Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 257 of 318
Found at i:81221577 original size:12 final size:13
Alignment explanation
Indices: 81221534--81221572 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
81221524 AACAAATGAT
*
81221534 AATAAGAATAACA
1 AATAAAAATAACA
*
81221547 AAAATAAAATAACA
1 AATA-AAAATAACA
81221561 AATAAAAATAAC
1 AATAAAAATAAC
81221573 TATAATGAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.74, C:0.08, G:0.03, T:0.15
Consensus pattern (13 bp):
AATAAAAATAACA
Found at i:81221628 original size:3 final size:3
Alignment explanation
Indices: 81221607--81221717 Score: 54
Period size: 3 Copynumber: 36.7 Consensus size: 3
81221597 TAACATAAAG
* * * * *
81221607 AAT AAT AA- ACT AAT GAT AAT AA- AACT AAA AAT AAA AAG AA- AATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AA-T
* *
81221651 AAT AAT AAT AAT AAT GAG AAT AAT AAT AAAT AAAT AAAT AAT AACT AGA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT -AAT AAT AA-T A-AT
81221700 AA- AAT AA- AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
81221718 CAAATAACCA
Statistics
Matches: 86, Mismatches: 12, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
2 10 0.12
3 58 0.67
4 17 0.20
5 1 0.01
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (3 bp):
AAT
Found at i:81221706 original size:30 final size:30
Alignment explanation
Indices: 81221657--81221744 Score: 76
Period size: 30 Copynumber: 2.9 Consensus size: 30
81221647 AATTAATAAT
*
81221657 AATAATAA-TGAGAATAATAATAAATAAATA
1 AATAATAACT-AGAAAAATAATAAATAAATA
*
81221687 AATAATAACTAGAAAAATAAAATAAT-AATA
1 AATAATAACTAGAAAAATAATA-AATAAATA
*
81221717 ACA-AATAACCA-AATAAATAATGAAATAA
1 A-ATAATAACTAGAA-AAATAAT-AAATAA
81221745 TGAAAAAAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
29 2 0.04
30 39 0.81
31 7 0.15
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (30 bp):
AATAATAACTAGAAAAATAATAAATAAATA
Found at i:81221724 original size:18 final size:17
Alignment explanation
Indices: 81221622--81221724 Score: 61
Period size: 18 Copynumber: 5.8 Consensus size: 17
81221612 TAAACTAATG
*
81221622 ATAATAAAACTAAAAATA
1 ATAATAAAAAT-AAAATA
*
81221640 A-AA-AGAAAAT-TAATA
1 ATAATA-AAAATAAAATA
* *
81221655 ATAATAATAATGAGAATA
1 ATAATAAAAAT-AAAATA
81221673 ATAATAAATAA-ATAAATA
1 ATAATAAA-AATA-AAATA
81221691 ATAACTAGAAAAATAAAATA
1 ATAA-T--AAAAATAAAATA
81221711 ATAATAACAAATAA
1 ATAATAA-AAATAA
81221725 CCAAATAAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 24
0.69 0.06 0.25
Matches are distributed among these distances:
15 5 0.07
16 7 0.10
17 10 0.15
18 26 0.39
19 4 0.06
20 11 0.16
21 4 0.06
ACGTcount: A:0.70, C:0.03, G:0.04, T:0.23
Consensus pattern (17 bp):
ATAATAAAAATAAAATA
Found at i:81225766 original size:13 final size:13
Alignment explanation
Indices: 81225748--81225777 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
81225738 CCCAGGATTG
81225748 ATTATGAATCTAA
1 ATTATGAATCTAA
81225761 ATTATGAATCTAA
1 ATTATGAATCTAA
81225774 ATTA
1 ATTA
81225778 AATGATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (13 bp):
ATTATGAATCTAA
Found at i:81230024 original size:4 final size:4
Alignment explanation
Indices: 81230011--81230039 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
81230001 TCACGCCAGA
81230011 CTTT -TTT CTTT CTTT CTTT CTTT CTTT CT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CT
81230040 CCTACCAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
CTTT
Found at i:81232546 original size:58 final size:56
Alignment explanation
Indices: 81232419--81232556 Score: 161
Period size: 58 Copynumber: 2.4 Consensus size: 56
81232409 GTATTACAAG
* * * * *
81232419 ATTACCAATCCAGGCTAAATCCTTACGTAACGTATGCTCAGAAGAGCTTAATTAGG
1 ATTACCAATCCAGGCTAAATCCTAACGTAACATATGCTCAGAAGAGATTAATCAGA
* *
81232475 ATTACCAAGTCCAGGCTAAATCCTAATTGTAACATATGCTC-GAGAGGGATTATATCAGA
1 ATTACCAA-TCCAGGCTAAATCCTAA-CGTAACATATGCTCAGA-AGAGATTA-ATCAGA
*
81232534 ATTACCCATCCAGGCTAAATCCT
1 ATTACCAATCCAGGCTAAATCCT
81232557 TTCTATAATA
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
56 8 0.11
57 18 0.26
58 33 0.47
59 11 0.16
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (56 bp):
ATTACCAATCCAGGCTAAATCCTAACGTAACATATGCTCAGAAGAGATTAATCAGA
Found at i:81233891 original size:14 final size:16
Alignment explanation
Indices: 81233856--81233897 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
81233846 TTTTAGCATG
*
81233856 TTGGAAAAAC-CAGGT
1 TTGGAAAAACACAGAT
81233871 TTGG-AAAACACAGAT
1 TTGGAAAAACACAGAT
81233886 TT-GAAAAACACA
1 TTGGAAAAACACA
81233898 ACGGAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (16 bp):
TTGGAAAAACACAGAT
Found at i:81234306 original size:21 final size:21
Alignment explanation
Indices: 81234259--81234306 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
81234249 AGAGTTCAAC
*
81234259 TATTATTAAACTTAATCAATT
1 TATTATTAAACTTAATCAATA
*
81234280 TATTATTAAATTTAATCTAATA
1 TATTATTAAACTTAATC-AATA
81234302 T-TTAT
1 TATTAT
81234307 CTTGATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (21 bp):
TATTATTAAACTTAATCAATA
Found at i:81240156 original size:24 final size:24
Alignment explanation
Indices: 81240124--81240175 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
81240114 TTCATCAAAA
81240124 AGAAAAGGTATACTCCTATCTCTT
1 AGAAAAGGTATACTCCTATCTCTT
81240148 AGAAAAGGTATACTCCTATCTCTT
1 AGAAAAGGTATACTCCTATCTCTT
81240172 AGAA
1 AGAA
81240176 CAAGCTATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (24 bp):
AGAAAAGGTATACTCCTATCTCTT
Found at i:81240185 original size:17 final size:17
Alignment explanation
Indices: 81240163--81240196 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
81240153 AGGTATACTC
81240163 CTATCTCTTAGAACAAG
1 CTATCTCTTAGAACAAG
81240180 CTATCTCTTAGAACAAG
1 CTATCTCTTAGAACAAG
81240197 GAAATATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (17 bp):
CTATCTCTTAGAACAAG
Found at i:81241875 original size:3 final size:3
Alignment explanation
Indices: 81241867--81241901 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
81241857 AAATGTAAAT
*
81241867 AAC AAC AAC AAC AAC AAC AAC AAT AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
81241902 TAATAATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.69, C:0.29, G:0.00, T:0.03
Consensus pattern (3 bp):
AAC
Found at i:81241902 original size:12 final size:12
Alignment explanation
Indices: 81241864--81241904 Score: 73
Period size: 12 Copynumber: 3.4 Consensus size: 12
81241854 GATAAATGTA
81241864 AATAACAACAAC
1 AATAACAACAAC
*
81241876 AACAACAACAAC
1 AATAACAACAAC
81241888 AATAACAACAAC
1 AATAACAACAAC
81241900 AATAA
1 AATAA
81241905 TAATAATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.07
Consensus pattern (12 bp):
AATAACAACAAC
Found at i:81241923 original size:18 final size:18
Alignment explanation
Indices: 81241876--81241931 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
81241866 TAACAACAAC
* * *
81241876 AACAACAACAACAATAAC
1 AACAACAATAATAATAAT
81241894 AACAACAATAATAATAAT
1 AACAACAATAATAATAAT
* *
81241912 AACAACATTAATATTAAT
1 AACAACAATAATAATAAT
81241930 AA
1 AA
81241932 TAATGATGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.64, C:0.16, G:0.00, T:0.20
Consensus pattern (18 bp):
AACAACAATAATAATAAT
Found at i:81241924 original size:21 final size:21
Alignment explanation
Indices: 81241864--81241934 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
81241854 GATAAATGTA
* * *
81241864 AATAACAACAACAACAACAAC
1 AATAATAACAACAACAATAAT
*
81241885 AACAATAACAACAACAATAAT
1 AATAATAACAACAACAATAAT
** *
81241906 AATAATAACAACATTAATATT
1 AATAATAACAACAACAATAAT
81241927 AATAATAA
1 AATAATAA
81241935 TGATGAATAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.65, C:0.17, G:0.00, T:0.18
Consensus pattern (21 bp):
AATAATAACAACAACAATAAT
Found at i:81242101 original size:20 final size:20
Alignment explanation
Indices: 81242064--81242102 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
81242054 TAAAATGAAA
*
81242064 AAAATAAAAGAATTAATAAG
1 AAAATAAAAGAATAAATAAG
81242084 AAAAT-AAAGAAATAAATAA
1 AAAATAAAAG-AATAAATAA
81242103 TAATAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (20 bp):
AAAATAAAAGAATAAATAAG
Found at i:81242103 original size:23 final size:23
Alignment explanation
Indices: 81242047--81242106 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 23
81242037 CCAATTATAA
*
81242047 AAATAAATAA-AATGAAAAAAAT
1 AAATAAATAATAATGAAAAAAAG
81242069 AAA-AGAATTAATAA-GAAAATAAAG
1 AAATA-AA-TAATAATGAAAA-AAAG
81242093 AAATAAATAATAAT
1 AAATAAATAATAAT
81242107 AATAATGATA
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
21 1 0.03
22 5 0.16
23 14 0.45
24 10 0.32
25 1 0.03
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (23 bp):
AAATAAATAATAATGAAAAAAAG
Found at i:81242106 original size:3 final size:3
Alignment explanation
Indices: 81242098--81242164 Score: 68
Period size: 3 Copynumber: 22.7 Consensus size: 3
81242088 TAAAGAAATA
* *
81242098 AAT AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT AACT AAT AA- AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
*
81242143 -TT AAAT AAT AAT AAT AA- AAT AA
1 AAT -AAT AAT AAT AAT AAT AAT AA
81242165 ACAATTTAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
2 4 0.07
3 46 0.85
4 4 0.07
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:81242248 original size:3 final size:3
Alignment explanation
Indices: 81242242--81242282 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
81242232 AATAATAGTA
81242242 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
81242283 AAGAGGATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:81243412 original size:2 final size:2
Alignment explanation
Indices: 81243405--81243438 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
81243395 TATTTGGACT
81243405 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
81243439 ATTTTTGGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:81243923 original size:45 final size:44
Alignment explanation
Indices: 81243703--81244015 Score: 232
Period size: 44 Copynumber: 7.0 Consensus size: 44
81243693 GAGATAAAAC
* * * * * *
81243703 TTGTAGCTTCAATCTACTCCATTGCAAATTTAGGGAGATAAGAT
1 TTGTATCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGGT
* * * * * *
81243747 ATGTGTCTTCAATTTACTCCACTGTAACTTCAGGGAGATAATGT
1 TTGTATCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGGT
* * * * * *
81243791 GTGTAGCTTTAATTTTCTCCACTGCAACTTCAGTGAGATAAGATT
1 TTGTATCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAG-GT
* * * * *
81243836 TGTAGCCTATTTTTAATCTGCTCCACTACAACTACAGAGAGATAAGGT
1 T-T-G--TATCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGGT
** * *
81243884 TTGCTATCTTCGATCTATTCCACTGCAACTTCAGGGAGATAAGAT
1 TTG-TATCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGGT
* * * * *
81243929 CTGTAACTTTTAACCTGCTCCACTGCAACTTTAGGGAGATAAGGT
1 TTGTATC-TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGGT
* * *
81243974 TTGTGGT-TTTAATCTGCTCCACTGCAACTTCAGAGAGATAAG
1 TTGT-ATCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAG
81244016 ATATCTAATT
Statistics
Matches: 210, Mismatches: 52, Indels: 14
0.76 0.19 0.05
Matches are distributed among these distances:
44 103 0.49
45 69 0.33
46 2 0.01
47 2 0.01
48 2 0.01
49 32 0.15
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (44 bp):
TTGTATCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGGT
Found at i:81244142 original size:89 final size:88
Alignment explanation
Indices: 81244042--81244336 Score: 260
Period size: 89 Copynumber: 3.3 Consensus size: 88
81244032 TTCAATTTGT
* *
81244042 TCCACTGCAACTTCAGAGAAATAAGATTCTTTATCTTCAGTCTGCTTTACTGCAACTTTAAGGAG
1 TCCACTACAACTTCAG-GAAATAAGATTCTTTATCTTCAGTCTGCTTTACTGCAACTTCAAGGAG
81244107 ATAAGACTTATAACTTCAACCTGC
65 ATAAGACTTATAACTTCAACCTGC
* * * * * * *
81244131 TCCACTACAACTTCATGGAGATAA-A--GTTT-GCTAT-AATATGCTTTATTACAACTTCAGAGG
1 TCCACTACAACTTCA-GGAAATAAGATTCTTTATCT-TCAGTCTGCTTTACTGCAACTTCA-AGG
* *
81244191 -GATAAGATCTATAATTTATAGCTTCAATCTGT
63 AGATAAGA-CT-T-A--TA-A-CTTCAACCTGC
* ** *
81244223 TCCACTGCAACTTCAGGAAAATAAGATTCGCTATCTTCAGTCTGCTTCACTGCAACTTCAAGGAG
1 TCCACTACAACTTCAGG-AAATAAGATTCTTTATCTTCAGTCTGCTTTACTGCAACTTCAAGGAG
**
81244288 ATAAGACTTGCAACTTCAACCTGC
65 ATAAGACTTATAACTTCAACCTGC
* *
81244312 TCTACTACAACTTCAGAAAGATAAG
1 TCCACTACAACTTCAGGAA-ATAAG
81244337 GTTTGTAATT
Statistics
Matches: 159, Mismatches: 29, Indels: 36
0.71 0.13 0.16
Matches are distributed among these distances:
85 26 0.16
86 9 0.06
87 1 0.01
88 4 0.03
89 48 0.30
90 4 0.03
91 4 0.03
92 28 0.18
93 1 0.01
94 1 0.01
95 7 0.04
96 26 0.16
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (88 bp):
TCCACTACAACTTCAGGAAATAAGATTCTTTATCTTCAGTCTGCTTTACTGCAACTTCAAGGAGA
TAAGACTTATAACTTCAACCTGC
Found at i:81244209 original size:181 final size:181
Alignment explanation
Indices: 81243904--81244326 Score: 546
Period size: 181 Copynumber: 2.3 Consensus size: 181
81243894 CGATCTATTC
* * * * *
81243904 CACTGCAACTTCAGGGAGATAAGATCTGT--AACTTTTAACCTGCTCCACTGCAACTTTAGGGAG
1 CACTGCAACTTCAAGGAGATAAGA-CT-TACAAC-TTCAACCTGCTCCACTACAACTTCATGGAG
* * * * ** * * *
81243967 ATAAGGTTTGTGGTTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATATCTAATTTATAGC
63 ATAAAG-TT-T-GCTATAATATGCTTTATTACAACTTCAGAGAGATAAGATATATAATTTATAGC
* **
81244032 TTCAATTTGTTCCACTGCAACTTCA-GAGAAATAAGATTCTTTATCTTCAGTCTGCTT
125 TTCAATCTGTTCCACTGCAACTTCAGGA-AAATAAGATTCGCTATCTTCAGTCTGCTT
* * *
81244089 TACTGCAACTTTAAGGAGATAAGACTTATAACTTCAACCTGCTCCACTACAACTTCATGGAGATA
1 CACTGCAACTTCAAGGAGATAAGACTTACAACTTCAACCTGCTCCACTACAACTTCATGGAGATA
* *
81244154 AAGTTTGCTATAATATGCTTTATTACAACTTCAGAGGGATAAGATCTATAATTTATAGCTTCAAT
66 AAGTTTGCTATAATATGCTTTATTACAACTTCAGAGAGATAAGATATATAATTTATAGCTTCAAT
81244219 CTGTTCCACTGCAACTTCAGGAAAATAAGATTCGCTATCTTCAGTCTGCTT
131 CTGTTCCACTGCAACTTCAGGAAAATAAGATTCGCTATCTTCAGTCTGCTT
* *
81244270 CACTGCAACTTCAAGGAGATAAGACTTGCAACTTCAACCTGCTCTACTACAACTTCA
1 CACTGCAACTTCAAGGAGATAAGACTTACAACTTCAACCTGCTCCACTACAACTTCA
81244327 GAAAGATAAG
Statistics
Matches: 209, Mismatches: 26, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
181 146 0.70
182 3 0.01
183 3 0.01
184 33 0.16
185 24 0.11
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.32
Consensus pattern (181 bp):
CACTGCAACTTCAAGGAGATAAGACTTACAACTTCAACCTGCTCCACTACAACTTCATGGAGATA
AAGTTTGCTATAATATGCTTTATTACAACTTCAGAGAGATAAGATATATAATTTATAGCTTCAAT
CTGTTCCACTGCAACTTCAGGAAAATAAGATTCGCTATCTTCAGTCTGCTT
Found at i:81244469 original size:94 final size:94
Alignment explanation
Indices: 81244347--81244603 Score: 293
Period size: 94 Copynumber: 2.7 Consensus size: 94
81244337 GTTTGTAATT
* * * *** *
81244347 TTTAATCTACTCCACTGTAACTTCAGGGAGATAAGA-TCTGTGGTGATAACTTCAATCCGTCCCA
1 TTTAATCTGCTCCACTGGAACTTTAGGGAGATAAGATTC-GCCATGATAACTTCAATCCATCCCA
* * * * *
81244411 TTGTAACTTCAAGGGTATAAGATTTGTGGC
65 CTGCAACTTCAAGGGCATAAGATTAGTGAC
* *
81244441 TTTAATCTGCTCCACTGGAACTTTAGGGAGATAAGATTCGCCATGATAACTTCAATCTATCCCGC
1 TTTAATCTGCTCCACTGGAACTTTAGGGAGATAAGATTCGCCATGATAACTTCAATCCATCCCAC
*
81244506 TGCAACTTCAGGGGCATAAGATTAGTGAC
66 TGCAACTTCAAGGGCATAAGATTAGTGAC
* * * * * *
81244535 TTCAATCTGCTCCACT-GAATTTTCAGGGAGATAAGATTTGCCATAATGATTTCAATCCATCCCA
1 TTTAATCTGCTCCACTGGAACTTT-AGGGAGATAAGATTCGCCATGATAACTTCAATCCATCCCA
81244599 CTGCA
65 CTGCA
81244604 TCCTCAGGGG
Statistics
Matches: 138, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
93 6 0.04
94 130 0.94
95 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (94 bp):
TTTAATCTGCTCCACTGGAACTTTAGGGAGATAAGATTCGCCATGATAACTTCAATCCATCCCAC
TGCAACTTCAAGGGCATAAGATTAGTGAC
Found at i:81251612 original size:38 final size:38
Alignment explanation
Indices: 81251552--81251663 Score: 143
Period size: 38 Copynumber: 2.9 Consensus size: 38
81251542 ATTTGATGTG
* *
81251552 TATCCGGGCTTAAAACCTGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGG-TTAAATCCCGCAGGCTTCGTGCTGGTAAAA
**
81251591 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
* * * *
81251629 TATCAGGGATAAATCCCGCAGGCCTAGTGCTGGTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
81251664 TTATATTCGG
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
38 57 0.88
39 8 0.12
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
Found at i:81251664 original size:38 final size:38
Alignment explanation
Indices: 81251570--81251669 Score: 146
Period size: 38 Copynumber: 2.6 Consensus size: 38
81251560 CTTAAAACCT
** * *
81251570 GCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAATCCC
1 GCAGGCTTCGTGCTGGTATTATATCAGGGATAAATCCC
81251608 GCAGGCTTCGTGCTGGTATTATATCAGGGATAAATCCC
1 GCAGGCTTCGTGCTGGTATTATATCAGGGATAAATCCC
* *
81251646 GCAGGCCTAGTGCTGGTATTATAT
1 GCAGGCTTCGTGCTGGTATTATAT
81251670 TCGGGCCTTC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 56 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (38 bp):
GCAGGCTTCGTGCTGGTATTATATCAGGGATAAATCCC
Found at i:81251715 original size:43 final size:43
Alignment explanation
Indices: 81251667--81251778 Score: 206
Period size: 43 Copynumber: 2.6 Consensus size: 43
81251657 GCTGGTATTA
*
81251667 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCGATGATGTG
81251710 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCGATGATGTG
*
81251753 TATTTGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
81251779 GTAATGACGG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.12, C:0.26, G:0.31, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCGATGATGTG
Found at i:81255183 original size:25 final size:25
Alignment explanation
Indices: 81255131--81255184 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
81255121 CATGATAGAA
*
81255131 TAAA-AATAATGAAAATGATAAATG
1 TAAATAATAATGAAAATGATAAATC
81255155 TAAATAATAAT-AATAATGA-ATAATC
1 TAAATAATAATGAA-AATGATA-AATC
81255180 TAAAT
1 TAAAT
81255185 TTGGAAGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (25 bp):
TAAATAATAATGAAAATGATAAATC
Found at i:81255289 original size:4 final size:4
Alignment explanation
Indices: 81255280--81255360 Score: 60
Period size: 4 Copynumber: 19.8 Consensus size: 4
81255270 CCAATTACAA
*
81255280 AAAT AAAT AAAT AAAAT AAAAT AAAAT AAAAT AAAT AAA- AGAAT TAAT
1 AAAT AAAT AAAT -AAAT -AAAT -AAAT -AAAT AAAT AAAT A-AAT AAAT
** *
81255328 AAGC AAAT AAAT AAAT -AAT AAAG AAAT -AAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
81255361 AAAACTAATA
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
3 7 0.11
4 38 0.59
5 19 0.30
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:81255298 original size:5 final size:5
Alignment explanation
Indices: 81255279--81255319 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
81255269 GCCAATTACA
81255279 AAAAT -AAAT -AAAT AAAAT AAAAT AAAAT AAAAT -AAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
81255320 GAATTAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 12 0.35
5 22 0.65
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:81255468 original size:3 final size:3
Alignment explanation
Indices: 81255460--81255497 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
81255450 AGTTTAAAAT
81255460 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
81255498 GGATTAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:81256440 original size:80 final size:80
Alignment explanation
Indices: 81256311--81256476 Score: 325
Period size: 80 Copynumber: 2.1 Consensus size: 80
81256301 TGTATTTGAT
81256311 TTCTCCTCCTAAAAAAATTACAACTTGATGTCATAGCTTTATAGCCGGATTACATTGTTACTGTT
1 TTCTCCTCCTAAAAAAATTACAACTTGATGTCATAGCTTTATAGCCGGATTACATTGTTACTGTT
81256376 CATTGCGTGTTTTTC
66 CATTGCGTGTTTTTC
81256391 TTCTCCTCCTAAAAAAATTACAACTTGATGTCATAGCTTTATAGCCGGATTACATTGTTACTGTT
1 TTCTCCTCCTAAAAAAATTACAACTTGATGTCATAGCTTTATAGCCGGATTACATTGTTACTGTT
81256456 CATTGCGTGTTTTTC
66 CATTGCGTGTTTTTC
81256471 TT-TCCT
1 TTCTCCT
81256477 TGCAGGAGCA
Statistics
Matches: 86, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
79 4 0.05
80 82 0.95
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.42
Consensus pattern (80 bp):
TTCTCCTCCTAAAAAAATTACAACTTGATGTCATAGCTTTATAGCCGGATTACATTGTTACTGTT
CATTGCGTGTTTTTC
Found at i:81256704 original size:2 final size:2
Alignment explanation
Indices: 81256697--81256731 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
81256687 TTTGGACTTT
81256697 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
81256732 TATTTTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:81261627 original size:40 final size:40
Alignment explanation
Indices: 81261575--81261656 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
81261565 ATAACCAAGT
81261575 TTGAGCATTGCTTAAACTTAATTGGTGTTCATTGTTGAAG
1 TTGAGCATTGCTTAAACTTAATTGGTGTTCATTGTTGAAG
*
81261615 TTGAGCATTGCTTAAACTTAGTTGGTGTTCATTGTTGAAG
1 TTGAGCATTGCTTAAACTTAATTGGTGTTCATTGTTGAAG
81261655 TT
1 TT
81261657 AAACCCTTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.23, C:0.10, G:0.23, T:0.44
Consensus pattern (40 bp):
TTGAGCATTGCTTAAACTTAATTGGTGTTCATTGTTGAAG
Found at i:81262083 original size:6 final size:6
Alignment explanation
Indices: 81262068--81262099 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
81262058 CTGTGAGTTC
81262068 TTTA-T TTTATT TTTATT TTTATT TTT-TT TTTA
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTA
81262100 CATAAACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 9 0.36
6 16 0.64
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:81271355 original size:22 final size:22
Alignment explanation
Indices: 81271306--81271355 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
81271296 ATGTGAGGAC
*
81271306 GGGAAAGAGAGTGGAAGAGATG
1 GGGAAAGAGAGTGGAAGAGAAG
*
81271328 GAGGAAAGAGAG-GGAAGTGAAAG
1 G-GGAAAGAGAGTGGAAGAG-AAG
81271351 GGGAA
1 GGGAA
81271356 GTGCCTATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.44, C:0.00, G:0.50, T:0.06
Consensus pattern (22 bp):
GGGAAAGAGAGTGGAAGAGAAG
Found at i:81272820 original size:13 final size:13
Alignment explanation
Indices: 81272797--81272837 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
81272787 ATTATTGTTG
81272797 ATTTTTA-TTATT
1 ATTTTTAGTTATT
*
81272809 TTTTTTAGTTATT
1 ATTTTTAGTTATT
*
81272822 ATTGTTAGTTATT
1 ATTTTTAGTTATT
81272835 ATT
1 ATT
81272838 ATTGTTAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 6 0.24
13 19 0.76
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (13 bp):
ATTTTTAGTTATT
Found at i:81272846 original size:16 final size:15
Alignment explanation
Indices: 81272776--81272843 Score: 82
Period size: 16 Copynumber: 4.3 Consensus size: 15
81272766 TATTGTGTTT
81272776 TTGTTGTTATTATTA
1 TTGTTGTTATTATTA
*
81272791 TTGTTGATTTTTATTA
1 TTGTTG-TTATTATTA
* *
81272807 TTTTTTTTAGTTATTA
1 TTGTTGTTA-TTATTA
81272823 TTGTTAGTTATTATTA
1 TTGTT-GTTATTATTA
81272839 TTGTT
1 TTGTT
81272844 AGTAAAAGAC
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
15 8 0.18
16 33 0.75
17 3 0.07
ACGTcount: A:0.19, C:0.00, G:0.12, T:0.69
Consensus pattern (15 bp):
TTGTTGTTATTATTA
Found at i:81272915 original size:39 final size:36
Alignment explanation
Indices: 81272818--81272919 Score: 107
Period size: 39 Copynumber: 2.7 Consensus size: 36
81272808 TTTTTTTAGT
*
81272818 TATTATTGTTAGTTATTATTATTGTTAGTAAAAGAC
1 TATTATTGTTAGTTATTATTATTGTTAGTAAAAAAC
* *
81272854 TATTATTAGGATT-GTTGGTTATTGTTGTTAGTAAAAAACCC
1 TATTATT--G-TTAGTT-ATTATTATTGTTAGTAAAAAA--C
81272895 TAATTATTGTTAGTTATTATTATTG
1 T-ATTATTGTTAGTTATTATTATTG
81272920 ATTTTTATTA
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
36 7 0.13
38 4 0.08
39 30 0.57
40 4 0.08
41 2 0.04
42 6 0.11
ACGTcount: A:0.30, C:0.04, G:0.16, T:0.50
Consensus pattern (36 bp):
TATTATTGTTAGTTATTATTATTGTTAGTAAAAAAC
Found at i:81279524 original size:11 final size:12
Alignment explanation
Indices: 81279495--81279529 Score: 54
Period size: 11 Copynumber: 2.9 Consensus size: 12
81279485 TTTTTTAAAA
81279495 TATATTATTTTTG
1 TATATTA-TTTTG
81279508 TATATTATTTT-
1 TATATTATTTTG
81279519 TATATTATTTT
1 TATATTATTTT
81279530 AGTACATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
12 4 0.18
13 7 0.32
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (12 bp):
TATATTATTTTG
Found at i:81279913 original size:150 final size:149
Alignment explanation
Indices: 81279293--81280275 Score: 1290
Period size: 149 Copynumber: 6.6 Consensus size: 149
81279283 TTTTGTTCGG
* * * *
81279293 TGATTTTGGCCCTCTATTGGTA-TTTTTTTATTTTCAGATTTTATTTTTTAAAATATATTATTTT
1 TGATTTTGGCACTTTGTTGGTATTTTTTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTT
*
81279357 CGTATTTTATTTTTTATATTATTTTAGTACATAATATTGT--AATATATTATTTTAGTGTTTTTT
66 CGTATTTTATTTTTTATATTATTTTAGTACATAATATT-TCAAATGTATTATTTTAGTG-TTTTT
* *
81279420 ATATTAATTTAATAAATAACCC
129 A-AATAATTTAGTAAATAACCC
* ** *
81279442 TGATTTTGGTACTTTGTTGGTA-TTTTTTTATTTTTGGATTTTATTTTTTAAAATATATTATTTT
1 TGATTTTGGCACTTTGTTGGTATTTTTTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTT
* * * *
81279506 TGTATATTA-TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTA
66 CGTATTTTATTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGTGTTTTTAA
81279570 ATAATTTAGTAAATAACCC
131 ATAATTTAGTAAATAACCC
* * * ** * *
81279589 TGATTTTCGCCCTTTGTTTGTATTTTTTAAATTTTCAAATTTTATTTTTTAAAATGTACTATTTT
1 TGATTTTGGCACTTTGTTGGTATTTTTTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTT
* * * * *
81279654 TGTATTTTA-TTTTTATATTATTTTAGTACATAATGTTTCAAATATATTATTTTAGTATTTTTTT
66 CGTATTTTATTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGT-GTTTTTA
*
81279718 AATAATTTAGTAAATAACCT
130 AATAATTTAGTAAATAACCC
* * *
81279738 TGATTTTGACACTTTGTTAGTATTTTTTTTATTTTCAGATTTTAGTTTTTAAAATATACTATTTT
1 TGATTTTGGCACTTTGTTGGTATTTTTTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTT
* *
81279803 CATATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTA
66 CGTATTTTA-TTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGTGTTTTTA
81279868 AATAATTTAGTAAATAACCC
130 AATAATTTAGTAAATAACCC
* * * *
81279888 TGATTTTGGCACTTAGTTGGTATTTTTTTTATTTTCAGAATTTATTTTTTAAAATTTATTATTTT
1 TGATTTTGGCACTTTGTTGGTATTTTTTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTT
*
81279953 CGTATTTTATTTTTTATATTATTTTAGCACATAATATTTCAAATGTATTATTTTAGTGTTTTTTA
66 CGTATTTTATTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGTG-TTTTTA
*
81280018 AATAGTTTAGTAAATAACCC
130 AATAATTTAGTAAATAACCC
** * * ** *
81280038 TGATTTTGGCTTTTTTTTTGTATTTTTTAAATTTT-TGAATTTTATTTTTTAAAATATACTATTT
1 TGATTTTGGCACTTTGTTGGTATTTTTTTTATTTTCAG-ATTTTATTTTTTAAAATATACTATTT
* *
81280102 TCG-----TATTTTTTATATTATTTTAGTACATAATATTTAAAATGTATT-TTTTAGTATTTTTT
65 TCGTATTTTATTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGT-GTTTTT
* *
81280161 TAATAATTTAGTAAATAACTC
129 AAATAATTTAGTAAATAACCC
* * * ** **
81280182 TGATTTTGGCCCTTTATTTGTATTTTTTAAATTTTCTTATTTTATTTTTTAAAATATACTATTTT
1 TGATTTTGGCACTTTGTTGGTATTTTTTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTT
81280247 CGTATTTTATTTTTTATATTATTTTAGTA
66 CGTATTTTATTTTTTATATTATTTTAGTA
81280276 AAAAACTCGC
Statistics
Matches: 744, Mismatches: 75, Indels: 30
0.88 0.09 0.04
Matches are distributed among these distances:
144 91 0.12
145 41 0.06
147 37 0.05
148 121 0.16
149 239 0.32
150 169 0.23
151 46 0.06
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (149 bp):
TGATTTTGGCACTTTGTTGGTATTTTTTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTT
CGTATTTTATTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGTGTTTTTAA
ATAATTTAGTAAATAACCC
Found at i:81279924 original size:299 final size:295
Alignment explanation
Indices: 81279293--81280275 Score: 1340
Period size: 294 Copynumber: 3.3 Consensus size: 295
81279283 TTTTGTTCGG
* * *
81279293 TGATTTTGGCCCTCTATTGGTATTTTTT-TATTTTCAGATTTTATTTTTTAAAATATATTATTTT
1 TGATTTTGGCCCT-TATTGGTATTTTTTAAATTTTCAAATTTTATTTTTTAAAATATACTATTTT
81279357 CGTATTTTATTTTTTATATTATTTTAGTACATAATATTGT--AATATATTATTTTAGTGTTTTTT
65 CGTATTTTATTTTTTATATTATTTTAGTACATAATATT-TCAAATATATTATTTTAGTGTTTTTT
* * * * *
81279420 ATATTAATTTAATAAATAACCCTGATTTTGGTACTTTGTTGGTA-TTTTTTTATTTTTGGATTTT
129 -TAATAATTTAGTAAATAACCCTGATTTTGGCACTTTGTTAGTATTTTTTTTA-TTTTAGATTTT
* *
81279484 ATTTTTTAAAATATATTATTTTTGTATATTA-TTTTTATATTATTTTAGTACATAATGTTTCAAA
192 ATTTTTTAAAATATACTA-TTTTCTAT-TTATTTTTTATATTATTTTAGTACATAATGTTTCAAA
81279548 TGTATTATTTTAGTGTTTTTTAATAATTTAGTAAATAACCC
255 TGTATTATTTTAGTGTTTTTTAATAATTTAGTAAATAACCC
* * * *
81279589 TGATTTTCGCCCTTTGTTTGTATTTTTTAAATTTTCAAATTTTATTTTTTAAAATGTACTATTTT
1 TGATTTTGGCCC-TTATTGGTATTTTTTAAATTTTCAAATTTTATTTTTTAAAATATACTATTTT
* * *
81279654 TGTATTTTA-TTTTTATATTATTTTAGTACATAATGTTTCAAATATATTATTTTAGTATTTTTTT
65 CGTATTTTATTTTTTATATTATTTTAGTACATAATATTTCAAATATATTATTTTAGTGTTTTTTT
* * *
81279718 AATAATTTAGTAAATAACCTTGATTTTGACACTTTGTTAGTATTTTTTTTATTTTCAGATTTTAG
130 AATAATTTAGTAAATAACCCTGATTTTGGCACTTTGTTAGTATTTTTTTTATTTT-AGATTTTAT
81279783 TTTTTAAAATATACTATTTTCATATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAAT
194 TTTTTAAAATATACTATTTTC-TA-TTTA-TTTTTTATATTATTTTAGTACATAATGTTTCAAAT
*
81279848 GTATTATTTTAGTGTTTTTAAATAATTTAGTAAATAACCC
256 GTATTATTTTAGTGTTTTTTAATAATTTAGTAAATAACCC
* ** * *
81279888 TGATTTTGGCACTTAGTTGGTATTTTTTTTATTTTCAGAA-TTTATTTTTTAAAATTTATTATTT
1 TGATTTTGGCCCTTA-TTGGTATTTTTTAAATTTTCA-AATTTTATTTTTTAAAATATACTATTT
* *
81279952 TCGTATTTTATTTTTTATATTATTTTAGCACATAATATTTCAAATGTATTATTTTAGTGTTTTTT
64 TCGTATTTTATTTTTTATATTATTTTAGTACATAATATTTCAAATATATTATTTTAGTGTTTTTT
* * ** * * ** *
81280017 AAATAGTTTAGTAAATAACCCTGATTTTGGCTTTTTTTTTGTATTTTTTAAATTTTTGAATTTTA
129 TAATAATTTAGTAAATAACCCTGATTTTGGCACTTTGTTAGTATTTTTTTTATTTTAG-ATTTTA
* * *
81280082 TTTTTTAAAATATACTATTTTC---GTATTTTTTATATTATTTTAGTACATAATATTTAAAATGT
193 TTTTTTAAAATATACTATTTTCTATTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGT
* *
81280144 ATT-TTTTAGTATTTTTTTAATAATTTAGTAAATAACTC
258 ATTATTTTAGT-GTTTTTTAATAATTTAGTAAATAACCC
* **
81280182 TGATTTTGGCCCTTTATTTGTATTTTTTAAATTTTCTTATTTTATTTTTTAAAATATACTATTTT
1 TGATTTTGGCCC-TTATTGGTATTTTTTAAATTTTCAAATTTTATTTTTTAAAATATACTATTTT
81280247 CGTATTTTATTTTTTATATTATTTTAGTA
65 CGTATTTTATTTTTTATATTATTTTAGTA
81280276 AAAAACTCGC
Statistics
Matches: 609, Mismatches: 61, Indels: 36
0.86 0.09 0.05
Matches are distributed among these distances:
293 8 0.01
294 141 0.23
295 6 0.01
296 95 0.16
297 98 0.16
298 3 0.00
299 133 0.22
300 125 0.21
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (295 bp):
TGATTTTGGCCCTTATTGGTATTTTTTAAATTTTCAAATTTTATTTTTTAAAATATACTATTTTC
GTATTTTATTTTTTATATTATTTTAGTACATAATATTTCAAATATATTATTTTAGTGTTTTTTTA
ATAATTTAGTAAATAACCCTGATTTTGGCACTTTGTTAGTATTTTTTTTATTTTAGATTTTATTT
TTTAAAATATACTATTTTCTATTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATT
ATTTTAGTGTTTTTTAATAATTTAGTAAATAACCC
Found at i:81280159 original size:47 final size:49
Alignment explanation
Indices: 81280085--81280178 Score: 120
Period size: 47 Copynumber: 2.0 Consensus size: 49
81280075 AATTTTATTT
* * * *
81280085 TTTAAAATATACTATTTTCGTATTTTTTATATTATTTTAGTACATAATA
1 TTTAAAATATACTATTTTAGTATTTTTTATAATAATTTAGTAAATAATA
* *
81280134 TTTAAAATGTA-TTTTTTAGTATTTTTT-TAATAATTTAGTAAATAA
1 TTTAAAATATACTATTTTAGTATTTTTTATAATAATTTAGTAAATAA
81280179 CTCTGATTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
47 15 0.38
48 14 0.36
49 10 0.26
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.55
Consensus pattern (49 bp):
TTTAAAATATACTATTTTAGTATTTTTTATAATAATTTAGTAAATAATA
Found at i:81280244 original size:22 final size:22
Alignment explanation
Indices: 81280195--81280246 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
81280185 TTTTGGCCCT
* *
81280195 TTATTTGTATTTTTTAAATTTTC
1 TTATTT-TATTTTTTAAATATAC
81280218 TTATTTTATTTTTTAAAATATAC
1 TTATTTTATTTTTT-AAATATAC
81280241 -TATTTT
1 TTATTTT
81280247 CGTATTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 14 0.54
23 12 0.46
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATTTTATTTTTTAAATATAC
Found at i:81280846 original size:21 final size:20
Alignment explanation
Indices: 81280818--81280863 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
81280808 TTTTTTTCCC
81280818 TTCT-TTTTCCTTCCCTCTTT
1 TTCTCTTTTCCTT-CCTCTTT
* *
81280838 TTCTCTTTTTCTTCTTCTTT
1 TTCTCTTTTCCTTCCTCTTT
81280858 TT-TCTT
1 TTCTCTT
81280864 CCCTCCCTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 4 0.17
20 12 0.52
21 7 0.30
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (20 bp):
TTCTCTTTTCCTTCCTCTTT
Found at i:81282196 original size:18 final size:18
Alignment explanation
Indices: 81282154--81282201 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
81282144 TCAAGATTGA
81282154 ATTTATCA-ATTTA-AAT
1 ATTTATCATATTTATAAT
81282170 ATTT-T--TATTTATAAT
1 ATTTATCATATTTATAAT
81282185 ATTTATCATATTTATAA
1 ATTTATCATATTTATAA
81282202 ATAAAAATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
14 5 0.19
15 8 0.30
16 5 0.19
18 9 0.33
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTTATCATATTTATAAT
Found at i:81286383 original size:18 final size:18
Alignment explanation
Indices: 81286344--81286394 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
81286334 GGAAAAAAGG
*
81286344 ATAAATATAATAAAT-A-
1 ATAAATATAAAAAATAAC
81286360 ATAAAT-TGAAAAAATAAC
1 ATAAATAT-AAAAAATAAC
81286378 ATAAATATAAAAAATAA
1 ATAAATATAAAAAATAA
81286395 AAATCAATAC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 1 0.03
16 12 0.40
17 1 0.03
18 15 0.50
19 1 0.03
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (18 bp):
ATAAATATAAAAAATAAC
Found at i:81290837 original size:3 final size:3
Alignment explanation
Indices: 81290829--81290853 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
81290819 CCTCTTTTAC
81290829 TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA T
81290854 CTTTCCTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:81294697 original size:30 final size:31
Alignment explanation
Indices: 81294656--81294721 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 31
81294646 TTAGACCCTT
*
81294656 AACTTGGCAATTGTTCCCACATTGGGACCTA
1 AACTTGGCAATTGTTCCCACATTGGGACATA
** *
81294687 AACTT-GCAATTGTTCCCTTATTGGGGCATA
1 AACTTGGCAATTGTTCCCACATTGGGACATA
81294717 AACTT
1 AACTT
81294722 TAGGATTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 26 0.84
31 5 0.16
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (31 bp):
AACTTGGCAATTGTTCCCACATTGGGACATA
Found at i:81294909 original size:62 final size:60
Alignment explanation
Indices: 81294732--81294913 Score: 203
Period size: 58 Copynumber: 3.0 Consensus size: 60
81294722 TAGGATTTTA
*
81294732 CTAACTTGGACAAAAAAAAAAAGTTCAAGCCCCAATGTGAGAATAATTGCCAAGTTCAGGGC
1 CTAACTT-GACAAAAAAAAAAAGTTCAAGCCCCAATGTG-GAATAATTGCCAAGTTCAAGGC
* * * * *
81294794 CTAACTTGGC--CAAAAAGAAGTTTAAACCCCAACTG-GGAATAATTGCCAAGTTCAAGGC
1 CTAACTTGACAAAAAAAAAAAGTTCAAGCCCCAA-TGTGGAATAATTGCCAAGTTCAAGGC
* *
81294852 CTAACTTGAACAAAAAAAAAAAAG-TCAGGCCCCAATGTGGAAAAAGTTGCCAAGTTC-AGGC
1 CTAACTTG-AC-AAAAAAAAAAAGTTCAAGCCCCAATGTGGAATAA-TTGCCAAGTTCAAGGC
81294913 C
1 C
81294914 CCAAAATGTG
Statistics
Matches: 100, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
58 29 0.29
59 20 0.20
60 4 0.04
61 21 0.21
62 26 0.26
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (60 bp):
CTAACTTGACAAAAAAAAAAAGTTCAAGCCCCAATGTGGAATAATTGCCAAGTTCAAGGC
Found at i:81304038 original size:28 final size:27
Alignment explanation
Indices: 81303976--81304044 Score: 122
Period size: 28 Copynumber: 2.6 Consensus size: 27
81303966 ATAGTGAGTC
81303976 CGCACACTTAGTG-TATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
81304002 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
81304030 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
81304045 GTACAAATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 13 0.32
27 9 0.22
28 19 0.46
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:81311917 original size:28 final size:27
Alignment explanation
Indices: 81311855--81311923 Score: 122
Period size: 28 Copynumber: 2.6 Consensus size: 27
81311845 ATAGTGAGTC
81311855 CGCACACTTAGTG-TATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
81311881 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
81311909 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
81311924 GTACAAATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 13 0.32
27 9 0.22
28 19 0.46
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:81320495 original size:13 final size:13
Alignment explanation
Indices: 81320477--81320501 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
81320467 TTGATTCTTA
81320477 ATAGGATATTATT
1 ATAGGATATTATT
81320490 ATAGGATATTAT
1 ATAGGATATTAT
81320502 CTCTTAGCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (13 bp):
ATAGGATATTATT
Found at i:81320499 original size:46 final size:46
Alignment explanation
Indices: 81320432--81320533 Score: 159
Period size: 46 Copynumber: 2.2 Consensus size: 46
81320422 TGTTTTCTAT
* * *
81320432 TAGGATATTATTATAAGATATTTTCTTTTAGCAATTTGATTCTTAA
1 TAGGATATTATTATAAGATATTATCTCTTAGCAATTTGATTCATAA
*
81320478 TAGGATATTATTATAGGATATTATCTCTTAGCAATTTGATTCATAA
1 TAGGATATTATTATAAGATATTATCTCTTAGCAATTTGATTCATAA
*
81320524 TAGGACATTA
1 TAGGATATTA
81320534 GAGGATATTA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.34, C:0.08, G:0.13, T:0.45
Consensus pattern (46 bp):
TAGGATATTATTATAAGATATTATCTCTTAGCAATTTGATTCATAA
Found at i:81322393 original size:2 final size:2
Alignment explanation
Indices: 81322386--81322418 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
81322376 TGATTGGTAC
81322386 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
81322419 TCTATTGTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:81322707 original size:42 final size:42
Alignment explanation
Indices: 81322652--81322741 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 42
81322642 CAACTCTTTT
* * *
81322652 GAGCTTATGTTCAGCAGTTTTGAG-TTTCTATTCAGCTTTTAC
1 GAGCTTATATTCAGCACTTTTGAGCTTTC-ATTCAGCTCTTAC
* * * *
81322694 GAGCTTCTATTCAGCTCTTTTGAGCTTTCGTTCAGCTCTTAT
1 GAGCTTATATTCAGCACTTTTGAGCTTTCATTCAGCTCTTAC
81322736 GAGCTT
1 GAGCTT
81322742 TTTTTGGTGT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 36 0.90
43 4 0.10
ACGTcount: A:0.17, C:0.20, G:0.19, T:0.44
Consensus pattern (42 bp):
GAGCTTATATTCAGCACTTTTGAGCTTTCATTCAGCTCTTAC
Found at i:81322718 original size:21 final size:21
Alignment explanation
Indices: 81322645--81322741 Score: 90
Period size: 21 Copynumber: 4.6 Consensus size: 21
81322635 GGTGGATCAA
* *
81322645 CTCTTTTGAGCTTATGTTCAG
1 CTCTTTTGAGCTTCTATTCAG
** *
81322666 CAGTTTTGAGTTTCTATTCAG
1 CTCTTTTGAGCTTCTATTCAG
*
81322687 CT-TTTACGAGCTTCTATTCAG
1 CTCTTT-TGAGCTTCTATTCAG
*
81322708 CTCTTTTGAGCTT-TCGTTCAG
1 CTCTTTTGAGCTTCT-ATTCAG
*
81322729 CTCTTATGAGCTT
1 CTCTTTTGAGCTT
81322742 TTTTTGGTGT
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
20 4 0.06
21 55 0.89
22 3 0.05
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (21 bp):
CTCTTTTGAGCTTCTATTCAG
Found at i:81327928 original size:18 final size:18
Alignment explanation
Indices: 81327907--81327969 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 18
81327897 ATTTATTTAG
*
81327907 TAACAGTCAGTTATTCGA
1 TAACAATCAGTTATTCGA
* *
81327925 TAACAATCAATTATTCAA
1 TAACAATCAGTTATTCGA
* *
81327943 TAATAATCAGTTATTCGG
1 TAACAATCAGTTATTCGA
*
81327961 TATCAATCA
1 TAACAATCA
81327970 ATTGATCGGT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.35
Consensus pattern (18 bp):
TAACAATCAGTTATTCGA
Found at i:81327939 original size:36 final size:36
Alignment explanation
Indices: 81327865--81327972 Score: 101
Period size: 36 Copynumber: 3.0 Consensus size: 36
81327855 CAATCAGTAA
* * * * * *
81327865 TATTCATTAACAATCAGTCAATC-AAAACAATTATT
1 TATTCAATAACAATCAGTTATTCGATAACAATCAAT
* * *
81327900 TATTTAGTAACAGTCAGTTATTCGATAACAATCAAT
1 TATTCAATAACAATCAGTTATTCGATAACAATCAAT
* * *
81327936 TATTCAATAATAATCAGTTATTCGGTATCAATCAAT
1 TATTCAATAACAATCAGTTATTCGATAACAATCAAT
81327972 T
1 T
81327973 GATCGGTTAT
Statistics
Matches: 58, Mismatches: 14, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
35 18 0.31
36 40 0.69
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (36 bp):
TATTCAATAACAATCAGTTATTCGATAACAATCAAT
Found at i:81328044 original size:19 final size:19
Alignment explanation
Indices: 81327995--81328046 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
81327985 AGTAACAGTC
* *
81327995 AATTATTTAGTAAAAATTA
1 AATTATTCAGTAACAATTA
* *
81328014 GA-TATACAGTAACAATTA
1 AATTATTCAGTAACAATTA
81328032 AATTATTCAGTAACA
1 AATTATTCAGTAACA
81328047 GTCGATATTT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.35
Consensus pattern (19 bp):
AATTATTCAGTAACAATTA
Found at i:81328281 original size:53 final size:53
Alignment explanation
Indices: 81328162--81328282 Score: 165
Period size: 53 Copynumber: 2.3 Consensus size: 53
81328152 CCGAAGCCGG
*
81328162 AACAGTAACAGTAGCAGTACGGCACACAGAGTACCTCATCAGAACAAATCCGA
1 AACAGTAACAGTAACAGTACGGCACACAGAGTACCTCATCAGAACAAATCCGA
** * *
81328215 AATGGTATA-AGTAACAGTACGGTACACAGAGTACCTCAT-AGGAACAAATCTGA
1 AACAGTA-ACAGTAACAGTACGGCACACAGAGTACCTCATCA-GAACAAATCCGA
81328268 AACAGTAACAGTAAC
1 AACAGTAACAGTAAC
81328283 TGTAACAGTA
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
52 2 0.03
53 55 0.95
54 1 0.02
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.17
Consensus pattern (53 bp):
AACAGTAACAGTAACAGTACGGCACACAGAGTACCTCATCAGAACAAATCCGA
Found at i:81328327 original size:51 final size:50
Alignment explanation
Indices: 81328270--81328376 Score: 135
Period size: 51 Copynumber: 2.1 Consensus size: 50
81328260 AAATCTGAAA
* *
81328270 CAGTAACAGTAACTGTAACAGTAACAATA-TCCGACACACAAAGTGCCTAAT
1 CAGTAACAGTAACGGTAACAATAACAATAGT-CGACACA-AAAGTGCCTAAT
* * * *
81328321 CAGTAACAGTAACGGTAACAATAACAGTAGTCGGCACATAAGTGCCTATT
1 CAGTAACAGTAACGGTAACAATAACAATAGTCGACACAAAAGTGCCTAAT
81328371 CAGTAA
1 CAGTAA
81328377 GCCGGCAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
50 16 0.33
51 32 0.65
52 1 0.02
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.21
Consensus pattern (50 bp):
CAGTAACAGTAACGGTAACAATAACAATAGTCGACACAAAAGTGCCTAAT
Found at i:81328484 original size:16 final size:16
Alignment explanation
Indices: 81328465--81328498 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
81328455 TAATTCACTT
81328465 TTCAT-TTTTCAATTAA
1 TTCATATTTT-AATTAA
81328481 TTCATATTTTAATTAA
1 TTCATATTTTAATTAA
81328497 TT
1 TT
81328499 AACTATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (16 bp):
TTCATATTTTAATTAA
Found at i:81329357 original size:29 final size:30
Alignment explanation
Indices: 81329324--81329382 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
81329314 ATTTACCATA
*
81329324 TAATATCAATTTAATAATAA-TAAATACAT
1 TAATATCAATTCAATAATAAGTAAATACAT
* *
81329353 TAATATTACTTCAATAATAAGTAAATACAT
1 TAATATCAATTCAATAATAAGTAAATACAT
81329383 ACATGTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (30 bp):
TAATATCAATTCAATAATAAGTAAATACAT
Found at i:81333729 original size:21 final size:21
Alignment explanation
Indices: 81333638--81333757 Score: 132
Period size: 21 Copynumber: 5.7 Consensus size: 21
81333628 GATCAAATTT
* *
81333638 TTTTGAGCTTTTGTTTAGCTC
1 TTTTGAGCTTCTGTTCAGCTC
** * * *
81333659 TTACGAGCTTTTGTTTAGATC
1 TTTTGAGCTTCTGTTCAGCTC
81333680 TTTTGAGCTTCTGTTCAGCTC
1 TTTTGAGCTTCTGTTCAGCTC
** *
81333701 TTACGAGCTTTTGTTCAGCTC
1 TTTTGAGCTTCTGTTCAGCTC
* *
81333722 TTTTGAGCTTCCGTTAAGCTC
1 TTTTGAGCTTCTGTTCAGCTC
81333743 TTTTGAGCTTCTGTT
1 TTTTGAGCTTCTGTT
81333758 GGCATGTTCG
Statistics
Matches: 82, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 82 1.00
ACGTcount: A:0.12, C:0.19, G:0.19, T:0.49
Consensus pattern (21 bp):
TTTTGAGCTTCTGTTCAGCTC
Found at i:81333752 original size:42 final size:42
Alignment explanation
Indices: 81333638--81333744 Score: 160
Period size: 42 Copynumber: 2.5 Consensus size: 42
81333628 GATCAAATTT
* * *
81333638 TTTTGAGCTTTTGTTTAGCTCTTACGAGCTTTTGTTTAGATC
1 TTTTGAGCTTCTGTTAAGCTCTTACGAGCTTTTGTTCAGATC
* *
81333680 TTTTGAGCTTCTGTTCAGCTCTTACGAGCTTTTGTTCAGCTC
1 TTTTGAGCTTCTGTTAAGCTCTTACGAGCTTTTGTTCAGATC
*
81333722 TTTTGAGCTTCCGTTAAGCTCTT
1 TTTTGAGCTTCTGTTAAGCTCTT
81333745 TTGAGCTTCT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.13, C:0.20, G:0.19, T:0.49
Consensus pattern (42 bp):
TTTTGAGCTTCTGTTAAGCTCTTACGAGCTTTTGTTCAGATC
Found at i:81334821 original size:20 final size:20
Alignment explanation
Indices: 81334783--81334821 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
81334773 CCTGCAGTCC
* **
81334783 AAAATTTTCAAATTTTTCCT
1 AAAATTTCCAAATGCTTCCT
81334803 AAAATTTCCAAATGCTTCC
1 AAAATTTCCAAATGCTTCC
81334822 GAGTTAGTCC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.41
Consensus pattern (20 bp):
AAAATTTCCAAATGCTTCCT
Found at i:81337356 original size:46 final size:52
Alignment explanation
Indices: 81337287--81337417 Score: 139
Period size: 55 Copynumber: 2.6 Consensus size: 52
81337277 CCAACTTGAG
*
81337287 GATATTTATCTTTTAACAATTTGATTCCTAAT-AGG-A-TAT-TATTATA-GA
1 GATA-TTATCTTTTAGCAATTTGATTCCTAATGAGGCATTATATATTATATGA
* * * *
81337335 -ATATTATCTCTTAGCAATTTGATTTCTAGTGGGGCATTATAGGATATTATATGA
1 GATATTATCTTTTAGCAATTTGATTCCTAATGAGGCATTAT---ATATTATATGA
81337389 GATATTATCTTTTAGCAATTTGATTCCTA
1 GATATTATCTTTTAGCAATTTGATTCCTA
81337418 CATAACTACT
Statistics
Matches: 67, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
46 23 0.34
47 5 0.07
48 1 0.01
49 3 0.04
53 7 0.10
54 2 0.03
55 26 0.39
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (52 bp):
GATATTATCTTTTAGCAATTTGATTCCTAATGAGGCATTATATATTATATGA
Found at i:81338813 original size:36 final size:35
Alignment explanation
Indices: 81338732--81338799 Score: 109
Period size: 36 Copynumber: 1.9 Consensus size: 35
81338722 TATGTTTTGT
*
81338732 AATATTGTTGCTTATGTTGTTATACATGGCTACTGG
1 AATATTGTTGCTTATGTTGTTATACATGGCTAC-GC
*
81338768 TATATTGTTGCTTATGTTGTTATACATGGCTA
1 AATATTGTTGCTTATGTTGTTATACATGGCTA
81338800 ACCAACTCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.22, C:0.10, G:0.21, T:0.47
Consensus pattern (35 bp):
AATATTGTTGCTTATGTTGTTATACATGGCTACGC
Found at i:81340769 original size:29 final size:29
Alignment explanation
Indices: 81340707--81340809 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
81340697 GTGACGAGAT
* * *
81340707 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
81340736 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
81340765 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
81340794 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
81340810 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:81342568 original size:35 final size:35
Alignment explanation
Indices: 81342520--81342611 Score: 175
Period size: 35 Copynumber: 2.6 Consensus size: 35
81342510 GCAAATTTAT
*
81342520 AAAAATTAGTCTGCCTAAGTTAATAAATCAGTAGC
1 AAAAATTAATCTGCCTAAGTTAATAAATCAGTAGC
81342555 AAAAATTAATCTGCCTAAGTTAATAAATCAGTAGC
1 AAAAATTAATCTGCCTAAGTTAATAAATCAGTAGC
81342590 AAAAATTAATCTGCCTAAGTTA
1 AAAAATTAATCTGCCTAAGTTA
81342612 GACAAATTTA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 56 1.00
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (35 bp):
AAAAATTAATCTGCCTAAGTTAATAAATCAGTAGC
Found at i:81345351 original size:15 final size:15
Alignment explanation
Indices: 81345308--81345352 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
81345298 CTTTCAAATG
* *
81345308 CATCACTACTAGAAA
1 CATCACTACCAGACA
*
81345323 CATCATTACCAGACA
1 CATCACTACCAGACA
81345338 CATCACTACCAGACA
1 CATCACTACCAGACA
81345353 TTTCTTTTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.42, C:0.33, G:0.07, T:0.18
Consensus pattern (15 bp):
CATCACTACCAGACA
Found at i:81345530 original size:61 final size:61
Alignment explanation
Indices: 81345456--81345586 Score: 221
Period size: 61 Copynumber: 2.2 Consensus size: 61
81345446 CCATTTCTAT
*
81345456 CAGAC-ATAACCAATAC-AAAATAATTTAATACGAACACAACCATTTCTGTCATGCACATGG
1 CAGACAATAACCAATACAAAAATAATTTAATACAAACACAACCATTT-TGTCATGCACATGG
*
81345516 CAGACAATAACCAATACAAAAATAATTTAATACAAACACAACCATTTTTTCATGCACATGG
1 CAGACAATAACCAATACAAAAATAATTTAATACAAACACAACCATTTTGTCATGCACATGG
81345577 CAGACAATAA
1 CAGACAATAA
81345587 TCAAACATTT
Statistics
Matches: 67, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
60 5 0.07
61 34 0.51
62 28 0.42
ACGTcount: A:0.47, C:0.22, G:0.08, T:0.23
Consensus pattern (61 bp):
CAGACAATAACCAATACAAAAATAATTTAATACAAACACAACCATTTTGTCATGCACATGG
Found at i:81345862 original size:6 final size:6
Alignment explanation
Indices: 81345853--81345934 Score: 92
Period size: 6 Copynumber: 13.7 Consensus size: 6
81345843 AAATAACCCT
* * *
81345853 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCT AAATCT AAATCT
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
** * * *
81345901 AAATTG AAATCG AAATCA AAATTA AAATCG AAAT
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAAT
81345935 AACTCAAAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.60, C:0.13, G:0.04, T:0.23
Consensus pattern (6 bp):
AAATCA
Found at i:81345960 original size:16 final size:16
Alignment explanation
Indices: 81345941--81345971 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
81345931 AAATAACTCA
81345941 AAATAACCCTAAATCG
1 AAATAACCCTAAATCG
81345957 AAATAACCCTAAATC
1 AAATAACCCTAAATC
81345972 CAAAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.26, G:0.03, T:0.19
Consensus pattern (16 bp):
AAATAACCCTAAATCG
Found at i:81356966 original size:13 final size:13
Alignment explanation
Indices: 81356929--81356956 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
81356919 CCTAAGATGT
81356929 CACATCTAATAAC
1 CACATCTAATAAC
81356942 CACATCTAATAAC
1 CACATCTAATAAC
81356955 CA
1 CA
81356957 TATCATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.21
Consensus pattern (13 bp):
CACATCTAATAAC
Found at i:81363956 original size:53 final size:53
Alignment explanation
Indices: 81363852--81363956 Score: 120
Period size: 53 Copynumber: 2.0 Consensus size: 53
81363842 TTCCTTTTTA
* * * * **
81363852 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGTTATCCTTGCCTTATG
1 AACTCACCATTGCAATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * * *
81363905 AACTCACCATTGCAATGCCTTGGCATGGTCTTATATGGGATCTTTGTCTTAT
1 AACTCACCATTGCAATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTAT
81363957 CGTAGTTTAT
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
53 42 1.00
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (53 bp):
AACTCACCATTGCAATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:81365378 original size:46 final size:44
Alignment explanation
Indices: 81365276--81365383 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
81365266 TGTCTTTGAC
** * * *
81365276 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATTTATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATTTATAAT
*
81365320 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCC--ATTTATAAT
81365366 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
81365384 TTTATGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 30 0.54
46 26 0.46
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATTTATAAT
Found at i:81369972 original size:35 final size:35
Alignment explanation
Indices: 81369922--81370078 Score: 201
Period size: 35 Copynumber: 4.5 Consensus size: 35
81369912 AGTGCCACGA
* *
81369922 TTCACAACTCAGTATGGTTAATACCATACCTACGT
1 TTCATAACTCAGTATGGATAATACCATACCTACGT
* * *
81369957 TTCACAACTCGGTATGGGA-AATGCCATACCTACGT
1 TTCATAACTCAGTAT-GGATAATACCATACCTACGT
* *
81369992 ATT-ATAGCTTAGTATGGATAATACCATACCTACGT
1 -TTCATAACTCAGTATGGATAATACCATACCTACGT
*
81370027 ATCATAACTCAGTATGGATAATACCATACCTACGT
1 TTCATAACTCAGTATGGATAATACCATACCTACGT
*
81370062 GTCATAACTCAGTATGG
1 TTCATAACTCAGTATGG
81370079 GTATGGATAA
Statistics
Matches: 106, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
34 4 0.04
35 98 0.92
36 4 0.04
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.30
Consensus pattern (35 bp):
TTCATAACTCAGTATGGATAATACCATACCTACGT
Found at i:81372707 original size:27 final size:27
Alignment explanation
Indices: 81372677--81372817 Score: 164
Period size: 27 Copynumber: 5.2 Consensus size: 27
81372667 ATGACGAAGT
*
81372677 CACCAAATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
*
81372704 CACCAGA-ACAGATATATATGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* *
81372731 CACCAGAT-CAGATAATCGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
*
81372758 CACCAGA-ACAGATATATTTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
81372785 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
81372812 CACCAG
1 CACCAG
81372818 GACGCTTCCT
Statistics
Matches: 97, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
26 10 0.10
27 83 0.86
28 4 0.04
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:81372759 original size:54 final size:54
Alignment explanation
Indices: 81372677--81372817 Score: 230
Period size: 54 Copynumber: 2.6 Consensus size: 54
81372667 ATGACGAAGT
* *
81372677 CACCAAATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATATGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATATGGCAGAGC
* *
81372731 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATTTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATATGGCAGAGC
81372785 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
81372818 GACGCTTCCT
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 5 0.06
54 76 0.94
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATATGGCAGAGC
Found at i:81373255 original size:16 final size:15
Alignment explanation
Indices: 81373234--81373263 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
81373224 AAAATACTGA
81373234 CTTTTCGGCATTTTGG
1 CTTTTCGGC-TTTTGG
81373250 CTTTTCGGCTTTTG
1 CTTTTCGGCTTTTG
81373264 CCAATCTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.53
Consensus pattern (15 bp):
CTTTTCGGCTTTTGG
Found at i:81374471 original size:26 final size:26
Alignment explanation
Indices: 81374440--81374547 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
81374430 TGAAATGCCC
*
81374440 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
81374466 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
81374492 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
81374518 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
81374544 ATCA
1 ATCA
81374548 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:81376555 original size:47 final size:47
Alignment explanation
Indices: 81376486--81376577 Score: 166
Period size: 47 Copynumber: 2.0 Consensus size: 47
81376476 CTATTCAGAG
* *
81376486 ATGCATCACTGTACATAACATACGGTATACCTGATTCTGGTTGAGCT
1 ATGCATCACTGTACATAACATACGGCATACCTGATTCTGGCTGAGCT
81376533 ATGCATCACTGTACATAACATACGGCATACCTGATTCTGGCTGAG
1 ATGCATCACTGTACATAACATACGGCATACCTGATTCTGGCTGAG
81376578 TTAACACTGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (47 bp):
ATGCATCACTGTACATAACATACGGCATACCTGATTCTGGCTGAGCT
Found at i:81380720 original size:40 final size:40
Alignment explanation
Indices: 81380675--81380787 Score: 158
Period size: 40 Copynumber: 2.9 Consensus size: 40
81380665 TTATTTGATG
* *
81380675 TGGAATTGTATCCGGGCTTAAAGACCCGTAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGGGC
81380715 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGGGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGGGC
* * *
81380755 TGGAA-TGATATCCCGG-TTAAAAACCTGCAGGCT
1 TGGAATTG-TATCCGGGCTTAAAGACCCGCAGGCT
81380788 GTCCTAGATA
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
39 17 0.25
40 50 0.75
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGGGC
Found at i:81384132 original size:35 final size:35
Alignment explanation
Indices: 81384093--81384220 Score: 132
Period size: 35 Copynumber: 3.7 Consensus size: 35
81384083 CGGTATAGGA
* * * *
81384093 AATACTATACCTACGTATTATAGCTTAATATGGAT
1 AATACCATACCTACGTATCATAACATAATATGGAT
* *
81384128 AATACCATACCTACATATCATAACATAGTATGGAT
1 AATACCATACCTACGTATCATAACATAATATGGAT
* ***
81384163 AATACCATACCTACGTGTCATAAC-TCGGGATGGAT
1 AATACCATACCTACGTATCATAACAT-AATATGGAT
* *
81384198 AATACCATACCTACATGTCATAA
1 AATACCATACCTACGTATCATAA
81384221 ATTTTCCATG
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
34 1 0.01
35 80 0.99
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (35 bp):
AATACCATACCTACGTATCATAACATAATATGGAT
Found at i:81384167 original size:70 final size:70
Alignment explanation
Indices: 81384085--81384220 Score: 175
Period size: 70 Copynumber: 1.9 Consensus size: 70
81384075 TCGCAACTCG
* * * * *
81384085 GTATAGGAAATACTATACCTACGTATTATAGCTTAATATGGATAATACCATACCTACATATCATA
1 GTATAGGAAATACCATACCTACGTATCATAACTCAAGATGGATAATACCATACCTACATATCATA
81384150 ACATA
66 ACATA
* ** *
81384155 GTAT-GGATAATACCATACCTACGTGTCATAACTCGGGATGGATAATACCATACCTACATGTCAT
1 GTATAGGA-AATACCATACCTACGTATCATAACTCAAGATGGATAATACCATACCTACATATCAT
81384219 AA
65 AA
81384221 ATTTTCCATG
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
69 3 0.05
70 53 0.95
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.29
Consensus pattern (70 bp):
GTATAGGAAATACCATACCTACGTATCATAACTCAAGATGGATAATACCATACCTACATATCATA
ACATA
Found at i:81389553 original size:117 final size:123
Alignment explanation
Indices: 81389407--81389658 Score: 320
Period size: 127 Copynumber: 2.0 Consensus size: 123
81389397 TGCAACAGCA
* * *
81389407 AATTAAATAATCAAATTAATGTATTTACTTAG-C-AT-TTT-ACAAAGAGGTTCATCTGAATAAT
1 AATTAAATAATCAAATTAATGTATGTACTTAGCCTATATTTCACAAAGAGGTTCATCTGAAGAAC
* *
81389468 ATTGTGATACCATCCAATTAAAATAAGATGGA-TTACCATATTATATTTC-AC-TGTTT
66 ATTGTGATACCATCCAATTAAAATAAAATGAATTTACCATATTATATTTCAACAT-TTT
* *
81389524 AATTAAATAATCAAATTAATGTATGTACTTAGCTCCTATTGATATTTCACCAATAGGTTCATCTG
1 AATTAAATAATCAAATTAATGTATGTACTTAG--CC---T-ATATTTCACAAAGAGGTTCATCTG
*
81389589 AAGAACATTGTGATACCATCCAATTAAAATAAAATGAATTTACCATATTATTTTTCAACATTTT
60 AAGAACATTGTGATACCATCCAATTAAAATAAAATGAATTTACCATATTATATTTCAACATTTT
81389653 AATTAA
1 AATTAA
81389659 TTTAAAATTA
Statistics
Matches: 114, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
117 31 0.27
120 1 0.01
125 2 0.02
126 3 0.03
127 49 0.43
128 16 0.14
129 11 0.10
130 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (123 bp):
AATTAAATAATCAAATTAATGTATGTACTTAGCCTATATTTCACAAAGAGGTTCATCTGAAGAAC
ATTGTGATACCATCCAATTAAAATAAAATGAATTTACCATATTATATTTCAACATTTT
Found at i:81398472 original size:47 final size:47
Alignment explanation
Indices: 81398421--81398552 Score: 142
Period size: 46 Copynumber: 2.8 Consensus size: 47
81398411 GAATTATGAG
* *
81398421 GCATCCGAACTTGTTGAGTTGCGTTCTAAGTTCACCTATGGATGC-AA
1 GCATCCGAACTCGTTGAGTTGCGTTCCAAGTTCA-CTATGGATGCGAA
* * * *
81398468 GCATCCGAACTCGTTAAGTTGTGTTCCGAGTTCATTATGGATGCGAA
1 GCATCCGAACTCGTTGAGTTGCGTTCCAAGTTCACTATGGATGCGAA
* * * * *
81398515 -CACCCGAGCTCGTTGAGTTGCGTTTCGAGTTCATTATG
1 GCATCCGAACTCGTTGAGTTGCGTTCCAAGTTCACTATG
81398553 TGTGAGATTA
Statistics
Matches: 73, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
46 42 0.58
47 31 0.42
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGCGTTCCAAGTTCACTATGGATGCGAA
Found at i:81401443 original size:15 final size:16
Alignment explanation
Indices: 81401418--81401451 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
81401408 AAGATGAAGT
*
81401418 GTTTGATAAATTTAAA
1 GTTTGATAAATCTAAA
81401434 GTTT-ATAAATCTAAA
1 GTTTGATAAATCTAAA
81401449 GTT
1 GTT
81401452 GAACTTCAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (16 bp):
GTTTGATAAATCTAAA
Found at i:81406052 original size:18 final size:16
Alignment explanation
Indices: 81406029--81406084 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
81406019 TATTTTCATT
81406029 TAAAAACCATAAAAATA
1 TAAAAA-CATAAAAATA
81406046 -ATAAAA-ATAAAAATTA
1 TA-AAAACATAAAAA-TA
*
81406062 TAATAACTATAAAAATA
1 TAAAAAC-ATAAAAATA
81406079 TAAAAA
1 TAAAAA
81406085 TGCAAATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
15 7 0.22
16 6 0.19
17 12 0.38
18 7 0.22
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.23
Consensus pattern (16 bp):
TAAAAACATAAAAATA
Found at i:81406064 original size:24 final size:25
Alignment explanation
Indices: 81406037--81406083 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
81406027 TTTAAAAACC
81406037 ATAA-AAATAATAAAAATA-AAAATT
1 ATAATAAAT-ATAAAAATATAAAATT
*
81406061 ATAATAACTATAAAAATATAAAA
1 ATAATAAATATAAAAATATAAAA
81406084 ATGCAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (25 bp):
ATAATAAATATAAAAATATAAAATT
Found at i:81406538 original size:16 final size:16
Alignment explanation
Indices: 81406513--81406555 Score: 68
Period size: 16 Copynumber: 2.6 Consensus size: 16
81406503 TATTTACTTT
81406513 TTTTGCAATTTATATAA
1 TTTT-CAATTTATATAA
*
81406530 TTTTTAATTTATATAA
1 TTTTCAATTTATATAA
81406546 TTTTCAATTT
1 TTTTCAATTT
81406556 TTATTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 20 0.83
17 4 0.17
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (16 bp):
TTTTCAATTTATATAA
Found at i:81406658 original size:10 final size:10
Alignment explanation
Indices: 81406614--81406664 Score: 50
Period size: 11 Copynumber: 5.0 Consensus size: 10
81406604 CAATAATTTT
*
81406614 TTTTGTAAT-
1 TTTTATAATA
*
81406623 TTTTAAAATAA
1 TTTTATAAT-A
*
81406634 TTTTATATATT
1 TTTTATA-ATA
81406645 TTTTATAATA
1 TTTTATAATA
81406655 TTTTATAATA
1 TTTTATAATA
81406665 ATTATCATTG
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
9 7 0.21
10 12 0.35
11 13 0.38
12 2 0.06
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (10 bp):
TTTTATAATA
Found at i:81409588 original size:12 final size:12
Alignment explanation
Indices: 81409571--81409599 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
81409561 ATCTGTAATC
81409571 ATAAAAAAAAAA
1 ATAAAAAAAAAA
81409583 AT-AAAAAAAAA
1 ATAAAAAAAAAA
81409594 ATAAAA
1 ATAAAA
81409600 TTACACCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (12 bp):
ATAAAAAAAAAA
Found at i:81409590 original size:11 final size:11
Alignment explanation
Indices: 81409574--81409599 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
81409564 TGTAATCATA
81409574 AAAAAAAAAAT
1 AAAAAAAAAAT
81409585 AAAAAAAAAAT
1 AAAAAAAAAAT
81409596 AAAA
1 AAAA
81409600 TTACACCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAAAAAAT
Found at i:81411935 original size:21 final size:22
Alignment explanation
Indices: 81411897--81411937 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
81411887 TGGTTGAACC
81411897 TGGTTAAAATTGATTGAATCGA
1 TGGTTAAAATTGATTGAATCGA
*
81411919 TGGTTAAACTT-ATTGAATC
1 TGGTTAAAATTGATTGAATC
81411938 AAGTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (22 bp):
TGGTTAAAATTGATTGAATCGA
Found at i:81412769 original size:2 final size:2
Alignment explanation
Indices: 81412764--81412801 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
81412754 ATATACATTT
81412764 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
81412802 AGAAATGAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:81413388 original size:22 final size:22
Alignment explanation
Indices: 81413363--81413406 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
81413353 TTATTTTGAC
* *
81413363 TTTACTTTTAAATTTTTAAAGA
1 TTTACTTTTAAAATTTGAAAGA
81413385 TTTACTTTTAAAATTTGAAAGA
1 TTTACTTTTAAAATTTGAAAGA
81413407 GGAGGTCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.50
Consensus pattern (22 bp):
TTTACTTTTAAAATTTGAAAGA
Found at i:81415364 original size:46 final size:46
Alignment explanation
Indices: 81415271--81415479 Score: 189
Period size: 46 Copynumber: 4.5 Consensus size: 46
81415261 GTGCCGATTC
* * *
81415271 CATGTCCCAAACATGGTCTTACACT-G-ACACATCTCGTA-GCTGATG
1 CATGTCCCAAACAT-GTCTTACACTGGCTCTCATCTCG-AGGCCGATG
*
81415316 CATGTCCCAAACATGTCTTACATTGGCT-TACATCTCGAGGCCGATG
1 CATGTCCCAAACATGTCTTACACTGGCTCT-CATCTCGAGGCCGATG
* * * *
81415362 CATGTCCCAGACATGTCTTATACTAGG-TCTCATCTCAATGCCGATG
1 CATGTCCCAAACATGTCTTACACT-GGCTCTCATCTCGAGGCCGATG
* * * *
81415408 CCATGTCCCAGATATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATG
1 -CATGTCCCAAACAT-GTCTTACACTGGCTCTCAT-CTCGAGGCCGATG
81415456 CATGT-CCAAGACATGTCTTACACT
1 CATGTCCCAA-ACATGTCTTACACT
81415480 AGCACACAAA
Statistics
Matches: 136, Mismatches: 17, Indels: 21
0.78 0.10 0.12
Matches are distributed among these distances:
44 9 0.07
45 16 0.12
46 62 0.46
47 26 0.19
48 22 0.16
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
CATGTCCCAAACATGTCTTACACTGGCTCTCATCTCGAGGCCGATG
Found at i:81415452 original size:94 final size:95
Alignment explanation
Indices: 81415210--81415487 Score: 277
Period size: 94 Copynumber: 3.0 Consensus size: 95
81415200 TATAGGGTAT
* ** * *
81415210 AATGTCGATGCCATGTCCCAGACATGGTCTTACACTAACTCTCACATATCCGT-GCCGATTCCAT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT-CGTGGCCGA-TGCAT
*
81415274 GTCCCAAACATGGTCTTACACT--GACACATCTC
63 GTCCCAGACAT-GTCTTACACTAGGACACATCTC
* * * * * *
81415306 -GTAGCTGATG-CATGTCCCAAACAT-GTCTTACATTGGCT-TACAT-CTCGAGGCCGATGCATG
1 AAT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATCGTGGCCGATGCATG
* * *
81415366 TCCCAGACATGTCTTATACTAGGTCTCATCTC
64 TCCCAGACATGTCTTACACTAGGACACATCTC
*
81415398 AATGCCGATGCCATGTCCCAGATATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCATGTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATCGTGGCCGATGCATGTC
* *
81415462 CAAGACATGTCTTACACTAGCACACA
66 CCAGACATGTCTTACACTAGGACACA
81415488 AATAACCCGA
Statistics
Matches: 145, Mismatches: 27, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
90 9 0.06
91 16 0.11
92 20 0.14
93 14 0.10
94 65 0.45
95 16 0.11
96 5 0.03
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (95 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATCGTGGCCGATGCATGTC
CCAGACATGTCTTACACTAGGACACATCTC
Found at i:81415474 original size:140 final size:141
Alignment explanation
Indices: 81415215--81415477 Score: 320
Period size: 138 Copynumber: 1.9 Consensus size: 141
81415205 GGTATAATGT
** *
81415215 CGATGCCATGTCCCAGACATGGTCTTACACTAACTCTCACATATCCGTGCCGATTCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACTCT-ACATATCAATGCCGATGCCATGTCCCA
*
81415280 AACATGGTCTTACACTGACACATCTCGTAGCTGATGCATGTCCCAAACATGTCTTACATTGGCTT
65 AACATGGTCTTACACTGACACATCTCGTAGCCGATGCATGTCCCAAACATGTCTTACATTGGCTT
81415345 ACATCTCGAGGC
130 ACATCTCGAGGC
* ** * *
81415357 CGATG-CATGTCCCAGACAT-GTCTTATACTAGGTCT-CATCTCAATGCCGATGCCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACTCTACATATCAATGCCGATGCCATGTCCCAA
* * * * *
81415419 ATATGGTCTTACACTGGCTC-TCATAATGTGGCCGATGCATGT-CCAAGACATGTCTTACA
66 ACATGGTCTTACACTGACACATC-T--CGTAGCCGATGCATGTCCCAA-ACATGTCTTACA
81415478 CTAGCACACA
Statistics
Matches: 103, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
137 2 0.02
138 40 0.39
139 4 0.04
140 38 0.37
141 14 0.14
142 5 0.05
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (141 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAACTCTACATATCAATGCCGATGCCATGTCCCAA
ACATGGTCTTACACTGACACATCTCGTAGCCGATGCATGTCCCAAACATGTCTTACATTGGCTTA
CATCTCGAGGC
Found at i:81424119 original size:3 final size:3
Alignment explanation
Indices: 81424113--81424143 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
81424103 GAGGAGGAGG
*
81424113 AGA AGA AGA AGA AGA AGA AGA AGA AGG AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
81424144 AAGGATAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:81426123 original size:318 final size:318
Alignment explanation
Indices: 81425546--81426182 Score: 1238
Period size: 318 Copynumber: 2.0 Consensus size: 318
81425536 ATGCTAAGTT
81425546 AGAGAAGTCTAATGAAAGCATGGATGGAGTAATTTTTGGTGTTACACCCATATTTGGGATTCAGG
1 AGAGAAGTCTAATGAAAGCATGGATGGAGTAATTTTTGGTGTTACACCCATATTTGGGATTCAGG
*
81425611 TGTTTCGGGGTTTGCAATTGTTTTTTTGTTGAAGAGCTGGTGGATGGTTCAAACCAAAGGGAGAT
66 TGTTTCAGGGTTTGCAATTGTTTTTTTGTTGAAGAGCTGGTGGATGGTTCAAACCAAAGGGAGAT
81425676 TACAGTTGGATTCAATGGAATTCTGAGTTGAGCTTAAGATACACGCTGCACTTTAGTCAAAGTTG
131 TACAGTTGGATTCAATGGAATTCTGAGTTGAGCTTAAGATACACGCTGCACTTTAGTCAAAGTTG
* *
81425741 ACTTGCCATGTCAGCAGGTTAACTTGCCACGTCATGGTGCCGTTAACACCTTAACGAAAACTGTT
196 ACTTACCATGTCAGCAGGTTAACTTGCCACGTCATGGTGACGTTAACACCTTAACGAAAACTGTT
*
81425806 AATCAGTGACTATTTTGTCACTTTTTTATAACGTTAGTGACTATTTTGTAACTTTTGG
261 AATCAGTGACTATTTTGTCACTTTTTTATAACATTAGTGACTATTTTGTAACTTTTGG
81425864 AGAGAAGTCTAATGAAAGCATGGATGGAGTAATTTTTGGTGTTACACCCATATTTGGGATTCAGG
1 AGAGAAGTCTAATGAAAGCATGGATGGAGTAATTTTTGGTGTTACACCCATATTTGGGATTCAGG
81425929 TGTTTCAGGGTTTGCAATTGTTTTTTTGTTGAAGAGCTGGTGGATGGTTCAAACCAAAGGGAGAT
66 TGTTTCAGGGTTTGCAATTGTTTTTTTGTTGAAGAGCTGGTGGATGGTTCAAACCAAAGGGAGAT
81425994 TACAGTTGGATTCAATGGAATTCTGAGTTGAGCTTAAGATACACGCTGCACTTTAGTCAAAGTTG
131 TACAGTTGGATTCAATGGAATTCTGAGTTGAGCTTAAGATACACGCTGCACTTTAGTCAAAGTTG
81426059 ACTTACCATGTCAGCAGGTTAACTTGCCACGTCATGGTGACGTTAACACCTTAACGAAAACTGTT
196 ACTTACCATGTCAGCAGGTTAACTTGCCACGTCATGGTGACGTTAACACCTTAACGAAAACTGTT
81426124 AATCAGTGACTATTTTGTCACTTTTTTATAACATTAGTGACTATTTTGTAACTTTTGG
261 AATCAGTGACTATTTTGTCACTTTTTTATAACATTAGTGACTATTTTGTAACTTTTGG
81426182 A
1 A
81426183 AAGTTAAGTG
Statistics
Matches: 315, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
318 315 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (318 bp):
AGAGAAGTCTAATGAAAGCATGGATGGAGTAATTTTTGGTGTTACACCCATATTTGGGATTCAGG
TGTTTCAGGGTTTGCAATTGTTTTTTTGTTGAAGAGCTGGTGGATGGTTCAAACCAAAGGGAGAT
TACAGTTGGATTCAATGGAATTCTGAGTTGAGCTTAAGATACACGCTGCACTTTAGTCAAAGTTG
ACTTACCATGTCAGCAGGTTAACTTGCCACGTCATGGTGACGTTAACACCTTAACGAAAACTGTT
AATCAGTGACTATTTTGTCACTTTTTTATAACATTAGTGACTATTTTGTAACTTTTGG
Found at i:81429862 original size:55 final size:54
Alignment explanation
Indices: 81429662--81429864 Score: 237
Period size: 55 Copynumber: 3.7 Consensus size: 54
81429652 TTTTTATGAA
* * *
81429662 TTTTGAATCTATTGTTTATATGTTCAAATCGATT-TTCATGTTGTAATACTGCTTC
1 TTTTGAAT-AATTGTTTATATGTTTAAATCGATTGTT-ATGTTGGAATACTGCTTC
* * * * *
81429717 TTTTGAATTGATTGTTTATATATTTAAATTGATTGCTATGTTCGAATACTGCTTC
1 TTTTGAA-TAATTGTTTATATGTTTAAATCGATTGTTATGTTGGAATACTGCTTC
* *
81429772 TTTTAAATAGATTGTTTATATGTTTAAATCGATTGTTTTGTTGGAATACTGCTTC
1 TTTTGAATA-ATTGTTTATATGTTTAAATCGATTGTTATGTTGGAATACTGCTTC
* * *
81429827 TTTTGATTCAATTGTTTATATGCTTAAATCAATTGTTA
1 TTTTGAAT-AATTGTTTATATGTTTAAATCGATTGTTA
81429865 CGTAGCACGT
Statistics
Matches: 125, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
54 1 0.01
55 121 0.97
56 3 0.02
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (54 bp):
TTTTGAATAATTGTTTATATGTTTAAATCGATTGTTATGTTGGAATACTGCTTC
Found at i:81430352 original size:39 final size:39
Alignment explanation
Indices: 81430308--81430387 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
81430298 CCGATACGCA
81430308 CTATAAATGGTCATTCATTTGCATCATCATAACCAAACT
1 CTATAAATGGTCATTCATTTGCATCATCATAACCAAACT
81430347 CTATAAATGGTCATTCATTTGCATCATCATAACCAAACT
1 CTATAAATGGTCATTCATTTGCATCATCATAACCAAACT
81430386 CT
1 CT
81430388 GGCAGTAGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.34
Consensus pattern (39 bp):
CTATAAATGGTCATTCATTTGCATCATCATAACCAAACT
Found at i:81435247 original size:2 final size:2
Alignment explanation
Indices: 81435240--81435287 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
81435230 TTGTGATTAA
81435240 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
81435282 AT AT AT
1 AT AT AT
81435288 GTTAGTATGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:81440335 original size:102 final size:102
Alignment explanation
Indices: 81440159--81440361 Score: 361
Period size: 102 Copynumber: 2.0 Consensus size: 102
81440149 GCATTGAGTG
81440159 TGACTCAACTACTGAAACATTAGCCAATAGTGACACCATGCTTGTGTAGGTATCCGATGATGAGG
1 TGACTCAACTACTGAAACATTAGCCAATAGTGACACCATGCTTGTGTAGGTATCCGATGATGAGG
81440224 CAAGCCTTAATGTTGAGCATAGTTGCTGATGTTGAAC
66 CAAGCCTTAATGTTGAGCATAGTTGCTGATGTTGAAC
* * *
81440261 TGACTCAACTACTGAAACTTTAGCTAATAGTGACACCATGCTTGTGTAGGTATTCGATGATGAGG
1 TGACTCAACTACTGAAACATTAGCCAATAGTGACACCATGCTTGTGTAGGTATCCGATGATGAGG
* *
81440326 CAAGCCTTAATGTTGAGCCTAGTTGTTGATGTTGAA
66 CAAGCCTTAATGTTGAGCATAGTTGCTGATGTTGAA
81440362 GTGCTTAGAT
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 96 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.31
Consensus pattern (102 bp):
TGACTCAACTACTGAAACATTAGCCAATAGTGACACCATGCTTGTGTAGGTATCCGATGATGAGG
CAAGCCTTAATGTTGAGCATAGTTGCTGATGTTGAAC
Found at i:81441126 original size:30 final size:30
Alignment explanation
Indices: 81441092--81441186 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
81441082 TTTGTAAATG
81441092 AAATTTTGATGAAATTGTGATTTAGGGACT
1 AAATTTTGATGAAATTGTGATTTAGGGACT
* * * *
81441122 AAA--TTGA--AAAGATGTAAAATTTATGGATGT
1 AAATTTTGATGAAA-TTGT--GATTTAGGGA-CT
*
81441152 AAATTTTGATGAAATTATGATTTAGGGACT
1 AAATTTTGATGAAATTGTGATTTAGGGACT
81441182 AAATT
1 AAATT
81441187 GAAATTGTCA
Statistics
Matches: 48, Mismatches: 9, Indels: 16
0.66 0.12 0.22
Matches are distributed among these distances:
26 3 0.06
27 3 0.06
28 4 0.08
29 8 0.17
30 13 0.27
31 8 0.17
32 4 0.08
33 2 0.04
34 3 0.06
ACGTcount: A:0.40, C:0.02, G:0.20, T:0.38
Consensus pattern (30 bp):
AAATTTTGATGAAATTGTGATTTAGGGACT
Found at i:81441870 original size:24 final size:25
Alignment explanation
Indices: 81441843--81441901 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
81441833 CTGTTAATGT
81441843 CTCTTCA-GAG-TTACCCG-TTATTGG
1 CTCTTCATGAGCTT-CCCGATTA-TGG
81441867 CTC-TCATGAGCTTCCCGATTATGG
1 CTCTTCATGAGCTTCCCGATTATGG
81441891 CTCTT-ATGAGC
1 CTCTTCATGAGC
81441902 CTCCTGTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
23 3 0.10
24 22 0.71
25 6 0.19
ACGTcount: A:0.17, C:0.27, G:0.20, T:0.36
Consensus pattern (25 bp):
CTCTTCATGAGCTTCCCGATTATGG
Found at i:81449747 original size:40 final size:40
Alignment explanation
Indices: 81449673--81449818 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
81449663 CCGCACCAAG
* * * * * *
81449673 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
81449713 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
81449753 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * *
81449793 ACCTTCGGGTCTTAACCCGGTTATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
81449819 TTTCCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:81457836 original size:40 final size:40
Alignment explanation
Indices: 81457762--81457907 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
81457752 CCGCACCAAG
* * * * * *
81457762 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
81457802 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
81457842 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
81457882 GCCTTCGGGTCTTAACCCGGTTATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
81457908 TTTCCAGCAT
Statistics
Matches: 89, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:81457922 original size:40 final size:40
Alignment explanation
Indices: 81457794--81457945 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 40
81457784 ATCACGATTT
* * * **
81457794 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* *
81457834 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * * *
81457874 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * *
81457914 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
81457946 CATTCAATTT
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.02
40 91 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
Found at i:81462788 original size:40 final size:39
Alignment explanation
Indices: 81462743--81462869 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 39
81462733 CGGAACATAA
81462743 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
81462783 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
81462823 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
81462863 CCGGATA
1 CCGGATA
81462870 AAATTTCCAG
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
40 67 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:81462887 original size:40 final size:40
Alignment explanation
Indices: 81462759--81462908 Score: 144
Period size: 40 Copynumber: 3.8 Consensus size: 40
81462749 ATAACCATGT
* * *
81462759 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAATCTC-CA
** ** * *
81462799 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATAAAATCTCCA
* *
81462839 GCACAATTGCCTTCGGGTCTTAACCCGGATAAAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAATCTCCA
* *
81462879 GCATAATTGTCTTCGGGT-TTAGCCCGGATA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATA
81462909 TCATTCAATT
Statistics
Matches: 89, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 13 0.15
40 74 0.83
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAATCTCCA
Found at i:81462893 original size:80 final size:79
Alignment explanation
Indices: 81462759--81462907 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
81462749 ATAACCATGT
* *
81462759 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTCGCACGAATGCCTTCGGGT-TTAGCC
81462824 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * *
81462839 GCACAATTGCCTTCGGGTCTTAACCCGGATAAAATTTC-CAGCA-TAATTGTCTTCGGGTTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTC-GCACGAA-TGCCTTCGGGTTTAGC
81462902 CCGGAT
64 CCGGAT
81462908 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 14 0.23
80 47 0.77
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTCGCACGAATGCCTTCGGGTTTAGCCC
GGATGTAGCCACTA
Found at i:81469250 original size:15 final size:17
Alignment explanation
Indices: 81469225--81469266 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
81469215 TGAGAGAAGA
81469225 AAAAGAGAAAT-AAAAG
1 AAAAGAGAAATCAAAAG
81469241 AAAA-AGAAATCAAAAAAG
1 AAAAGAGAAATC--AAAAG
81469259 AAAAGAGA
1 AAAAGAGA
81469267 TTGAGAGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 6 0.27
16 4 0.18
18 9 0.41
19 3 0.14
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.05
Consensus pattern (17 bp):
AAAAGAGAAATCAAAAG
Found at i:81471538 original size:49 final size:49
Alignment explanation
Indices: 81471466--81471659 Score: 194
Period size: 49 Copynumber: 3.9 Consensus size: 49
81471456 GCCGAAGCTA
*
81471466 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
* * *
81471515 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTCACCA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAACAG
** * * * * *
81471565 TCTAATACACGTAGTAGCCTGCACTTAGTGCTACACACGTGATC-ACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
* ** *
81471613 TTTTCGGGTACGTATAGTAGCCTGCACTTAGTACTAGACATGCGACC
1 ---TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC
81471660 TCACAATAGA
Statistics
Matches: 118, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 39 0.33
50 39 0.33
51 37 0.31
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (49 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
Found at i:81471599 original size:50 final size:49
Alignment explanation
Indices: 81471477--81471606 Score: 181
Period size: 50 Copynumber: 2.6 Consensus size: 49
81471467 CTGGTACGCA
* **
81471477 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAGTCTAATACACG
*
81471526 TAGTAGCCTGCACTTAGTACTACACATGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAACAGTCTAATACACG
* *
81471576 TAGTAGCCTGCACTTAGTGCTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA
81471607 TCACAGTTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
49 30 0.41
50 39 0.53
51 4 0.05
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAGTCTAATACACG
Found at i:81476718 original size:19 final size:19
Alignment explanation
Indices: 81476683--81476779 Score: 144
Period size: 19 Copynumber: 5.1 Consensus size: 19
81476673 ATATTACAAG
81476683 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
81476704 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
81476723 ATCATATCTAAGAGTG--T
1 ATCATATCTAAGATTGCAT
*
81476740 ATCATATCTAATATTGCAT
1 ATCATATCTAAGATTGCAT
81476759 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
81476778 AT
1 AT
81476780 TCTTAAAGAT
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
17 15 0.21
19 46 0.66
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Done.