCTGTAAATTTAATTTAGTCCGTATTATTTGT
52153067 TGTTCAAATTTTATATTTTCATGT
66 TGTTCAAATTTTATATTTTCATGT
* *
52153091 ATTAATATTCTAGAATGTTTGTATTTTCTTGTATATGTAAATTTAATTT
1 ATTAATATTCTAAAATGTTTGTATTTTCTTGTATCTGTAAATTTAATTT
52153140 CTTGCGTATT
Statistics
Matches: 119, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
89 111 0.93
90 8 0.07
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.56
Consensus pattern (89 bp):
ATTAATATTCTAAAATGTTTGTATTTTCTTGTATCTGTAAATTTAATTTAGTCCGTATTATTTGT
TGTTCAAATTTTATATTTTCATGT
Found at i:52155581 original size:93 final size:94
Alignment explanation
Indices: 52155360--52155659 Score: 397
Period size: 93 Copynumber: 3.1 Consensus size: 94
52155350 TTAAAGGAAA
* * * * *
52155360 AAAAATTAAATAAATAAGGGTTTAGGGTTTCTTAATTAAATTAATTATAAATTTTAAAAAATTAG
1 AAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAA-TTTAAAAAATTAG
*
52155425 ATTAGGGTTTAGTGTTTATGGTTTTTAAGG
65 ATTAGGGTTTAGTGTTTAGGGTTTTTAAGG
* *
52155455 AAAAATCAAATAAATTAGGGTTTAAGGTAACTTGAGTAAATTAATTATAAA-TTAAAAAA-TAGA
1 AAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTAAAAAATTAGA
*
52155518 TTAGGGTTTAGGGTTTAGGGTTTTTAAGG
66 TTAGGGTTTAGTGTTTAGGGTTTTTAAGG
* *
52155547 AAAAAATTAAATAAATTAGTGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAAAA
1 -AAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAA-TTT---AAAAAA
* * * *
52155612 TTAAATTGGGGTTTAGTATTTAGAGTTTTTAAGG
61 TTAGATTAGGGTTTAGTGTTTAGGGTTTTTAAGG
52155646 AAAAATCAAATAAA
1 AAAAATCAAATAAA
52155660 GCTAGTTGTT
Statistics
Matches: 179, Mismatches: 19, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
92 31 0.17
93 55 0.31
95 46 0.26
98 19 0.11
99 28 0.16
ACGTcount: A:0.44, C:0.02, G:0.17, T:0.38
Consensus pattern (94 bp):
AAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTAAAAAATTAGA
TTAGGGTTTAGTGTTTAGGGTTTTTAAGG
Found at i:52156481 original size:40 final size:42
Alignment explanation
Indices: 52156410--52156505 Score: 112
Period size: 40 Copynumber: 2.4 Consensus size: 42
52156400 AAGTGCTTCC
*
52156410 TCAAGGAAGCG-CTT-TGTCCACATGGACACAAAGCGC-ACCT
1 TCAAGGAAGCGTTTTCTGTCCACATGGA-ACAAAGCGCTACCT
* *
52156450 TCAAGGAAGCGTTTTCTGTCCACGTGG-ACAAAGCGCTTCCT
1 TCAAGGAAGCGTTTTCTGTCCACATGGAACAAAGCGCTACCT
*
52156491 T-GAGGAAGCGTTTTC
1 TCAAGGAAGCGTTTTC
52156506 CTGCCTTATC
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
40 33 0.67
41 6 0.12
42 10 0.20
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.24
Consensus pattern (42 bp):
TCAAGGAAGCGTTTTCTGTCCACATGGAACAAAGCGCTACCT
Found at i:52156965 original size:135 final size:135
Alignment explanation
Indices: 52156633--52157595 Score: 1293
Period size: 135 Copynumber: 7.1 Consensus size: 135
52156623 TTATTTGCCC
* * * *
52156633 TAAAACTCCATTTTTCAGGTCAATTTTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTCGAAT
1 TAAAACTTCATTTGTCATGTCAA--TTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTTGAAT
* *
52156698 TTCATTTTTTTCTCATGTTATTTGAATTTCATTTCAATTTAAATTTCATTTTCACTTTTTTTTAT
64 TTCATTTTTTTCTCATGTTATTTGAATTTCATTTCAATTTGAATTTCA-TTTCACTTTTTTTT-C
52156763 TTTTTTAAT
127 TTTTTTAAT
* * * *
52156772 TTAAACTTCATTTGTGATGTCAATTTTTTTTCATTTTAATTTTTTTCTTAAAATTCATTTGAATT
1 TAAAACTTCATTTGTCATGTCAATTTTTTTTCATTTCAA-TTTCTTCTTAAAATTCATTTGAATT
* * * * *
52156837 TCA-ATTTTTCTCATGTTATTTAAATTTCATTTAAATTTTAATTTCATTTCACTTTTTTTCCTTT
65 TCATTTTTTTCTCATGTTATTTGAATTTCATTTCAATTTGAATTTCATTTCACTTTTTTTTCTTT
52156901 TTTAAT
130 TTTAAT
52156907 TAAAACTTCATTTGTCATGTCAATTTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTTGAATT
1 TAAAACTTCATTTGTCATGTCAA-TTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTTGAATT
* *
52156972 TCATTTTTTTTCTCAAGTTATTTGAATTTCATTTCAATTTGAATTTCATTTCACTTTTTTTTTAT
65 TCA-TTTTTTTCTCATGTTATTTGAATTTCATTTCAATTTGAATTTCATTTCAC-TTTTTTTTCT
52157037 TTTTTAAT
128 TTTTTAAT
* * * *
52157045 TAAAACTTCATTTGTTATGTCAAATTTTTTTCATTTTAATTTTTTTCTTAAAATTCATTTGAATT
1 TAAAACTTCATTTGTCATGTCAATTTTTTTTCATTTCAA-TTTCTTCTTAAAATTCATTTGAATT
* * *
52157110 TCA-TTTTTTCTCAGGTTATTTAAATTTCATTTCAATTTTAATTTCATTTCAC-TTTTTTTCTTT
65 TCATTTTTTTCTCATGTTATTTGAATTTCATTTCAATTTGAATTTCATTTCACTTTTTTTTCTTT
52157173 TTTAAT
130 TTTAAT
*
52157179 TAAAACTTCATTTGTCATGTCAATTTTTTTTCATTTCAATTTCTTCTTAAAATTCGTTTGAATTT
1 TAAAACTTCATTTGTCATGTCAATTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTTGAATTT
*
52157244 CATTTTTTTTCTCATGTTATTTGAATTTCATTTTAATTTGAATTTCATTTCACTTTTTTTTCTTT
66 CA-TTTTTTTCTCATGTTATTTGAATTTCATTTCAATTTGAATTTCATTTCACTTTTTTTTCTTT
52157309 TTTAAT
130 TTTAAT
* * * *
52157315 TAAAAAATT-ATTTCTTATGTCAA-TTTTTTTCCTTTCAATTTCTTCTTAAAATTCATTTGAA-T
1 T-AAAACTTCATTTGTCATGTCAATTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTTGAATT
***
52157377 T--TTTTTTTCTCATGTTATTTTTTTTCTCATGTT--ATTTGAATTTCATTTCACTTTTTTTTTC
65 TCATTTTTTTCTCATGTTATTTGAATT-TCAT-TTCAATTTGAATTTCATTTCAC-TTTTTTTTC
52157438 TTTTTTAAT
127 TTTTTTAAT
* * * * * * *
52157447 TAAAATTTTATTTCTCATGTCAATTTTTTTTTCATTGCAATTTCTTTTTAAATTTAATTTGAATT
1 TAAAACTTCATTTGTCATGTCAA-TTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTTGAATT
* * * *
52157512 TCATGATTTTTCTCATGTTATTTGAATTTCATTTAAATTTTAATTTCATTTCAC--TTTTTTATT
65 TCAT-TTTTTTCTCATGTTATTTGAATTTCATTTCAATTTGAATTTCATTTCACTTTTTTTTCTT
52157575 TTTTAAT
129 TTTTAAT
*
52157582 TAAACCTTCATTTG
1 TAAAACTTCATTTG
52157596 AATTTCATTT
Statistics
Matches: 735, Mismatches: 67, Indels: 48
0.86 0.08 0.06
Matches are distributed among these distances:
131 45 0.06
132 36 0.05
133 28 0.04
134 87 0.12
135 165 0.22
136 106 0.14
137 123 0.17
138 127 0.17
139 18 0.02
ACGTcount: A:0.24, C:0.12, G:0.04, T:0.60
Consensus pattern (135 bp):
TAAAACTTCATTTGTCATGTCAATTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTTGAATTT
CATTTTTTTCTCATGTTATTTGAATTTCATTTCAATTTGAATTTCATTTCACTTTTTTTTCTTTT
TTAAT
Found at i:52157011 original size:17 final size:17
Alignment explanation
Indices: 52156991--52157024 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
52156981 TTCTCAAGTT
52156991 ATTTGAATTTCATTTCA
1 ATTTGAATTTCATTTCA
52157008 ATTTGAATTTCATTTCA
1 ATTTGAATTTCATTTCA
52157025 CTTTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.53
Consensus pattern (17 bp):
ATTTGAATTTCATTTCA
Found at i:52157121 original size:273 final size:270
Alignment explanation
Indices: 52156633--52157595 Score: 1433
Period size: 273 Copynumber: 3.6 Consensus size: 270
52156623 TTATTTGCCC
* * * *
52156633 TAAAACTCCATTTTTCAGGTCAATTTTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTCGAAT
1 TAAAACTTCATTTGTCATGTCAA-TTTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTTGAAT
*
52156698 TTCA-TTTTTTTCTCATGTTATTTGAATTTCATTTCAATTTAAATTTCATTTTCACTTTTTTTTA
65 TTCATTTTTTTTCTCATGTTATTTGAATTTCATTTCAATTTGAATTTCA-TTTCACTTTTTTTTA
* * *
52156762 TTTTTTTAATTTAAACTTCATTTGTGATGTCAATTTTTTTTCATTTTAATTTTTTTCTTAAAATT
129 -TTTTTTAATTAAAACTTCATTTGTTATGTCAAATTTTTTTCATTTTAATTTTTTTCTTAAAATT
*
52156827 CATTTGAATTTCAATTTTTCTCATGTTATTTAAATTTCATTTAAATTTTAATTTCATTTCACTTT
193 CATTTGAATTTCATTTTTTCTCATGTTATTTAAATTTCATTT-AATTTTAATTTCATTTCACTTT
52156892 TTTTCCTTTTTTAAT
257 TTTT-CTTTTTTAAT
52156907 TAAAACTTCATTTGTCATGTCAATTTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTTGAATT
1 TAAAACTTCATTTGTCATGTCAATTTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTTGAATT
*
52156972 TCATTTTTTTTCTCAAGTTATTTGAATTTCATTTCAATTTGAATTTCATTTCACTTTTTTTTTAT
66 TCATTTTTTTTCTCATGTTATTTGAATTTCATTTCAATTTGAATTTCATTTCAC-TTTTTTTTAT
52157037 TTTTTAATTAAAACTTCATTTGTTATGTCAAATTTTTTTCATTTTAATTTTTTTCTTAAAATTCA
130 TTTTTAATTAAAACTTCATTTGTTATGTCAAATTTTTTTCATTTTAATTTTTTTCTTAAAATTCA
*
52157102 TTTGAATTTCATTTTTTCTCAGGTTATTTAAATTTCATTTCAATTTTAATTTCATTTCACTTTTT
195 TTTGAATTTCATTTTTTCTCATGTTATTTAAATTTCATTT-AATTTTAATTTCATTTCACTTTTT
52157167 TTCTTTTTTAAT
259 TTCTTTTTTAAT
*
52157179 TAAAACTTCATTTGTCATGTCAA-TTTTTTTTCATTTCAATTTCTTCTTAAAATTCGTTTGAATT
1 TAAAACTTCATTTGTCATGTCAATTTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTTGAATT
* *
52157243 TCATTTTTTTTCTCATGTTATTTGAATTTCATTTTAATTTGAATTTCATTTCACTTTTTTTTCTT
66 TCATTTTTTTTCTCATGTTATTTGAATTTCATTTCAATTTGAATTTCATTTCACTTTTTTTTATT
* * * * *
52157308 TTTTAATTAAAAAATT-ATTTCTTATGTC-AATTTTTTTCCTTTCAA-TTTCTTCTTAAAATTCA
131 TTTTAATT-AAAACTTCATTTGTTATGTCAAATTTTTTTCATTTTAATTTTTTTCTTAAAATTCA
*** *
52157370 TTTGAATTT--TTTTTTCTCATGTTATTTTTTTTCTCATGTT-ATTTGAATTTCATTTCACTTTT
195 TTTGAATTTCATTTTTTCTCATGTTATTTAAATT-TCAT-TTAATTTTAATTTCATTTCAC--TT
52157432 TTTTTCTTTTTTAAT
256 TTTTTCTTTTTTAAT
* * * * * * *
52157447 TAAAATTTTATTTCTCATGTCAATTTTTTTTTCATTGCAATTTCTTTTTAAATTTAATTTGAATT
1 TAAAACTTCATTTGTCATGTCAATTTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTTGAATT
** * *
52157512 TCATGATTTTTCTCATGTTATTTGAATTTCATTTAAATTTTAATTTCATTTCAC--TTTTTTATT
66 TCATTTTTTTTCTCATGTTATTTGAATTTCATTTCAATTTGAATTTCATTTCACTTTTTTTTATT
*
52157575 TTTTAATTAAACCTTCATTTG
131 TTTTAATTAAAACTTCATTTG
52157596 AATTTCATTT
Statistics
Matches: 638, Mismatches: 42, Indels: 25
0.90 0.06 0.04
Matches are distributed among these distances:
266 41 0.06
267 24 0.04
268 64 0.10
269 101 0.16
270 29 0.05
271 98 0.15
272 33 0.05
273 177 0.28
274 71 0.11
ACGTcount: A:0.24, C:0.12, G:0.04, T:0.60
Consensus pattern (270 bp):
TAAAACTTCATTTGTCATGTCAATTTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTTGAATT
TCATTTTTTTTCTCATGTTATTTGAATTTCATTTCAATTTGAATTTCATTTCACTTTTTTTTATT
TTTTAATTAAAACTTCATTTGTTATGTCAAATTTTTTTCATTTTAATTTTTTTCTTAAAATTCAT
TTGAATTTCATTTTTTCTCATGTTATTTAAATTTCATTTAATTTTAATTTCATTTCACTTTTTTT
CTTTTTTAAT
Found at i:52157152 original size:17 final size:17
Alignment explanation
Indices: 52157127--52157165 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
52157117 TTCTCAGGTT
*
52157127 ATTTAAATTTCATTTCA
1 ATTTTAATTTCATTTCA
52157144 ATTTTAATTTCATTTCA
1 ATTTTAATTTCATTTCA
*
52157161 CTTTT
1 ATTTT
52157166 TTTCTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.28, C:0.13, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTAATTTCATTTCA
Found at i:52157399 original size:17 final size:17
Alignment explanation
Indices: 52157377--52157413 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
52157367 TCATTTGAAT
52157377 TTTTTTTTCTCATGTTA
1 TTTTTTTTCTCATGTTA
52157394 TTTTTTTTCTCATGTTA
1 TTTTTTTTCTCATGTTA
52157411 TTT
1 TTT
52157414 GAATTTCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.11, C:0.11, G:0.05, T:0.73
Consensus pattern (17 bp):
TTTTTTTTCTCATGTTA
Found at i:52158146 original size:6 final size:6
Alignment explanation
Indices: 52158137--52158228 Score: 109
Period size: 6 Copynumber: 15.7 Consensus size: 6
52158127 ATATAAATTC
* *
52158137 ATTTCA ATTTC- ATTTCA ATTTCA ATTTCA ATTTTA ATTCCA ATTTCA
1 ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA
* * *
52158184 ATTTCA AATTGA ATTTCA A-TTCA A-TACA AGTTTCA ATTTCA ATTT
1 ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA A-TTTCA ATTTCA ATTT
52158229 TTTTATATAT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
5 14 0.19
6 55 0.75
7 4 0.05
ACGTcount: A:0.35, C:0.15, G:0.02, T:0.48
Consensus pattern (6 bp):
ATTTCA
Found at i:52159041 original size:3 final size:3
Alignment explanation
Indices: 52159033--52159071 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
52159023 TCCCTATATT
*
52159033 ATA ATA ATA ATA ATA ATA ATA ATA ATA AAA GATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA AT
52159072 GTACTGTGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 31 0.94
4 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:52160628 original size:30 final size:28
Alignment explanation
Indices: 52160588--52160665 Score: 81
Period size: 30 Copynumber: 2.8 Consensus size: 28
52160578 TATTATTCGC
52160588 TATT-ATATTGTTACTATTTTGTTTTAT
1 TATTAATATTGTTACTATTTTGTTTTAT
*
52160615 TGTTTGAATATTG-TA-TAACTTTTGTTTTAT
1 T-ATT-AATATTGTTACT-A-TTTTGTTTTAT
*
52160645 TATTAATTTTGTTACTATTTT
1 TATTAATATTGTTACTATTTT
52160666 AGAGGTATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
27 1 0.02
28 13 0.32
29 8 0.20
30 19 0.46
ACGTcount: A:0.23, C:0.04, G:0.09, T:0.64
Consensus pattern (28 bp):
TATTAATATTGTTACTATTTTGTTTTAT
Found at i:52166994 original size:35 final size:35
Alignment explanation
Indices: 52166948--52167064 Score: 135
Period size: 35 Copynumber: 3.3 Consensus size: 35
52166938 ACTCTCTGTT
* *
52166948 TTGGTGTGTTTTGGTTGGACTAGCTTTTATGAGCA
1 TTGGTGTGTTTTGGATGGACTAGCTCTTATGAGCA
* * *
52166983 TTGGTGTGTTTTGGAGGGATTAGCTCTTATGAACA
1 TTGGTGTGTTTTGGATGGACTAGCTCTTATGAGCA
*** * *
52167018 TTGGTGTGTTTCAAATGGACTGGCTCTTACGAGCA
1 TTGGTGTGTTTTGGATGGACTAGCTCTTATGAGCA
52167053 TCTGGTGTGTTT
1 T-TGGTGTGTTT
52167065 GGGCGATTTT
Statistics
Matches: 68, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
35 58 0.85
36 10 0.15
ACGTcount: A:0.16, C:0.11, G:0.31, T:0.42
Consensus pattern (35 bp):
TTGGTGTGTTTTGGATGGACTAGCTCTTATGAGCA
Found at i:52168925 original size:250 final size:250
Alignment explanation
Indices: 52168478--52168965 Score: 669
Period size: 250 Copynumber: 2.0 Consensus size: 250
52168468 TCTGATTTCC
*
52168478 AACCCCGTCACCCTTGTTGCACCAATAAGAACCATTCCTACCAGCTACTCTGACTTCACTAGTTA
1 AACCCCGTCACCCTTGTTGCACCAATAAGAACCATTCCTACCAGCTACTCTGACTCCACTAGTTA
* * *
52168543 TCGTAATGCCTCAACTGCAAACTATTGTGTCCCCTCATGGACCTTTAGACCAGATAACTCATTGT
66 TCGCAATGCCTCAACTGCAAACTATTGTGTCCCCTCATGGACCCTTAAACCAGATAACTCATTGT
* * *
52168608 TTATAAGAGGACATAACTTGTCTCACAACCATGCTTACTCTACCAACCATGACTCTCACTCCCTT
131 TTATAAGAGGACATAACTTGTCTCACAACCATGCCTACTCCACCAACCATGACTCACACTCCCTT
* *
52168673 AAACCAGGGTTTTAACCAACAGACGTTAGGTCTTCAACCTCACCCTTGTTGCACT
196 AAACCAGGGTTTTAACCAACAAACGTAAGGTCTTCAACCTCACCCTTGTTGCACT
* * * * *
52168728 AACCCTGTCACCCTTGTTGCACCAATAGGAACCATTCC-CCTCAGTTGCTCTGACTCCACTAGTT
1 AACCCCGTCACCCTTGTTGCACCAATAAGAACCATTCCTAC-CAGCTACTCTGACTCCACTAGTT
* * * *
52168792 GTCGCAGTGCCTCAATTGC-AACTTTGTGTGTCCCCT-ATTGGACCCTTAAACCAGATAACTCAT
65 ATCGCAATGCCTCAACTGCAAACTAT-TGTGTCCCCTCA-TGGACCCTTAAACCAGATAACTCAT
* * * * * *
52168855 TTTTTGTATA-AGGACATAACTTGTCTCACAACCATGCCTGCTCCACCAATCGTTACTCACACTC
128 TGTTTATA-AGAGGACATAACTTGTCTCACAACCATGCCTACTCCACCAACCATGACTCACACTC
* * *
52168919 CCTTAAACTAGGGTTTTCACCAGCAAACGTAAGGTCTTCAACCTCAC
192 CCTTAAACCAGGGTTTTAACCAACAAACGTAAGGTCTTCAACCTCAC
52168966 GGCTTAAAAG
Statistics
Matches: 207, Mismatches: 27, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
249 7 0.03
250 199 0.96
251 1 0.00
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (250 bp):
AACCCCGTCACCCTTGTTGCACCAATAAGAACCATTCCTACCAGCTACTCTGACTCCACTAGTTA
TCGCAATGCCTCAACTGCAAACTATTGTGTCCCCTCATGGACCCTTAAACCAGATAACTCATTGT
TTATAAGAGGACATAACTTGTCTCACAACCATGCCTACTCCACCAACCATGACTCACACTCCCTT
AAACCAGGGTTTTAACCAACAAACGTAAGGTCTTCAACCTCACCCTTGTTGCACT
Found at i:52172684 original size:50 final size:50
Alignment explanation
Indices: 52172619--52172793 Score: 152
Period size: 50 Copynumber: 3.4 Consensus size: 50
52172609 CCTGTACTGT
* * * * **
52172619 CAATGTCATATCCCAGATACGGAATTACATGGGAGTTCTCATATCGATGC
1 CAATGCCATGTCCCAGACACAGAATTACATGGGACCTCTCATATCGATGC
* ** *
52172669 CAATGCCATGTCCCAGACATAGTTTTACATGGGACCTCTCATCTCGATGC
1 CAATGCCATGTCCCAGACACAGAATTACATGGGACCTCTCATATCGATGC
* ** ** *
52172719 CAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATAATGC
1 CAATGCCATGTCCCAGACACAGAATTACATGGGACCTCTCAT-A--TC---GATGC
52172775 CAATGCCATGTCCCAGACA
1 CAATGCCATGTCCCAGACA
52172794 TGGTCTTACA
Statistics
Matches: 103, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
50 79 0.77
53 2 0.02
56 22 0.21
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (50 bp):
CAATGCCATGTCCCAGACACAGAATTACATGGGACCTCTCATATCGATGC
Found at i:52182860 original size:47 final size:47
Alignment explanation
Indices: 52182782--52183246 Score: 732
Period size: 47 Copynumber: 9.8 Consensus size: 47
52182772 CCCTTCGGGA
* * * * * * *
52182782 CTTATCACATTTATATACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
52182829 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52182876 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52182923 CTTATCACATATATACACTTTTACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52182970 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52183017 CTTACCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52183066 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52183115 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52183162 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52183209 CTTATCACATATATATACACTTTCACATTCATCACATC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATC
52183247 ACATATATAT
Statistics
Matches: 389, Mismatches: 25, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
47 268 0.69
49 121 0.31
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:52183236 original size:18 final size:18
Alignment explanation
Indices: 52183213--52183268 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
52183203 TTAGGCCTTA
52183213 TCACATATATATACACTT
1 TCACATATATATACACTT
* *
52183231 TCACAT-T-CAT-CAC-A
1 TCACATATATATACACTT
52183245 TCACATATATATACACTT
1 TCACATATATATACACTT
52183263 TCACAT
1 TCACAT
52183269 TCATCACATC
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
14 6 0.20
15 4 0.13
16 4 0.13
17 4 0.13
18 12 0.40
ACGTcount: A:0.38, C:0.27, G:0.00, T:0.36
Consensus pattern (18 bp):
TCACATATATATACACTT
Found at i:52183253 original size:32 final size:32
Alignment explanation
Indices: 52183212--52183278 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
52183202 ATTAGGCCTT
52183212 ATCACATATATATACACTTTCACATTCATCAC
1 ATCACATATATATACACTTTCACATTCATCAC
52183244 ATCACATATATATACACTTTCACATTCATCAC
1 ATCACATATATATACACTTTCACATTCATCAC
52183276 ATC
1 ATC
52183279 GGCCATTAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.37, C:0.28, G:0.00, T:0.34
Consensus pattern (32 bp):
ATCACATATATATACACTTTCACATTCATCAC
Found at i:52183262 original size:81 final size:79
Alignment explanation
Indices: 52183170--52183325 Score: 294
Period size: 81 Copynumber: 1.9 Consensus size: 79
52183160 GCCTTATCAC
52183170 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCAC
52183235 ATTCATCACATCACAT
64 ATTCATCACATCACAT
52183251 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
52183316 TCATCACATC
66 TCATCACATC
52183326 GGCCATTAGG
Statistics
Matches: 75, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
79 28 0.37
81 47 0.63
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (79 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
TCATCACATCACAT
Found at i:52183264 original size:128 final size:126
Alignment explanation
Indices: 52183123--52183372 Score: 482
Period size: 128 Copynumber: 2.0 Consensus size: 126
52183113 GCCTTATCAC
52183123 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
52183188 TCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCACAT
66 TCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCACAT
52183251 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
52183316 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
52183373 GGCCATTAGG
Statistics
Matches: 122, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
126 28 0.23
128 94 0.77
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (126 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCACAT
Found at i:52183264 original size:175 final size:178
Alignment explanation
Indices: 52182884--52183505 Score: 908
Period size: 175 Copynumber: 3.4 Consensus size: 178
52182874 GCCTCATCAC
* *
52182884 ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTTACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
52182949 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
66 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
*
52183014 GGCCTTACCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
131 GGCCTTATCACATATATATACACTTTCACATTCAT--CA-----CA-T----C-TATCA-AT
* *
52183076 ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
52183141 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
66 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
52183206 GGCCTTATCACATATATATACACTTTCACATTCATCACATC-A-C-AT
131 GGCCTTATCACATATATATACACTTTCACATTCATCACATCTATCAAT
52183251 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
52183316 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
66 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
*
52183381 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCAT
131 GGCCTTATCACATATATATACACTTTCACATTCATCACAT---CTA-T----C--A--AT
* * *
52183441 ATATATACACTTTCACATTCATCACACCGGCCATTAGGCCTTATCACATATATATACATTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
52183506 CACAATTATC
Statistics
Matches: 405, Mismatches: 10, Indels: 32
0.91 0.02 0.07
Matches are distributed among these distances:
175 170 0.42
177 1 0.00
178 2 0.00
179 1 0.00
180 1 0.00
184 1 0.00
185 3 0.01
190 66 0.16
192 160 0.40
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.33
Consensus pattern (178 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
GGCCTTATCACATATATATACACTTTCACATTCATCACATCTATCAAT
Found at i:52183309 original size:47 final size:47
Alignment explanation
Indices: 52183251--52183505 Score: 447
Period size: 47 Copynumber: 5.4 Consensus size: 47
52183241 CACATCACAT
52183251 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
52183298 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
52183345 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
52183392 ATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCAT
1 --ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
52183441 ATATATACACTTTCACATTCATCACACCGGCCATTAGGCCTTATCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
52183488 ATATATATACATTCACAT
1 ATATATACACTTTCACAT
52183506 CACAATTATC
Statistics
Matches: 199, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
47 154 0.77
49 45 0.23
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:52183351 original size:96 final size:96
Alignment explanation
Indices: 52183244--52183505 Score: 442
Period size: 96 Copynumber: 2.8 Consensus size: 96
52183234 CATTCATCAC
52183244 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
52183309 TTCACATTCATCACATCGGCCATTAGGCCTT
66 TTCACATTCATCACATCGGCCATTAGGCCTT
52183340 ATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACA
*
52183403 CTTTCACATTCATCACATCGGCCATTCGGCCTT
64 CTTTCACATTCATCACATCGGCCATTAGGCCTT
* * *
52183436 AT--CATATATATACACTTTCACATTCATCACACCGGCCATTAGGCCTTATCACATATATATACA
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
52183499 TTCACAT
66 TTCACAT
52183506 CACAATTATC
Statistics
Matches: 158, Mismatches: 4, Indels: 10
0.92 0.02 0.06
Matches are distributed among these distances:
94 64 0.41
96 94 0.59
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (96 bp):
ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
TTCACATTCATCACATCGGCCATTAGGCCTT
Found at i:52183541 original size:96 final size:95
Alignment explanation
Indices: 52182782--52183505 Score: 720
Period size: 94 Copynumber: 7.8 Consensus size: 95
52182772 CCCTTCGGGA
* * * * * * * * * *
52182782 CTTATCACATTTATATACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
52182847 TTTCACATTCATCACATCGGCCATTA-AGC
66 ATTCACATTCATCACATCGGCCATTACGGC
* * *
52182876 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
52182941 TTTTACATTCATCACATCGGCCATTA-GGC
66 ATTCACATTCATCACATCGGCCATTACGGC
*
52182970 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
52183035 ACTTTCACATTCATCACATCGGCCATTA-GGC
66 A--TTCACATTCATCACATCGGCCATTACGGC
* * *
52183066 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
52183131 ACTTTCACATTCATCACATCGGCCATTA-GGC
64 ACATTCACATTCATCACATCGGCCATTACGGC
52183162 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* ***
52183227 ACTTTCACATTCATCACATC--ACATATATATAC
66 A--TTCACATTCATCACATCGGCCAT-TA-CGGC
** * * *
52183259 ACTT-TCAC--AT-T-CA---TCACA-TCGGC-CATTAGGCC-TTA-TCACATATAT-ACACTTT
1 -CTTATCACATATATACACTTTCACATTCATCACA-TCGGCCATTAGGC-C-T-TATCACA-TAT
* * ** *
52183311 CACATTCA-TCACA-TCGGC-CATTAGGCC--T-----
60 -ATATACATTCACATTCATCACA-TCGGCCATTACGGC
52183339 --TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
52183402 ACTTTCACATTCATCACATCGGCCATT-CGGC
66 A--TTCACATTCATCACATCGGCCATTACGGC
* *
52183433 CTTATCATATATATACACTTTCACATTCATCACACCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
52183498 ATTCACAT
66 ATTCACAT
52183506 CACAATTATC
Statistics
Matches: 531, Mismatches: 54, Indels: 90
0.79 0.08 0.13
Matches are distributed among these distances:
77 1 0.00
78 4 0.01
80 2 0.00
81 1 0.00
82 2 0.00
84 5 0.01
85 10 0.02
86 15 0.03
87 16 0.03
88 20 0.04
89 15 0.03
90 11 0.02
91 5 0.01
93 2 0.00
94 207 0.39
95 4 0.01
96 150 0.28
97 5 0.01
98 56 0.11
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.33
Consensus pattern (95 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ATTCACATTCATCACATCGGCCATTACGGC
Found at i:52183541 original size:143 final size:142
Alignment explanation
Indices: 52182782--52183505 Score: 828
Period size: 143 Copynumber: 5.2 Consensus size: 142
52182772 CCCTTCGGGA
* * * * * ** * * * *
52182782 CTTATCACATTTATATACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC-ATATATACA
1 CTTATCACATATATACACATTCACATTCATCACATCAGCCATTAGGCCATATCACAATATATACA
* * *
52182846 CTTTCACATTCATCACATCGGCCATTAAGCCTCATCACATATATACACTTTCACATTCATCACAT
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAC
*
52182911 CGGCTATTAGGC
131 CGGCCATTAGGC
* * * *
52182923 CTTATCACATATATACACTTTTACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACA
1 CTTATCACATATATACACATTCACATTCATCACATCAGCCATTAGGCCATATCACAATATATACA
*
52182987 CTTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATATACACTTTCACATTCATCAC
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCAC
*
52183052 ATCGGCCATTAGGC
129 ACCGGCCATTAGGC
* ** * *
52183066 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC-ATATATA
1 CTTATCAC--ATATATACACATTCACATTCATCACATCAGCCATTAGGCCATATCACAATATATA
52183130 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
64 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
*
52183195 ATCGGCCATTAGGC
129 ACCGGCCATTAGGC
* * *
52183209 CTTATCACATATATATACACTTTCACATTCATCACATCA--CA-TA---TATAT-ACACT-T-T-
1 CTTATCAC--ATATATACACATTCACATTCATCACATCAGCCATTAGGCCATATCACAATATATA
* * *
52183264 CACATTCATCA--CATCGGCCATTAGGCC--T------TATCACATATATACACTTTCACATTCA
64 CACTTTCA-CATTCATC--ACA-TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
*
52183319 TCACATCGGCCATTAGGC
125 TCACACCGGCCATTAGGC
* * *
52183337 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACATTCACATTCATCACATCAGCCATTAGGCCATATCACA-ATATATAC
* *
52183402 ACTTTCACATTCATCACATCGGCCATTCGGCCTTATCATATATATACACTTTCACATTCATCACA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
52183467 CCGGCCATTAGGC
130 CCGGCCATTAGGC
*
52183480 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACATTCACAT
52183506 CACAATTATC
Statistics
Matches: 515, Mismatches: 38, Indels: 58
0.84 0.06 0.09
Matches are distributed among these distances:
126 28 0.05
128 55 0.11
129 2 0.00
132 3 0.01
133 7 0.01
134 9 0.02
135 11 0.02
136 13 0.03
137 12 0.02
138 4 0.01
140 1 0.00
141 91 0.18
143 189 0.37
145 90 0.17
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.33
Consensus pattern (142 bp):
CTTATCACATATATACACATTCACATTCATCACATCAGCCATTAGGCCATATCACAATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAC
CGGCCATTAGGC
Found at i:52187273 original size:39 final size:39
Alignment explanation
Indices: 52187210--52187284 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
52187200 CCGAATATAA
*
52187210 TAAATATATATTTTTTAATTTTTTAATTTTAAAATACTT
1 TAAAAATATATTTTTTAATTTTTTAATTTTAAAATACTT
* * *
52187249 TAAAAATATTTTTTTTATTTTTTTATTTTTAAAATA
1 TAAAAATATATTTTTTAATTTTTTAATTTTAAAATA
52187285 TTTTTTGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (39 bp):
TAAAAATATATTTTTTAATTTTTTAATTTTAAAATACTT
Found at i:52191149 original size:22 final size:22
Alignment explanation
Indices: 52191107--52191150 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
52191097 ATAAAATACT
*
52191107 GAAATATGTCTAGTACTTAAAA
1 GAAATATGTCTAGTACATAAAA
*
52191129 GAAATTATGTCTAG-GCATAAAA
1 GAAA-TATGTCTAGTACATAAAA
52191151 ATATTATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.45, C:0.09, G:0.16, T:0.30
Consensus pattern (22 bp):
GAAATATGTCTAGTACATAAAA
Found at i:52198261 original size:20 final size:21
Alignment explanation
Indices: 52198220--52198262 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
52198210 ATTTCACATG
**
52198220 TTTTTATTTTTATTACTCTAT
1 TTTTTATTTTTATTACAATAT
52198241 TTTTTATTTTTATTA-AATAT
1 TTTTTATTTTTATTACAATAT
52198261 TT
1 TT
52198263 AATAAGTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTTATTTTTATTACAATAT
Found at i:52203121 original size:7 final size:7
Alignment explanation
Indices: 52203109--52203133 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
52203099 TTATCTGATC
52203109 AGTGGCA
1 AGTGGCA
52203116 AGTGGCA
1 AGTGGCA
52203123 AGTGGCA
1 AGTGGCA
52203130 AGTG
1 AGTG
52203134 ATAAGTGGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.44, T:0.16
Consensus pattern (7 bp):
AGTGGCA
Found at i:52203183 original size:57 final size:58
Alignment explanation
Indices: 52203071--52203183 Score: 185
Period size: 57 Copynumber: 2.0 Consensus size: 58
52203061 GATCAATGAT
*
52203071 AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGGCAAGTGGCAAGTGGC
1 AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGGCAAGTGACAAGTGGC
*
52203129 AAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAG-GGACAAGTGATAAGTG
1 AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGG-CAAGTGACAAGTG
52203184 ATCATACGTA
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
56 2 0.04
57 33 0.63
58 17 0.33
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.27
Consensus pattern (58 bp):
AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGGCAAGTGACAAGTGGC
Found at i:52226852 original size:11 final size:11
Alignment explanation
Indices: 52226837--52226932 Score: 68
Period size: 11 Copynumber: 9.4 Consensus size: 11
52226827 AAAAAATTAA
52226837 AAAAAGTATTTT
1 AAAAA-TATTTT
52226849 AAAAATATTTT
1 AAAAATATTTT
52226860 -AAAATA----
1 AAAAATATTTT
*
52226866 AAAAA-A-TTA
1 AAAAATATTTT
52226875 AAAAAGTATTTT
1 AAAAA-TATTTT
52226887 AAAAATATTTT
1 AAAAATATTTT
**
52226898 --AAA-ATTAA
1 AAAAATATTTT
52226906 AAAAAGTATTTT
1 AAAAA-TATTTT
52226918 AAAAATATTTT
1 AAAAATATTTT
52226929 AAAA
1 AAAA
52226933 TTAAAAAAAG
Statistics
Matches: 68, Mismatches: 5, Indels: 23
0.71 0.05 0.24
Matches are distributed among these distances:
6 1 0.01
7 4 0.06
8 3 0.04
9 8 0.12
10 9 0.13
11 23 0.34
12 20 0.29
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.36
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:52226870 original size:31 final size:31
Alignment explanation
Indices: 52226829--52226952 Score: 101
Period size: 31 Copynumber: 3.8 Consensus size: 31
52226819 TAAAAATTAA
*
52226829 AAAATTAAAAAAAGTATTTTAAAAATATTTT
1 AAAATAAAAAAAAGTATTTTAAAAATATTTT
*
52226860 AAAATAAAAAAATTAAAAAAGTA-TTTTAAAA-ATATTT
1 AAAAT-----AA--AAAAAAGTATTTTAAAAATAT-TTT
*
52226897 TAAA-ATTAAAAAAAGTATTTTAAAAATATTTT
1 AAAATA--AAAAAAAGTATTTTAAAAATATTTT
*
52226929 AAAATTAAAAAAAGTATTTTAAAA
1 AAAATAAAAAAAAGTATTTTAAAA
52226953 TTAAAAAAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 26
0.70 0.06 0.25
Matches are distributed among these distances:
31 33 0.45
32 13 0.18
33 3 0.04
36 3 0.04
37 13 0.18
38 9 0.12
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (31 bp):
AAAATAAAAAAAAGTATTTTAAAAATATTTT
Found at i:52226878 original size:38 final size:39
Alignment explanation
Indices: 52226814--52226910 Score: 160
Period size: 38 Copynumber: 2.5 Consensus size: 39
52226804 ACCAAAAATT
*
52226814 TATTTTAAAAATTAAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATAAAAAAATTAAAAAAAGTATTTTAAAAA
52226854 TATTTTAAAATAAAAAAATT-AAAAAAGTATTTTAAAAA
1 TATTTTAAAATAAAAAAATTAAAAAAAGTATTTTAAAAA
52226892 TATTTTAAAATTAAAAAAA
1 TATTTTAAAA-TAAAAAAA
52226911 GTATTTTAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
38 28 0.51
39 21 0.38
40 6 0.11
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (39 bp):
TATTTTAAAATAAAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:52226910 original size:20 final size:20
Alignment explanation
Indices: 52226887--52226963 Score: 64
Period size: 20 Copynumber: 4.3 Consensus size: 20
52226877 AAAGTATTTT
52226887 AAAAATATTTTAAAATTAAA
1 AAAAATATTTTAAAATTAAA
*
52226907 AAAAGTA--TT----TT-AA
1 AAAAATATTTTAAAATTAAA
*
52226920 AAATAT-TT-TAAAATTAAA
1 AAAAATATTTTAAAATTAAA
*
52226938 AAAAGTATTTTAAAATTAAA
1 AAAAATATTTTAAAATTAAA
52226958 AAAAAT
1 AAAAAT
52226964 TTAAAAATAA
Statistics
Matches: 42, Mismatches: 6, Indels: 18
0.64 0.09 0.27
Matches are distributed among these distances:
13 7 0.17
14 2 0.05
17 2 0.05
18 8 0.19
19 2 0.05
20 21 0.50
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (20 bp):
AAAAATATTTTAAAATTAAA
Found at i:52226953 original size:30 final size:31
Alignment explanation
Indices: 52226868--52226952 Score: 163
Period size: 31 Copynumber: 2.8 Consensus size: 31
52226858 TTAAAATAAA
52226868 AAAATT-AAAAAAGTATTTTAAAAATATTTT
1 AAAATTAAAAAAAGTATTTTAAAAATATTTT
52226898 AAAATTAAAAAAAGTATTTTAAAAATATTTT
1 AAAATTAAAAAAAGTATTTTAAAAATATTTT
52226929 AAAATTAAAAAAAGTATTTTAAAA
1 AAAATTAAAAAAAGTATTTTAAAA
52226953 TTAAAAAAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 6 0.11
31 48 0.89
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (31 bp):
AAAATTAAAAAAAGTATTTTAAAAATATTTT
Found at i:52226960 original size:69 final size:68
Alignment explanation
Indices: 52226820--52226971 Score: 191
Period size: 69 Copynumber: 2.2 Consensus size: 68
52226810 AATTTATTTT
*
52226820 AAAAATTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATAAAAAAATTAAAAAAGTATT
1 AAAAATTTAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATAAAAAAATTAAAAAAG-ATT
*
52226885 TTAA
65 TAAA
* * ***
52226889 AAATATTTTAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAGTATTTTAAA-A
1 AAAAATTTAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAA-TAAAAAAA-T-TAAAAAAGA
52226953 -TTAAA
63 TTTAAA
52226958 AAAAATTTAAAAAT
1 AAAAATTTAAAAAT
52226972 AAATATATTT
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
69 57 0.80
70 9 0.13
71 1 0.01
72 4 0.06
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (68 bp):
AAAAATTTAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATAAAAAAATTAAAAAAGATTT
AAA
Found at i:52226965 original size:18 final size:18
Alignment explanation
Indices: 52226918--52226971 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 18
52226908 AAAGTATTTT
*
52226918 AAAAATATTTTAAAATTA
1 AAAAAAATTTTAAAATTA
52226936 AAAAAAGTATTTTAAAATTA
1 AAAAAA--ATTTTAAAATTA
*
52226956 AAAAAAATTTAAAAAT
1 AAAAAAATTTTAAAAT
52226972 AAATATATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 14 0.44
20 18 0.56
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
AAAAAAATTTTAAAATTA
Found at i:52226968 original size:31 final size:30
Alignment explanation
Indices: 52226849--52226970 Score: 126
Period size: 31 Copynumber: 4.1 Consensus size: 30
52226839 AAAGTATTTT
52226849 AAAAA-TATTTT-AAAAT-AAAAAAATT-A
1 AAAAAGTATTTTAAAAATAAAAAAAATTAA
***
52226875 AAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAAGTATTTTAAAAATA-AAAAAAATTAA
***
52226906 AAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAAGTATTTTAAAAATA-AAAAAAATTAA
* *
52226937 AAAAAGTATTTTAAAATTAAAAAAAATTTA
1 AAAAAGTATTTTAAAAATAAAAAAAATTAA
52226967 AAAA
1 AAAA
52226971 TAAATATATT
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.06
27 6 0.07
28 5 0.06
30 17 0.20
31 50 0.60
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (30 bp):
AAAAAGTATTTTAAAAATAAAAAAAATTAA
Found at i:52232738 original size:8 final size:9
Alignment explanation
Indices: 52232716--52232746 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
52232706 TGTATCTTTT
52232716 ATTTTTATA
1 ATTTTTATA
52232725 ATTTTTATA
1 ATTTTTATA
52232734 ATTTTTATA
1 ATTTTTATA
52232743 ATTT
1 ATTT
52232747 ATTTATTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
ATTTTTATA
Found at i:52237542 original size:108 final size:106
Alignment explanation
Indices: 52237345--52237543 Score: 242
Period size: 108 Copynumber: 1.9 Consensus size: 106
52237335 TTCTCATCGT
* * * *
52237345 ATCTTAGCAAATTTGCTATCTTGATTATTTATTTATTTCGAGCTTTGTTCTCAATAAAATTCCAT
1 ATCTTAGCAAATTTGCTATCCTGATTATTTATTTAGTTCGAGCTCTGCTCTCAATAAAATTCCAT
*
52237410 CTTGTCCATTGTGATAATCCTTTTCATCTTTTTCATTTTGA
66 CTTGTCCATTGTGATAATACTTTTCATCTTTTTCATTTTGA
* * *
52237451 ATCTTAGCAAAATTTGCTATCCTGATTAATTTCTTT-GTTCAGAGCTCTGCTCTCAATAAGATTT
1 ATCTTAGC-AAATTTGCTATCCTGATT-ATTTATTTAGTTC-GAGCTCTGCTCTCAATAAAATTC
* *
52237515 C-TCCTT-TCCCGTTGTGATAATATTTTTCA
63 CAT-CTTGT-CCATTGTGATAATACTTTTCA
52237544 AGCATTTTCC
Statistics
Matches: 78, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
106 8 0.10
107 22 0.28
108 48 0.62
ACGTcount: A:0.24, C:0.19, G:0.11, T:0.47
Consensus pattern (106 bp):
ATCTTAGCAAATTTGCTATCCTGATTATTTATTTAGTTCGAGCTCTGCTCTCAATAAAATTCCAT
CTTGTCCATTGTGATAATACTTTTCATCTTTTTCATTTTGA
Found at i:52238484 original size:46 final size:46
Alignment explanation
Indices: 52238433--52238822 Score: 618
Period size: 46 Copynumber: 8.5 Consensus size: 46
52238423 GATTAGAAGC
52238433 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
*
52238479 AGCAGATCTTGTCTTCCTGTATTTGACAGCGGAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* * *
52238525 AGCAGATTTTGTCTTACTGTATTTGGCAACGGAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* * * *
52238571 AGTAGATCTTGTCTTCTTGTATTTGGCAGCGGAGTAGATTGAATAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* * *
52238617 AGTAGATCTTGTCTTCCTGTATTTAGCAGCGGAGTAGATCGTAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
*
52238663 AGCAGATATTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* * *
52238709 AGCAGATCTTGTCTTCCCGTATTTGACAGCGGAGTAGATCGTAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
*
52238755 AGCATATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* *
52238801 AGTAGATATTGTCTTCCTGTAT
1 AGCAGATCTTGTCTTCCTGTAT
52238823 CTAGCAGTGA
Statistics
Matches: 312, Mismatches: 32, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 312 1.00
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (46 bp):
AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
Found at i:52238992 original size:132 final size:132
Alignment explanation
Indices: 52238831--52239105 Score: 363
Period size: 132 Copynumber: 2.1 Consensus size: 132
52238821 ATCTAGCAGT
* * *
52238831 GAAGCAGATTGAAGCCACCAGTCCTATCTCCCTGAGCAGTAGCAGAGTAGTCTGAAGATTGGAGA
1 GAAGCAGATTGAAGCCACCAGTCCTATCTCCCTGAGCAGAAGCAGAGTAGGCTGAAGATTGCAGA
* * ** ** * * *
52238896 TCTTGTCTCCCTAAACAGTAGTGGAACAGGTGGAAGACGGCGAATCTTATCTTCCTAAGGTAGTA
66 TCCTGTCTCCCTAAACAGTAGTGGAACAGATCAAAGACAACGAATCTTATCTTCCCAAGGAAATA
52238961 GG
131 GG
* * *
52238963 GAAGCAGATTTAAGCCACTAG-CCTTATCTCCCTGAGCAGAAGCGGAGTAGGCTGAAGATTGCAG
1 GAAGCAGATTGAAGCCACCAGTCC-TATCTCCCTGAGCAGAAGCAGAGTAGGCTGAAGATTGCAG
* * *
52239027 ATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACAATGAATCTTATCTTCCCAAGGAAAT
65 ATCCTGTCTCCCTAAACAGTAGTGGAACAGATCAAAGACAACGAATCTTATCTTCCCAAGGAAAT
52239092 AGG
130 AGG
*
52239095 GAACCAGATTG
1 GAAGCAGATTG
52239106 GATCAAACCT
Statistics
Matches: 122, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
131 2 0.02
132 120 0.98
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.23
Consensus pattern (132 bp):
GAAGCAGATTGAAGCCACCAGTCCTATCTCCCTGAGCAGAAGCAGAGTAGGCTGAAGATTGCAGA
TCCTGTCTCCCTAAACAGTAGTGGAACAGATCAAAGACAACGAATCTTATCTTCCCAAGGAAATA
GG
Found at i:52244506 original size:26 final size:26
Alignment explanation
Indices: 52244476--52244528 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
52244466 GCTCACCGAA
52244476 TAGCCCTAGCCCAATTTCAACACCCC
1 TAGCCCTAGCCCAATTTCAACACCCC
52244502 TAGCCCTAGCCCAATTTCAACACCCC
1 TAGCCCTAGCCCAATTTCAACACCCC
52244528 T
1 T
52244529 GTCCATTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.45, G:0.08, T:0.21
Consensus pattern (26 bp):
TAGCCCTAGCCCAATTTCAACACCCC
Found at i:52245442 original size:9 final size:9
Alignment explanation
Indices: 52245416--52245476 Score: 88
Period size: 9 Copynumber: 6.6 Consensus size: 9
52245406 TATAAGAAAT
52245416 TAATTCGGG
1 TAATTCGGG
52245425 TAATTTTCGGG
1 TAA--TTCGGG
52245436 TAATTCGGG
1 TAATTCGGG
52245445 TAATTCGGG
1 TAATTCGGG
52245454 TAATTCGGG
1 TAATTCGGG
52245463 TAAATT-GGG
1 T-AATTCGGG
52245472 TAATT
1 TAATT
52245477 TTTAACCAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
8 4 0.08
9 32 0.65
10 4 0.08
11 9 0.18
ACGTcount: A:0.25, C:0.08, G:0.30, T:0.38
Consensus pattern (9 bp):
TAATTCGGG
Found at i:52253262 original size:69 final size:69
Alignment explanation
Indices: 52253142--52253350 Score: 285
Period size: 69 Copynumber: 3.0 Consensus size: 69
52253132 ATTATATCAT
* ** * * *
52253142 CCTACAATTACATACAAAAAGTTATATTA-CTCTACCATTACATCCAATTACACATACAAAAAGT
1 CCTACAATTACATATAAAAAGTTATATTAGC-CTACCACCACACCCATTTACACATAAAAAAAGT
52253206 GACAA
65 GACAA
* * *
52253211 CCTACAATTACATATAAAAAGTGATATTAGCCCACCACCACACCCATTTACACATAGAAAAAGTG
1 CCTACAATTACATATAAAAAGTTATATTAGCCTACCACCACACCCATTTACACATAAAAAAAGTG
*
52253276 TCAA
66 ACAA
** *
52253280 CCTACAATTACATATAAAAAGTTATATTAGTTTACCACCACACGCATTTACACATAAAAAAAGTG
1 CCTACAATTACATATAAAAAGTTATATTAGCCTACCACCACACCCATTTACACATAAAAAAAGTG
52253345 ACAA
66 ACAA
52253349 CC
1 CC
52253351 CTTTATGGCA
Statistics
Matches: 123, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
69 122 0.99
70 1 0.01
ACGTcount: A:0.45, C:0.24, G:0.07, T:0.24
Consensus pattern (69 bp):
CCTACAATTACATATAAAAAGTTATATTAGCCTACCACCACACCCATTTACACATAAAAAAAGTG
ACAA
Found at i:52253368 original size:69 final size:68
Alignment explanation
Indices: 52253142--52253390 Score: 277
Period size: 69 Copynumber: 3.6 Consensus size: 68
52253132 ATTATATCAT
* ** * *
52253142 CCTACAATTACATACAAAAAGTTATATTACTCTACCATTACATCCAATTACACATACAAAAAGTG
1 CCTACAATTACATACAAAAAGTTATATTAGTCTACCACCACA-CCATTTACACATAAAAAAAGTG
52253207 ACAA
65 ACAA
* * * * *
52253211 CCTACAATTACATATAAAAAGTGATATTAGCCCACCACCACACCCATTTACACATAGAAAAAGTG
1 CCTACAATTACATACAAAAAGTTATATTAGTCTACCACCACA-CCATTTACACATAAAAAAAGTG
*
52253276 TCAA
65 ACAA
* *
52253280 CCTACAATTACATATAAAAAGTTATATTAGTTTACCACCACACGCATTTACACATAAAAAAAGTG
1 CCTACAATTACATACAAAAAGTTATATTAGTCTACCACCACAC-CATTTACACATAAAAAAAGTG
52253345 ACAA
65 ACAA
** ** *
52253349 CCCT-TTATGGCATACAAAAAGTTATATTCA-TCCACCACCACA
1 -CCTACAATTACATACAAAAAGTTATATT-AGTCTACCACCACA
52253391 GCCACATGGG
Statistics
Matches: 153, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
68 1 0.01
69 148 0.97
70 4 0.03
ACGTcount: A:0.44, C:0.24, G:0.07, T:0.25
Consensus pattern (68 bp):
CCTACAATTACATACAAAAAGTTATATTAGTCTACCACCACACCATTTACACATAAAAAAAGTGA
CAA
Found at i:52253390 original size:138 final size:138
Alignment explanation
Indices: 52253142--52253390 Score: 324
Period size: 138 Copynumber: 1.8 Consensus size: 138
52253132 ATTATATCAT
** *
52253142 CCTACAATTACATACAAAAAGTTATATTACTCTACCATTACATCCAATTACACATACAAAAAGTG
1 CCTACAATTACATACAAAAAGTTATATTACTCTACCACCACATCCAATTACACATAAAAAAAGTG
* *
52253207 ACAACCTACAATTACATATAAAAAGTGATATTAGCCCACCACCACACCCATTTACACATAGAAAA
66 ACAACCTACAATGACATACAAAAAGTGATATTAGCCCACCACCACACCCATTTACACATAGAAAA
52253272 AGTGTCAA
131 AGTGTCAA
* * * *
52253280 CCTACAATTACATATAAAAAGTTATATTAGTTTACCACCACA-CGCATTTACACATAAAAAAAGT
1 CCTACAATTACATACAAAAAGTTATATTACTCTACCACCACATC-CAATTACACATAAAAAAAGT
** * * *
52253344 GACAACCCT-TTATGGCATACAAAAAGTTATATTCA-TCCACCACCACA
65 GACAA-CCTACAATGACATACAAAAAGTGATATT-AGCCCACCACCACA
52253391 GCCACATGGG
Statistics
Matches: 94, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
137 1 0.01
138 89 0.95
139 4 0.04
ACGTcount: A:0.44, C:0.24, G:0.07, T:0.25
Consensus pattern (138 bp):
CCTACAATTACATACAAAAAGTTATATTACTCTACCACCACATCCAATTACACATAAAAAAAGTG
ACAACCTACAATGACATACAAAAAGTGATATTAGCCCACCACCACACCCATTTACACATAGAAAA
AGTGTCAA
Found at i:52260305 original size:17 final size:18
Alignment explanation
Indices: 52260273--52260306 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
52260263 AATTTCTTTT
52260273 CAATTTATACCCTAATTC
1 CAATTTATACCCTAATTC
*
52260291 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
52260307 AACTCATTTA
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:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (18 bp):
CAATTTATACCCTAATTC
Found at i:52260945 original size:30 final size:32
Alignment explanation
Indices: 52260911--52260980 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 32
52260901 TGTCATGTTT
52260911 TAATATAAATATCT-TTTACTT-AATAATAAA
1 TAATATAAATATCTATTTACTTAAATAATAAA
*
52260941 T-A-ATAAATATCTATTTACTTAAATAATAAG
1 TAATATAAATATCTATTTACTTAAATAATAAA
*
52260971 TAATTTAAAT
1 TAATATAAAT
52260981 CCATGAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 10 0.29
29 8 0.24
30 10 0.29
31 1 0.03
32 5 0.15
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (32 bp):
TAATATAAATATCTATTTACTTAAATAATAAA
Found at i:52265447 original size:18 final size:18
Alignment explanation
Indices: 52265424--52265469 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
52265414 CGAAACGATT
52265424 GCAGCAGCAACGATAGTA
1 GCAGCAGCAACGATAGTA
52265442 GCAGCAGCAACGATAGTA
1 GCAGCAGCAACGATAGTA
*
52265460 GCATCAGCAA
1 GCAGCAGCAA
52265470 GCACGTCCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.39, C:0.24, G:0.26, T:0.11
Consensus pattern (18 bp):
GCAGCAGCAACGATAGTA
Found at i:52272180 original size:5 final size:5
Alignment explanation
Indices: 52272170--52272196 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
52272160 CTTTGACCCA
52272170 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
52272197 TTAAATCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:52272298 original size:16 final size:16
Alignment explanation
Indices: 52272257--52272307 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
52272247 TATAATTGGT
*
52272257 ATGTATTTTTTTTAAA
1 ATGTATTTATTTTAAA
* *
52272273 ATAGT-CTTATTTTATA
1 AT-GTATTTATTTTAAA
52272289 ATGTATTTATTTTTAAA
1 ATGTATTTA-TTTTAAA
52272306 AT
1 AT
52272308 TATAGTATTC
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
15 2 0.07
16 15 0.56
17 10 0.37
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (16 bp):
ATGTATTTATTTTAAA
Found at i:52272331 original size:3 final size:3
Alignment explanation
Indices: 52272323--52272355 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
52272313 TATTCTCCTA
52272323 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
52272356 ATAATCTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:52273823 original size:26 final size:26
Alignment explanation
Indices: 52273794--52273855 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
52273784 CATCATCTTC
52273794 TTCTTCAGAGGAACTGAAGAAGACGA
1 TTCTTCAGAGGAACTGAAGAAGACGA
52273820 TTCTTCAGAGGAACTGAAGAAGACGA
1 TTCTTCAGAGGAACTGAAGAAGACGA
*
52273846 TGCTTCAGAG
1 TTCTTCAGAG
52273856 AAAAAAATTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.21
Consensus pattern (26 bp):
TTCTTCAGAGGAACTGAAGAAGACGA
Found at i:52274804 original size:10 final size:10
Alignment explanation
Indices: 52274789--52274884 Score: 67
Period size: 10 Copynumber: 9.7 Consensus size: 10
52274779 TTTGTTAAAT
52274789 TTAAAAATTA
1 TTAAAAATTA
52274799 TTAAAAA-TA
1 TTAAAAATTA
52274808 -TAAAAATTTA
1 TTAAAAA-TTA
52274818 TTTAAAAATTA
1 -TTAAAAATTA
*
52274829 TTAAGAATTA
1 TTAAAAATTA
*
52274839 -TAAGAAATAA
1 TTAA-AAATTA
* *
52274849 TAAAAAAGTA
1 TTAAAAATTA
52274859 TGT--AAATTA
1 T-TAAAAATTA
*
52274868 TTAATAATTA
1 TTAAAAATTA
*
52274878 ATAAAAA
1 TTAAAAA
52274885 AAAGATTTAA
Statistics
Matches: 66, Mismatches: 11, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
8 7 0.11
9 11 0.17
10 37 0.56
11 5 0.08
12 6 0.09
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:52274806 original size:18 final size:20
Alignment explanation
Indices: 52274785--52274827 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
52274775 TTTTTTTGTT
52274785 AAATTTAAAAA-TTA-TTAA
1 AAATTTAAAAATTTATTTAA
*
52274803 AAATATAAAAATTTATTTAA
1 AAATTTAAAAATTTATTTAA
52274823 AAATT
1 AAATT
52274828 ATTAAGAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 10 0.48
19 3 0.14
20 8 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AAATTTAAAAATTTATTTAA
Found at i:52274822 original size:30 final size:32
Alignment explanation
Indices: 52274787--52274846 Score: 97
Period size: 30 Copynumber: 1.9 Consensus size: 32
52274777 TTTTTGTTAA
52274787 ATTTAAAAATTATTAA-AAATATAA-AAATTT
1 ATTTAAAAATTATTAAGAAATATAAGAAATTT
*
52274817 ATTTAAAAATTATTAAGAATTATAAGAAAT
1 ATTTAAAAATTATTAAGAAATATAAGAAAT
52274847 AATAAAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 16 0.59
31 7 0.26
32 4 0.15
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (32 bp):
ATTTAAAAATTATTAAGAAATATAAGAAATTT
Found at i:52274905 original size:31 final size:33
Alignment explanation
Indices: 52274844--52274906 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 33
52274834 AATTATAAGA
*
52274844 AATAATAAAAAAGTATGTAAATTATTAATAATT
1 AATAATAAAAAAGTATGTAAATTATAAATAATT
*
52274877 AATAA-AAAAAAG-ATTTAAAATTA-AAATAAT
1 AATAATAAAAAAGTATGT-AAATTATAAATAAT
52274907 ATTTTAGGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 9 0.33
32 13 0.48
33 5 0.19
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (33 bp):
AATAATAAAAAAGTATGTAAATTATAAATAATT
Found at i:52282087 original size:31 final size:32
Alignment explanation
Indices: 52282052--52282131 Score: 108
Period size: 32 Copynumber: 2.5 Consensus size: 32
52282042 ATGTTCACAT
*
52282052 TTTCATTTTGGTCA-TTCCACTTCTAGGTCGA
1 TTTCATTTTAGTCATTTCCACTTCTAGGTCGA
* **
52282083 TTTCATTTTAGTGATTTTTACTTCTAGGTCGA
1 TTTCATTTTAGTCATTTCCACTTCTAGGTCGA
*
52282115 TTTCATTTTAGTGATTT
1 TTTCATTTTAGTCATTT
52282132 TTTAAGTATT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
31 12 0.27
32 32 0.73
ACGTcount: A:0.17, C:0.15, G:0.15, T:0.53
Consensus pattern (32 bp):
TTTCATTTTAGTCATTTCCACTTCTAGGTCGA
Found at i:52282110 original size:32 final size:32
Alignment explanation
Indices: 52282070--52282133 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
52282060 TGGTCATTCC
52282070 ACTTCTAGGTCGATTTCATTTTAGTGATTTTT
1 ACTTCTAGGTCGATTTCATTTTAGTGATTTTT
52282102 ACTTCTAGGTCGATTTCATTTTAGTGATTTTT
1 ACTTCTAGGTCGATTTCATTTTAGTGATTTTT
52282134 TAAGTATTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.19, C:0.12, G:0.16, T:0.53
Consensus pattern (32 bp):
ACTTCTAGGTCGATTTCATTTTAGTGATTTTT
Found at i:52291508 original size:16 final size:15
Alignment explanation
Indices: 52291469--52291510 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
52291459 AACTCGAACA
52291469 ATTTCACTCG-ATTT
1 ATTTCACTCGAATTT
*
52291483 AATTCGACTCGAATTT
1 ATTTC-ACTCGAATTT
52291499 CATTTCACTCGA
1 -ATTTCACTCGA
52291511 CTCGATTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 4 0.17
15 5 0.22
16 10 0.43
17 4 0.17
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (15 bp):
ATTTCACTCGAATTT
Found at i:52304872 original size:34 final size:35
Alignment explanation
Indices: 52304833--52304931 Score: 89
Period size: 35 Copynumber: 2.9 Consensus size: 35
52304823 AGGCTCAGAT
*
52304833 CAAAAAGAAAAAAAGAAAAATCAAAATCAAAGTAAA
1 CAAAAAGAAAAAAAGAAAAATCAAAATCAAA-AAAA
** **
52304869 -AAAAATCAAATCA-AAAAATCAAAAT-AAAAAAA
1 CAAAAAGAAAAAAAGAAAAATCAAAATCAAAAAAA
*
52304901 CAAAAAGAAGAAAGAAG-AAAATCAAATTCAA
1 CAAAAAGAA-AAA-AAGAAAAATCAAAATCAA
52304932 GATCAAAATG
Statistics
Matches: 48, Mismatches: 10, Indels: 10
0.71 0.15 0.15
Matches are distributed among these distances:
32 3 0.06
33 9 0.19
34 14 0.29
35 20 0.42
36 2 0.04
ACGTcount: A:0.74, C:0.09, G:0.07, T:0.10
Consensus pattern (35 bp):
CAAAAAGAAAAAAAGAAAAATCAAAATCAAAAAAA
Found at i:52304873 original size:15 final size:14
Alignment explanation
Indices: 52304855--52304900 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
52304845 AAGAAAAATC
52304855 AAAATCAAAGTAAAA
1 AAAATCAAA-TAAAA
*
52304870 AAAATCAAAT-CAA
1 AAAATCAAATAAAA
52304883 AAAATCAAAATAAAA
1 AAAATC-AAATAAAA
52304898 AAA
1 AAA
52304901 CAAAAAGAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 8 0.30
14 5 0.19
15 14 0.52
ACGTcount: A:0.76, C:0.09, G:0.02, T:0.13
Consensus pattern (14 bp):
AAAATCAAATAAAA
Found at i:52307253 original size:87 final size:87
Alignment explanation
Indices: 52307152--52307515 Score: 595
Period size: 87 Copynumber: 4.2 Consensus size: 87
52307142 AGATCAGTGA
* * *
52307152 AGATCAGAAAACAAAGCCTTACCTCCATCGGTTGTAGTGGAGCTGGTTAAATATAGCGGATCTTG
1 AGATC-GAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTG
*
52307217 CCTTCCTGCGTTAACAGTGAAGC
65 CCTTCCTGCGTTAACAGCGAAGC
* * *
52307240 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGA-AACAGATCTTGT
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
52307304 CTTCCTGCATTAACAGCGAAGT
66 CTTCCTGCGTTAACAGCGAAGC
* *
52307326 AGATCGAAAACGAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATATTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
52307391 CTTCCTGCGTTAACAGCGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
* *
52307413 AGATCGAAAACGAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGT
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
52307478 CTTCCTGCGTTAACAGCGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
52307500 AGATCGAAAACAAAGC
1 AGATCGAAAACAAAGC
52307516 AGATTTTGCT
Statistics
Matches: 256, Mismatches: 19, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
86 78 0.30
87 173 0.68
88 5 0.02
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTGCGTTAACAGCGAAGC
Found at i:52307454 original size:173 final size:174
Alignment explanation
Indices: 52307152--52307515 Score: 613
Period size: 173 Copynumber: 2.1 Consensus size: 174
52307142 AGATCAGTGA
* * *
52307152 AGATCAGAAAACAAAGCCTTACCTCCATCGGTTGTAGTGGAGCTGGTTAAATATAGCGGATCTTG
1 AGATC-GAAAACAAAGCCTTACCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATATTG
*
52307217 CCTTCCTGCGTTAACAGTGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGC
65 CCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGC
*
52307282 TGGTTAAAGA-AACAGATCTTGTCTTCCTGCATTAACAGCGAAGT
130 TGGTTAAAGATAACAGATCTTGTCTTCCTGCATTAACAGCGAAGC
* *
52307326 AGATCGAAAACGAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATATTGC
1 AGATCGAAAACAAAGCCTTACCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATATTGC
* *
52307391 CTTCCTGCGTTAACAGCGAAGCAGATCGAAAACGAAGCCTTGCCTCCATCGGTTGTAGTGGAGCT
66 CTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCT
* *
52307456 GGTTAAAGATAGCAGATCTTGTCTTCCTGCGTTAACAGCGAAGC
131 GGTTAAAGATAACAGATCTTGTCTTCCTGCATTAACAGCGAAGC
52307500 AGATCGAAAACAAAGC
1 AGATCGAAAACAAAGC
52307516 AGATTTTGCT
Statistics
Matches: 177, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
173 126 0.71
174 51 0.29
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (174 bp):
AGATCGAAAACAAAGCCTTACCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATATTGC
CTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCT
GGTTAAAGATAACAGATCTTGTCTTCCTGCATTAACAGCGAAGC
Found at i:52307609 original size:40 final size:42
Alignment explanation
Indices: 52307561--52307679 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 42
52307551 GAAAACAACC
* * *
52307561 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA-CATCA
1 AGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCAGAAACA
* *
52307602 AG-TCTTATCT-CCTCAAGCAATAGTGGAGCAGATGAAAGAAACC
1 AGATCTTATCTCCCT-AAGCAATAGTGGAGCAGAT--CAGAAACA
*
52307645 AGATCTTATCTCCCTAAGCAATAGTGGAGCGGATC
1 AGATCTTATCTCCCTAAGCAATAGTGGAGCAGATC
52307680 GAAGACGGCG
Statistics
Matches: 65, Mismatches: 7, Indels: 11
0.78 0.08 0.13
Matches are distributed among these distances:
39 3 0.05
40 26 0.40
41 2 0.03
42 1 0.02
43 4 0.06
44 26 0.40
45 3 0.05
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.24
Consensus pattern (42 bp):
AGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCAGAAACA
Found at i:52307664 original size:44 final size:43
Alignment explanation
Indices: 52307544--52307674 Score: 153
Period size: 44 Copynumber: 3.1 Consensus size: 43
52307534 TTAACAGTAA
* *
52307544 AGCAGAAGAAAACAACCAGATCTTATCTCCCTAAGCAGTAGTGG
1 AGCAGATGAAAA-AACCAGATCTTATCTCCCTAAGCAATAGTGG
* * * *
52307588 AGCAGAT--CACATCAAG-TCTTATCT-CCTCAAGCAATAGTGG
1 AGCAGATGAAAAAACCAGATCTTATCTCCCT-AAGCAATAGTGG
52307628 AGCAGATGAAAGAAACCAGATCTTATCTCCCTAAGCAATAGTGG
1 AGCAGATGAAA-AAACCAGATCTTATCTCCCTAAGCAATAGTGG
52307672 AGC
1 AGC
52307675 GGATCGAAGA
Statistics
Matches: 71, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
39 3 0.04
40 26 0.37
41 4 0.06
42 2 0.03
43 4 0.06
44 29 0.41
45 3 0.04
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.21
Consensus pattern (43 bp):
AGCAGATGAAAAAACCAGATCTTATCTCCCTAAGCAATAGTGG
Found at i:52307750 original size:87 final size:87
Alignment explanation
Indices: 52307651--52308078 Score: 712
Period size: 87 Copynumber: 4.9 Consensus size: 87
52307641 AACCAGATCT
52307651 TATCTCCCTAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTAGGGA
1 TATCTCCCTAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTAGGGA
52307716 AACAGATTTAAGCCATTAATCC
66 AACAGATTTAAGCCATTAATCC
* ** *
52307738 TATCTCCCTAAGCAATAGTGAAGCGGATCGAAGACGGAAAATCTCATCTTCCCCAAGAGTAGGGA
1 TATCTCCCTAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTAGGGA
*
52307803 AACAAATTTAAGCCATTAATCC
66 AACAGATTTAAGCCATTAATCC
* *
52307825 TATCTCCCTAAGCAATAGTGGAGCGGATCGAAGACGGTGAATCCCATCTTCCCCAGGAGTAGGGA
1 TATCTCCCTAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTAGGGA
*
52307890 AACGGATTTAAGCCATTAATCC
66 AACAGATTTAAGCCATTAATCC
* * * *
52307912 TATCTCTCTAAGAAATAGTGGAGCGGATCGAAGACGGCGAATATCATCCTCCCCAGGAGTAGGGA
1 TATCTCCCTAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTAGGGA
52307977 AACAGATTTAAGCCATTAATCC
66 AACAGATTTAAGCCATTAATCC
* * *
52307999 TATCTCCCTAAGCAATAGTGGAGTGGATCGAAGATGGCGAATCTCATCTTCCCCAAGAGTAGGGA
1 TATCTCCCTAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTAGGGA
*
52308064 AACAGATTCAAGCCA
66 AACAGATTTAAGCCA
52308079 CAAATACTAC
Statistics
Matches: 314, Mismatches: 27, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 314 1.00
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (87 bp):
TATCTCCCTAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTAGGGA
AACAGATTTAAGCCATTAATCC
Found at i:52307939 original size:43 final size:43
Alignment explanation
Indices: 52307808--52307939 Score: 106
Period size: 43 Copynumber: 3.0 Consensus size: 43
52307798 AGGGAAACAA
* *
52307808 ATTTAAGCCATTAATCCTATCTCCCTAAGCAATAGTGGAGCGG
1 ATTTAAGCCATTAATCCTATCTCTCTAAGAAATAGTGGAGCGG
** ** * * ** * * *
52307851 ATCGAAGACGGTGAATCCCATCT-TCCCCAGGAGTAG-GGAAACGG
1 ATTTAAG-CCATTAATCCTATCTCT-CTAAGAAATAGTGG-AGCGG
52307895 ATTTAAGCCATTAATCCTATCTCTCTAAGAAATAGTGGAGCGG
1 ATTTAAGCCATTAATCCTATCTCTCTAAGAAATAGTGGAGCGG
52307938 AT
1 AT
52307940 CGAAGACGGC
Statistics
Matches: 61, Mismatches: 23, Indels: 10
0.65 0.24 0.11
Matches are distributed among these distances:
43 31 0.51
44 30 0.49
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (43 bp):
ATTTAAGCCATTAATCCTATCTCTCTAAGAAATAGTGGAGCGG
Found at i:52325529 original size:15 final size:15
Alignment explanation
Indices: 52325509--52325582 Score: 62
Period size: 15 Copynumber: 4.8 Consensus size: 15
52325499 TCACATTAGC
52325509 AATTAATTTTTTTAA
1 AATTAATTTTTTTAA
52325524 AATTAATTTTTTTATA
1 AATTAATTTTTTTA-A
* * **
52325540 TATTTATACTTTTAA
1 AATTAATTTTTTTAA
52325555 AA-TAATTCTATTTTTAA
1 AATTAA-T-T-TTTTTAA
52325572 AA-TAATTTTTT
1 AATTAATTTTTT
52325583 AAATTTTAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
14 6 0.13
15 18 0.38
16 12 0.26
17 11 0.23
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTAATTTTTTTAA
Found at i:52326140 original size:14 final size:14
Alignment explanation
Indices: 52326121--52326159 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
52326111 TTGTTTCACT
*
52326121 GAAAATGGCTTCCG
1 GAAAATGACTTCCG
* *
52326135 GAAAATGATTTCTG
1 GAAAATGACTTCCG
52326149 GAAAATGACTT
1 GAAAATGACTT
52326160 ACTTTTTTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (14 bp):
GAAAATGACTTCCG
Found at i:52326766 original size:18 final size:18
Alignment explanation
Indices: 52326728--52326763 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
52326718 TTATTATTTT
*
52326728 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
52326746 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
52326764 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Done.