Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 136 of 335
Found at i:40095926 original size:11 final size:11
Alignment explanation
Indices: 40095910--40095934 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
40095900 TTATTTTGAA
40095910 TTTAATTTAAT
1 TTTAATTTAAT
40095921 TTTAATTTAAT
1 TTTAATTTAAT
40095932 TTT
1 TTT
40095935 TTATTTGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTAATTTAAT
Found at i:40095929 original size:16 final size:17
Alignment explanation
Indices: 40095902--40095933 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
40095892 TGAGAGTATT
40095902 ATTTTGAATTTAATTTA
1 ATTTTGAATTTAATTTA
40095919 ATTTT-AATTTAATTT
1 ATTTTGAATTTAATTT
40095934 TTTATTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
ATTTTGAATTTAATTTA
Found at i:40097194 original size:24 final size:23
Alignment explanation
Indices: 40097137--40097196 Score: 59
Period size: 24 Copynumber: 2.6 Consensus size: 23
40097127 TTTCATTTAC
40097137 TTATTGTT-TATTATTATTAGAT
1 TTATTGTTATATTATTATTAGAT
* * * *
40097159 TAAGTTGATATATTGTTATTATAT
1 TTA-TTGTTATATTATTATTAGAT
40097183 ATTATTGTTATATT
1 -TTATTGTTATATT
40097197 CCTATTTATA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
22 2 0.07
23 4 0.14
24 21 0.72
25 2 0.07
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (23 bp):
TTATTGTTATATTATTATTAGAT
Found at i:40097448 original size:55 final size:53
Alignment explanation
Indices: 40097359--40097462 Score: 131
Period size: 55 Copynumber: 1.9 Consensus size: 53
40097349 AATATTATTA
*
40097359 ATAATTATTTTTAAACATTATTATTATTTTTAATACGTGCATATATATTATGTGTAT
1 ATAATTATTTTTAAACATTATTATTATTTCTAATA--TG--TATATATTATGTGTAT
* *
40097416 ATAATTGTTTTT-AATATTA-TATTATTTCTAATATGTATATATTATGT
1 ATAATTATTTTTAAACATTATTATTATTTCTAATATGTATATATTATGT
40097463 ATTTATCTCT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
51 12 0.27
53 2 0.05
55 13 0.30
56 6 0.14
57 11 0.25
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.55
Consensus pattern (53 bp):
ATAATTATTTTTAAACATTATTATTATTTCTAATATGTATATATTATGTGTAT
Found at i:40097460 original size:25 final size:24
Alignment explanation
Indices: 40097429--40097503 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 24
40097419 ATTGTTTTTA
*
40097429 ATATTATATTATTTCTAATATGTAT
1 ATATTATATTATTTCTAATA-CTAT
*
40097454 ATATTATGTATTTATCTCTAATACTAT
1 ATATTA--TA-TTATTTCTAATACTAT
* *
40097481 ACATTGTA-TATTTCTAATACTAT
1 ATATTATATTATTTCTAATACTAT
40097504 TATGCTATTA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
23 14 0.33
25 8 0.19
27 9 0.21
28 11 0.26
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.52
Consensus pattern (24 bp):
ATATTATATTATTTCTAATACTAT
Found at i:40097529 original size:3 final size:3
Alignment explanation
Indices: 40097516--40097623 Score: 103
Period size: 3 Copynumber: 35.7 Consensus size: 3
40097506 TGCTATTACC
* * *
40097516 ATT ACT ATT ATT ATT ATT ATT ATT ACTT ATAT ATT ATC ATT ATT ATC
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT AT-T ATT ATT ATT ATT ATT
* * * * *
40097563 ATT ATG ATTT ATT ACT -TT ATT ATT ATC ATT ATT ACT ACT ATT A-T
1 ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
40097607 ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
40097624 ATTTTTACCC
Statistics
Matches: 86, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
2 3 0.03
3 75 0.87
4 8 0.09
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:40099913 original size:19 final size:19
Alignment explanation
Indices: 40099889--40099934 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
40099879 CTTCCTTTCT
*
40099889 TTTGCATT-CATTTCATGCA
1 TTTGCATTGCATTGCAT-CA
*
40099908 TTTGCATTGCATTGCATTA
1 TTTGCATTGCATTGCATCA
40099927 TTTGCATT
1 TTTGCATT
40099935 AGACTTTCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (19 bp):
TTTGCATTGCATTGCATCA
Found at i:40104470 original size:66 final size:66
Alignment explanation
Indices: 40104350--40104481 Score: 210
Period size: 66 Copynumber: 2.0 Consensus size: 66
40104340 ATTCATATGT
* * * * *
40104350 CATTCATAACATATCTAATTAGGAGCATTTGATTCATTTCGATCATAGCCTCCTAATTATTTGAC
1 CATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCACAGCATCCTAATCATTTGAC
40104415 A
66 A
*
40104416 CATTCATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCACAGCATCCTAATCATTTGAC
1 CATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCACAGCATCCTAATCATTTGAC
40104481 A
66 A
40104482 TAAGCATAGA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.36
Consensus pattern (66 bp):
CATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCACAGCATCCTAATCATTTGAC
A
Found at i:40104689 original size:87 final size:87
Alignment explanation
Indices: 40104542--40104843 Score: 390
Period size: 87 Copynumber: 3.4 Consensus size: 87
40104532 TGAATTCACA
* ** *
40104542 AGCCTTAACCCCCTAAGTAGTAGGGCGACAGGCTGAATTGACAGATCTTAATC-CCCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTT-ATCACCCTAAGCAGT
*
40104606 AGGGAAACAGATCGAAGATAATG
65 AGGGAAACAGATCGAAGATAACG
* * *
40104629 GGCCTTAAACCCCTAAGCACTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTA
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTA
* *
40104694 GGGAAACAGATCGAAGGTAACA
66 GGGAAACAGATCGAAGATAACG
** * * *
40104716 AGCCTTGGCCCCTTAAGCAGTAGGGTAACAGGCTGAAGATTTGCAGATCTCATCACCCTAAGCAG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTG-A-ATTTACAGATCTTATCACCCTAAGCAG
* ***
40104781 TAGGGAAACAGATCAAAGACGGCG
64 TAGGGAAACAGATCGAAGATAACG
*
40104805 AGCCTTAACCCCCTAAGCAGTAGAGTAACAGGCTGAATT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATT
40104844 ACAAATCACT
Statistics
Matches: 184, Mismatches: 28, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
86 3 0.02
87 105 0.57
88 2 0.01
89 74 0.40
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (87 bp):
AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTA
GGGAAACAGATCGAAGATAACG
Found at i:40104696 original size:43 final size:43
Alignment explanation
Indices: 40104552--40104791 Score: 143
Period size: 44 Copynumber: 5.5 Consensus size: 43
40104542 AGCCTTAACC
* ** *
40104552 CCCTAAGTAGTAGGGCGACAGGCTGAATTGACAGATCTTAATC-
1 CCCTAAGCAGTAGGGAAACAGGCTGAATTTACAGATCTT-ATCA
* ** ** *
40104595 CCCTAAGCAGTAGGGAAACA-GATCGAAGATA-ATGGGCCTTA-AA
1 CCCTAAGCAGTAGGGAAACAGGCT-GAATTTACA--GATCTTATCA
* *
40104638 CCCCTAAGCACTAGGGTAACAGGCTGAATTTACAGATCTTATCA
1 -CCCTAAGCAGTAGGGAAACAGGCTGAATTTACAGATCTTATCA
* * * * **
40104682 CCCTAAGCAGTAGGGAAACA-GATCGAAGGTAACA-AGCCTTGGC-
1 CCCTAAGCAGTAGGGAAACAGGCT-GAA-TTTACAGA-TCTTATCA
* * *
40104725 CCCTTAAGCAGTAGGGTAACAGGCTGAAGATTTGCAGATCTCATCA
1 CCC-TAAGCAGTAGGGAAACAGGCTG-A-ATTTACAGATCTTATCA
40104771 CCCTAAGCAGTAGGGAAACAG
1 CCCTAAGCAGTAGGGAAACAG
40104792 ATCAAAGACG
Statistics
Matches: 144, Mismatches: 36, Indels: 32
0.68 0.17 0.15
Matches are distributed among these distances:
42 5 0.03
43 52 0.36
44 53 0.37
45 29 0.20
46 5 0.03
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.20
Consensus pattern (43 bp):
CCCTAAGCAGTAGGGAAACAGGCTGAATTTACAGATCTTATCA
Found at i:40104990 original size:45 final size:44
Alignment explanation
Indices: 40104896--40105512 Score: 263
Period size: 45 Copynumber: 13.5 Consensus size: 44
40104886 CCATAGAAGA
* * * * * *
40104896 CTCCTTGAAGTTTCAGTGGAGTAGATTGAAAT-CACAAGTCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACT-AAATAAACAAATCTTAT
* *
40104940 CTCCCTGAAGTTGCAGTCGAGCAGACTAAATATAGCAAATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTAAATA-AACAAATCTTAT
* * * *
40104985 TTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATCATAGATCTCAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACT-AA---ATAAA-CA-A-ATCTTAT
** * * * *
40105036 CTCTTTGAAGTTGCAGTAGAGCAGA-T-CA-ACACAATTCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAACAAATCTTAT
* *
40105077 CTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTAAATA-AACAAATCTTAT
* * * * * * *
40105122 TTTCCTGAAGTTGCAGTGGAACAAATTGAAGCTATATACCACAGATCTCAT
1 CTCCCTGAAGTTGCAGTGGAGC--A--G-A-CTAAATA-AACAAATCTTAT
* * * * * * *
40105173 CTCTCTGAAGATGTAGTAGAGCAGA-T-CA-ACACAAGTCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAACAAATCTTAT
* * * *
40105214 CTCTCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGAAAATTTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAA-CAAATCTTAT
* * * * *
40105259 TTCACTGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACT-AA---ATAAA-CA-A-ATCTTAT
* * * * * *
40105310 CTCTCTGAAGATGCAGTAGAGCAGA-T-CA-ACACAAGTCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAACAAATCTTAT
* *
40105351 CTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAACAAGTCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTAAA-TAAACAAATCTTAT
* * * *
40105396 TTCCCTGAAGTCGCAGTGGAACAGATTGAAGCCATAAATAAACAGATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGC--A--G-A--C-TAAATAAACAAATCTTAT
** * *
40105448 CTATCTGAAGTTGCAGTAGAGCAGATCAAAATAAAC---T-TTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGA-CTAAATAAACAAATCTTAT
* * *
40105489 CTCTCTGAAATTGCAGTAGAGCAG
1 CTCCCTGAAGTTGCAGTGGAGCAG
40105513 TAAAGCGGAG
Statistics
Matches: 434, Mismatches: 98, Indels: 85
0.70 0.16 0.14
Matches are distributed among these distances:
41 111 0.26
42 7 0.02
43 12 0.03
44 30 0.07
45 131 0.30
46 6 0.01
47 4 0.01
48 2 0.00
49 13 0.03
50 7 0.02
51 79 0.18
52 28 0.06
53 4 0.01
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (44 bp):
CTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAACAAATCTTAT
Found at i:40105084 original size:137 final size:137
Alignment explanation
Indices: 40104928--40105512 Score: 857
Period size: 137 Copynumber: 4.3 Consensus size: 137
40104918 AGATTGAAAT
* * *
40104928 CACAAGTCTTATCTCCCTGAAGTTGCAGTCGAGCAGACTAAATATAGCAAATCTTATTTCCCTGA
1 CACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAATCTTATTTCCCTGA
* * * *
40104993 AGTTGCAGTGGAACAGATTGAAGCTATAAATCATAGATCTCATCTCTTTGAAGTTGCAGTAGAGC
66 AGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGATGCAGTAGAGC
40105058 AGATCAA
131 AGATCAA
* * *
40105065 CACAATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTTCCTGA
1 CACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAATCTTATTTCCCTGA
* * *
40105130 AGTTGCAGTGGAACAAATTGAAGCTATATACCACAGATCTCATCTCTCTGAAGATGTAGTAGAGC
66 AGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGATGCAGTAGAGC
40105195 AGATCAA
131 AGATCAA
* * * *
40105202 CACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGAAAATTTTATTTCACTGA
1 CACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAATCTTATTTCCCTGA
40105267 AGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGATGCAGTAGAGC
66 AGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGATGCAGTAGAGC
40105332 AGATCAA
131 AGATCAA
* *
40105339 CACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAACAAGTCTTATTTCCCTGA
1 CACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAATCTTATTTCCCTGA
* * ** * * *
40105404 AGTCGCAGTGGAACAGATTGAAGCCATAAATAAACAGATCTTATCTATCTGAAGTTGCAGTAGAG
66 AGTTGCAGTGGAACAGATTGAAGCTATAAA-CCACAGATCTCATCTCTCTGAAGATGCAGTAGAG
40105469 CAGATCAA
130 CAGATCAA
* * * * * *
40105477 AATAA-ACTTTATCTCTCTGAAATTGCAGTAGAGCAG
1 CACAAGTC-TTATCTCCCTGAAGTTGCAGTGGAGCAG
40105513 TAAAGCGGAG
Statistics
Matches: 406, Mismatches: 40, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
137 341 0.84
138 65 0.16
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (137 bp):
CACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAATCTTATTTCCCTGA
AGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGATGCAGTAGAGC
AGATCAA
Found at i:40105091 original size:41 final size:40
Alignment explanation
Indices: 40105041--40105421 Score: 132
Period size: 41 Copynumber: 8.5 Consensus size: 40
40105031 CTCATCTCTT
*
40105041 TGAAGTTGCAGTAGAGCAGATCAACACAATTCTTATCTCCC
1 TGAAGTTGCAGTAGAGCAGATAAACACAA-TCTTATCTCCC
* * * *
40105082 TGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTTCC
1 TGAAGTTGCAGTAGAGCAGA-T-AA-ACA-C-AATCTTATCTCCC
* * * *
40105127 TGAAGTTGCAGTGGAACAAATTGAAGCTATATACCACAGATCTCATCTCTC
1 TGAAGTTGCAGTAGAGC--A--G-A--TA-A-A-CACA-ATCTTATCTCCC
* * * *
40105178 TGAAGATGTAGTAGAGCAGATCAACACAAGTCTTATCTCTC
1 TGAAGTTGCAGTAGAGCAGATAAACACAA-TCTTATCTCCC
* * * * * *
40105219 TGAAGTTGCAGTGGAGCAGACTAAAGAAAGAAAATTTTATTTCAC
1 TGAAGTTGCAGTAGAGCAGA-T----AAACACAATCTTATCTCCC
* * *
40105264 TGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTC
1 TGAAGTTGCAGT-----AGA--GCAG--ATAAA-CACA-ATCTTATCTCCC
* *
40105315 TGAAGATGCAGTAGAGCAGATCAACACAAGTCTTATCTCCC
1 TGAAGTTGCAGTAGAGCAGATAAACACAA-TCTTATCTCCC
* * *
40105356 TGAAGTTGCAGTGGAGCAGACTAAAGAAAACAAGTCTTATTTCCC
1 TGAAGTTGCAGTAGAGCAGA-T--A-AACACAA-TCTTATCTCCC
* * *
40105401 TGAAGTCGCAGTGGAACAGAT
1 TGAAGTTGCAGTAGAGCAGAT
40105422 TGAAGCCATA
Statistics
Matches: 257, Mismatches: 47, Indels: 69
0.69 0.13 0.18
Matches are distributed among these distances:
40 2 0.01
41 81 0.32
42 8 0.03
43 2 0.01
44 7 0.03
45 81 0.32
46 11 0.04
47 2 0.01
49 5 0.02
50 7 0.03
51 45 0.18
52 4 0.02
53 1 0.00
54 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (40 bp):
TGAAGTTGCAGTAGAGCAGATAAACACAATCTTATCTCCC
Found at i:40106749 original size:24 final size:23
Alignment explanation
Indices: 40106692--40106751 Score: 59
Period size: 24 Copynumber: 2.6 Consensus size: 23
40106682 TTTCATTTAC
40106692 TTATTGTT-TATTATTATTAGAT
1 TTATTGTTATATTATTATTAGAT
* * * *
40106714 TAAGTTGATATATTGTTATTATAT
1 TTA-TTGTTATATTATTATTAGAT
40106738 ATTATTGTTATATT
1 -TTATTGTTATATT
40106752 CCTATTTATA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
22 2 0.07
23 4 0.14
24 21 0.72
25 2 0.07
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (23 bp):
TTATTGTTATATTATTATTAGAT
Found at i:40106945 original size:22 final size:23
Alignment explanation
Indices: 40106907--40106949 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
40106897 TTTATGTAAT
40106907 ATTATTAATAATTATTTTTAAAC
1 ATTATTAATAATTATTTTTAAAC
*
40106930 ATTATT-ATTATTATTTTTAA
1 ATTATTAATAATTATTTTTAA
40106950 TACGTGCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (23 bp):
ATTATTAATAATTATTTTTAAAC
Found at i:40107088 original size:3 final size:3
Alignment explanation
Indices: 40107075--40107171 Score: 92
Period size: 3 Copynumber: 32.7 Consensus size: 3
40107065 TGCTATTACC
* * *
40107075 ATT ACT ATT ATT ATT ATT ATT ATT ACTT A-T ATT ATT ATC ATT ATG
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
* * * *
40107120 ATTT ATT ACT -TT ATT ATT ATC ATT ATT ACT ACT ATT A-T ATT ATT
1 A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
40107164 ATT ATT AT
1 ATT ATT AT
40107172 ATTTTTACCC
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
2 5 0.06
3 67 0.87
4 5 0.06
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:40109441 original size:136 final size:137
Alignment explanation
Indices: 40109078--40109500 Score: 776
Period size: 137 Copynumber: 3.1 Consensus size: 137
40109068 TATTGGGCCT
**
40109078 AAGCCCATTCAGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
40109143 AGCCCCTTATTCAGATAACAGTATGACCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
40109208 CATATGC
131 CATATGC
* *
40109215 AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
40109280 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
40109344 CATATGC
131 CATATGC
*
40109351 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
40109416 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
40109481 CATATGC
131 CATATGC
40109488 AAGCCCATTTGGG
1 AAGCCCATTTGGG
40109501 GAGACTACTC
Statistics
Matches: 275, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
136 132 0.48
137 143 0.52
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:40109809 original size:26 final size:27
Alignment explanation
Indices: 40109765--40109840 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 27
40109755 TCAATTTAAC
* * *
40109765 CCTAGGGGTATTTCGGTAATTTTGC-A
1 CCTAGGGGTATTACAGTAATTTTCCAA
*
40109791 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATTACAGTAATTTTCCA-A
* *
40109819 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATTACAGTAATTT
40109841 AGCTGCTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (27 bp):
CCTAGGGGTATTACAGTAATTTTCCAA
Found at i:40111322 original size:26 final size:26
Alignment explanation
Indices: 40111286--40111421 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
40111276 CATGAAATTC
*
40111286 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
40111312 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
40111338 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
40111364 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
40111390 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
40111416 TTATCA
1 TTATCA
40111422 ATTTGTATCA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:40118212 original size:125 final size:125
Alignment explanation
Indices: 40117999--40118249 Score: 475
Period size: 125 Copynumber: 2.0 Consensus size: 125
40117989 TGATTTCATG
40117999 ACTGGTGGAGGTAGGAGCCTTAATCGGCTAGTGATGTTCCAGCATGATGTTGAGTTTGGGGGTTG
1 ACTGGTGGAGGTAGGAGCCTTAATCGGCTAGTGATGTTCCAGCATGATGTTGAGTTTGGGGGTTG
*
40118064 TAATACCATGGGAGTATTGATAAAATTGTTGATATGATTTGTACTGATAGGGATTTTGCT
66 TAATACCATGGGAGTATTGATAAAATTATTGATATGATTTGTACTGATAGGGATTTTGCT
* *
40118124 ACTGGTGGAGTTGGGAGCCTTAATCGGCTAGTGATGTTCCAGCATGATGTTGAGTTTGGGGGTTG
1 ACTGGTGGAGGTAGGAGCCTTAATCGGCTAGTGATGTTCCAGCATGATGTTGAGTTTGGGGGTTG
40118189 TAATACCATGGGAGTATTGATAAAATTATTGATATGATTTGTACTGATAGGGATTTTGCT
66 TAATACCATGGGAGTATTGATAAAATTATTGATATGATTTGTACTGATAGGGATTTTGCT
40118249 A
1 A
40118250 GTTTTAAGGT
Statistics
Matches: 123, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
125 123 1.00
ACGTcount: A:0.24, C:0.10, G:0.31, T:0.35
Consensus pattern (125 bp):
ACTGGTGGAGGTAGGAGCCTTAATCGGCTAGTGATGTTCCAGCATGATGTTGAGTTTGGGGGTTG
TAATACCATGGGAGTATTGATAAAATTATTGATATGATTTGTACTGATAGGGATTTTGCT
Found at i:40118284 original size:18 final size:18
Alignment explanation
Indices: 40118263--40118321 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
40118253 TTAAGGTTAG
40118263 GATTAGTCTAATTTTATT
1 GATTAGTCTAATTTTATT
* ** *
40118281 GATTGAGGTTTAAGGTTA-G
1 GATT-A-GTCTAATTTTATT
40118300 GATTAGTCTAATTTTATT
1 GATTAGTCTAATTTTATT
40118318 GATT
1 GATT
40118322 GAGGTTTTGG
Statistics
Matches: 30, Mismatches: 8, Indels: 6
0.68 0.18 0.14
Matches are distributed among these distances:
17 8 0.27
18 9 0.30
19 5 0.17
20 8 0.27
ACGTcount: A:0.27, C:0.03, G:0.20, T:0.49
Consensus pattern (18 bp):
GATTAGTCTAATTTTATT
Found at i:40118302 original size:37 final size:37
Alignment explanation
Indices: 40118252--40118328 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
40118242 TTTTGCTAGT
40118252 TTTAAGGTTAGGATTAGTCTAATTTTATTGATTGAGG
1 TTTAAGGTTAGGATTAGTCTAATTTTATTGATTGAGG
40118289 TTTAAGGTTAGGATTAGTCTAATTTTATTGATTGAGG
1 TTTAAGGTTAGGATTAGTCTAATTTTATTGATTGAGG
40118326 TTT
1 TTT
40118329 TGGTTGGCAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.26, C:0.03, G:0.23, T:0.48
Consensus pattern (37 bp):
TTTAAGGTTAGGATTAGTCTAATTTTATTGATTGAGG
Found at i:40121346 original size:26 final size:26
Alignment explanation
Indices: 40121317--40121400 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
40121307 TGATACAAAT
*
40121317 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
40121343 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
40121369 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGATTAGGTAAATGTTCCA
40121395 TGATAA
1 TGATAA
40121401 GAAATTCATG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:40128247 original size:137 final size:137
Alignment explanation
Indices: 40128001--40128287 Score: 538
Period size: 137 Copynumber: 2.1 Consensus size: 137
40127991 GAGTAGTCTC
40128001 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
40128066 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
*
40128131 ACTGTTA
131 ACTATTA
40128138 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
40128203 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCTAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
40128268 ACTATTA
131 ACTATTA
**
40128275 CCTGAATGGGCTT
1 CCCAAATGGGCTT
40128288 AGGCCCAATG
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 146 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTATTA
Found at i:40131404 original size:19 final size:19
Alignment explanation
Indices: 40131382--40131465 Score: 53
Period size: 19 Copynumber: 4.2 Consensus size: 19
40131372 AATAAGAAAT
40131382 ATAATAGATATAATATAAA
1 ATAATAGATATAATATAAA
* *
40131401 ATAATGGAAATAATATGTAAAA
1 ATAATAGATATAATA--T-AAA
* * *
40131423 ACAATATATATAAATAATTAA
1 ATAATAGATAT-AAT-ATAAA
*
40131444 ATAA-ATATATAATATAATA
1 ATAATAGATATAATATAA-A
40131463 ATA
1 ATA
40131466 TATAATAAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
18 3 0.06
19 20 0.40
20 6 0.12
21 6 0.12
22 11 0.22
23 3 0.06
24 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (19 bp):
ATAATAGATATAATATAAA
Found at i:40131446 original size:34 final size:38
Alignment explanation
Indices: 40131379--40131474 Score: 92
Period size: 35 Copynumber: 2.5 Consensus size: 38
40131369 GGAAATAAGA
* *
40131379 AATATAATAGATATAATATAAAATAATGGAAAT-AATATGT
1 AATATAACA-ATAT-ATAT-AAATAATGGAAATAAATATAT
*
40131419 AA-A-AACAATATATATAAATAAT-TAAATAAATATAT
1 AATATAACAATATATATAAATAATGGAAATAAATATAT
*
40131454 AATATAATAATATATAATAAA
1 AATATAACAATATAT-ATAAA
40131475 ATGATGTAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
34 4 0.08
35 15 0.31
36 5 0.10
37 13 0.27
38 8 0.17
39 1 0.02
40 2 0.04
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (38 bp):
AATATAACAATATATATAAATAATGGAAATAAATATAT
Found at i:40131467 original size:15 final size:15
Alignment explanation
Indices: 40131447--40131564 Score: 55
Period size: 15 Copynumber: 7.9 Consensus size: 15
40131437 TAATTAAATA
40131447 AATATATAATATAAT
1 AATATATAATATAAT
*
40131462 AATATATAATAAAAT
1 AATATATAATATAAT
* * * *
40131477 GATGTAAAATAAAAAT
1 AATATATAAT-ATAAT
* ** *
40131493 AATAAATTGTGAAAAAT
1 AATATATAAT--ATAAT
*
40131510 AAGATATAATA-AAT
1 AATATATAATATAAT
40131524 AATA-AT-ATAT-AT
1 AATATATAATATAAT
* * * *
40131536 AATAAATGATCTTAT
1 AATATATAATATAAT
40131551 AATATATAATATAA
1 AATATATAATATAA
40131565 AAGTAAGGTA
Statistics
Matches: 77, Mismatches: 20, Indels: 12
0.71 0.18 0.11
Matches are distributed among these distances:
12 9 0.12
13 4 0.05
14 9 0.12
15 34 0.44
16 9 0.12
17 12 0.16
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.34
Consensus pattern (15 bp):
AATATATAATATAAT
Found at i:40131523 original size:24 final size:24
Alignment explanation
Indices: 40131459--40131523 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
40131449 TATATAATAT
* *
40131459 AATAATATATAATAAAATGATGTAA
1 AATAA-ATATAATAAATTGATGAAA
*
40131484 AATAAAAATAATAAATTG-TGAAA
1 AATAAATATAATAAATTGATGAAA
40131507 AATAAGATATAATAAAT
1 AATAA-ATATAATAAAT
40131524 AATAATATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 9 0.26
24 21 0.60
25 5 0.14
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (24 bp):
AATAAATATAATAAATTGATGAAA
Found at i:40131551 original size:19 final size:20
Alignment explanation
Indices: 40131513--40131556 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
40131503 GAAAAATAAG
40131513 ATATAATAAATAATAATAT-
1 ATATAATAAATAATAATATA
* **
40131532 ATATAATAAATGATCTTATA
1 ATATAATAAATAATAATATA
40131552 ATATA
1 ATATA
40131557 TAATATAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
ATATAATAAATAATAATATA
Found at i:40131603 original size:15 final size:16
Alignment explanation
Indices: 40131574--40131613 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
40131564 AAAGTAAGGT
40131574 AAAAAATATCAATATAA
1 AAAAAATAT-AATATAA
*
40131591 AAAAAATAT-ATATAC
1 AAAAAATATAATATAA
40131606 AAAAAATA
1 AAAAAATA
40131614 AACATAGGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.59
17 9 0.41
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAAAATATAATATAA
Found at i:40133660 original size:205 final size:205
Alignment explanation
Indices: 40133191--40134255 Score: 1314
Period size: 205 Copynumber: 5.2 Consensus size: 205
40133181 CTACTTCTTT
*
40133191 GATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCATAAGCACGTGA
1 GATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGA
* * ** *
40133256 AAGCCAAATCAGCTATGTCTTCGACTTGTTCCTTGTAAGCACAAGGATGTCAAATCATCTTGGAT
66 AAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATACCAAACCATCTTGGAT
* * * *
40133321 CTTGCTTCAGTC-TAATCGTCTGAAGGTC-AGATCTGCTATGTATCTGCTCTCCATTGAAGTGGA
131 C-TGCTTCAG-CATAAACATCTGAAGG-CGAGATCTGCTATGTGTCTGCTCTCCATCGAAGTGGA
* *
40133384 GATGCCAGATTTT
193 GATGCCAGACTTC
* * * *
40133397 GATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATTTGTTTCAACGTAAGCACGTGA
1 GATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGA
*
40133462 AAGCCAAATTAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATACCAAACCATCTTGGAT
66 AAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATACCAAACCATCTTGGAT
* * * * **
40133527 CCGCTTCAGCATAAACATCCGAAGGCGAGATCTGCTATATGTCTGCCCTCTGTCGAAGTGGAGAT
131 CTGCTTCAGCATAAACATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCGAAGTGGAGAT
40133592 GCCAGACTTC
196 GCCAGACTTC
*
40133602 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGA
1 GATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGA
* * * * * *
40133667 AAACCAAATCAGCTATGTCTTCGACTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGTT
66 AAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATACCAAACCATCTTGGAT
* * * ** * * * *
40133732 CTTACTTCAGTC-TAATCGTCTGAAGGTTAGATCTACTATGTATCTGTTCTCCATTGAAGTGGAG
131 C-TGCTTCAG-CATAAACATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCGAAGTGGAG
* *
40133796 ATGCCAGATTTT
194 ATGCCAGACTTC
* * * *
40133808 GATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGTTTCAACGTAAACACGTGA
1 GATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGA
*
40133873 AAGCCAAATCAGCTATGTCTTCTATTTGTTCCTTGTAAACACAAGGATACCAAACCATCTTGGAT
66 AAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATACCAAACCATCTTGGAT
* * * * * *
40133938 CCGCTTCAGCATAAACATCCGAAGGCGAGATCTGCTATATGTCTGTTCTCTATCAAAGTGGAGAT
131 CTGCTTCAGCATAAACATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCGAAGTGGAGAT
40134003 GCCAGACTTC
196 GCCAGACTTC
* * * *
40134013 GATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGG
1 GATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGA
* * * * ** ** * * *
40134078 AAGCCAAATTAGCTATATCTTCGATCTGCTCCCCGCCGAATACGGAGAGATA--AGATCTGTCAT
66 AAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTG-TAAACAC-AAG-GATACCA-AAC---CAT
* * * *
40134141 CTAGGATCTGCTTCAGCATAAACATCTGAAGGTGCGATCTGCTATGTGTCTGC-CTTCCATCAAA
124 CTTGGATCTGCTTCAGCATAAACATCTGAAGGCGAGATCTGCTATGTGTCTGCTC-TCCATCGAA
*
40134205 GTGGAAATGCCAGACTTC
188 GTGGAGATGCCAGACTTC
*
40134223 GATTTGTTCTCTGACAATACAGAGACGACAAAT
1 GATTTGTTCTCTGACAATACAGAGATGACAAAT
40134256 TGTAGCACCC
Statistics
Matches: 743, Mismatches: 103, Indels: 22
0.86 0.12 0.03
Matches are distributed among these distances:
204 3 0.00
205 325 0.44
206 299 0.40
207 5 0.01
208 4 0.01
209 1 0.00
210 106 0.14
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (205 bp):
GATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGA
AAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATACCAAACCATCTTGGAT
CTGCTTCAGCATAAACATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCGAAGTGGAGAT
GCCAGACTTC
Found at i:40133953 original size:411 final size:411
Alignment explanation
Indices: 40133191--40134101 Score: 1597
Period size: 411 Copynumber: 2.2 Consensus size: 411
40133181 CTACTTCTTT
*
40133191 GATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCATAAGCACGTGA
1 GATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGA
*
40133256 AAGCCAAATCAGCTATGTCTTCGACTTGTTCCTTGTAAGCACAAGGATGTCAAATCATCTTGGAT
66 AAGCCAAATCAGCTATGTCTTCGACTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGAT
* *
40133321 CTTGCTTCAGTCTAATCGTCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGGAGA
131 CTTACTTCAGTCTAATCGTCTGAAGGTCAGATCTACTATGTATCTGCTCTCCATTGAAGTGGAGA
* * *
40133386 TGCCAGATTTTGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATTTGTTTCAACG
196 TGCCAGATTTTGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGTTTCAACG
* *
40133451 TAAGCACGTGAAAGCCAAATTAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATACCAAA
261 TAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATACCAAA
*
40133516 CCATCTTGGATCCGCTTCAGCATAAACATCCGAAGGCGAGATCTGCTATATGTCTGCCCTCTGTC
326 CCATCTTGGATCCGCTTCAGCATAAACATCCGAAGGCGAGATCTGCTATATGTCTGCCCTCTATC
*
40133581 GAAGTGGAGATGCCAGACTTC
391 AAAGTGGAGATGCCAGACTTC
*
40133602 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGA
1 GATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGA
* *
40133667 AAACCAAATCAGCTATGTCTTCGACTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGTT
66 AAGCCAAATCAGCTATGTCTTCGACTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGAT
* *
40133732 CTTACTTCAGTCTAATCGTCTGAAGGTTAGATCTACTATGTATCTGTTCTCCATTGAAGTGGAGA
131 CTTACTTCAGTCTAATCGTCTGAAGGTCAGATCTACTATGTATCTGCTCTCCATTGAAGTGGAGA
40133797 TGCCAGATTTTGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGTTTCAACG
196 TGCCAGATTTTGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGTTTCAACG
*
40133862 TAAACACGTGAAAGCCAAATCAGCTATGTCTTCTATTTGTTCCTTGTAAACACAAGGATACCAAA
261 TAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATACCAAA
**
40133927 CCATCTTGGATCCGCTTCAGCATAAACATCCGAAGGCGAGATCTGCTATATGTCTGTTCTCTATC
326 CCATCTTGGATCCGCTTCAGCATAAACATCCGAAGGCGAGATCTGCTATATGTCTGCCCTCTATC
40133992 AAAGTGGAGATGCCAGACTTC
391 AAAGTGGAGATGCCAGACTTC
* * * *
40134013 GATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGG
1 GATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGA
* *
40134078 AAGCCAAATTAGCTATATCTTCGA
66 AAGCCAAATCAGCTATGTCTTCGA
40134102 TCTGCTCCCC
Statistics
Matches: 473, Mismatches: 27, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
411 473 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (411 bp):
GATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGA
AAGCCAAATCAGCTATGTCTTCGACTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGAT
CTTACTTCAGTCTAATCGTCTGAAGGTCAGATCTACTATGTATCTGCTCTCCATTGAAGTGGAGA
TGCCAGATTTTGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGTTTCAACG
TAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATACCAAA
CCATCTTGGATCCGCTTCAGCATAAACATCCGAAGGCGAGATCTGCTATATGTCTGCCCTCTATC
AAAGTGGAGATGCCAGACTTC
Found at i:40135221 original size:136 final size:137
Alignment explanation
Indices: 40134977--40135262 Score: 520
Period size: 136 Copynumber: 2.1 Consensus size: 137
40134967 CATTGGGCCT
** * *
40134977 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
40135042 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
40135106 CATATGC
131 CATATGC
40135113 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
40135178 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
40135243 CATATGC
131 CATATGC
40135250 AAGCCCATTTGGG
1 AAGCCCATTTGGG
40135263 GAGACTACTC
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 122 0.85
137 22 0.15
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:40135547 original size:25 final size:26
Alignment explanation
Indices: 40135519--40135574 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
40135509 CATTTAGGTC
**
40135519 AATTTAAC-CCTAGGGGTATTTCAGT
1 AATTTAACACCTAGGGGTATAACAGT
**
40135544 AATTTTGCACCTAGGGGTATAACAGT
1 AATTTAACACCTAGGGGTATAACAGT
40135570 AATTT
1 AATTT
40135575 TCCATAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (26 bp):
AATTTAACACCTAGGGGTATAACAGT
Found at i:40137087 original size:26 final size:26
Alignment explanation
Indices: 40137051--40137186 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
40137041 CATGATATTC
40137051 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
40137077 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
40137103 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
40137129 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
40137155 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
40137181 TTATCA
1 TTATCA
40137187 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:40145660 original size:15 final size:15
Alignment explanation
Indices: 40145618--40145667 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
40145608 ATAACTTTGA
*
40145618 ATGCAAATG-ATGTG
1 ATGCAAATGCATGAG
40145632 ATG-AAATGCTATGAG
1 ATGCAAATGC-ATGAG
40145647 ATGCAAATGCATGA-
1 ATGCAAATGCATGAG
40145661 ATGCAAA
1 ATGCAAA
40145668 AAGAATATCG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 11 0.34
16 6 0.19
ACGTcount: A:0.42, C:0.10, G:0.24, T:0.24
Consensus pattern (15 bp):
ATGCAAATGCATGAG
Found at i:40146314 original size:13 final size:13
Alignment explanation
Indices: 40146281--40146315 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
40146271 AGGATACTTG
*
40146281 TGCCCTCTTGTAA
1 TGCCCTTTTGTAA
40146294 TGCCCTTTTGTAA
1 TGCCCTTTTGTAA
*
40146307 TGCTCTTTT
1 TGCCCTTTT
40146316 AGATCATCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.11, C:0.26, G:0.14, T:0.49
Consensus pattern (13 bp):
TGCCCTTTTGTAA
Found at i:40149910 original size:24 final size:25
Alignment explanation
Indices: 40149820--40149934 Score: 88
Period size: 24 Copynumber: 4.8 Consensus size: 25
40149810 TAAAAACAAT
40149820 ATATATAAATAAT-TA-AATAAATAT-
1 ATATA-AAATAATATATAATAAAT-TG
* *
40149844 ATAATATAATAATATATAATAAAATG
1 AT-ATAAAATAATATATAATAAATTG
40149870 ATATAAAATAATA-ATAATAAATTG
1 ATATAAAATAATATATAATAAATTG
*
40149894 -TGA-AAAATAAGATATAATAAA-T-
1 AT-ATAAAATAATATATAATAAATTG
40149916 A-ATAATAAT-ATATATAATA
1 ATATAA-AATAATATATAATA
40149935 CAATGATCTT
Statistics
Matches: 76, Mismatches: 6, Indels: 20
0.75 0.06 0.20
Matches are distributed among these distances:
21 1 0.01
22 11 0.14
23 13 0.17
24 27 0.36
25 16 0.21
26 8 0.11
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (25 bp):
ATATAAAATAATATATAATAAATTG
Found at i:40149959 original size:85 final size:83
Alignment explanation
Indices: 40149772--40149962 Score: 203
Period size: 85 Copynumber: 2.3 Consensus size: 83
40149762 GAAATAAGAA
*
40149772 ATATAATAGATATAATATAAAATAATGGAAGTAATATGTAAAAACAATATATATAAATAATTAAA
1 ATATAATA-ATATAATATAAAATAAT-GAAGTAATATGTAAAAACAAGATATATAAATAATTAAA
*
40149837 TAAATATATAATATAATAAT
64 TAAATATATAATACAATAAT
* * *
40149857 ATATAATAAAATGATATAAAATAAT-AA-TAATAAATTGTGAAAAATAAGATATAATAAATAA-T
1 ATATAATAATATAATATAAAATAATGAAGTAAT--A-TGT-AAAAACAAGATAT-ATAAATAATT
*
40149919 -AATAATATATATAATACAATGAT
61 AAATAA-ATATATAATACAATAAT
*
40149942 CTTATAAT-ATATAATATAAAA
1 -ATATAATAATATAATATAAAA
40149963 GTAAGGTAAA
Statistics
Matches: 90, Mismatches: 9, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
81 4 0.04
82 2 0.02
83 1 0.01
84 23 0.26
85 46 0.51
86 14 0.16
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (83 bp):
ATATAATAATATAATATAAAATAATGAAGTAATATGTAAAAACAAGATATATAAATAATTAAATA
AATATATAATACAATAAT
Found at i:40149989 original size:15 final size:15
Alignment explanation
Indices: 40149969--40150006 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
40149959 AAAAGTAAGG
40149969 TAAAAAATATCA-ATA
1 TAAAAAATAT-ATATA
40149984 TAAAAAATATATATA
1 TAAAAAATATATATA
40149999 TACAAAAA
1 TA-AAAAA
40150007 ATAAACATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.05
15 15 0.71
16 5 0.24
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAAATATATATA
Found at i:40152246 original size:11 final size:11
Alignment explanation
Indices: 40152230--40152279 Score: 55
Period size: 11 Copynumber: 4.3 Consensus size: 11
40152220 CATACTCATA
40152230 TTTTTTTGAAT
1 TTTTTTTGAAT
* *
40152241 TTTTTTCGTAT
1 TTTTTTTGAAT
40152252 TTTTTTTGAAACTT
1 TTTTTTTG-AA--T
40152266 TTTTTTTGAAT
1 TTTTTTTGAAT
40152277 TTT
1 TTT
40152280 ACTTGAGTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
11 20 0.62
12 1 0.03
13 2 0.06
14 9 0.28
ACGTcount: A:0.16, C:0.04, G:0.08, T:0.72
Consensus pattern (11 bp):
TTTTTTTGAAT
Found at i:40159818 original size:93 final size:93
Alignment explanation
Indices: 40159706--40159877 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
40159696 GCCCATAAGT
* *
40159706 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
40159771 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
40159799 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
40159864 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
40159878 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:40159873 original size:46 final size:46
Alignment explanation
Indices: 40159698--40159873 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
40159688 TGTAACCCGC
* * *
40159698 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
40159744 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
40159794 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
40159837 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
40159874 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:40162300 original size:30 final size:30
Alignment explanation
Indices: 40162256--40162344 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
40162246 CAAAGATAAC
40162256 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
40162285 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
40162315 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
40162345 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:40162304 original size:15 final size:15
Alignment explanation
Indices: 40162256--40162335 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
40162246 CAAAGATAAC
*
40162256 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
40162270 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
40162285 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
40162300 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
40162315 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
40162330 AAGAAA
1 AAGAAA
40162336 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:40162344 original size:15 final size:15
Alignment explanation
Indices: 40162267--40162344 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
40162257 AGAAAACCGA
40162267 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
40162282 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
40162296 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
40162311 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
40162327 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
40162342 ATA
1 ATA
40162345 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:40165407 original size:46 final size:48
Alignment explanation
Indices: 40165285--40165414 Score: 171
Period size: 46 Copynumber: 2.8 Consensus size: 48
40165275 TGTAACCCGC
*
40165285 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAG-T-CAT
* * *
40165335 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG-CAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTCAT
40165378 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
40165415 TGCCCAAATA
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
45 2 0.03
46 32 0.45
47 30 0.42
48 2 0.03
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (48 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTCAT
Found at i:40165433 original size:46 final size:45
Alignment explanation
Indices: 40165290--40165433 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 45
40165280 CCCGCCCATA
* *
40165290 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
40165338 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
40165383 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
40165429 AGTGA
1 AGTGA
40165434 CATGTCACTT
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.47
47 31 0.40
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:40166951 original size:25 final size:26
Alignment explanation
Indices: 40166857--40166965 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
40166847 TGATACAAAT
40166857 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
40166883 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
40166909 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
40166935 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
40166960 TGATAA
1 TGATAA
40166966 GAATTCATGT
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 24 0.31
26 54 0.69
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:40168495 original size:25 final size:25
Alignment explanation
Indices: 40168447--40168495 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
40168437 ACAGTTTTAC
40168447 CCCTAGGAGATAAATTACCGAAATA
1 CCCTAGGAGATAAATTACCGAAATA
* *
40168472 CCCTAGG-GTTAAATTGACCTAAAT
1 CCCTAGGAGATAAATT-ACCGAAAT
40168496 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
CCCTAGGAGATAAATTACCGAAATA
Found at i:40169006 original size:135 final size:135
Alignment explanation
Indices: 40168743--40169025 Score: 532
Period size: 135 Copynumber: 2.1 Consensus size: 135
40168733 GAGTAGTCTC
40168743 CCCAAATGGGCTTGCATATGTTATGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
1 CCCAAATGGGCTTGCATATGTTATGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
40168808 TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
66 TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
40168873 TGTTA
131 TGTTA
40168878 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTA-TGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
40168943 GTTATCTGAATAAGGGGCTAAGGCCCAGTTT-TTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
65 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
40169007 CTGTTA
130 CTGTTA
**
40169013 CCTGAATGGGCTT
1 CCCAAATGGGCTT
40169026 AGGCCCAATG
Statistics
Matches: 145, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
135 73 0.50
136 72 0.50
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (135 bp):
CCCAAATGGGCTTGCATATGTTATGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
TGTTA
Found at i:40170284 original size:12 final size:12
Alignment explanation
Indices: 40170267--40170297 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
40170257 ACTCGGGGAA
40170267 GAGGCCGTGGTC
1 GAGGCCGTGGTC
40170279 GAGGCCGTGGTC
1 GAGGCCGTGGTC
40170291 GAGGCCG
1 GAGGCCG
40170298 AGGTAGTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.10, C:0.26, G:0.52, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:40175255 original size:25 final size:26
Alignment explanation
Indices: 40175161--40175269 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
40175151 TGATACAAAT
40175161 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
40175187 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
40175213 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
40175239 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
40175264 TGATAA
1 TGATAA
40175270 GAAATTCATG
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 24 0.31
26 54 0.69
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:40176783 original size:26 final size:26
Alignment explanation
Indices: 40176754--40176806 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
40176744 TTTACAGTTT
40176754 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* * *
40176780 TACCCTTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
40176806 T
1 T
40176807 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:40177299 original size:137 final size:136
Alignment explanation
Indices: 40177054--40177339 Score: 500
Period size: 137 Copynumber: 2.1 Consensus size: 136
40177044 GAGTAGTCTC
*
40177054 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
*
40177119 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGAGCTCTGGCCCAGTACCA
40177184 CTGTTA
131 CTGTTA
* *
40177190 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCCTCC
1 CCCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
40177255 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTTTTGTAATCTGAAAAGAGCTCTGGCCCAGTACC
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGAGCTCTGGCCCAGTACC
40177320 ACTGTTA
130 ACTGTTA
**
40177327 CCTGAATGGGCTT
1 CCCAAATGGGCTT
40177340 AGGCCCAATA
Statistics
Matches: 142, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
136 20 0.14
137 122 0.86
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGAGCTCTGGCCCAGTACCA
CTGTTA
Found at i:40178364 original size:28 final size:28
Alignment explanation
Indices: 40178324--40178379 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
40178314 CATTCCAATG
40178324 TTTACGTATTGGAGAAGAACTAAATCTT
1 TTTACGTATTGGAGAAGAACTAAATCTT
40178352 TTTACGTATTGGAGAAGAACTAAATCTT
1 TTTACGTATTGGAGAAGAACTAAATCTT
40178380 GCTAAAAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36
Consensus pattern (28 bp):
TTTACGTATTGGAGAAGAACTAAATCTT
Found at i:40190065 original size:54 final size:54
Alignment explanation
Indices: 40189989--40190098 Score: 202
Period size: 54 Copynumber: 2.0 Consensus size: 54
40189979 TCCATTTCCT
40189989 AAGACTAAAAGCAGGCCCCTACCTTCTATGGGTAGAAAAACACAAGCTTCCTAA
1 AAGACTAAAAGCAGGCCCCTACCTTCTATGGGTAGAAAAACACAAGCTTCCTAA
* *
40190043 AAGACTAAAAGTAGGCCTCTACCTTCTATGGGTAGAAAAACACAAGCTTCCTAA
1 AAGACTAAAAGCAGGCCCCTACCTTCTATGGGTAGAAAAACACAAGCTTCCTAA
40190097 AA
1 AA
40190099 ATAACTTTTG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (54 bp):
AAGACTAAAAGCAGGCCCCTACCTTCTATGGGTAGAAAAACACAAGCTTCCTAA
Found at i:40194793 original size:30 final size:30
Alignment explanation
Indices: 40194754--40194820 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
40194744 CGTTCAAAAA
* *
40194754 CTTGAGAAGACCCGATATCT-AGTTCAGGAG
1 CTTGGGAAGACCCGATATCTCACTT-AGGAG
* *
40194784 CTTGGGAAGACTCGATATCTCACTTAGGAT
1 CTTGGGAAGACCCGATATCTCACTTAGGAG
40194814 CTTGGGA
1 CTTGGGA
40194821 TTGAGAAGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 29 0.91
31 3 0.09
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (30 bp):
CTTGGGAAGACCCGATATCTCACTTAGGAG
Found at i:40194867 original size:30 final size:30
Alignment explanation
Indices: 40194767--40194886 Score: 75
Period size: 30 Copynumber: 3.8 Consensus size: 30
40194757 GAGAAGACCC
* *
40194767 GATATCTAGTTCAGGAGCTTGGGAAGACTC
1 GATATCTACTTCAGGAGCTTGGGAAGACTA
* *
40194797 GATATCTCACTT-AGGATCTTGGGATTGAGAAGATAA
1 GATATCT-ACTTCAGGAGCTTGGGA---AG-A-CT-A
*
40194833 GATATCT-CATTCAGGAGCTTGGGAAGACTT
1 GATATCTAC-TTCAGGAGCTTGGGAAGACTA
* *
40194863 GATATCGT-GTTCAAGAGCTTGGGA
1 GATATC-TACTTCAGGAGCTTGGGA
40194887 TGGAGAAGAC
Statistics
Matches: 71, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
30 38 0.54
31 5 0.07
32 1 0.01
33 4 0.06
34 2 0.03
35 3 0.04
36 18 0.25
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.29
Consensus pattern (30 bp):
GATATCTACTTCAGGAGCTTGGGAAGACTA
Found at i:40194884 original size:66 final size:65
Alignment explanation
Indices: 40194767--40194925 Score: 169
Period size: 66 Copynumber: 2.4 Consensus size: 65
40194757 GAGAAGACCC
* * *
40194767 GATATCTAGTTCAGGAGCTTGGGAAGACTCGATATCTCACTTAGGATCTTGGGATTGAGAAGATA
1 GATATCTAGTTCAGGAGCTTGGGAAGACTCGATATCT-ACTTAAGAGCTTGGGATGGAGAAGATA
40194832 A
65 A
* *
40194833 GATATCTCA-TTCAGGAGCTTGGGAAGACTTGATATCGT-GTTCAAGAGCTTGGGATGGAGAAGA
1 GATATCT-AGTTCAGGAGCTTGGGAAGACTCGATATC-TACTT-AAGAGCTTGGGATGGAGAAGA
***
40194896 CCT
63 TAA
* * *
40194899 GATATCTTGTTTAGGAGTTTGGGAAGA
1 GATATCTAGTTCAGGAGCTTGGGAAGA
40194926 TCCGGTGTTT
Statistics
Matches: 78, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
65 2 0.03
66 74 0.95
67 2 0.03
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.30
Consensus pattern (65 bp):
GATATCTAGTTCAGGAGCTTGGGAAGACTCGATATCTACTTAAGAGCTTGGGATGGAGAAGATAA
Found at i:40200202 original size:131 final size:131
Alignment explanation
Indices: 40199964--40200205 Score: 344
Period size: 131 Copynumber: 1.8 Consensus size: 131
40199954 AAAATTCCTT
* * *
40199964 AAAACGAAGGCAATACTTGGTGTTTGATAATTCGAGAATCATGCCCTATCGTGCTGAGTTGTGAT
1 AAAACGAAGACAATACTCGGTGTTTGATAATTCGAGAATCATGCCCTAACGTGCTGAGTTGTGAT
* **
40200029 TTCTCATTTGTTTAAAACAATCGAATATTCCTTTAGGTTTTCACTCGTATTTATTAAAAACCTTC
66 TTCTCATTTGTTTAAAACAATCGAAGATTCCTTTAGAATTTCACTCGTATTTATTAAAAACCTTC
40200094 C
131 C
* * * * *
40200095 AAAACGAATACAATACTCGGTGTTTGATAATTCGGGAATCGTGCCCTAACGTGTTGGGTTGTGAT
1 AAAACGAAGACAATACTCGGTGTTTGATAATTCGAGAATCATGCCCTAACGTGCTGAGTTGTGAT
*
40200160 TTCTCGTTT-TTTCAAAACAATCGAAGATTCCTTT-GAAATTTCACTC
66 TTCTCATTTGTTT-AAAACAATCGAAGATTCCTTTAG-AATTTCACTC
40200206 ACGTTTTCTA
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
130 4 0.04
131 93 0.96
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (131 bp):
AAAACGAAGACAATACTCGGTGTTTGATAATTCGAGAATCATGCCCTAACGTGCTGAGTTGTGAT
TTCTCATTTGTTTAAAACAATCGAAGATTCCTTTAGAATTTCACTCGTATTTATTAAAAACCTTC
C
Found at i:40200218 original size:131 final size:131
Alignment explanation
Indices: 40199964--40200233 Score: 336
Period size: 131 Copynumber: 2.1 Consensus size: 131
40199954 AAAATTCCTT
* * *
40199964 AAAACGAAGGCAATACTTGGTGTTTGATAATTCGAGAATCATGCCCTATCGTGCTGAGTTGTGAT
1 AAAACGAAGACAATACTCGGTGTTTGATAATTCGAGAATCATGCCCTAACGTGCTGAGTTGTGAT
* ** *
40200029 TTCTCATTTGTTTAAAACAATCGAATATTCCTTTAGGTTTTCACTCGTATTTATTAAAAACCTTC
66 TTCTCATTTGTTTAAAACAATCGAAGATTCCTTTAGAATTTCACTCGTATTTACTAAAAACCTTC
40200094 C
131 C
* * * * *
40200095 AAAACGAATACAATACTCGGTGTTTGATAATTCGGGAATCGTGCCCTAACGTGTTGGGTTGTGAT
1 AAAACGAAGACAATACTCGGTGTTTGATAATTCGAGAATCATGCCCTAACGTGCTGAGTTGTGAT
*
40200160 TTCTCGTTT-TTTCAAAACAATCGAAGATTCCTTT-GAAATTTCACTCACGT-TTT-CTAAAAAC
66 TTCTCATTTGTTT-AAAACAATCGAAGATTCCTTTAG-AATTTCACT--CGTATTTACTAAAAA-
40200221 CCTT--
126 CCTTCC
40200225 AAAACGAAG
1 AAAACGAAG
40200234 GCGGTATTCG
Statistics
Matches: 120, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
130 12 0.10
131 98 0.82
132 7 0.06
133 3 0.03
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (131 bp):
AAAACGAAGACAATACTCGGTGTTTGATAATTCGAGAATCATGCCCTAACGTGCTGAGTTGTGAT
TTCTCATTTGTTTAAAACAATCGAAGATTCCTTTAGAATTTCACTCGTATTTACTAAAAACCTTC
C
Found at i:40205666 original size:63 final size:64
Alignment explanation
Indices: 40205516--40205702 Score: 277
Period size: 63 Copynumber: 2.9 Consensus size: 64
40205506 TCATTCATAA
* * * * * *
40205516 CACATCTAGTTAGGAGCATTTCATTCATGTCGATTATAACATTCTAATTATTTGAGATAAACAT
1 CACATCTAGTTAGGAACATTTGATTCATGTTGATCATAGCATTCTAATTATTTGACATAAACAT
*
40205580 CACATCTAGTTAGGAACATTTGATTCATTTTGATCATAGCATTCTAATTATTTGACA-AAACAT
1 CACATCTAGTTAGGAACATTTGATTCATGTTGATCATAGCATTCTAATTATTTGACATAAACAT
* * *
40205643 CACATCTAGTTAGGAACAATTGATTCATGTTAATCATAGCATTCTAATTATTTGGCATAA
1 CACATCTAGTTAGGAACATTTGATTCATGTTGATCATAGCATTCTAATTATTTGACATAA
40205703 GCATAGGCCT
Statistics
Matches: 111, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
63 59 0.53
64 52 0.47
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (64 bp):
CACATCTAGTTAGGAACATTTGATTCATGTTGATCATAGCATTCTAATTATTTGACATAAACAT
Found at i:40205958 original size:131 final size:131
Alignment explanation
Indices: 40205724--40206512 Score: 1191
Period size: 131 Copynumber: 6.0 Consensus size: 131
40205714 TGAAACAGAA
* * *
40205724 TGTAGATCTTATCTCCTTGAAGTTGCAGTGGGGCAAATTGAAGACGACGAATCTTGGCTTCCTGA
1 TGTAGATCTTGTCTCCCTGAAGTTGCAGTGGGGCAAATCGAAGACGACGAATCTTGGCTTCCTGA
* * *
40205789 AGATGCAGTGAAGCAGATTTAAGCAAGTCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGATGAAGA
66 AGATGCAGTGAAGCAGATTTAAGCTAGTCCTAGCTCCCTAAAATTGTAGTGGAGTAGGCTGAAGA
40205854 T
131 T
* * *
40205855 TGTAGATCTTGTCTCTCTGAAGTTGCAATGGGGCAAATCAAAGACGACGAATCTTGGCTTCCTGA
1 TGTAGATCTTGTCTCCCTGAAGTTGCAGTGGGGCAAATCGAAGACGACGAATCTTGGCTTCCTGA
* * *
40205920 AGTTGTAGTGAAGCAGATTTAAGCTAGTCCTAGCTCCCTAAAATTGTAGTGGAGTAGGCTGAATA
66 AGATGCAGTGAAGCAGATTTAAGCTAGTCCTAGCTCCCTAAAATTGTAGTGGAGTAGGCTGAAGA
40205985 T
131 T
* *
40205986 TGTAGATCTTGTCTCTCTGAAGTTGCAGTGGGGCAAATCGAAGATGACGAATCTTGGCTTCCTGA
1 TGTAGATCTTGTCTCCCTGAAGTTGCAGTGGGGCAAATCGAAGACGACGAATCTTGGCTTCCTGA
* * * * *
40206051 AGTTGCAGTGAAGCAGATTTAAGCTAGTCTTAGCTCCCTAAAATTGTAGTGGAATAGGCTAAATA
66 AGATGCAGTGAAGCAGATTTAAGCTAGTCCTAGCTCCCTAAAATTGTAGTGGAGTAGGCTGAAGA
40206116 T
131 T
* * * *
40206117 TGTAGATCTTGTCTCCCTGAAGTTACAGTGGGGCAAATTGAAGATGATGAATCTTGGCTTCCTGA
1 TGTAGATCTTGTCTCCCTGAAGTTGCAGTGGGGCAAATCGAAGACGACGAATCTTGGCTTCCTGA
* *
40206182 AGATGCAGTGAAGCAGATTTAAACTAGTCCTAGCTCCCTAAAATTGTAGTGGAGTAGGCTGAATA
66 AGATGCAGTGAAGCAGATTTAAGCTAGTCCTAGCTCCCTAAAATTGTAGTGGAGTAGGCTGAAGA
40206247 T
131 T
* * * *
40206248 TGTAGATCTTGTCTCCCTGAAGTTACAGTGGGGCAAATCGAAAATGACGAATCTTGGCTTCCTAA
1 TGTAGATCTTGTCTCCCTGAAGTTGCAGTGGGGCAAATCGAAGACGACGAATCTTGGCTTCCTGA
* * * **
40206313 AGATGCAGTGAAGCAGATTTAAGCAAGTCCTAGTTCCCTAAAGTTGTAGTGGAGTAGGCCAAAGA
66 AGATGCAGTGAAGCAGATTTAAGCTAGTCCTAGCTCCCTAAAATTGTAGTGGAGTAGGCTGAAGA
40206378 T
131 T
*
40206379 TGTAGATCTTGTCTCCCTGAAGTTGCAGTGGGGCAAATCGAAGACGACAAATCTTGGCTTCCTGA
1 TGTAGATCTTGTCTCCCTGAAGTTGCAGTGGGGCAAATCGAAGACGACGAATCTTGGCTTCCTGA
* * * * **
40206444 AGTTGTAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAATGTTGTAGTGGAGTAGGCTGAA
66 AGATGCAGTGAAGCAGATTTAAGCTA--GTCCTAGCTCCCTAAAATTGTAGTGGAGTAGGCTGAA
40206509 GAT
129 GAT
40206512 T
1 T
40206513 ACAGACCTTG
Statistics
Matches: 604, Mismatches: 52, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
131 568 0.94
133 36 0.06
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (131 bp):
TGTAGATCTTGTCTCCCTGAAGTTGCAGTGGGGCAAATCGAAGACGACGAATCTTGGCTTCCTGA
AGATGCAGTGAAGCAGATTTAAGCTAGTCCTAGCTCCCTAAAATTGTAGTGGAGTAGGCTGAAGA
T
Found at i:40208815 original size:28 final size:26
Alignment explanation
Indices: 40208763--40208817 Score: 65
Period size: 30 Copynumber: 1.9 Consensus size: 26
40208753 TTTTATGTAT
40208763 TTTCCTTTAAATCTATTTCATTATACA
1 TTTCCTTTAAATCTATTTCA-TATACA
40208790 TTTCCTTTTAAATCAATATTTCTATATA
1 TTTCC-TTTAAATC--TATTTC-ATATA
40208818 TATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 5 0.21
28 8 0.33
30 10 0.42
31 1 0.04
ACGTcount: A:0.31, C:0.16, G:0.00, T:0.53
Consensus pattern (26 bp):
TTTCCTTTAAATCTATTTCATATACA
Found at i:40209699 original size:131 final size:131
Alignment explanation
Indices: 40209548--40209788 Score: 335
Period size: 131 Copynumber: 1.8 Consensus size: 131
40209538 GTTTCACAAC
* * *
40209548 TATTAAAAATTCTTTCAAACGAAGGCAATACTTGGTGTTTGATAATTCGAGAATCATGCCCT-AT
1 TATTAAAAATCCTTTCAAACGAAGACAATACTCGGTGTTTGATAATTCGAGAATCATGCCCTAAT
*
40209612 CGTGCTGAGTTGTGATTTCTCAGTTGTT-CAAAACAACCGAATATTCCTTTAGGTTTTCACTCGT
66 -GTGCTGAGTTGTGATTTCTCA-TTGTTCCAAAACAACCGAAGATTCCTTTAGGTTTTCACTCGT
40209676 GTT
129 GTT
* * *
40209679 TATTAAAAA-CCTTTCAAAACGAATACAATACTCGGTGTTTGATAATTCGGGAATCGTGCCCTAA
1 TATTAAAAATCCTTTC-AAACGAAGACAATACTCGGTGTTTGATAATTCGAGAATCATGCCCTAA
* * * *
40209743 TGTGTTGGGTTGTGATTTCTCATTTTTCCAAAACAATCGAAGATTC
65 TGTGCTGAGTTGTGATTTCTCATTGTTCCAAAACAACCGAAGATTC
40209789 TTTCAAAATT
Statistics
Matches: 96, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
130 9 0.09
131 85 0.89
132 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (131 bp):
TATTAAAAATCCTTTCAAACGAAGACAATACTCGGTGTTTGATAATTCGAGAATCATGCCCTAAT
GTGCTGAGTTGTGATTTCTCATTGTTCCAAAACAACCGAAGATTCCTTTAGGTTTTCACTCGTGT
T
Found at i:40209801 original size:131 final size:130
Alignment explanation
Indices: 40209548--40209820 Score: 329
Period size: 131 Copynumber: 2.1 Consensus size: 130
40209538 GTTTCACAAC
* * *
40209548 TATTAAAAATTCTTTCAAACGAAGGCAATACTTGGTGTTTGATAATTCGAGAATCATGCCCTATC
1 TATTAAAAA-CCTTTCAAACGAAGACAATACTCGGTGTTTGATAATTCGAGAATCATGCCCTATC
* *** *
40209613 GTGCTGAGTTGTGATTTCTCAGTTGTTCAAAACAACCGAATATTCCTTTAGGTTTTCACTCGTGT
65 GTGCTGAGTTGTGATTTCTCAGTTGTTCAAAACAACCGAAGATTCCTTTAAAATTTCACTCATGT
40209678 T
130 T
* * *
40209679 TATTAAAAACCTTTCAAAACGAATACAATACTCGGTGTTTGATAATTCGGGAATCGTGCCCTAAT
1 TATTAAAAACCTTTC-AAACGAAGACAATACTCGGTGTTTGATAATTCGAGAATCATGCCCT-AT
* * * *
40209744 -GTGTTGGGTTGTGATTTCTCA-TTTTTCCAAAACAATCGAAGATT-CTTTCAAAATTTCACTCA
64 CGTGCTGAGTTGTGATTTCTCAGTTGTT-CAAAACAACCGAAGATTCCTTT-AAAATTTCACTCA
40209806 TGTT
127 TGTT
40209810 T-TCTAAAAACC
1 TAT-TAAAAACC
40209821 CTTGAAAATG
Statistics
Matches: 122, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
130 14 0.11
131 106 0.87
132 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.37
Consensus pattern (130 bp):
TATTAAAAACCTTTCAAACGAAGACAATACTCGGTGTTTGATAATTCGAGAATCATGCCCTATCG
TGCTGAGTTGTGATTTCTCAGTTGTTCAAAACAACCGAAGATTCCTTTAAAATTTCACTCATGTT
Found at i:40209857 original size:131 final size:131
Alignment explanation
Indices: 40209564--40209881 Score: 286
Period size: 131 Copynumber: 2.4 Consensus size: 131
40209554 AAATTCTTTC
* * * * *
40209564 AAACGAAGGCAATACTTGGTGTTTGATAATTCGAGAATCATGCCCTATCGTGCTGAGTTGTGATT
1 AAACGAAGACAATACTCGATGCTTGACAATTCGAGAATCATGCCCTATCGTGCTGAGTTGTGATT
* *** * *
40209629 TCTCAGTTGTTCAAAACAACCGAATATTCCTTTAGGTTTTCACTCGTGTTTATTAAAAACCTTTC
66 TCTCAGTTGTTCAAAACAACCGAAGATTCCTTTAAAATTTCACTCATGTTTATTAAAAACCCTTC
40209694 A
131 A
* * * * * * * *
40209695 AAACGAATACAATACTCGGTGTTTGATAATTCGGGAATCGTGCCCTAAT-GTGTTGGGTTGTGAT
1 AAACGAAGACAATACTCGATGCTTGACAATTCGAGAATCATGCCCT-ATCGTGCTGAGTTGTGAT
* *
40209759 TTCTCA-TTTTTCCAAAACAATCGAAGATT-CTTTCAAAATTTCACTCATGTTT-TCTAAAAACC
65 TTCTCAGTTGTT-CAAAACAACCGAAGATTCCTTT-AAAATTTCACTCATGTTTAT-TAAAAACC
*
40209821 CTTGA
127 CTTCA
* * * * * * *
40209826 AAATGAAGGCGATATTCGATGCTTGGCAATTCAAGGAAT-AGTACCCTATCGTGCTG
1 AAACGAAGACAATACTCGATGCTTGACAATTCGA-GAATCA-TGCCCTATCGTGCTG
40209882 GGTTACAATT
Statistics
Matches: 150, Mismatches: 30, Indels: 13
0.78 0.16 0.07
Matches are distributed among these distances:
130 9 0.06
131 125 0.83
132 16 0.11
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (131 bp):
AAACGAAGACAATACTCGATGCTTGACAATTCGAGAATCATGCCCTATCGTGCTGAGTTGTGATT
TCTCAGTTGTTCAAAACAACCGAAGATTCCTTTAAAATTTCACTCATGTTTATTAAAAACCCTTC
A
Found at i:40212202 original size:23 final size:21
Alignment explanation
Indices: 40212171--40212249 Score: 59
Period size: 23 Copynumber: 3.4 Consensus size: 21
40212161 CGGGTCACTG
*
40212171 AAAAACTAATCTAAATATAACTT
1 AAAATCTAATCT-AATA-AACTT
* *
40212194 AAAATCTAAATTTACTAATACTT
1 AAAATCT-AATCTAATAA-ACTT
40212217 AAAAAATCTAATTCTAATAAAACTT
1 --AAAATCTAA-TCTAAT-AAACTT
40212242 AAAATCTA
1 AAAATCTA
40212250 TTTTTTTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
22 1 0.02
23 21 0.47
24 6 0.13
25 15 0.33
26 2 0.04
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATCTAATCTAATAAACTT
Found at i:40212226 original size:25 final size:25
Alignment explanation
Indices: 40212171--40212245 Score: 70
Period size: 25 Copynumber: 3.1 Consensus size: 25
40212161 CGGGTCACTG
*
40212171 AAAAA-CTAA-TCTAAATATAACTT-
1 AAAAATCTAATTCT-AATAAAACTTA
* *
40212194 -AAAATCTAAATT-TACTAATACTTA
1 AAAAATCT-AATTCTAATAAAACTTA
40212218 AAAAATCTAATTCTAATAAAACTTA
1 AAAAATCTAATTCTAATAAAACTTA
40212243 AAA
1 AAA
40212246 TCTATTTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
22 4 0.10
23 9 0.22
24 7 0.17
25 21 0.51
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (25 bp):
AAAAATCTAATTCTAATAAAACTTA
Found at i:40212756 original size:21 final size:21
Alignment explanation
Indices: 40212730--40212769 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
40212720 TATGTGCATA
*
40212730 GTGTCGCGACATGAGCTTGTT
1 GTGTCGCGACATCAGCTTGTT
*
40212751 GTGTCGCGATATCAGCTTG
1 GTGTCGCGACATCAGCTTG
40212770 ATTTCAGCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.20, G:0.33, T:0.33
Consensus pattern (21 bp):
GTGTCGCGACATCAGCTTGTT
Found at i:40216531 original size:5 final size:5
Alignment explanation
Indices: 40216523--40216589 Score: 75
Period size: 5 Copynumber: 13.0 Consensus size: 5
40216513 TAACTAATTT
*
40216523 AATAA AATAA AATAA AATAA AATAA ATTGAA AAT-A AATAAA AATAA AA-ATA
1 AATAA AATAA AATAA AATAA AATAA AAT-AA AATAA AAT-AA AATAA AATA-A
40216574 AATAAA AATAA AATAA
1 AAT-AA AATAA AATAA
40216590 TGTCTTCCTA
Statistics
Matches: 54, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
4 5 0.09
5 36 0.67
6 12 0.22
7 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:40216543 original size:15 final size:16
Alignment explanation
Indices: 40216523--40216589 Score: 79
Period size: 16 Copynumber: 4.3 Consensus size: 16
40216513 TAACTAATTT
40216523 AATAAAAT-AAAATAA
1 AATAAAATAAAAATAA
*
40216538 AATAAAAT-AAATTGAA
1 AATAAAATAAAAAT-AA
40216554 AAT-AAATAAAAATAA
1 AATAAAATAAAAATAA
40216569 AA-ATAAATAAAAATAA
1 AATA-AAATAAAAATAA
40216585 AATAA
1 AATAA
40216590 TGTCTTCCTA
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
15 20 0.44
16 24 0.53
17 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.21
Consensus pattern (16 bp):
AATAAAATAAAAATAA
Found at i:40219967 original size:24 final size:24
Alignment explanation
Indices: 40219914--40219969 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
40219904 TTATTTTTTG
*
40219914 TTGGGTTATTGGGTAATGGGATTAT
1 TTGGG-TATGGGGTAATGGGATTAT
40219939 TTGGGTATGGGGT-ATGGG-TTAAT
1 TTGGGTATGGGGTAATGGGATT-AT
40219962 TGTGGGTA
1 T-TGGGTA
40219970 ATGTGGTTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 2 0.07
23 8 0.29
24 13 0.46
25 5 0.18
ACGTcount: A:0.18, C:0.00, G:0.41, T:0.41
Consensus pattern (24 bp):
TTGGGTATGGGGTAATGGGATTAT
Found at i:40226939 original size:11 final size:11
Alignment explanation
Indices: 40226923--40226952 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
40226913 TAACATTAAG
40226923 AATATATATAT
1 AATATATATAT
*
40226934 AATATAAATAT
1 AATATATATAT
40226945 AATATATA
1 AATATATA
40226953 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:40227815 original size:14 final size:14
Alignment explanation
Indices: 40227798--40227830 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
40227788 TTGGGGTAAG
40227798 TTTTTCTTT-TTCTT
1 TTTTTCTTTGTT-TT
40227812 TTTTTCTTTGTTTT
1 TTTTTCTTTGTTTT
40227826 TTTTT
1 TTTTT
40227831 TGGGTTAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.89
15 2 0.11
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (14 bp):
TTTTTCTTTGTTTT
Found at i:40228872 original size:74 final size:74
Alignment explanation
Indices: 40228766--40229044 Score: 368
Period size: 74 Copynumber: 3.8 Consensus size: 74
40228756 AAGATAGAAT
* * * * *
40228766 TTGAAAATACCTTAGTGTGCCGCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTAGATT
1 TTGAAATTACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATT
40228831 TAATGGGAA
66 TAATGGGAA
* *
40228840 TTGAAATTACCTCAGCGTGCCCCAAGGTTCAACTCACTTCTCGCAATATGAGTTGATTTTAGATT
1 TTGAAATTACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATT
40228905 TAATGGGAA
66 TAATGGGAA
* * *
40228914 TTGAAATTACCTCAGCGTGCCCCAAGGTTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA--
1 TTGAAATTACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATT
*
40228977 AACAT--GAA
66 TA-ATGGGAA
* * * ***
40228985 TTGAAATTACCCCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 TTGAAATTACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
40229045 CTTGGAAACA
Statistics
Matches: 187, Mismatches: 17, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
71 55 0.29
72 1 0.01
73 2 0.01
74 129 0.69
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (74 bp):
TTGAAATTACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATT
TAATGGGAA
Found at i:40229027 original size:71 final size:72
Alignment explanation
Indices: 40228721--40229044 Score: 345
Period size: 74 Copynumber: 4.5 Consensus size: 72
40228711 AATTAAAAGA
* * * * *
40228721 CTCAACTCACCTCTCGTAATATGAATTGACTCTTTAAGAT--A--GAATTTGAAAATACCTTAGT
1 CTCAACTCACCTCTCGCAATATGAGTTGA-T-TTT-AGATAAATGGAA-TTGAAATTACCTCAGC
*
40228782 GTGCCGCAAGG
62 GTGCCCCAAGG
* *
40228793 CTCAACTCACCTCTCGCAATATGAGTCGATTTTAGATTTAATGGGAATTGAAATTACCTCAGCGT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTAGA-TAAAT-GGAATTGAAATTACCTCAGCGT
40228858 GCCCCAAGG
64 GCCCCAAGG
* * *
40228867 TTCAACTCACTTCTCGCAATATGAGTTGATTTTAGATTTAATGGGAATTGAAATTACCTCAGCGT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTAGA-TAAAT-GGAATTGAAATTACCTCAGCGT
40228932 GCCCCAAGG
64 GCCCCAAGG
* * * * *
40228941 TTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA-AACAT-GAATTGAAATTACCCCAACGTG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATAA-ATGGAATTGAAATTACCTCAGCGTG
* ***
40229004 TCTTGAGG
65 CCCCAAGG
40229012 CTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTT
40229045 CTTGGAAACA
Statistics
Matches: 225, Mismatches: 20, Indels: 15
0.87 0.08 0.06
Matches are distributed among these distances:
69 3 0.01
70 4 0.02
71 56 0.25
72 28 0.12
73 2 0.01
74 129 0.57
75 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (72 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATAAATGGAATTGAAATTACCTCAGCGTGC
CCCAAGG
Found at i:40229186 original size:71 final size:71
Alignment explanation
Indices: 40229070--40229203 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
40229060 TAAAAAGCAG
* * *
40229070 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCCCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
40229135 AAACAT
66 AAACAT
* * *
40229141 AAATTGAAATTACCCCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCCCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
40229204 CTTGGAAACA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (71 bp):
AAATTGAAAATACCCCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAACAT
Found at i:40229201 original size:159 final size:160
Alignment explanation
Indices: 40228912--40229612 Score: 1237
Period size: 159 Copynumber: 4.4 Consensus size: 160
40228902 ATTTAATGGG
* ** *
40228912 AATTGAAATTACCTCAGCGTGCCCCAAGGTTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
* *
40228977 AACATGAATTGAAATTACCCCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
66 AACATAAATTGAAATTACCCCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
40229042 TTTCTTGG-AAACATGAACTAAAAAGCAGA
131 TTTCTTGGAAAACATGAACTAAAAAGCAGA
40229071 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
*
40229136 AACATAAATTGAAATTACCCCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
66 AACATAAATTGAAATTACCCCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
40229201 TTTCTTGG-AAACATGAACTAAAAAGCAGA
131 TTTCTTGGAAAACATGAACTAAAAAGCAGA
40229230 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
*
40229295 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCCCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
* *
40229360 TTTCTTGGAAAACATGAATTAAAAAGTAGA
131 TTTCTTGGAAAACATGAACTAAAAAGCAGA
* * *
40229390 AATTGAAAATACCTCAGCGTGCCC-GAGGCTCAACTCACCTCTCGCAATATGAGCTGCTTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
*
40229454 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCCCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
*
40229519 TTTCTTGGAAAACATGAATTAAAAAGCAGA
131 TTTCTTGGAAAACATGAACTAAAAAGCAGA
*
40229549 AATTGGAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
40229613 GAAAAAAACA
Statistics
Matches: 523, Mismatches: 17, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
159 444 0.85
160 79 0.15
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (160 bp):
AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
AACATAAATTGAAATTACCCCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TTTCTTGGAAAACATGAACTAAAAAGCAGA
Found at i:40229345 original size:71 final size:71
Alignment explanation
Indices: 40229229--40229521 Score: 244
Period size: 71 Copynumber: 3.9 Consensus size: 71
40229219 TAAAAAGCAG
* * * * *
40229229 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
40229294 AAACAT
66 AAACAT
*
40229300 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCT
1 AAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTT-T
40229365 TGGAAAACAT
64 T-G-AAACAT
* * * ** * ** * * * * *
40229375 GAATTAAAAAGTAGAAATTGAAAATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTCGCAATAT
1 AAATT-GAAA-T--TACCTCAACGTGCCT-TGAG-GCTC-A---AC---TCACCTCTCGCAATAT
*
40229440 GAGCTGCTTTTTGAAACAT
53 GAGCTGATTTTTGAAACAT
*
40229459 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
40229522 CTTGGAAAAC
Statistics
Matches: 169, Mismatches: 36, Indels: 34
0.71 0.15 0.14
Matches are distributed among these distances:
71 79 0.47
72 3 0.02
73 2 0.01
74 2 0.01
75 10 0.06
76 3 0.02
77 2 0.01
78 3 0.02
79 9 0.05
80 9 0.05
81 3 0.02
82 2 0.01
83 3 0.02
84 10 0.06
85 2 0.01
86 2 0.01
87 3 0.02
88 22 0.13
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (71 bp):
AAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
AAACAT
Found at i:40243045 original size:22 final size:20
Alignment explanation
Indices: 40243017--40243056 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
40243007 GTTAAGTGGC
40243017 TAGGTTTTTTTATCTTTTTTGT
1 TAGG-TTTTTT-TCTTTTTTGT
40243039 TAGGTTTTTTTCTTTTTT
1 TAGGTTTTTTTCTTTTTT
40243057 CTTCTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 6 0.33
22 4 0.22
ACGTcount: A:0.07, C:0.05, G:0.12, T:0.75
Consensus pattern (20 bp):
TAGGTTTTTTTCTTTTTTGT
Found at i:40243106 original size:18 final size:18
Alignment explanation
Indices: 40243062--40243106 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
40243052 TTTTTCTTCT
*
40243062 TTTTTTTTTGGGGGTTAG
1 TTTTTTTTTGGGGGTAAG
*
40243080 GTTTTTTTT-GGGGTAAG
1 TTTTTTTTTGGGGGTAAG
40243097 TTTTTCTTTT
1 TTTTT-TTTT
40243107 TCTTTTTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.07, C:0.02, G:0.27, T:0.64
Consensus pattern (18 bp):
TTTTTTTTTGGGGGTAAG
Found at i:40243114 original size:14 final size:14
Alignment explanation
Indices: 40243097--40243129 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
40243087 TTGGGGTAAG
40243097 TTTTTCTTT-TTCTT
1 TTTTTCTTTGTT-TT
40243111 TTTTTCTTTGTTTT
1 TTTTTCTTTGTTTT
40243125 TTTTT
1 TTTTT
40243130 TGGGGTTAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.89
15 2 0.11
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (14 bp):
TTTTTCTTTGTTTT
Found at i:40255984 original size:208 final size:209
Alignment explanation
Indices: 40255486--40256207 Score: 1028
Period size: 207 Copynumber: 3.5 Consensus size: 209
40255476 TAGGCCACAG
* * *
40255486 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
1 CATAGCAGATCTGACCTTCAGATGTTTATACTGAAACAAGATCCAAGATGATTTGGCATCCTTGT
*
40255551 GCTTACAAGGAACAAATCGAAGACATAACTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATC
66 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATC
* * * *
40255616 TAAGATAATTTGGCATCT-T-TGTATTGTCAGAGAACAAATCAAAGCCTCGCGTCTCCATATTCG
131 TAAGATGATTTGGCATCTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCGTCTCCATATTCG
* *
40255679 ACAGAGAGCAGACA
196 ACGGGGAGCAGACA
* * *
40255693 CATAGCAGATTTGGCCTTCAGATGTTTATACT-AAAGCAAGATCCAAGGTGATTTGGCATCCTTG
1 CATAGCAGATCTGACCTTCAGATGTTTATACTGAAA-CAAGATCCAAGATGATTTGGCATCCTTG
*
40255757 TGCTTACAAGGACCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAAT
65 TGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAAT
* * * *
40255822 CTAAGATGATTTGGCATCTCTCTATATTGTCAGAGAACAAATTGAAGTCTGGCATCTCCA-CTTC
130 CTAAGATGATTTGGCATCTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCGTCTCCATATTC
* *
40255886 AACGGGGAGCAGATA
195 GACGGGGAGCAGACA
* ** ** *
40255901 CATAGCAGATCTCACCTTCAGATAATTCCACTGAAACAAGATCCAAGATGATTTGGCATTCTTGT
1 CATAGCAGATCTGACCTTCAGATGTTTATACTGAAACAAGATCCAAGATGATTTGGCATCCTTGT
* *
40255966 GCTTACAAGGAACAAATCGAAGACATAGTTGATTTGGCTTTCACGTGTTTACGCTGAAGCAAATC
66 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATC
* *
40256031 TAAGATGATTTGGCA--TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGGGTCTCCATATTCG
131 TAAGATGATTTGGCATCTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCGTCTCCATATTCG
40256094 ACGGAGG-GCAGACA
196 ACGG-GGAGCAGACA
* * ** *
40256108 CATAGCAGTTCTAACCTTCAGATGTTTATACTG-AAGTAGATCCAAGATGATTTGGCATTCTTGT
1 CATAGCAGATCTGACCTTCAGATGTTTATACTGAAACAAGATCCAAGATGATTTGGCATCCTTGT
* * *
40256172 GTTTACAAGGAACAAATCGAGGACATAGCAGATTTG
66 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTG
40256208 ACTCTCGGAT
Statistics
Matches: 459, Mismatches: 50, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
206 100 0.22
207 178 0.39
208 146 0.32
209 35 0.08
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (209 bp):
CATAGCAGATCTGACCTTCAGATGTTTATACTGAAACAAGATCCAAGATGATTTGGCATCCTTGT
GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATC
TAAGATGATTTGGCATCTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCGTCTCCATATTCG
ACGGGGAGCAGACA
Found at i:40258187 original size:31 final size:31
Alignment explanation
Indices: 40258116--40258187 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 31
40258106 TTTATTTCAC
40258116 TATATTTATCTATTATATTATTATACATTTT
1 TATATTTATCTATTATATTATTATACATTTT
* *
40258147 TAATCTTTATC-A-TATATTAATTATATATTATT
1 T-ATATTTATCTATTATATT-ATTATACATT-TT
40258179 TATATTTAT
1 TATATTTAT
40258188 ATTATTGTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
30 6 0.17
31 18 0.51
32 11 0.31
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.60
Consensus pattern (31 bp):
TATATTTATCTATTATATTATTATACATTTT
Found at i:40258245 original size:9 final size:9
Alignment explanation
Indices: 40258222--40258262 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
40258212 TTTCATATAT
*
40258222 TATTAGTTA
1 TATTATTTA
40258231 TATTATTTA
1 TATTATTTA
40258240 TATTATTGTA
1 TATTATT-TA
40258250 TATT-TTTA
1 TATTATTTA
40258258 T-TTAT
1 TATTAT
40258263 AAATTTAGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
7 2 0.07
8 4 0.14
9 17 0.59
10 6 0.21
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (9 bp):
TATTATTTA
Found at i:40262312 original size:6 final size:5
Alignment explanation
Indices: 40262279--40262320 Score: 66
Period size: 5 Copynumber: 8.0 Consensus size: 5
40262269 TAAATAATTT
40262279 AATAA AATAA AATAA AATAA AATGAA AATAAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AAT-AA AAT-AA AATAA AATAA
40262321 TATCTTCCTA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
5 25 0.71
6 10 0.29
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:40274932 original size:38 final size:38
Alignment explanation
Indices: 40274885--40275190 Score: 312
Period size: 38 Copynumber: 8.1 Consensus size: 38
40274875 AATCTAATGC
* * *
40274885 TATTTGGGCTATGTGCCTAGTAGGCTGTGTGCCGGTGA
1 TATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGA
**
40274923 TATTCGGGCTGAT-TGCCTAGCAGGCTTTGTGCTAGTGA
1 TATTCGGGCT-ATGTGCCTAGCAGGCTTTGTGCCGGTGA
* ** *
40274961 TATTCGGGCT-TGTGCCTAGAAAACTTTGTGCCGATGA
1 TATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGA
* * *
40274998 TATTCGGGCTGTGTGCCTAGCAGGCTTTGTACCGGAGA
1 TATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGA
* **
40275036 TATTCGGGCTGTGTGCCTAGCAGGCTTTGTGCTAGTGA
1 TATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGA
* * * *
40275074 TATACAGGCTATGTGCCTAGTAGGCTATGTGCCGGTGA
1 TATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGA
* * * ** *
40275112 TATTCGGGCTATGTGGCTAGTAGGCTGTGTAACGGTGT
1 TATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGA
* * * * *
40275150 TATTCGGGCTCTATGCCTAGCAAGCTTTATGCCTGTG-
1 TATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGA
40275187 TATT
1 TATT
40275191 GAGAATCAAT
Statistics
Matches: 220, Mismatches: 45, Indels: 7
0.81 0.17 0.03
Matches are distributed among these distances:
36 1 0.00
37 33 0.15
38 184 0.84
39 2 0.01
ACGTcount: A:0.17, C:0.18, G:0.32, T:0.33
Consensus pattern (38 bp):
TATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGA
Found at i:40276725 original size:239 final size:238
Alignment explanation
Indices: 40276294--40276770 Score: 821
Period size: 239 Copynumber: 2.0 Consensus size: 238
40276284 ATGTGCAAAG
* *
40276294 GAGTATTTATTTTGCTGTTTGAGCTGTGTAGGAGGTGGAGTTGGACTGGAACTCTGTGGTTGAAG
1 GAGTATTTATTTTGCTATTTGAGCTGTGTAGGAGGTGGAGTTGGACTGAAACTCTGTGGTTGAAG
*
40276359 TGGTCATAAGAAAATAAGGAATTTTCCTAATGGTTGAAAGTAATCCCACATCTGGAAGCTAACAT
66 TGGTCATAAGAAAATAAGGAATTTTCCTAATGGTTGAAAGTAATCCCACATCGGGAAGCTAACAT
*
40276424 GGGAATTGGTGAGAAGCGAGCTTTAAATAGAGCGAACCAGATGAGTTGGTAGGGGAAAAAAAGGG
131 GGGAATTAGTGAGAAGCGAGCTTTAAATAGAGCGAACCAGATGAGTTGGTAGGGGAAAAAAA-GG
* *
40276489 GATTAAGACCCAATGTAGGATGTGCCAAGGATGGTGATCTTGGA
195 GATTAAGACCCAATGTAGGATGTGCCAAGGATGGCGATCGTGGA
*
40276533 GAGTATTTATTTTGCTATTTGAGCTGTGTAGGAGGTGGAGTTGGATTGAAACTCTGTGGTTGAAG
1 GAGTATTTATTTTGCTATTTGAGCTGTGTAGGAGGTGGAGTTGGACTGAAACTCTGTGGTTGAAG
*
40276598 TGGTCATAAGAAAATAAGGAATTTTCTTAATGGTTGAAAGTAATCCCACATCGGGAAGCTAACAT
66 TGGTCATAAGAAAATAAGGAATTTTCCTAATGGTTGAAAGTAATCCCACATCGGGAAGCTAACAT
* * *
40276663 GGGAATTAGTGAGAAGCTG-GCTTTAAATAGAGCGAACTAGATGAGTTGGTGGGGGGAAAAAAGG
131 GGGAATTAGTGAGAAGC-GAGCTTTAAATAGAGCGAACCAGATGAGTTGGTAGGGGAAAAAAAGG
*
40276727 GATTAAGACCCAATGTAGGATGTGCCAAGGTTGGCGATCGTGGA
195 GATTAAGACCCAATGTAGGATGTGCCAAGGATGGCGATCGTGGA
40276771 CTACTTCGAC
Statistics
Matches: 225, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
238 43 0.19
239 181 0.80
240 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.27
Consensus pattern (238 bp):
GAGTATTTATTTTGCTATTTGAGCTGTGTAGGAGGTGGAGTTGGACTGAAACTCTGTGGTTGAAG
TGGTCATAAGAAAATAAGGAATTTTCCTAATGGTTGAAAGTAATCCCACATCGGGAAGCTAACAT
GGGAATTAGTGAGAAGCGAGCTTTAAATAGAGCGAACCAGATGAGTTGGTAGGGGAAAAAAAGGG
ATTAAGACCCAATGTAGGATGTGCCAAGGATGGCGATCGTGGA
Found at i:40287222 original size:30 final size:29
Alignment explanation
Indices: 40287188--40287250 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 29
40287178 GATATTTTGA
*
40287188 TATTTTATAATTA-TTTAATTAGATAATTAT
1 TATTTTATAATTATTTTAATAAGAT-ATT-T
*
40287218 TATTTTATTATTATTTTAATAAGATATTT
1 TATTTTATAATTATTTTAATAAGATATTT
40287247 TATT
1 TATT
40287251 AGTATTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 5 0.17
30 15 0.50
31 10 0.33
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (29 bp):
TATTTTATAATTATTTTAATAAGATATTT
Found at i:40287263 original size:11 final size:11
Alignment explanation
Indices: 40287213--40287266 Score: 63
Period size: 11 Copynumber: 4.7 Consensus size: 11
40287203 TAATTAGATA
*
40287213 ATTATTATTTT
1 ATTAGTATTTT
*
40287224 ATTATTATTTT
1 ATTAGTATTTT
*
40287235 AATAAGATATTTT
1 -ATTAG-TATTTT
40287248 ATTAGTATTTT
1 ATTAGTATTTT
40287259 ATTAGTAT
1 ATTAGTAT
40287267 ATAAAGAAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
11 25 0.66
12 7 0.18
13 6 0.16
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (11 bp):
ATTAGTATTTT
Found at i:40289050 original size:45 final size:45
Alignment explanation
Indices: 40288999--40289110 Score: 154
Period size: 45 Copynumber: 2.5 Consensus size: 45
40288989 TACCAGAAAC
**
40288999 GAGTAAGACCATAGCTGAAAGACGCTATGACATTGCGATTCAAAT
1 GAGTAAGACCATAGCTGAAAGACGCTATGACATCACGATTCAAAT
* * *
40289044 GAGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCAGAT
1 GAGTAAGACCATAGCTGAAAGACGCTATGACATCACGATTCAAAT
*
40289089 -ATGTAAGACCATAGTTGAAAGA
1 GA-GTAAGACCATAGCTGAAAGA
40289111 TACTATGGCA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 1 0.02
45 59 0.98
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.22
Consensus pattern (45 bp):
GAGTAAGACCATAGCTGAAAGACGCTATGACATCACGATTCAAAT
Found at i:40289118 original size:45 final size:44
Alignment explanation
Indices: 40289046--40289304 Score: 157
Period size: 46 Copynumber: 5.7 Consensus size: 44
40289036 ATTCAAATGA
* *** *
40289046 GTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCAGATAT
1 GTAAGACCATAGTTGAAAGATACTATGGCATCACGA-TCAGAAAT
* *
40289091 GTAAGACCATAGTTGAAAGATACTATGGCAAT-ATGATGAGAAAT
1 GTAAGACCATAGTTGAAAGATACTATGGC-ATCACGATCAGAAAT
** * *
40289135 GAATAAGACCATAGTTGAAAGATACCGTGGCAACATGA-CATGAAAT
1 G--TAAGACCATAGTTGAAAGATACTATGGCATCACGATCA-GAAAT
* * * * *
40289181 GAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT-AGGAAACAA
1 G--TAAGACCATAGTTGAAAGATACTATGGCATCACGATCA-G-AA-AT
* * * * * *
40289229 ATAAGACCATGGTTGAAAGATACCATGGCAACATG-GCAGGAAAT
1 GTAAGACCATAGTTGAAAGATACTATGGCATCACGATCA-GAAAT
* *
40289273 GAATAAGACCATGGTTGAAAGATACCATGGCA
1 G--TAAGACCATAGTTGAAAGATACTATGGCA
40289305 ACATGAAAGG
Statistics
Matches: 184, Mismatches: 19, Indels: 21
0.82 0.08 0.09
Matches are distributed among these distances:
44 8 0.04
45 32 0.17
46 141 0.77
47 2 0.01
48 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (44 bp):
GTAAGACCATAGTTGAAAGATACTATGGCATCACGATCAGAAAT
Found at i:40289151 original size:46 final size:46
Alignment explanation
Indices: 40289092--40289342 Score: 362
Period size: 46 Copynumber: 5.5 Consensus size: 46
40289082 TTCAGATATG
* * *
40289092 TAAGACCATAGTTGAAAGATACTATGGCAATATGATGA-GAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGA-GAGGAAATGAA
* * * *
40289138 TAAGACCATAGTTGAAAGATACCGTGGCAACATGACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGAGAGGAAATGAA
* **
40289184 TAAGACCATGGTTGAAAGATACCATGGCAACATGATAGGAAACAAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGAGAGGAAATGAA
40289230 TAAGACCATGGTTGAAAGATACCATGGCAACATG-GCAGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGAG-AGGAAATGAA
* *
40289276 TAAGACCATGGTTGAAAGATACCATGGCAACATGAAAGGAAATAAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGAGAGGAAATGAA
40289322 TAAGACCATGGTTGAAAGATA
1 TAAGACCATGGTTGAAAGATA
40289343 GAAATGAATA
Statistics
Matches: 187, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
45 1 0.01
46 186 0.99
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.20
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGAGAGGAAATGAA
Found at i:40289369 original size:29 final size:29
Alignment explanation
Indices: 40289314--40289369 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
40289304 AACATGAAAG
*
40289314 GAAATAAATAAGACCATGGTTGAAAGATA
1 GAAATAAATAAGACCATAGTTGAAAGATA
* * *
40289343 GAAATGAATAAGACCATATTTGGAAGA
1 GAAATAAATAAGACCATAGTTGAAAGA
40289370 CACTATGGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.21
Consensus pattern (29 bp):
GAAATAAATAAGACCATAGTTGAAAGATA
Found at i:40289710 original size:17 final size:17
Alignment explanation
Indices: 40289668--40289711 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
40289658 AATATATGGA
40289668 AATGATAATACATGAAAT
1 AATGAT-ATACATGAAAT
*
40289686 ATTGATATA-ATGAAAT
1 AATGATATACATGAAAT
40289702 GAATGATATA
1 -AATGATATA
40289712 TGCTTATGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 7 0.30
17 11 0.48
18 5 0.22
ACGTcount: A:0.52, C:0.02, G:0.14, T:0.32
Consensus pattern (17 bp):
AATGATATACATGAAAT
Found at i:40295563 original size:38 final size:38
Alignment explanation
Indices: 40295521--40295838 Score: 350
Period size: 38 Copynumber: 8.4 Consensus size: 38
40295511 AATGTAATAT
* * *
40295521 TATTCGGGCTATGTGCCTAGCAGGCTATATGCCGATGA
1 TATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGA
*
40295559 TATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGT
1 TATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGA
* * *
40295597 TATTCGGGCTATGTACCTAGCAAGCTTTATGCCGGTGA
1 TATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGA
* * * *
40295635 TATTTGGGCTTTGTGCCTAGC-GGATTTTGTACCGGTGA
1 TATTCGGGCTATGTGCCTAGCAGG-CTTTGTGCCGGTGA
* **
40295673 TATTCGGGCTGTGTGCCTAGCAAACTTTGTGCCGGTGA
1 TATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGA
* ** * * *
40295711 TATTTGGGCCGTGTGCCTAGTAGGCTTTGTGCTGATGA
1 TATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGA
** * * *
40295749 TATTCGGGCTATGTGCCTAGCACACTTTGTACTGGCGA
1 TATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGA
* * * * *
40295787 TATACGGGCTATGTGCCTAGTACGCTGTGTCCCGGTGA
1 TATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGA
40295825 TATTCGGGCTATGT
1 TATTCGGGCTATGT
40295839 ATCTAGCTGT
Statistics
Matches: 233, Mismatches: 45, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
37 1 0.00
38 232 1.00
ACGTcount: A:0.16, C:0.20, G:0.31, T:0.33
Consensus pattern (38 bp):
TATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGA
Found at i:40303784 original size:21 final size:22
Alignment explanation
Indices: 40303749--40303807 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 22
40303739 GTGTGCCCTT
* *
40303749 TCCACACAGGTGTGTAG-GGCC
1 TCCACACGGGCGTGTAGTGGCC
*
40303770 TTCACACGGGCGTGT-GTGGCC
1 TCCACACGGGCGTGTAGTGGCC
*
40303791 TCCACATGGGCGTGTAG
1 TCCACACGGGCGTGTAG
40303808 ACACCTACAC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.15, C:0.27, G:0.36, T:0.22
Consensus pattern (22 bp):
TCCACACGGGCGTGTAGTGGCC
Found at i:40305532 original size:26 final size:27
Alignment explanation
Indices: 40305479--40305532 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
40305469 TGAGTTAATA
*
40305479 AATTCTCTTTAAGTTTCTCTTTTCAAG
1 AATTCTCTTTAAGTTTCTCTTTACAAG
*
40305506 AATT-TCTTCTAAGTTTCT-TTTAGAAG
1 AATTCTCTT-TAAGTTTCTCTTTACAAG
40305532 A
1 A
40305533 GTTTTTAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (27 bp):
AATTCTCTTTAAGTTTCTCTTTACAAG
Found at i:40305762 original size:18 final size:18
Alignment explanation
Indices: 40305728--40305776 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
40305718 ATTATTCTAA
40305728 TATTTGATTTA-TTATTT
1 TATTTGATTTATTTATTT
40305745 TATTTGATTTATTTATTT
1 TATTTGATTTATTTATTT
* *
40305763 TAATTGTTTTATTT
1 TATTTGATTTATTT
40305777 GACTTGGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 11 0.38
18 18 0.62
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.71
Consensus pattern (18 bp):
TATTTGATTTATTTATTT
Found at i:40306155 original size:16 final size:15
Alignment explanation
Indices: 40306134--40306168 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
40306124 GAAAAATTAC
*
40306134 AAAAATAAAATATGAA
1 AAAAATAAAAAAT-AA
40306150 AAAAATAAAAAATAA
1 AAAAATAAAAAATAA
40306165 AAAA
1 AAAA
40306169 TTTCTATGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (15 bp):
AAAAATAAAAAATAA
Found at i:40310154 original size:48 final size:48
Alignment explanation
Indices: 40310029--40310163 Score: 173
Period size: 48 Copynumber: 2.8 Consensus size: 48
40310019 TGTCTCATAT
* * *
40310029 CAATGCCATGTCCCAGACACGATCTTACA-CGAAATCACATATCGATGC
1 CAATGCCATGTCCCAGACATGATCTTACATAG-GATCACATATCGATGC
* * *
40310077 CAATGCCATATCCCAGATATGCTCTTACATAGGATCACATATCGATGC
1 CAATGCCATGTCCCAGACATGATCTTACATAGGATCACATATCGATGC
* * *
40310125 CAATTCCATGTCCCAGACATGGTCTTACATGGGATCACA
1 CAATGCCATGTCCCAGACATGATCTTACATAGGATCACA
40310164 CATACCCTAA
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
48 74 0.99
49 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (48 bp):
CAATGCCATGTCCCAGACATGATCTTACATAGGATCACATATCGATGC
Found at i:40310642 original size:20 final size:20
Alignment explanation
Indices: 40310614--40310656 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
40310604 ACATTAAATA
* *
40310614 AAAACTTATAATTATTTTTT
1 AAAACTTATAATGAATTTTT
* *
40310634 AAAATTTATTATGAATTTTT
1 AAAACTTATAATGAATTTTT
40310654 AAA
1 AAA
40310657 GTCAGAATAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
AAAACTTATAATGAATTTTT
Found at i:40311591 original size:47 final size:49
Alignment explanation
Indices: 40311517--40311646 Score: 164
Period size: 46 Copynumber: 2.8 Consensus size: 49
40311507 AACCCGCCCC
*
40311517 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACATCCA
* * *
40311565 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTTGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCA
*
40311610 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
40311647 TCAACCATCC
Statistics
Matches: 70, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
43 6 0.09
44 2 0.03
45 2 0.03
46 29 0.41
47 29 0.41
48 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (49 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCA
Found at i:40311662 original size:46 final size:45
Alignment explanation
Indices: 40311519--40311662 Score: 136
Period size: 46 Copynumber: 3.1 Consensus size: 45
40311509 CCCGCCCCTA
40311519 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * * *
40311566 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCT
40311612 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
40311658 AGTGA
1 AGTGA
40311663 CATGTCACTT
Statistics
Matches: 79, Mismatches: 8, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 33 0.42
47 31 0.39
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:40319131 original size:47 final size:49
Alignment explanation
Indices: 40319023--40319196 Score: 172
Period size: 47 Copynumber: 3.8 Consensus size: 49
40319013 AACCCGCCCC
* * * *
40319023 TAAGTGAACTC-GACTCAACTCAACAAGCTCGG--G-C-GTTGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCA
**
40319067 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACATCCA
* * *
40319115 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTTGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCA
*
40319160 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
40319197 TCAACCATCC
Statistics
Matches: 108, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
43 6 0.06
44 12 0.11
45 21 0.19
46 29 0.27
47 30 0.28
48 3 0.03
49 1 0.01
50 6 0.06
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (49 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCA
Found at i:40319186 original size:46 final size:46
Alignment explanation
Indices: 40319023--40319193 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
40319013 AACCCGCCCC
* * *
40319023 TAAGTGAACTC-GACTCAACTCAACAAGCTCGGGC-GTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTGCATCCA
* *
40319067 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-AGTTGCATCCA
* * *
40319115 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTGCATCCA
40319160 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
40319194 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 6 0.06
44 12 0.11
45 21 0.20
46 29 0.27
47 29 0.27
48 3 0.03
49 1 0.01
50 6 0.06
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTGCATCCA
Found at i:40319192 original size:93 final size:91
Alignment explanation
Indices: 40319028--40319196 Score: 275
Period size: 93 Copynumber: 1.8 Consensus size: 91
40319018 GCCCCTAAGT
*
40319028 GAACTCGACTCAACTCAACAAGCTCGGGCGTTGCATCCATAAATGAACTCGGACTCAACTCAACG
1 GAACTCGACTCAACTCAACAAGCTCGGACGTTGCATCCATAAATGAACTCGGACTCAACTCAACG
40319093 AGTTCGGATGCCTAGTTACATCTCAC
66 AGTTCGGATGCCTAGTTACATCTCAC
* * * *
40319119 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTC-GACTCAACTCAACAAGCTCGGAC-GTTGCATCCATAAATGAACTCGGACTCAACTCAA
40319184 CGAGTTCGGATGC
64 CGAGTTCGGATGC
40319197 TCAACCATCC
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
91 6 0.08
92 20 0.28
93 45 0.63
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (91 bp):
GAACTCGACTCAACTCAACAAGCTCGGACGTTGCATCCATAAATGAACTCGGACTCAACTCAACG
AGTTCGGATGCCTAGTTACATCTCAC
Found at i:40319212 original size:46 final size:45
Alignment explanation
Indices: 40319071--40319212 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 45
40319061 CATCCATAAA
40319071 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * *
40319118 CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
40319164 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
40319210 TGA
1 TGA
40319213 CATGTCACTT
Statistics
Matches: 78, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 33 0.42
47 31 0.40
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:40321777 original size:52 final size:52
Alignment explanation
Indices: 40321657--40321834 Score: 242
Period size: 51 Copynumber: 3.5 Consensus size: 52
40321647 ACTAATGACT
40321657 CAAGTGTGGTACTATGTGAAGGCCAC--TTTGAA-AAGAGATAGC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTTTGAAGAA-AGATAGCTTTGGTCA
*
40321706 AAAGTGTGGTACTATGTGAAGGCCACTTTTTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTTTGAAGAAAGATAGCTTTGGTCA
* * *
40321758 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGGTAGCTTT-GACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTTTGAAGAAAGATAGCTTTGGTC-A
* *
40321809 CAAGAGTGGTACTATGTGCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
40321835 CGGGTATCCG
Statistics
Matches: 117, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
49 25 0.21
50 2 0.02
51 48 0.41
52 42 0.36
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.28
Consensus pattern (52 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTTTGAAGAAAGATAGCTTTGGTCA
Found at i:40327325 original size:43 final size:43
Alignment explanation
Indices: 40327230--40327392 Score: 136
Period size: 43 Copynumber: 3.8 Consensus size: 43
40327220 ACCAAGATGT
* * * * *
40327230 GATTACATGTAAGACCATGTCTGGGACATTGGTATTGTATTGT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGC
40327273 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAAT-C
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TAATGC
* * * * **
40327316 GATTTCGTGTAAGA-CACTGCCTGGGACAGTGACATC-TATATAT
1 GATTACGTGTAAGACCA-TGTCTGGGACATTGGCATCGTA-ATGC
* * * *
40327359 GATAACCTGTAAGACCATATCTGGGATA-TGGCAT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCAT
40327393 TGTATGAGCT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
41 2 0.02
42 9 0.09
43 82 0.84
44 5 0.05
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGC
Found at i:40328371 original size:18 final size:18
Alignment explanation
Indices: 40328348--40328418 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 18
40328338 AGGACGTGTC
*
40328348 ATTCATTTTCAAAACGTA
1 ATTCATTTTCAAAACGTT
*
40328366 ATTCATTATCACAAA-GTT
1 ATTCATTTTCA-AAACGTT
* *
40328384 ATTC-TCTTCAAAAATGTT
1 ATTCATTTTC-AAAACGTT
*
40328402 ATTAATTTTCAAAACGT
1 ATTCATTTTCAAAACGT
40328419 CACTTATTGC
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
17 6 0.14
18 29 0.69
19 7 0.17
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41
Consensus pattern (18 bp):
ATTCATTTTCAAAACGTT
Found at i:40329318 original size:30 final size:30
Alignment explanation
Indices: 40329282--40329343 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
40329272 AACCCGTGCA
*
40329282 ACTAAGCATCAAAACAGTGAAAATGGGCCC
1 ACTAAGCATCAAAACAGTGAAAATAGGCCC
*
40329312 ACTAAGCATCAAAACTGTGAAAATAGGCCC
1 ACTAAGCATCAAAACAGTGAAAATAGGCCC
40329342 AC
1 AC
40329344 ATGCCCGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.44, C:0.24, G:0.18, T:0.15
Consensus pattern (30 bp):
ACTAAGCATCAAAACAGTGAAAATAGGCCC
Found at i:40336848 original size:48 final size:48
Alignment explanation
Indices: 40336769--40336898 Score: 179
Period size: 48 Copynumber: 2.7 Consensus size: 48
40336759 CATATCGATG
* * *
40336769 CCATGTCCCAGACATGGTCTTACATGAAATCACATATCGATGCCAACA
1 CCATATCCCAAACATGGTCTTACATGGAATCACATATCGATGCCAACA
* * **
40336817 CCATATCCCAAATATGGTATTACATGGAATCACATATCGATGCCAATG
1 CCATATCCCAAACATGGTCTTACATGGAATCACATATCGATGCCAACA
* *
40336865 CCATGTCCCAAACATGGTCTTACATGGGATCACA
1 CCATATCCCAAACATGGTCTTACATGGAATCACA
40336899 CATACCCTAA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (48 bp):
CCATATCCCAAACATGGTCTTACATGGAATCACATATCGATGCCAACA
Found at i:40346774 original size:13 final size:14
Alignment explanation
Indices: 40346750--40346779 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
40346740 GGTTGTTTAT
40346750 TAAACTTAATTAAC
1 TAAACTTAATTAAC
40346764 TAAAC-TAATTAAC
1 TAAACTTAATTAAC
40346777 TAA
1 TAA
40346780 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAACTTAATTAAC
Found at i:40351578 original size:66 final size:68
Alignment explanation
Indices: 40351440--40351580 Score: 196
Period size: 66 Copynumber: 2.1 Consensus size: 68
40351430 GTAGCGAGGT
* * *
40351440 TATGGCACTATAGGCATAAGACCATGGTTGGACTATGGCAGTGTATACATGTAAGAACATAATTG
1 TATGGCACTATAGACATAAGACCATGGTTGGACCATGGCAGTGTATACATGTAAGAACATAACTG
*
40351505 GGT
66 GGC
* * * *
40351508 TATGGCACTA-A-ACATAAGACCATGGTTGGACCATGGCAGTGTATATATGTATGACCATAGCTG
1 TATGGCACTATAGACATAAGACCATGGTTGGACCATGGCAGTGTATACATGTAAGAACATAACTG
40351571 GGC
66 GGC
40351574 TATGGCA
1 TATGGCA
40351581 TTCTAATGAT
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
66 54 0.83
67 1 0.02
68 10 0.15
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (68 bp):
TATGGCACTATAGACATAAGACCATGGTTGGACCATGGCAGTGTATACATGTAAGAACATAACTG
GGC
Found at i:40351634 original size:101 final size:101
Alignment explanation
Indices: 40351491--40351735 Score: 350
Period size: 101 Copynumber: 2.4 Consensus size: 101
40351481 TGTATACATG
* * * *
40351491 TAAGAACATAATTGGGTTATGGCACTA--AACATAAGACCATGGTTGGACCATGGCAGTGTATAT
1 TAAGACCATAACTGGGTTATGGCACTATGAACATAAGACCATGGTTGGACCATGACAGTGTATAC
* *
40351554 ATGTATGACCATAGCTGGGCTATGGCATTCTAATGA
66 ATGTAAGACCATAACTGGGCTATGGCATTCTAATGA
* * *
40351590 TAATACCATAACTGGGTTATGGCACTATGGACGTAAGACCATGGTTGGACCATGACAGTGTATAC
1 TAAGACCATAACTGGGTTATGGCACTATGAACATAAGACCATGGTTGGACCATGACAGTGTATAC
* *
40351655 ATGTAAGACCATAACTGGGCTATGGCATTTTGATGA
66 ATGTAAGACCATAACTGGGCTATGGCATTCTAATGA
* * *
40351691 TCAGACCATAACTGGGTTATGGCACTATGAACATAAAAACATGGT
1 TAAGACCATAACTGGGTTATGGCACTATGAACATAAGACCATGGT
40351736 AGGGCAATGG
Statistics
Matches: 127, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
99 24 0.19
101 103 0.81
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (101 bp):
TAAGACCATAACTGGGTTATGGCACTATGAACATAAGACCATGGTTGGACCATGACAGTGTATAC
ATGTAAGACCATAACTGGGCTATGGCATTCTAATGA
Found at i:40354903 original size:46 final size:46
Alignment explanation
Indices: 40354853--40355025 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
40354843 TGGTTGAGCA
40354853 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
40354899 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
40354944 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
40354992 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
40355026 GGGGCGAGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:40355009 original size:93 final size:93
Alignment explanation
Indices: 40354850--40355020 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
40354840 GGATGGTTGA
* *
40354850 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
40354915 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
40354943 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
40355008 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
40355021 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Done.