Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 36 of 187
Found at i:11355927 original size:12 final size:12
Alignment explanation
Indices: 11355910--11355935 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11355900 AATTGAAATC
11355910 AAATTCTTTTAT
1 AAATTCTTTTAT
11355922 AAATTCTTTTAT
1 AAATTCTTTTAT
11355934 AA
1 AA
11355936 TATTATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (12 bp):
AAATTCTTTTAT
Found at i:11355969 original size:22 final size:25
Alignment explanation
Indices: 11355944--11356001 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
11355934 AATATTATAT
*
11355944 AATAAAATTTAA-ATTT-TAT-AAA
1 AATAAAATATAATATTTCTATAAAA
* *
11355966 AATAAACTATAATTTTTCTATAAAA
1 AATAAAATATAATATTTCTATAAAA
11355991 AATAAAATATA
1 AATAAAATATA
11356002 GTTACTTACA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 10 0.34
23 3 0.10
24 3 0.10
25 13 0.45
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (25 bp):
AATAAAATATAATATTTCTATAAAA
Found at i:11357830 original size:75 final size:75
Alignment explanation
Indices: 11357707--11357853 Score: 267
Period size: 75 Copynumber: 2.0 Consensus size: 75
11357697 ACAATCCATG
** *
11357707 TTACATTCCAAATTACTTAGATTCAATTATGGCTTTGATCCCTCTGCAATGCTCATGTTTAGGAT
1 TTACATTCCAAATTACTTAGACCCAATTATGGCTTTGATCCCTCTGCAATGCTCATATTTAGGAT
11357772 TTAGTTCTTA
66 TTAGTTCTTA
11357782 TTACATTCCAAATTACTTAGACCCAATTATGGCTTTGATCCCTCTGCAATGCTCATATTTAGGAT
1 TTACATTCCAAATTACTTAGACCCAATTATGGCTTTGATCCCTCTGCAATGCTCATATTTAGGAT
11357847 TTAGTTC
66 TTAGTTC
11357854 ATATAATTTG
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 69 1.00
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (75 bp):
TTACATTCCAAATTACTTAGACCCAATTATGGCTTTGATCCCTCTGCAATGCTCATATTTAGGAT
TTAGTTCTTA
Found at i:11361296 original size:22 final size:22
Alignment explanation
Indices: 11361271--11361317 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
11361261 CTATAAATCT
11361271 ATAATGAAT-ACAATAAT-AAGAA
1 ATAAT-AATAACAATAATGAA-AA
11361293 ATAATAATAACAATAATGAAAA
1 ATAATAATAACAATAATGAAAA
11361315 ATA
1 ATA
11361318 TTCAATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 3 0.13
22 18 0.78
23 2 0.09
ACGTcount: A:0.66, C:0.04, G:0.06, T:0.23
Consensus pattern (22 bp):
ATAATAATAACAATAATGAAAA
Found at i:11363206 original size:44 final size:44
Alignment explanation
Indices: 11363158--11363633 Score: 157
Period size: 44 Copynumber: 10.2 Consensus size: 44
11363148 TTTCAGGGGT
11363158 ATAAGATTTGTAGCTTCAATTTGCTCCACTGCAACTTCAAGGAG
1 ATAAGATTTGTAGCTTCAATTTGCTCCACTGCAACTTCAAGGAG
** * * * *
11363202 ATAAGATTCGCTATAGTAGAATCAATTTGATCCACAGCAACTT-TAGGGG
1 ATAAGA-T---T-T-GTAGCTTCAATTTGCTCCACTGCAACTTCAAGGAG
* * *
11363251 TATAAGATTTGTAGCTTCAATTTACTTCACTGCAACTTCAGGGAG
1 -ATAAGATTTGTAGCTTCAATTTGCTCCACTGCAACTTCAAGGAG
* * ** *
11363296 AAAAGATTCTCTATAGTAGAATT-AATCCGAC-CCACTGCAACTTC-AGGGG
1 ATAAGA---T-T-T-GTAG-CTTCAATTTG-CTCCACTGCAACTTCAAGGAG
* * * *
11363345 AATAAGATTTTGTAGCTTCAATATGCTCCAATGCAATTTCAGGGAG
1 -ATAAGA-TTTGTAGCTTCAATTTGCTCCACTGCAACTTCAAGGAG
* * *
11363391 ATAAGATTCGCTATGGTAGATTCAA--TCCAACACACTGCAACTTCAAGG-G
1 ATAAGA-T---T-T-GTAGCTTCAATTTGC-TC-CACTGCAACTTCAAGGAG
** * * * * * *
11363440 TATGGGATTTGTAGTTTCAATCTACTCCACTACAACTTTAGGGAG
1 -ATAAGATTTGTAGCTTCAATTTGCTCCACTGCAACTTCAAGGAG
* * *
11363485 ATAAGATTCATTATAGTAGTTTC-ATTCCGAC-CTACTGCAACTTCAAGG-G
1 ATAAG----ATT-T-GTAGCTTCAATT-TG-CTCCACTGCAACTTCAAGGAG
* * * * * *
11363534 -TATAGATATTGTAGCTTCAATCTGATCCACCGCAACTTTAGGGAT
1 ATA-AGAT-TTGTAGCTTCAATTTGCTCCACTGCAACTTCAAGGAG
* * * *
11363579 ATAGGATTTGTATCTTC-ATCTTGCTCCACTGTAACTTCAGGGAG
1 ATAAGATTTGTAGCTTCAAT-TTGCTCCACTGCAACTTCAAGGAG
11363623 ATAAGATTTGT
1 ATAAGATTTGT
11363634 GATTTCATTT
Statistics
Matches: 313, Mismatches: 73, Indels: 92
0.65 0.15 0.19
Matches are distributed among these distances:
43 2 0.01
44 119 0.38
45 43 0.14
46 11 0.04
47 2 0.01
48 11 0.04
49 20 0.06
50 101 0.32
51 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (44 bp):
ATAAGATTTGTAGCTTCAATTTGCTCCACTGCAACTTCAAGGAG
Found at i:11363266 original size:94 final size:93
Alignment explanation
Indices: 11363129--11363586 Score: 470
Period size: 94 Copynumber: 4.9 Consensus size: 93
11363119 TGTTGTAGTT
** * *
11363129 TCAATTCGACCCACCACAATTTCAGGGGTATAAGATTTGTAGCTTCAATTTGCTCCACTGCAACT
1 TCAATTCGA-CCACTGCAACTTCAGGGGTATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACT
*
11363194 TCAAGGAGATAAGATTCGCTATAGTAGAA
65 TCAGGGAGATAAGATTCGCTATAGTAGAA
* * * * * *
11363223 TCAATTTGATCCACAGCAACTTTAGGGGTATAAGATTTGTAGCTTCAATTTACTTCACTGCAACT
1 TCAATTCGA-CCACTGCAACTTCAGGGGTATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACT
* *
11363288 TCAGGGAGAAAAGATTCTCTATAGTAGAA
65 TCAGGGAGATAAGATTCGCTATAGTAGAA
* * * * * *
11363317 TTAATCCGACCCACTGCAACTTCAGGGGAATAAGATTTTGTAGCTTCAATATGCTCCAATGCAAT
1 TCAATTCGA-CCACTGCAACTTCAGGGGTATAAGA-TTTGTAGCTTCAATCTGCTCCACTGCAAC
* *
11363382 TTCAGGGAGATAAGATTCGCTATGGTAGAT
64 TTCAGGGAGATAAGATTCGCTATAGTAGAA
* * * ** * * *
11363412 TCAATCCAACACACTGCAACTTCAAGGGTATGGGATTTGTAGTTTCAATCTACTCCACTACAACT
1 TCAATTCGAC-CACTGCAACTTCAGGGGTATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACT
* ** **
11363477 TTAGGGAGATAAGATTCATTATAGTAGTT
65 TCAGGGAGATAAGATTCGCTATAGTAGAA
* * *
11363506 TC-ATTCCGACCTACTGCAACTTCAAGGGTAT-AGATATTGTAGCTTCAATCTGATCCACCGCAA
1 TCAATT-CGACC-ACTGCAACTTCAGGGGTATAAGAT-TTGTAGCTTCAATCTGCTCCACTGCAA
* * *
11363569 CTTTAGGGATATAGGATT
63 CTTCAGGGAGATAAGATT
11363587 TGTATCTTCA
Statistics
Matches: 305, Mismatches: 54, Indels: 10
0.83 0.15 0.03
Matches are distributed among these distances:
93 6 0.02
94 222 0.73
95 77 0.25
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (93 bp):
TCAATTCGACCACTGCAACTTCAGGGGTATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTT
CAGGGAGATAAGATTCGCTATAGTAGAA
Found at i:11363485 original size:189 final size:189
Alignment explanation
Indices: 11363123--11363554 Score: 523
Period size: 189 Copynumber: 2.3 Consensus size: 189
11363113 TTTTTTTGTT
* * ** * * *
11363123 GTAGTTTCAATTCGACCCACCACAATTTCAGGGGTATAAGA-TTTGTAGCTTCAATTTGCTCCAC
1 GTAGATTCAATCCGACCCACTGCAACTTCAGGGGTATAAGATTTTGTAGCTTCAATATGCTCCAA
** * * *
11363187 TGCAACTTCAAGGAGATAAGATTCGCTATAGTAGAATCAATTTGATCCACAGCAACTTTAGGGGT
66 TGCAACTTCAAGGAGATAAGATTCGCTATAGTAGAATCAATTCCAACCACAGCAACTTCAAGGGT
* * *
11363252 ATAAGATTTGTAGCTTCAATTTACTTCACTGCAACTTCAGGGAGAAAAGATTC-TCTATA
131 ATAAGATTTGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGAAAAGATTCAT-TATA
*
11363311 GTAGAATT-AATCCGACCCACTGCAACTTCAGGGGAATAAGATTTTGTAGCTTCAATATGCTCCA
1 GTAG-ATTCAATCCGACCCACTGCAACTTCAGGGGTATAAGATTTTGTAGCTTCAATATGCTCCA
* * * * *
11363375 ATGCAATTTCAGGGAGATAAGATTCGCTATGGTAGATTCAA-TCCAACACACTGCAACTTCAAGG
65 ATGCAACTTCAAGGAGATAAGATTCGCTATAGTAGAATCAATTCCAAC-CACAGCAACTTCAAGG
** * * *
11363439 GTATGGGATTTGTAGTTTCAATCTACTCCACTACAACTTTAGGGAGATAAGATTCATTATA
129 GTATAAGATTTGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGAAAAGATTCATTATA
* * * * *
11363500 GTAGTTTCATTCCGACCTACTGCAACTTCAAGGGTAT-AGATATTGTAGCTTCAAT
1 GTAGATTCAATCCGACCCACTGCAACTTCAGGGGTATAAGATTTTGTAGCTTCAAT
11363555 CTGATCCACC
Statistics
Matches: 207, Mismatches: 32, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
188 54 0.26
189 152 0.73
190 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (189 bp):
GTAGATTCAATCCGACCCACTGCAACTTCAGGGGTATAAGATTTTGTAGCTTCAATATGCTCCAA
TGCAACTTCAAGGAGATAAGATTCGCTATAGTAGAATCAATTCCAACCACAGCAACTTCAAGGGT
ATAAGATTTGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGAAAAGATTCATTATA
Found at i:11370234 original size:3 final size:3
Alignment explanation
Indices: 11370226--11370282 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
11370216 TGACTATAAC
*
11370226 ATA ATA ATA ATA ATA ATA AGA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11370274 ATA ATA ATA
1 ATA ATA ATA
11370283 TCTAATGACA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:11371966 original size:6 final size:7
Alignment explanation
Indices: 11371955--11371981 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
11371945 TTTCAAATTC
11371955 ATTTTTT
1 ATTTTTT
11371962 ATTTTTT
1 ATTTTTT
11371969 ATTTTTT
1 ATTTTTT
11371976 ATTTTT
1 ATTTTT
11371982 GGCTTCATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
ATTTTTT
Found at i:11380460 original size:2 final size:2
Alignment explanation
Indices: 11380453--11380485 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
11380443 AATAAATGAT
*
11380453 TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11380486 CTACTTTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:11382035 original size:20 final size:22
Alignment explanation
Indices: 11382012--11382054 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
11382002 AAATGGTAGC
*
11382012 AAAATA-CTAAAAAA-AAAAAG
1 AAAATAGCAAAAAAAGAAAAAG
11382032 AAAATAGCAAAAAAAGAAAAAG
1 AAAATAGCAAAAAAAGAAAAAG
11382054 A
1 A
11382055 GAGAGAGAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 7 0.35
22 7 0.35
ACGTcount: A:0.79, C:0.05, G:0.09, T:0.07
Consensus pattern (22 bp):
AAAATAGCAAAAAAAGAAAAAG
Found at i:11382978 original size:29 final size:31
Alignment explanation
Indices: 11382905--11382979 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 31
11382895 AACGGCTCAA
* *
11382905 TGACTAAAATGTTACATCATGATAACATAAG
1 TGACTAAAATGTAACATCATCATAACATAAG
* * * *
11382936 TGAGTACAACGTAACAT-TTCA-AACATAAG
1 TGACTAAAATGTAACATCATCATAACATAAG
11382965 TGACTAAAATGTAAC
1 TGACTAAAATGTAAC
11382980 CTGAACCAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
29 20 0.57
30 2 0.06
31 13 0.37
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.27
Consensus pattern (31 bp):
TGACTAAAATGTAACATCATCATAACATAAG
Found at i:11383256 original size:23 final size:23
Alignment explanation
Indices: 11383229--11383280 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
11383219 TTTAAAACTC
11383229 TTTTTATACAAAAAAAACAT-TT
1 TTTTTATACAAAAAAAACATATT
* *
11383251 ATTTTTATACATATAAAACATATT
1 -TTTTTATACAAAAAAAACATATT
11383275 TTTTTA
1 TTTTTA
11383281 AAATTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 24 0.92
24 2 0.08
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (23 bp):
TTTTTATACAAAAAAAACATATT
Found at i:11383289 original size:22 final size:23
Alignment explanation
Indices: 11383229--11383290 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 23
11383219 TTTAAAACTC
*
11383229 TTTTTATACAA-AAAAAACATTTA
1 TTTTTATA-AATATAAAACATTTA
*
11383252 TTTTTATACATATAAAACATATT-
1 TTTTTATAAATATAAAACAT-TTA
*
11383275 TTTTTA-AAATTTAAAA
1 TTTTTATAAATATAAAA
11383291 TTTATTAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
22 9 0.27
23 22 0.67
24 2 0.06
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (23 bp):
TTTTTATAAATATAAAACATTTA
Found at i:11383415 original size:26 final size:26
Alignment explanation
Indices: 11383386--11383437 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
11383376 AAACTATATT
11383386 ACACAAATTACATAATATATAAATAA
1 ACACAAATTACATAATATATAAATAA
11383412 ACACAAATTACATAATATATAAATAA
1 ACACAAATTACATAATATATAAATAA
11383438 TAAATAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.27
Consensus pattern (26 bp):
ACACAAATTACATAATATATAAATAA
Found at i:11383450 original size:26 final size:25
Alignment explanation
Indices: 11383395--11383466 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 25
11383385 TACACAAATT
*
11383395 ACATAATATATAAATAAACACA-AATT
1 ACATAATATATAAATAAA-A-ATAATA
11383421 ACATAATATATAAATAATAAATAATA
1 ACATAATATATAAATAA-AAATAATA
*
11383447 ACATATTAT-TAAATCAAAAA
1 ACATAATATATAAAT-AAAAA
11383467 ATAGATTAGG
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
25 9 0.22
26 31 0.76
27 1 0.02
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
ACATAATATATAAATAAAAATAATA
Found at i:11398881 original size:45 final size:44
Alignment explanation
Indices: 11398774--11399622 Score: 383
Period size: 51 Copynumber: 18.6 Consensus size: 44
11398764 GTCACCGTAG
* * * *
11398774 CAAATC-TACCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA
* * *
11398817 CAAATCTTATCTCCCTGAAGTTACAGTGGAGCAAATTTAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA
* * * *
11398861 GCGAATCTTATTTCCCTGAAGTTGCAGCGG-GACATATTAAAGCTACAAGTTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAG-CAGATTAAAG-----A--TA
* * *
11398913 CAAATCTTATCTCTCTGAAGGTGCAATGGAGCAGATTAAAG---
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA
* * *
11398954 CGAA-CTTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCTA
1 CAAATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA
* *
11398998 TAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA
* * * * *** * *
11399042 GCGAATCTTATTTTCCTGAAGTTGTAGCAAAACAAATTAAAGCTACAATTTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-----A--TA
* *
11399094 CAAATCTTATCTCCCTAAAGGTGCAGTGGAGCAGATT-AA-AT-
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA
* * * *
11399135 CGAA-CATTATCTCCTTGAAGTTACAGTGGAGCAGATTAAAGCTA
1 CAAATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA
* * *
11399179 CAAATTCTTATCTCCTTGAAGTTACAGTGGAGCAGATTGAAGATA
1 CAAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA
* * * **
11399224 GCAAATCTTATTTCCCTGAAGTTCCAGTGAAATAGATTAAAGCTACAAGTTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-----A--TA
*
11399276 CAAATCTTATCTCCCTGAAGGTGCAGTGGAGCAGATTAAAG-TAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT-A
* * * * * *
11399320 CAAGTCCTATAC-CTCTGAGGTTGCAGTGG-GTCAAATTAAATATA
1 CAAATCTTAT-CTCCCTGAAGTTGCAGTGGAG-CAGATTAAAGATA
* * *
11399364 CTATAGCAAGTCTTATCTCCCTGAAGTTACAGTGGAATAGACTAAAGTTACAAGCTA
1 C---A--AA-TCTTATCTCCCTGAAGTTGCAGTGG---AG-C-AGA-TTA-AAGATA
* ** ** * *
11399421 CAAATCTTATATCCCTGAAGTTGCAACGGAATAGGTTGAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA
* * ** *
11399465 CAAA---TATCTCCCTGAACTTGCAATGGAATATATTAAAGTTACAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-----A--TA
** ** * *
11399513 CAAATCTTATCTCCCTGAAGTTGCAGCAGAATAGGTTGAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA
* * *
11399557 CAAA---TATCT-CCTCGAAATTGTAGTGGAGTAGATTAAA-ATA
1 CAAATCTTATCTCCCT-GAAGTTGCAGTGGAGCAGATTAAAGATA
* *
11399597 TCAATTCTTATAC-CCATGAAGTTGCA
1 -CAAATCTTAT-CTCCCTGAAGTTGCA
11399623 ATAGGTTGAA
Statistics
Matches: 613, Mismatches: 120, Indels: 145
0.70 0.14 0.17
Matches are distributed among these distances:
40 8 0.01
41 117 0.19
42 3 0.00
43 9 0.01
44 131 0.21
45 139 0.23
46 8 0.01
47 1 0.00
48 7 0.01
49 2 0.00
50 24 0.04
51 141 0.23
52 9 0.01
54 3 0.00
55 3 0.00
56 3 0.00
57 5 0.01
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA
Found at i:11398987 original size:41 final size:43
Alignment explanation
Indices: 11398914--11399316 Score: 249
Period size: 45 Copynumber: 8.9 Consensus size: 43
11398904 TACAAGTTAC
* * *
11398914 AAATCTTATCTCTCTGAAGGTGCAATGGAGCAGATTAAAGC-G
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAG
* * *
11398956 AACT-TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCTAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC-AG
* *
11398999 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGATAG
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAG
* * * * *** * * *
11399043 CGAATCTTATTTTCCTGAAGTTGTAGCAAAACAAATTAAAGCTACAATTTAC
1 -AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG---C-----AG
* * *
11399095 AAATCTTATCTCCCTAAAGGTGCAGTGGAGCAGATTAAATC-G
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAG
* * *
11399137 -AA-CATTATCTCCTTGAAGTTACAGTGGAGCAGATTAAAGCTAC
1 AAATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC-AG
* * * *
11399180 AAATTCTTATCTCCTTGAAGTTACAGTGGAGCAGATTGAAGATAG
1 AAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAG
* * * **
11399225 CAAATCTTATTTCCCTGAAGTTCCAGTGAAATAGATTAAAGCTACAAG
1 -AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG---C-AG
*
11399273 TTACAAATCTTATCTCCCTGAAGGTGCAGTGGAGCAGATTAAAG
1 ----AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
11399317 TAACAAGTCC
Statistics
Matches: 278, Mismatches: 57, Indels: 43
0.74 0.15 0.11
Matches are distributed among these distances:
40 1 0.00
41 65 0.23
42 3 0.01
43 3 0.01
44 36 0.13
45 97 0.35
46 4 0.01
47 2 0.01
48 3 0.01
51 63 0.23
52 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (43 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAG
Found at i:11399279 original size:182 final size:181
Alignment explanation
Indices: 11398783--11399316 Score: 816
Period size: 181 Copynumber: 2.9 Consensus size: 181
11398773 GCAAATCTAC
*
11398783 CTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAG
1 CTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAG
* ** *
11398848 CAAATTTAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGCGGGACATATTAAAGCTACAAGTTA
66 CAAATTAAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGCGAAACAAATTAAAGCTACAAGTTA
* * *
11398913 CAAATCTTATCTCTCTGAAGGTGCAATGGAGCAGATTAAAGCGAACTTTAT
131 CAAATCTTATCTCCCTGAAGGTGCAGTGGAGCAGATTAAAGCGAACATTAT
* * * *
11398964 CTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCTATAAATCTTATCTCCCTGAAGTTGCAGTGGAG
1 CTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAG
* * * *
11399029 CAAATTAAAGATAGCGAATCTTATTTTCCTGAAGTTGTAGCAAAACAAATTAAAGCTACAATTTA
66 CAAATTAAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGCGAAACAAATTAAAGCTACAAGTTA
* *
11399094 CAAATCTTATCTCCCTAAAGGTGCAGTGGAGCAGATTAAATCGAACATTAT
131 CAAATCTTATCTCCCTGAAGGTGCAGTGGAGCAGATTAAAGCGAACATTAT
* *
11399145 CTCCTTGAAGTTACAGTGGAGCAGATTAAAGCTACAAATTCTTATCTCCTTGAAGTTACAGTGGA
1 CTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA-TCTTATCTCCCTGAAGTTACAGTGGA
* * * * * * *
11399210 GCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTTCCAGTGAAATAGATTAAAGCTACAAGTT
65 GCAAATTAAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGCGAAACAAATTAAAGCTACAAGTT
11399275 ACAAATCTTATCTCCCTGAAGGTGCAGTGGAGCAGATTAAAG
130 ACAAATCTTATCTCCCTGAAGGTGCAGTGGAGCAGATTAAAG
11399317 TAACAAGTCC
Statistics
Matches: 315, Mismatches: 37, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
181 197 0.63
182 118 0.37
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.29
Consensus pattern (181 bp):
CTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAG
CAAATTAAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGCGAAACAAATTAAAGCTACAAGTTA
CAAATCTTATCTCCCTGAAGGTGCAGTGGAGCAGATTAAAGCGAACATTAT
Found at i:11399312 original size:51 final size:50
Alignment explanation
Indices: 11399141--11399442 Score: 171
Period size: 45 Copynumber: 6.3 Consensus size: 50
11399131 AAATCGAACA
*
11399141 TTATCTCCTTGAAGTTACAGTGGAGCAGATTAAAG--C----TACAAATTC
1 TTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTACAAGTTACAAA-TC
* * *
11399186 TTATCTCCTTGAAGTTACAGTGGAGCAGATTGAAG-A-TAG---CAAATC
1 TTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTACAAGTTACAAATC
* * * **
11399231 TTATTTCCCTGAAGTTCCAGTGAAATAGATTAAAGCTACAAGTTACAAATC
1 TTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAG-TACAAGTTACAAATC
* *
11399282 TTATCTCCCTGAAGGTGCAGTGGAGCAGATTAAAGTAACAAG-T-C----C
1 TTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGT-ACAAGTTACAAATC
* * * * * * *
11399327 -TATAC-CTCTGAGGTTGCAGTGG-GTCAAATTAAA-TA-TACTATAGCAAGTC
1 TTAT-CTCCCTGAAGTTACAGTGGAG-CAGATTAAAGTACAAGT-TA-CAAATC
** * *
11399376 TTATCTCCCTGAAGTTACAGTGGAATAGACTAAAGTTACAAGCTACAAATC
1 TTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAG-TACAAGTTACAAATC
*
11399427 TTATATCCCTGAAGTT
1 TTATCTCCCTGAAGTT
11399443 GCAACGGAAT
Statistics
Matches: 197, Mismatches: 33, Indels: 48
0.71 0.12 0.17
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 3 0.02
44 25 0.13
45 67 0.34
46 4 0.02
47 1 0.01
48 2 0.01
49 3 0.02
50 25 0.13
51 60 0.30
52 4 0.02
53 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (50 bp):
TTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTACAAGTTACAAATC
Found at i:11399479 original size:41 final size:41
Alignment explanation
Indices: 11399432--11399567 Score: 119
Period size: 41 Copynumber: 3.1 Consensus size: 41
11399422 AAATCTTATA
11399432 TCCCTGAAGTTGCAACGGAATAGGTTGAAGATACAAATATC
1 TCCCTGAAGTTGCAACGGAATAGGTTGAAGATACAAATATC
* * * * *
11399473 TCCCTGAACTTGCAATGGAATATATTAAAGTTACAAGCTACAAATCTTATC
1 TCCCTGAAGTTGCAACGG---A-A-T-AGGTT-GAAGATACAAA---TATC
* *
11399524 TCCCTGAAGTTGCAGCAGAATAGGTTGAAGATACAAATATC
1 TCCCTGAAGTTGCAACGGAATAGGTTGAAGATACAAATATC
11399565 TCC
1 TCC
11399568 TCGAAATTGT
Statistics
Matches: 73, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
41 23 0.32
44 10 0.14
45 5 0.07
46 2 0.03
47 5 0.07
48 10 0.14
51 18 0.25
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (41 bp):
TCCCTGAAGTTGCAACGGAATAGGTTGAAGATACAAATATC
Found at i:11399592 original size:92 final size:92
Alignment explanation
Indices: 11399377--11399593 Score: 319
Period size: 92 Copynumber: 2.4 Consensus size: 92
11399367 TAGCAAGTCT
* * *
11399377 TATCTCCCTGAAGTTACAGTGGAATAGACTAAAGTTACAAGCTACAAATCTTATATCCCTGAAGT
1 TATCTCCCTGAAATTGCAGTGGAATAGATTAAAGTTACAAGCTACAAATCTTATATCCCTGAAGT
*
11399442 TGCAACGGAATAGGTTGAAGATACAAA
66 TGCAACAGAATAGGTTGAAGATACAAA
* * * *
11399469 TATCTCCCTGAACTTGCAATGGAATATATTAAAGTTACAAGCTACAAATCTTATCTCCCTGAAGT
1 TATCTCCCTGAAATTGCAGTGGAATAGATTAAAGTTACAAGCTACAAATCTTATATCCCTGAAGT
*
11399534 TGCAGCAGAATAGGTTGAAGATACAAA
66 TGCAACAGAATAGGTTGAAGATACAAA
* *
11399561 TATCT-CCTCGAAATTGTAGTGGAGTAGATTAAA
1 TATCTCCCT-GAAATTGCAGTGGAATAGATTAAA
11399594 ATATCAATTC
Statistics
Matches: 111, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
91 3 0.03
92 108 0.97
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (92 bp):
TATCTCCCTGAAATTGCAGTGGAATAGATTAAAGTTACAAGCTACAAATCTTATATCCCTGAAGT
TGCAACAGAATAGGTTGAAGATACAAA
Found at i:11403051 original size:22 final size:22
Alignment explanation
Indices: 11403023--11403071 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
11403013 CCATGGTTAT
11403023 GCATGGATCGTGACTTCTAAGA
1 GCATGGATCGTGACTTCTAAGA
11403045 GCATGGATCGTGACTTCTAAGA
1 GCATGGATCGTGACTTCTAAGA
11403067 GCATG
1 GCATG
11403072 AATCACTTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (22 bp):
GCATGGATCGTGACTTCTAAGA
Found at i:11407261 original size:42 final size:43
Alignment explanation
Indices: 11407181--11407263 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 43
11407171 TATTTACAGA
* *
11407181 TCGATGCCACTGTCCCAGACAGGGTCTTATACGTAAACACAAG
1 TCGATGCCACTGTCCCAGACAGGGTCTTACACGAAAACACAAG
11407224 TCGATGCCAAC-GT-CCAGAC-GTGGTCTTACACGAAAACACA
1 TCGATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAAACACA
11407264 TATCGAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
41 1 0.03
42 23 0.64
43 10 0.28
44 2 0.06
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.19
Consensus pattern (43 bp):
TCGATGCCACTGTCCCAGACAGGGTCTTACACGAAAACACAAG
Found at i:11408187 original size:27 final size:27
Alignment explanation
Indices: 11408125--11408175 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
11408115 CTTTTAATGT
11408125 TTATTATAACATATTAATATATTATAC
1 TTATTATAACATATTAATATATTATAC
11408152 TTATTATAACAT-TT-ATATATTATA
1 TTATTATAACATATTAATATATTATA
11408176 TTAATAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 10 0.42
26 2 0.08
27 12 0.50
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (27 bp):
TTATTATAACATATTAATATATTATAC
Found at i:11423188 original size:125 final size:125
Alignment explanation
Indices: 11422990--11423338 Score: 626
Period size: 125 Copynumber: 2.8 Consensus size: 125
11422980 TTTTGAGTTA
*
11422990 ACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAAATGTGAAA
1 ACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAA
11423055 TCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTTG
66 TCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTTG
* *
11423115 ACGTTTCTGAGCAAATAGTATAAAATCGCTCCTACCAGGATGCTATTTTAGAAGAAATTGTGAAA
1 ACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAA
* *
11423180 TCGTGCCCTCGTGGACGCGATTTTGCTACAGTTGGTCATGTAAGAAATAATTTTTTTTTG
66 TCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTTG
11423240 ACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAA
1 ACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAA
* * *
11423305 TCGCACCATCGTGGACGTGATTTTGCTACAGTAG
66 TCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
11423339 CAAGTTTGGG
Statistics
Matches: 212, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
125 212 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.32
Consensus pattern (125 bp):
ACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAA
TCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTTG
Found at i:11426460 original size:10 final size:10
Alignment explanation
Indices: 11426445--11426469 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
11426435 CAAATCTAAC
11426445 ATTATGTAAA
1 ATTATGTAAA
11426455 ATTATGTAAA
1 ATTATGTAAA
11426465 ATTAT
1 ATTAT
11426470 TAAGTCCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:11426514 original size:55 final size:55
Alignment explanation
Indices: 11426453--11426578 Score: 243
Period size: 55 Copynumber: 2.3 Consensus size: 55
11426443 ACATTATGTA
*
11426453 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATAGTTAGTAAAATTATC
11426508 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATAGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATAGTTAGTAAAATTATC
11426563 AAATTATGTAAAATTA
1 AAATTATGTAAAATTA
11426579 GGTTAGGGTT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
55 70 1.00
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (55 bp):
AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATAGTTAGTAAAATTATC
Found at i:11426655 original size:30 final size:29
Alignment explanation
Indices: 11426573--11426794 Score: 313
Period size: 29 Copynumber: 7.6 Consensus size: 29
11426563 AAATTATGTA
11426573 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
11426602 AAATTAGGTTAGAGTTAGAGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
** *
11426631 AAATTAGGTTAAAG-CAGTGAGTTTTTAATT
1 AAATTAGGTTAGGGTTAG-G-GTTTTTAATT
11426661 AAATTAGGTTAGGGTTTAGGGTTTTTAATT
1 AAATTAGGTTAGGG-TTAGGGTTTTTAATT
*
11426691 AAATTTGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
11426720 AAATTAGGTTTGGG-CAGTGGGTTTTTAATT
1 AAATTAGGTTAGGGTTA--GGGTTTTTAATT
11426750 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
11426779 AAATTAGGTTAGGGTT
1 AAATTAGGTTAGGGTT
11426795 TTTAATTAAA
Statistics
Matches: 172, Mismatches: 14, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.02
29 95 0.55
30 70 0.41
31 2 0.01
32 2 0.01
ACGTcount: A:0.29, C:0.01, G:0.26, T:0.44
Consensus pattern (29 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATT
Found at i:11426661 original size:59 final size:58
Alignment explanation
Indices: 11426573--11426790 Score: 298
Period size: 59 Copynumber: 3.7 Consensus size: 58
11426563 AAATTATGTA
*
11426573 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGAGTTAGAGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGAGTTAGGGTTTTTAATT
** * *
11426631 AAATTAGGTTAAAG-CAGTGAGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAG-G-GTTTTTAATTAAATTAGGTTAGAG-TTAGGGTTTTTAATT
* *
11426691 AAATTTGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTTGGGCAG-T-GGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGG-TT-AG-AGTTAGGGTTTTTAATT
11426750 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
11426791 GGTTTTTAAT
Statistics
Matches: 140, Mismatches: 13, Indels: 15
0.83 0.08 0.09
Matches are distributed among these distances:
57 3 0.02
58 15 0.11
59 89 0.64
60 29 0.21
61 3 0.02
62 1 0.01
ACGTcount: A:0.29, C:0.01, G:0.26, T:0.44
Consensus pattern (58 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGAGTTAGGGTTTTTAATT
Found at i:11426686 original size:89 final size:88
Alignment explanation
Indices: 11426573--11426790 Score: 364
Period size: 89 Copynumber: 2.5 Consensus size: 88
11426563 AAATTATGTA
11426573 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGAGTTAGAGTTTTTAATTAAATTAG
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGAGTTAGAGTTTTTAATTAAATTAG
11426638 GTTAAAGCAGTGAGTTTTTAATT
66 GTTAAAGCAGTGAGTTTTTAATT
* * *
11426661 AAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTTGGTTAGGGTTAGGGTTTTTAATTAAATTA
1 AAATTAGGTTAGGG-TTAGGGTTTTTAATTAAATTAGGTTAGAGTTAGAGTTTTTAATTAAATTA
*** *
11426726 GGTTTGGGCAGTGGGTTTTTAATT
65 GGTTAAAGCAGTGAGTTTTTAATT
11426750 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
11426791 GGTTTTTAAT
Statistics
Matches: 121, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
88 40 0.33
89 81 0.67
ACGTcount: A:0.29, C:0.01, G:0.26, T:0.44
Consensus pattern (88 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGAGTTAGAGTTTTTAATTAAATTAG
GTTAAAGCAGTGAGTTTTTAATT
Found at i:11426703 original size:23 final size:23
Alignment explanation
Indices: 11426676--11426809 Score: 97
Period size: 29 Copynumber: 5.0 Consensus size: 23
11426666 AGGTTAGGGT
11426676 TTAGGGTTTTTAATTAAATTTGGTTAGGG
1 TTAGGGTTTTTAATTAAA-----TTA-GG
11426705 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
11426728 TTTGGGCAGTGGGTTTTTAATTAAATTAGGTTAGGG
1 -TT----A--GGGTTTTTAATT-AA--A--TTA-GG
11426764 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
11426787 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
11426810 GTTTTTATTA
Statistics
Matches: 92, Mismatches: 0, Indels: 32
0.74 0.00 0.26
Matches are distributed among these distances:
23 27 0.29
24 8 0.09
26 1 0.01
28 3 0.03
29 30 0.33
30 12 0.13
31 3 0.03
33 1 0.01
35 5 0.05
36 2 0.02
ACGTcount: A:0.27, C:0.01, G:0.26, T:0.46
Consensus pattern (23 bp):
TTAGGGTTTTTAATTAAATTAGG
Found at i:11426801 original size:18 final size:18
Alignment explanation
Indices: 11426764--11426816 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 18
11426754 TAGGTTAGGG
11426764 TTAGGGTTTTTAATTAAATTA
1 TTAGGGTTTTTAATT-AA--A
11426785 GGTTAGGGTTTTTAATTAAA
1 --TTAGGGTTTTTAATTAAA
11426805 TTAGGGTTTTTA
1 TTAGGGTTTTTA
11426817 TTACATCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 12 0.40
20 1 0.03
22 2 0.07
23 15 0.50
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (18 bp):
TTAGGGTTTTTAATTAAA
Found at i:11426922 original size:71 final size:71
Alignment explanation
Indices: 11426815--11426999 Score: 316
Period size: 71 Copynumber: 2.6 Consensus size: 71
11426805 TTAGGGTTTT
*
11426815 TATTACATCAAATAGAACTTCTATTTTATTATATCAAATAATATCAAAATAACTCGAAAAAATTT
1 TATTACATCAAATA-AACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTT
11426880 CTATACC
65 CTATACC
* *
11426887 TATTATATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTT
1 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
* *
11426952 TATGCG
66 TATACC
11426958 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATA
1 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATA
11427000 AATTTAAATA
Statistics
Matches: 107, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
71 94 0.88
72 13 0.12
ACGTcount: A:0.45, C:0.14, G:0.03, T:0.38
Consensus pattern (71 bp):
TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
TATACC
Found at i:11427876 original size:15 final size:15
Alignment explanation
Indices: 11427856--11427886 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11427846 TTTTATGGTA
11427856 ATCGTCAAACACCTC
1 ATCGTCAAACACCTC
11427871 ATCGTCAAACACCTC
1 ATCGTCAAACACCTC
11427886 A
1 A
11427887 AGGTCCGCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.39, G:0.06, T:0.19
Consensus pattern (15 bp):
ATCGTCAAACACCTC
Found at i:11429223 original size:30 final size:30
Alignment explanation
Indices: 11429189--11429253 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
11429179 GCCATTGATG
11429189 AAAATAT-AAAAAATTTAAAATTATTTTTAA
1 AAAATATAAAAAAATTTAAAATTA-TTTTAA
*
11429219 AAAATATAAAAAAATTTTAAATTATTTTAA
1 AAAATATAAAAAAATTTAAAATTATTTTAA
11429249 AAAAT
1 AAAAT
11429254 GAAATTGAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
30 18 0.55
31 15 0.45
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (30 bp):
AAAATATAAAAAAATTTAAAATTATTTTAA
Found at i:11429235 original size:21 final size:21
Alignment explanation
Indices: 11429195--11429236 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11429185 GATGAAAATA
* **
11429195 TAAAAAATTTAAAATTATTTT
1 TAAAAAATATAAAAAAATTTT
11429216 TAAAAAATATAAAAAAATTTT
1 TAAAAAATATAAAAAAATTTT
11429237 AAATTATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAAAATATAAAAAAATTTT
Found at i:11429330 original size:51 final size:51
Alignment explanation
Indices: 11429254--11429375 Score: 183
Period size: 51 Copynumber: 2.4 Consensus size: 51
11429244 TTTAAAAAAT
* *
11429254 GAAATTGAGGGGAAATTGAAATTAAATATGGATTTGAGAGAATTCTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTCTAGAAG
* *
11429305 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTGAGAGAATTTTAGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTCTAGAAG
11429356 GAAATTTG-GAAGGAAATTGA
1 GAAA-TTGAG-AGGAAATTGA
11429376 GAGGATTAGA
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
51 52 0.80
52 13 0.20
ACGTcount: A:0.43, C:0.01, G:0.29, T:0.28
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTCTAGAAG
Found at i:11445145 original size:19 final size:19
Alignment explanation
Indices: 11445121--11445164 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
11445111 TATTAAATTG
*
11445121 ATTATT-ATCTTTAATATA
1 ATTATTAATCTTAAATATA
*
11445139 TATTATTAATCTTAAATTTA
1 -ATTATTAATCTTAAATATA
11445159 ATTATT
1 ATTATT
11445165 GAGTTGGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTATTAATCTTAAATATA
Found at i:11446741 original size:17 final size:17
Alignment explanation
Indices: 11446719--11446769 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
11446709 TTAATTTTTT
11446719 ATATAAAAAATTAAAAA
1 ATATAAAAAATTAAAAA
* *
11446736 ATATAATACA-TAAAAA
1 ATATAAAAAATTAAAAA
11446752 ATACTAAAAATATTAAAA
1 ATA-TAAAAA-ATTAAAA
11446770 TAAATATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 9 0.33
17 12 0.44
18 1 0.04
19 5 0.19
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (17 bp):
ATATAAAAAATTAAAAA
Found at i:11452512 original size:400 final size:400
Alignment explanation
Indices: 11451769--11452558 Score: 1409
Period size: 400 Copynumber: 2.0 Consensus size: 400
11451759 GAGCGCACAC
11451769 GAAGAGGTATGTCTTCTTTTCCTTTTTGTGAACAATGTAGTAAGTCGATTGAATCAACGATCCAT
1 GAAGAGGTATGTCTTCTTTTCCTTTTTGTGAACAATGTAGTAAGTCGATTGAATCAACGATCCAT
* *
11451834 GCTATGAGAGATTGTGATTTCGCTCATTTGGTGTAGAAGTCCTTATTACCTTGAAATGCTTGGAA
66 GCTATGAGAGATTGTGATTTCGCCCATTTGGTGTAGAAGTCCTTATTACCTAGAAATGCTTGGAA
* * * *
11451899 TGTTTTTTTTAACTTTCATATTGGGGAGGTGGTGAATGGTTGACCCTTTTTTCAATGGTGACTTG
131 TGTTTTTTTCAACTTTCATATTGGGGAGGTGGTGAATGGTCGACCCTTTTTTCAATAGTGACTTA
*
11451964 GTTCATTTGGAAAAATTGCAAAGCTTTCATTTTTAAAAATGCTAGAAGTAGCAGTCATGAACTCA
196 GTTCATTTGGAAAAATCGCAAAGCTTTCATTTTTAAAAATGCTAGAAGTAGCAGTCATGAACTCA
11452029 TTGCATCGGCTCTTGCTTGGACAAAGTCTTGCGGGTATAGTGCCAAGATGGATCATGTAACACCC
261 TTGCATCGGCTCTTGCTTGGACAAAGTCTTGCGGGTATAGTGCCAAGATGGATCATGTAACACCC
* * * *
11452094 GTAACCCTTATTCGTCGCCAGAACAAGGTTATGAAGCATTACCAAACTTTACAGAATAAATACGA
326 ATAACCCTTATCCGTCGCCAAAACAAGGTTATGAAGCATTACCAAACTTTACAAAATAAATACGA
11452159 ATGAGGAGTA
391 ATGAGGAGTA
*
11452169 GAAGAGGTATGTCTTCTTTTCCTTTTTGTGAACAATGTGGTAAGTCGATTGAATCAACGATCCAT
1 GAAGAGGTATGTCTTCTTTTCCTTTTTGTGAACAATGTAGTAAGTCGATTGAATCAACGATCCAT
*
11452234 GCTATGAGAGATTGTGATTTCGCCCATTTGGTGTAGAAGTCCTTATTACCTAGGAATGCTTGGAA
66 GCTATGAGAGATTGTGATTTCGCCCATTTGGTGTAGAAGTCCTTATTACCTAGAAATGCTTGGAA
*
11452299 TGTTTTTTTCAATTTTCATATTGGGGAGGTGGTGAATGGTCGACCCTTTTTTCAATAGTGACTTA
131 TGTTTTTTTCAACTTTCATATTGGGGAGGTGGTGAATGGTCGACCCTTTTTTCAATAGTGACTTA
* *
11452364 GTTCATTTGGAAAAATCGCAATGCTTTCATTTTTAAAAATGGTAGAAGTAGCAGTCATGAACTCA
196 GTTCATTTGGAAAAATCGCAAAGCTTTCATTTTTAAAAATGCTAGAAGTAGCAGTCATGAACTCA
*
11452429 TTGCATCGGCTCTTGTTTGGACAAAGTCTTGCGGGTATAGTGCCAAGATGGATCATGTAACACCC
261 TTGCATCGGCTCTTGCTTGGACAAAGTCTTGCGGGTATAGTGCCAAGATGGATCATGTAACACCC
* *
11452494 ATAACCCTTATCCGTCGCCAAAACAGGGTTATGAAGCATTACCAGACTTTACAAAATAAATACGA
326 ATAACCCTTATCCGTCGCCAAAACAAGGTTATGAAGCATTACCAAACTTTACAAAATAAATACGA
11452559 TCATTTTATA
Statistics
Matches: 371, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
400 371 1.00
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (400 bp):
GAAGAGGTATGTCTTCTTTTCCTTTTTGTGAACAATGTAGTAAGTCGATTGAATCAACGATCCAT
GCTATGAGAGATTGTGATTTCGCCCATTTGGTGTAGAAGTCCTTATTACCTAGAAATGCTTGGAA
TGTTTTTTTCAACTTTCATATTGGGGAGGTGGTGAATGGTCGACCCTTTTTTCAATAGTGACTTA
GTTCATTTGGAAAAATCGCAAAGCTTTCATTTTTAAAAATGCTAGAAGTAGCAGTCATGAACTCA
TTGCATCGGCTCTTGCTTGGACAAAGTCTTGCGGGTATAGTGCCAAGATGGATCATGTAACACCC
ATAACCCTTATCCGTCGCCAAAACAAGGTTATGAAGCATTACCAAACTTTACAAAATAAATACGA
ATGAGGAGTA
Found at i:11453939 original size:63 final size:62
Alignment explanation
Indices: 11453830--11453966 Score: 143
Period size: 63 Copynumber: 2.2 Consensus size: 62
11453820 GCACATAAGT
* * *
11453830 GCTAAACAGAAACCCATAAGGGTTGAACGAAAACCCATAAGGGTTAAGCTGAAGCTCAAAAGA
1 GCTAAACGGAAACCCATAAGGGTTAAACGAAAACCCATAAGAGTTAA-CTGAAGCTCAAAAGA
* * * * ***
11453893 GCTGAACGGAAACCCA-ATAGGGTTAAACTG-AAACTCATATGAGTTAATTGAAGCTCGTGAGA
1 GCTAAACGGAAACCCATA-AGGGTTAAAC-GAAAACCCATAAGAGTTAACTGAAGCTCAAAAGA
11453955 GCTAAACGGAAA
1 GCTAAACGGAAA
11453967 GTAAACACGA
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
62 23 0.38
63 37 0.61
64 1 0.02
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.18
Consensus pattern (62 bp):
GCTAAACGGAAACCCATAAGGGTTAAACGAAAACCCATAAGAGTTAACTGAAGCTCAAAAGA
Found at i:11475122 original size:20 final size:20
Alignment explanation
Indices: 11475086--11475123 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11475076 AATTATTTTG
*
11475086 TAATTTTTATGTAATAAAAA
1 TAATTTTTATATAATAAAAA
11475106 TAATATTTTATAT-ATAAA
1 TAAT-TTTTATATAATAAA
11475124 TTATGCGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
TAATTTTTATATAATAAAAA
Found at i:11477183 original size:16 final size:16
Alignment explanation
Indices: 11477164--11477194 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
11477154 TTACGTTAAA
11477164 TATATTCATATATATG
1 TATATTCATATATATG
11477180 TATATTCATATATAT
1 TATATTCATATATAT
11477195 ATTAATTTAC
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:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (16 bp):
TATATTCATATATATG
Found at i:11488976 original size:7 final size:7
Alignment explanation
Indices: 11488966--11488990 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11488956 CTTTAAGTCT
11488966 TAACTTG
1 TAACTTG
11488973 TAACTTG
1 TAACTTG
11488980 TAACTTG
1 TAACTTG
11488987 TAAC
1 TAAC
11488991 GGTGTATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (7 bp):
TAACTTG
Found at i:11490250 original size:11 final size:12
Alignment explanation
Indices: 11490229--11490257 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
11490219 ACGTCTATAA
11490229 TTTTATAGTTTT
1 TTTTATAGTTTT
11490241 TTTTAT-GTTTT
1 TTTTATAGTTTT
11490252 TTTTAT
1 TTTTAT
11490258 TTGTAATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (12 bp):
TTTTATAGTTTT
Found at i:11494161 original size:20 final size:20
Alignment explanation
Indices: 11494131--11494175 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
11494121 AGGGTTGGTT
11494131 TTTAA-TTTTAAATAATTTA
1 TTTAATTTTTAAATAATTTA
11494150 TTTAATTTTTAAATAATTTA
1 TTTAATTTTTAAATAATTTA
11494170 TTTAAT
1 TTTAAT
11494176 CAAATCCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTAATTTTTAAATAATTTA
Found at i:11497918 original size:16 final size:17
Alignment explanation
Indices: 11497882--11497918 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
11497872 GTTATATTTA
*
11497882 ATTTTTGATATGTTTTT
1 ATTTTTGATATGTTTTC
11497899 ATTTTTGATATG-TTTC
1 ATTTTTGATATGTTTTC
11497915 ATTT
1 ATTT
11497919 AAAACTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.68
Consensus pattern (17 bp):
ATTTTTGATATGTTTTC
Found at i:11504235 original size:72 final size:72
Alignment explanation
Indices: 11504095--11504238 Score: 209
Period size: 72 Copynumber: 2.0 Consensus size: 72
11504085 TTTATCATAC
* * **
11504095 CTAAATAGTTTAATTAGGCTCGAATATTAAATACACAATTTGATAAACGAATTTAACCGAGCACA
1 CTAAATAATTTAATTAAGCTCGAATATTAAATACACAATTTGATAAACGAATTTAACAAAGCACA
11504160 AATATTA
66 AATATTA
* * *
11504167 CTAAATAATTTAATTAAGCTCGAGTATTAAATATACAATTTGATAAACGAATTTAATAAAGC-CT
1 CTAAATAATTTAATTAAGCTCGAATATTAAATACACAATTTGATAAACGAATTTAACAAAGCAC-
11504231 AAATATTA
65 AAATATTA
11504239 AGTTTTGAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
71 1 0.02
72 63 0.98
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.33
Consensus pattern (72 bp):
CTAAATAATTTAATTAAGCTCGAATATTAAATACACAATTTGATAAACGAATTTAACAAAGCACA
AATATTA
Found at i:11513862 original size:13 final size:13
Alignment explanation
Indices: 11513844--11513868 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11513834 TTAGCAGCAA
11513844 TGGAGATTTCAGT
1 TGGAGATTTCAGT
11513857 TGGAGATTTCAG
1 TGGAGATTTCAG
11513869 CTGTTGGTAT
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:0.24, C:0.08, G:0.32, T:0.36
Consensus pattern (13 bp):
TGGAGATTTCAGT
Found at i:11514710 original size:21 final size:21
Alignment explanation
Indices: 11514686--11514741 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
11514676 CATTGTTTCT
*
11514686 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
11514707 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
11514728 AATCTCACCGCTAC
1 AATCTCACCGCTAC
11514742 TGCTGTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:11515469 original size:130 final size:130
Alignment explanation
Indices: 11515258--11515521 Score: 492
Period size: 130 Copynumber: 2.0 Consensus size: 130
11515248 ATTGCGAAGC
*
11515258 CTTGTCTTCACAACTTTTATGGCTGAAAATGCTTATTCGGTTGTTGCAGTAGACACGATAAGAGT
1 CTTGTCTTCACAACTTTTATGGCTAAAAATGCTTATTCGGTTGTTGCAGTAGACACGATAAGAGT
*
11515323 TAGCACAAGACGAACAATTCTATCAAGAAGATGATAAATAATTAACTTCTTTGTCTTAGCTAGCA
66 TAGCACAAGACAAACAATTCTATCAAGAAGATGATAAATAATTAACTTCTTTGTCTTAGCTAGCA
* *
11515388 CTTGTCTTCACAATTTTTATGGCTAAAAATGTTTATTCGGTTGTTGCAGTAGACACGATAAGAGT
1 CTTGTCTTCACAACTTTTATGGCTAAAAATGCTTATTCGGTTGTTGCAGTAGACACGATAAGAGT
11515453 TAGCACAAGACAAACAATTCTATCAAGAAGATGATAAATAATTAACTTCTTTGTCTTAGCTAGCA
66 TAGCACAAGACAAACAATTCTATCAAGAAGATGATAAATAATTAACTTCTTTGTCTTAGCTAGCA
11515518 CTTG
1 CTTG
11515522 ACATAACTCG
Statistics
Matches: 130, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
130 130 1.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Consensus pattern (130 bp):
CTTGTCTTCACAACTTTTATGGCTAAAAATGCTTATTCGGTTGTTGCAGTAGACACGATAAGAGT
TAGCACAAGACAAACAATTCTATCAAGAAGATGATAAATAATTAACTTCTTTGTCTTAGCTAGCA
Found at i:11517631 original size:30 final size:30
Alignment explanation
Indices: 11517595--11517695 Score: 112
Period size: 30 Copynumber: 3.2 Consensus size: 30
11517585 GAGAAAACCC
*
11517595 GATATCTCATTCAGGAGCTTGGGAAGATTT
1 GATATCTCATTCAGGAGCTTGGGAAGATCT
* *
11517625 GATATCTCATTCAAGATCTTGAGATTGAGAAGATCT
1 GATATCTCATTC-AG-----GAGCTTGGGAAGATCT
*
11517661 GATATCTCGTTCAGGAGCTTGGGAAGATCT
1 GATATCTCATTCAGGAGCTTGGGAAGATCT
11517691 GATAT
1 GATAT
11517696 TTGATTTTTC
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
30 31 0.53
31 2 0.03
35 2 0.03
36 24 0.41
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.33
Consensus pattern (30 bp):
GATATCTCATTCAGGAGCTTGGGAAGATCT
Found at i:11518198 original size:3 final size:3
Alignment explanation
Indices: 11518190--11518220 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
11518180 TTAATATTTG
11518190 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
11518221 AAGTTATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:11528114 original size:38 final size:38
Alignment explanation
Indices: 11528072--11528149 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
11528062 TGAGGTACCA
*
11528072 AATTATGTTAAAAAATTGACATATAAAGATTAAATCTT
1 AATTATGTTAAAAAATTGAAATATAAAGATTAAATCTT
11528110 AATTATGTTAAAAAATTGAAATATAAAGATTAAATCTT
1 AATTATGTTAAAAAATTGAAATATAAAGATTAAATCTT
11528148 AA
1 AA
11528150 ATTTGTGTGC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.36
Consensus pattern (38 bp):
AATTATGTTAAAAAATTGAAATATAAAGATTAAATCTT
Found at i:11544044 original size:17 final size:17
Alignment explanation
Indices: 11544011--11544045 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
11544001 CACTACTATA
* *
11544011 TTCTAATTTTTATATTT
1 TTCTAATTTTAAAATTT
11544028 TTCTAATTTTAAAATTT
1 TTCTAATTTTAAAATTT
11544045 T
1 T
11544046 AGTCTAACTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.66
Consensus pattern (17 bp):
TTCTAATTTTAAAATTT
Found at i:11549565 original size:124 final size:124
Alignment explanation
Indices: 11549226--11549700 Score: 758
Period size: 124 Copynumber: 3.8 Consensus size: 124
11549216 TAATTTCGAG
* * *
11549226 TTGACATTTCTGATCAAATAGTATAAAATCGCTTCTAGCAGGATACTATTTGAGAAGAATTTGTG
1 TTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAAAAGAATTTGTG
*
11549291 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAAT-AATTACCTTT
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGAAAGAAATAAATT---TTT
* ** *
11549352 TTTATGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA-GATGCTATTTGAGAAGAATTTGTG
1 TTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAAAAGAATTTGTG
*
11549416 AAATCGCGCCCTCGTGGACGTGCTTTTGCTACAGTAGGTCACGAAAGAAATAAATTTTT
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGAAAGAAATAAATTTTT
11549475 TTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAAAAGAATTTGTG
1 TTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAAAAGAATTTGTG
* *
11549540 AAATCGCGCCCTCGTGGACGCGCTTTTGCAACAGTAGGTCATGTAAA-AAATAAATTTTT
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACG-AAAGAAATAAATTTTT
*
11549599 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAAAAGAATTTGTG
1 TTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAAAAGAATTTGTG
* * *
11549664 AAATCGCGCCCTTGTGGATGCGCTTTTGCTATAGTAG
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
11549701 CATGTTTGGG
Statistics
Matches: 327, Mismatches: 19, Indels: 8
0.92 0.05 0.02
Matches are distributed among these distances:
123 40 0.12
124 172 0.53
125 75 0.23
126 40 0.12
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.32
Consensus pattern (124 bp):
TTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAAAAGAATTTGTG
AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGAAAGAAATAAATTTTT
Found at i:11553005 original size:21 final size:21
Alignment explanation
Indices: 11552875--11553011 Score: 147
Period size: 21 Copynumber: 6.4 Consensus size: 21
11552865 TTTAATTAAA
*
11552875 TTAAGTT-AGGGGTAGGGTTT
1 TTAAGTTAAGGGTTAGGGTTT
*
11552895 TAAAGTTAAGGGTTAGGGTTT
1 TTAAGTTAAGGGTTAGGGTTT
11552916 TTAAGTTAAGGGGTTAGGGTTT
1 TTAAGTTAA-GGGTTAGGGTTT
*
11552938 TGT-A-TTAAATTAGGTTAGGGTTT
1 T-TAAGTT-AA--GGGTTAGGGTTT
*
11552961 TTAAAGTTAAGGTTTAGGGTTT
1 TT-AAGTTAAGGGTTAGGGTTT
*
11552983 TTAAGTTAAGGTTTAGGGTTT
1 TTAAGTTAAGGGTTAGGGTTT
11553004 TTAA-TTAA
1 TTAAGTTAA
11553012 ATTAGGTCAG
Statistics
Matches: 102, Mismatches: 7, Indels: 16
0.82 0.06 0.13
Matches are distributed among these distances:
20 10 0.10
21 45 0.44
22 29 0.28
23 13 0.13
24 3 0.03
25 2 0.02
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (21 bp):
TTAAGTTAAGGGTTAGGGTTT
Found at i:11553045 original size:67 final size:70
Alignment explanation
Indices: 11552855--11553052 Score: 243
Period size: 67 Copynumber: 2.9 Consensus size: 70
11552845 TATTAATTTA
* *
11552855 GTTTAGGGTTTTTAATTAAATTAAGTTAGGG-GTAGGGTTTTAAAGTTAAGGGTTAGGGTTTTTA
1 GTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGG--TTAAAGTTAA-GGTTAGGGTTTTTA
11552919 AGTTAAGG
63 AGTTAAGG
*
11552927 GGTTAGGGTTTTGT-ATTAAATTAGGTTAGGGTTT----TTAAAGTTAAGGTTTAGGGTTTTTAA
1 GTTTAGGGTTTT-TAATTAAATTAGGTTAGGGTTTAGGGTTAAAGTTAAGG-TTAGGGTTTTTAA
11552987 GTTAA-G
64 GTTAAGG
* *
11552993 GTTTAGGGTTTTTAATTAAATTAGGTCAGGGTTTAGGGTTAAA-TT-AGGTTAGGATTTTTA
1 GTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTAAAGTTAAGGTTAGGGTTTTTA
11553053 TTATATCAAA
Statistics
Matches: 112, Mismatches: 6, Indels: 21
0.81 0.04 0.15
Matches are distributed among these distances:
65 1 0.01
66 33 0.29
67 39 0.35
68 3 0.03
69 2 0.02
70 5 0.04
72 27 0.24
73 2 0.02
ACGTcount: A:0.27, C:0.01, G:0.29, T:0.44
Consensus pattern (70 bp):
GTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTAAAGTTAAGGTTAGGGTTTTTAAGT
TAAGG
Found at i:11553076 original size:25 final size:24
Alignment explanation
Indices: 11553048--11553160 Score: 103
Period size: 25 Copynumber: 4.8 Consensus size: 24
11553038 AGGTTAGGAT
*
11553048 TTTTATTATATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAA-TTCTA
11553073 TTTTATTACATCAAAT-AATATC-A
1 TTTTATTACATCAAATAAAT-TCTA
** *
11553096 --AAATAAC-TCGAAA-AAATTCCTA
1 TTTTATTACATC-AAATAAATT-CTA
11553118 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAA-TTCTA
11553143 TTTTATTACATCAAATAA
1 TTTTATTACATCAAATAA
11553161 TATCAAAATA
Statistics
Matches: 71, Mismatches: 7, Indels: 20
0.72 0.07 0.20
Matches are distributed among these distances:
20 3 0.04
21 11 0.15
22 1 0.01
23 2 0.03
24 11 0.15
25 41 0.58
26 2 0.03
ACGTcount: A:0.44, C:0.14, G:0.01, T:0.41
Consensus pattern (24 bp):
TTTTATTACATCAAATAAATTCTA
Found at i:11553131 original size:70 final size:69
Alignment explanation
Indices: 11553048--11553204 Score: 269
Period size: 70 Copynumber: 2.3 Consensus size: 69
11553038 AGGTTAGGAT
*
11553048 TTTTATTATATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAAT
1 TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTC-AAAAAAT
11553113 TCCTA
65 TCCTA
11553118 TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAATT
1 TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAATT
*
11553183 TCTA
66 CCTA
* *
11553187 TTTTTTTACATAAAATAA
1 TTTTATTACATCAAATAA
11553205 TATCAAAATA
Statistics
Matches: 83, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
69 27 0.33
70 56 0.67
ACGTcount: A:0.46, C:0.13, G:0.01, T:0.40
Consensus pattern (69 bp):
TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAATT
CCTA
Found at i:11553196 original size:44 final size:45
Alignment explanation
Indices: 11553128--11553214 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 45
11553118 TTTTATTACA
*
11553128 TCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAAC
1 TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
* *
11553173 TCAAA-AAATTTCTATTTTTTTACATAAAATAATATCAAAATA
1 TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATA
11553215 TTCAAAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 34 0.87
45 5 0.13
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (45 bp):
TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
Found at i:11553658 original size:18 final size:18
Alignment explanation
Indices: 11553635--11553669 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11553625 CGGAAAAGGA
*
11553635 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
11553653 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
11553670 AAACGCACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:11559477 original size:292 final size:291
Alignment explanation
Indices: 11558953--11559499 Score: 873
Period size: 292 Copynumber: 1.9 Consensus size: 291
11558943 CCTAGAAAAT
* * * *
11558953 TCATTCTTGATTCTTACAAAGCAAGGTATTCATCAAAATGCGGTAATTCTTTTGGCCATAGACAA
1 TCATTCTCGATTCTTACAAAGCAAGGAATTCACCAAAATGCGATAATTCTTTTGGCCATAGACAA
* *
11559018 ATCCCTCTTCTTCCGATCCTTGAGCAATTCAAAAGCATCATTACTCTTCCCTTCACTACACAACT
66 ATCCCTCTTCTTCCGATCCTCGAGCAATTCAAAAGCATCATTACTCTTCCCTCCACTACACAACT
* * *
11559083 CTTCCAATACGGCCTTATAAGTCAATAAATACAGCGCCATTGAGTGTTCCAACATATCATAAATA
131 CTTCCAATACGGCCTTATAAGTCAATAAATACAGCGCCATCGAATGTTCCAACATATCATAAACA
* * *
11559148 ACATCAATAGCATCATCAAGCCTTTGCCCCGTTGCAAGGCTACAAATCAGAATCATATAAACAAG
196 ACATCAACAGCATCATCAAGCCTTTGCCCCATTGCAAGACTACAAATCAGAATCATATAAACAAG
11559213 AACTACTTCGTTTTTGGACCATAGAGACCAG
261 AACTACTTCGTTTTTGGACCATAGAGACCAG
*
11559244 TCATTCTCGATTCTTACAAAGCAAGGAATTCACCAAAATGCGATAATTCTTTTGGCCCATGGACA
1 TCATTCTCGATTCTTACAAAGCAAGGAATTCACCAAAATGCGATAATTCTTTTGG-CCATAGACA
*
11559309 AATCCCTCTTCTTCC-ACTCCTCGAGCAATTCAAAAGCATCATTACTCTTCCCTCCCCTACACAA
65 AATCCCTCTTCTTCCGA-TCCTCGAGCAATTCAAAAGCATCATTACTCTTCCCTCCACTACACAA
* * * *
11559373 CTCTTCCAATACTGTCTTATAAGTCAATAAATCCGGCGCCATCGAAT-TCTCCAACATATCATAA
129 CTCTTCCAATACGGCCTTATAAGTCAATAAATACAGCGCCATCGAATGT-TCCAACATATCATAA
* *
11559437 ACAACATCAACGGCATCATCAAGCCTTTGCTCCATTGCAAGACTACAAATCAGAATCATATAA
193 ACAACATCAACAGCATCATCAAGCCTTTGCCCCATTGCAAGACTACAAATCAGAATCATATAA
11559500 GCACTCCCTT
Statistics
Matches: 233, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
291 53 0.23
292 180 0.77
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.28
Consensus pattern (291 bp):
TCATTCTCGATTCTTACAAAGCAAGGAATTCACCAAAATGCGATAATTCTTTTGGCCATAGACAA
ATCCCTCTTCTTCCGATCCTCGAGCAATTCAAAAGCATCATTACTCTTCCCTCCACTACACAACT
CTTCCAATACGGCCTTATAAGTCAATAAATACAGCGCCATCGAATGTTCCAACATATCATAAACA
ACATCAACAGCATCATCAAGCCTTTGCCCCATTGCAAGACTACAAATCAGAATCATATAAACAAG
AACTACTTCGTTTTTGGACCATAGAGACCAG
Found at i:11567365 original size:16 final size:17
Alignment explanation
Indices: 11567344--11567376 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
11567334 ATTAATTCTA
*
11567344 CATTTTATAC-AAATTT
1 CATTTTAAACTAAATTT
11567360 CATTTTAAACTAAATTT
1 CATTTTAAACTAAATTT
11567377 AACTCCCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.48
Consensus pattern (17 bp):
CATTTTAAACTAAATTT
Found at i:11572342 original size:17 final size:17
Alignment explanation
Indices: 11572314--11572358 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
11572304 ACACATTTTA
*
11572314 ATTTTAATTTTT-TCTT
1 ATTTTTATTTTTATCTT
*
11572330 ATTATTTATTTTTATTTT
1 ATT-TTTATTTTTATCTT
11572348 ATTTTTATTTT
1 ATTTTTATTTT
11572359 GCAGGGAGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 3 0.12
17 16 0.64
18 6 0.24
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (17 bp):
ATTTTTATTTTTATCTT
Found at i:11572342 original size:24 final size:24
Alignment explanation
Indices: 11572310--11572356 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
11572300 AAATACACAT
11572310 TTTAATTTTAATTTT-TTCTTATTA
1 TTTAATTTT-ATTTTATTCTTATTA
* *
11572334 TTTATTTTTATTTTATTTTTATT
1 TTTAATTTTATTTTATTCTTATT
11572357 TTGCAGGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (24 bp):
TTTAATTTTATTTTATTCTTATTA
Found at i:11572349 original size:5 final size:6
Alignment explanation
Indices: 11572309--11572358 Score: 50
Period size: 6 Copynumber: 8.5 Consensus size: 6
11572299 AAAATACACA
* * *
11572309 TTTTAA TTTTAA TTTT-T TCTTAT TATTTAT TTTTA- TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT T-TTTAT TTTTAT TTTTAT TTTTAT
11572356 TTT
1 TTT
11572359 GCAGGGAGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
5 8 0.21
6 25 0.66
7 5 0.13
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:11572350 original size:11 final size:11
Alignment explanation
Indices: 11572334--11572358 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11572324 TTTCTTATTA
11572334 TTTATTTTTAT
1 TTTATTTTTAT
11572345 TTTATTTTTAT
1 TTTATTTTTAT
11572356 TTT
1 TTT
11572359 GCAGGGAGAC
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:11574591 original size:41 final size:41
Alignment explanation
Indices: 11574534--11574616 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
11574524 GATTAAGAGT
11574534 ATGACTTCGTCAACTCACAAAGTCAAATCAACACTAAGTCA
1 ATGACTTCGTCAACTCACAAAGTCAAATCAACACTAAGTCA
11574575 ATGACTTCGTCAACTCACAAAGTCAAATCAACACTAAGTCA
1 ATGACTTCGTCAACTCACAAAGTCAAATCAACACTAAGTCA
11574616 A
1 A
11574617 AAAAGACGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.42, C:0.27, G:0.10, T:0.22
Consensus pattern (41 bp):
ATGACTTCGTCAACTCACAAAGTCAAATCAACACTAAGTCA
Found at i:11581205 original size:16 final size:16
Alignment explanation
Indices: 11581186--11581219 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11581176 TTGAAATAGC
11581186 ATAAATAAAAAATTAA
1 ATAAATAAAAAATTAA
* *
11581202 ATAAATTAGAAATTAA
1 ATAAATAAAAAATTAA
11581218 AT
1 AT
11581220 TAGAAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
ATAAATAAAAAATTAA
Found at i:11581218 original size:12 final size:12
Alignment explanation
Indices: 11581203--11581230 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
11581193 AAAAATTAAA
11581203 TAAATTAGAAAT
1 TAAATTAGAAAT
11581215 TAAATTAGAAAT
1 TAAATTAGAAAT
11581227 TAAA
1 TAAA
11581231 CTCGGATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (12 bp):
TAAATTAGAAAT
Found at i:11593463 original size:31 final size:30
Alignment explanation
Indices: 11593428--11593505 Score: 95
Period size: 32 Copynumber: 2.5 Consensus size: 30
11593418 AGGGGTAGAA
11593428 ATTAAATTTTAATTTTTATCATTTTTAAGAG
1 ATTAAATTTTAATTTTTATCA-TTTTAAGAG
*
11593459 ATT-AATTTGATAATTTTTATCATTTTAAGGG
1 ATTAAATTT--TAATTTTTATCATTTTAAGAG
* *
11593490 ATTAAAATATAATTTT
1 ATTAAATTTTAATTTT
11593506 ATTTTTACTA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
30 12 0.29
31 14 0.34
32 15 0.37
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.53
Consensus pattern (30 bp):
ATTAAATTTTAATTTTTATCATTTTAAGAG
Found at i:11594351 original size:24 final size:22
Alignment explanation
Indices: 11594313--11594358 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
11594303 TGAAAGTAAT
11594313 CTTCTTCATCCTTTTATTTGCTTG
1 CTTCTTCATCCTTTT-TTT-CTTG
* *
11594337 CTTCTTCTTCTTTTTTTTCTTG
1 CTTCTTCATCCTTTTTTTCTTG
11594359 GTCTTTTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 3 0.15
24 13 0.65
ACGTcount: A:0.04, C:0.24, G:0.07, T:0.65
Consensus pattern (22 bp):
CTTCTTCATCCTTTTTTTCTTG
Found at i:11602085 original size:29 final size:31
Alignment explanation
Indices: 11602030--11602095 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
11602020 ATTTTGTAAA
11602030 TTTTTGTATTTTTCATAAATTTGAAATTTA-T
1 TTTTTGTATTTTTCAT-AATTTGAAATTTAGT
*
11602061 TTTTTGTATTTTT-AT-TTTTAGAAATTTAGT
1 TTTTTGTATTTTTCATAATTT-GAAATTTAGT
11602091 TTTTT
1 TTTTT
11602096 TTACAGATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
28 3 0.09
29 8 0.25
30 8 0.25
31 13 0.41
ACGTcount: A:0.24, C:0.02, G:0.08, T:0.67
Consensus pattern (31 bp):
TTTTTGTATTTTTCATAATTTGAAATTTAGT
Found at i:11602282 original size:20 final size:21
Alignment explanation
Indices: 11602257--11602298 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
11602247 AAAAATAACG
11602257 ATTTTAACAAT-T-AAAACTAA
1 ATTTTAA-AATCTAAAAACTAA
11602277 ATTTTAAAATCTAAAAACTAA
1 ATTTTAAAATCTAAAAACTAA
11602298 A
1 A
11602299 AGTATTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 3 0.15
20 8 0.40
21 9 0.45
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (21 bp):
ATTTTAAAATCTAAAAACTAA
Found at i:11602322 original size:22 final size:24
Alignment explanation
Indices: 11602287--11602330 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
11602277 ATTTTAAAAT
*
11602287 CTAAAAACTAAAAGTATTAAATTC
1 CTAAAAACTAAAAGTATAAAATTC
11602311 CTAAAAA-T-AAAGTATAAAAT
1 CTAAAAACTAAAAGTATAAAAT
11602331 AAACTGTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 1 0.05
24 7 0.37
ACGTcount: A:0.59, C:0.09, G:0.05, T:0.27
Consensus pattern (24 bp):
CTAAAAACTAAAAGTATAAAATTC
Found at i:11604267 original size:36 final size:35
Alignment explanation
Indices: 11604227--11604342 Score: 135
Period size: 36 Copynumber: 3.2 Consensus size: 35
11604217 CTATCCGCAT
***
11604227 CACCACCATACAATCCTCTGCCCTGC-CCACCACAAC
1 CACCACCATACAATAAGCTGCCCT-CTCCACCAC-AC
* *
11604263 CACCATCATACAAAAAGCTGCCCTCTCCACCATCAC
1 CACCACCATACAATAAGCTGCCCTCTCCACCA-CAC
*
11604299 CACCACTATACAATAAGCTGCCCTCTCCACCACCAC
1 CACCACCATACAATAAGCTGCCCTCTCCACCA-CAC
11604335 CACCACCA
1 CACCACCA
11604343 CCACCATCAC
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
35 1 0.01
36 66 0.97
37 1 0.01
ACGTcount: A:0.31, C:0.49, G:0.05, T:0.15
Consensus pattern (35 bp):
CACCACCATACAATAAGCTGCCCTCTCCACCACAC
Found at i:11604333 original size:3 final size:3
Alignment explanation
Indices: 11604325--11604356 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
11604315 GCTGCCCTCT
*
11604325 CCA CCA CCA CCA CCA CCA CCA CCA TCA CCA CC
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CC
11604357 TCATTACTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.66, G:0.00, T:0.03
Consensus pattern (3 bp):
CCA
Found at i:11604343 original size:39 final size:37
Alignment explanation
Indices: 11604244--11604340 Score: 137
Period size: 36 Copynumber: 2.7 Consensus size: 37
11604234 ATACAATCCT
*
11604244 CTGCCCTGC-CCACCACAACCACCA-TCATACAAAAAG
1 CTGCCCT-CTCCACCACCACCACCACTCATACAAAAAG
* *
11604280 CTGCCCTCTCCACCATCACCACCACT-ATACAATAAG
1 CTGCCCTCTCCACCACCACCACCACTCATACAAAAAG
11604316 CTGCCCTCTCCACCACCACCACCAC
1 CTGCCCTCTCCACCACCACCACCAC
11604341 CACCACCATC
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
35 1 0.02
36 53 0.96
37 1 0.02
ACGTcount: A:0.30, C:0.49, G:0.06, T:0.14
Consensus pattern (37 bp):
CTGCCCTCTCCACCACCACCACCACTCATACAAAAAG
Found at i:11613400 original size:30 final size:30
Alignment explanation
Indices: 11613361--11613417 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
11613351 TTTTATAAAT
11613361 AATTAATATTT-AT-TACTTAAAAATATTTGA
1 AATTAATATTTCATATA-TT-AAAATATTTGA
*
11613391 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
11613418 AACAAGAGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTGA
Found at i:11614447 original size:20 final size:21
Alignment explanation
Indices: 11614422--11614461 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
11614412 ATGGTTGAGT
11614422 TTTTTATTATTAT-AATTTTA
1 TTTTTATTATTATAAATTTTA
11614442 TTTTTATTATTATAAATTTT
1 TTTTTATTATTATAAATTTT
11614462 TGAATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTTATTATTATAAATTTTA
Found at i:11620172 original size:16 final size:17
Alignment explanation
Indices: 11620153--11620194 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
11620143 TAATTCTTAT
*
11620153 ATACATATATAC-ACAC
1 ATACATATACACAACAC
*
11620169 ATACACATACACATACAC
1 ATACATATACACA-ACAC
11620187 ATACATAT
1 ATACATAT
11620195 TTTTATAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 10 0.48
18 11 0.52
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (17 bp):
ATACATATACACAACAC
Found at i:11620174 original size:6 final size:6
Alignment explanation
Indices: 11620165--11620191 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
11620155 ACATATATAC
11620165 ACACAT ACACAT ACACAT ACACAT ACA
1 ACACAT ACACAT ACACAT ACACAT ACA
11620192 TATTTTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (6 bp):
ACACAT
Found at i:11621572 original size:42 final size:42
Alignment explanation
Indices: 11621522--11621606 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
11621512 TTTGTCGAAA
*
11621522 ATGGATAATTTGGTTCAAATTCACGATCTTTTTGTTGCACCT
1 ATGGATAATTTGGTTCAAATCCACGATCTTTTTGTTGCACCT
11621564 ATGGATAATTTGGTTCAAATCCACGATCTTTTTGTTGCACCT
1 ATGGATAATTTGGTTCAAATCCACGATCTTTTTGTTGCACCT
11621606 A
1 A
11621607 GTCTGCATCG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (42 bp):
ATGGATAATTTGGTTCAAATCCACGATCTTTTTGTTGCACCT
Found at i:11624783 original size:28 final size:28
Alignment explanation
Indices: 11624743--11624798 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
11624733 GTCATAGGGC
11624743 CGATCTCACCTAAGGTTTTTTACGGTTA
1 CGATCTCACCTAAGGTTTTTTACGGTTA
11624771 CGATCTCACCTAAGGTTTTTTACGGTTA
1 CGATCTCACCTAAGGTTTTTTACGGTTA
11624799 TCTTTATGGT
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:0.21, C:0.21, G:0.18, T:0.39
Consensus pattern (28 bp):
CGATCTCACCTAAGGTTTTTTACGGTTA
Found at i:11625436 original size:6 final size:6
Alignment explanation
Indices: 11625416--11625473 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 6
11625406 AAGAATGTTC
*
11625416 AAAAA- AAATAG AAAAAG -AAAAG -AAAAG AAAATAAG AAAAAG -AAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG -AAA-AAG AAAAAG AAAAAG
11625462 AAAAAG AAAAAG
1 AAAAAG AAAAAG
11625474 GAGAGGCCAA
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
5 19 0.41
6 19 0.41
7 5 0.11
8 3 0.07
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:11625439 original size:11 final size:11
Alignment explanation
Indices: 11625416--11625471 Score: 69
Period size: 11 Copynumber: 4.9 Consensus size: 11
11625406 AAGAATGTTC
11625416 AAAAA-AAATAG
1 AAAAAGAAA-AG
11625427 AAAAAGAAAAG
1 AAAAAGAAAAG
*
11625438 AAAAGAAAATAAG
1 AAAA-AGAA-AAG
11625451 AAAAAGAAAAG
1 AAAAAGAAAAG
11625462 AAAAAGAAAA
1 AAAAAGAAAA
11625472 AGGAGAGGCC
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
11 24 0.60
12 9 0.22
13 7 0.17
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:11625446 original size:24 final size:26
Alignment explanation
Indices: 11625419--11625472 Score: 87
Period size: 24 Copynumber: 2.2 Consensus size: 26
11625409 AATGTTCAAA
11625419 AAAAAT-AGAAAAAGAAAAG-AAAAG
1 AAAAATAAGAAAAAGAAAAGAAAAAG
11625443 -AAAATAAGAAAAAGAAAAGAAAAAG
1 AAAAATAAGAAAAAGAAAAGAAAAAG
11625468 AAAAA
1 AAAAA
11625473 GGAGAGGCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 5 0.19
24 13 0.48
25 5 0.19
26 4 0.15
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (26 bp):
AAAAATAAGAAAAAGAAAAGAAAAAG
Found at i:11625455 original size:19 final size:17
Alignment explanation
Indices: 11625416--11625473 Score: 75
Period size: 17 Copynumber: 3.4 Consensus size: 17
11625406 AAGAATGTTC
11625416 AAAAA-AAATAGAAAAAG
1 AAAAAGAAA-AGAAAAAG
11625433 -AAAAGAAAAGAAAATAAG
1 AAAAAGAAAAG-AAA-AAG
11625451 AAAAAGAAAAGAAAAAG
1 AAAAAGAAAAGAAAAAG
11625468 AAAAAG
1 AAAAAG
11625474 GAGAGGCCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
16 6 0.16
17 15 0.41
18 6 0.16
19 10 0.27
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (17 bp):
AAAAAGAAAAGAAAAAG
Found at i:11627068 original size:43 final size:43
Alignment explanation
Indices: 11626994--11627155 Score: 130
Period size: 43 Copynumber: 3.7 Consensus size: 43
11626984 AAAGAAGTCT
* * * * *
11626994 TATCTCCCTAAGTAGTAGTGAAGCAGATCGAAAGCACCAGCTC
1 TATCTCCCTAAGCAGCAGCGGAGTAGATCGAAAGCACCAGCTC
* * * ** *
11627037 TATCTCCCTAAGTAACAGCGGAGTAGGTCG-AAG-ATTGTAGATC
1 TATCTCCCTAAGCAGCAGCGGAGTAGATCGAAAGCA--CCAGCTC
* * * *
11627080 TTATCTCCCTAAACAGTAGTGGAGTAGATCGAAAGCACCAGCCC
1 -TATCTCCCTAAGCAGCAGCGGAGTAGATCGAAAGCACCAGCTC
* *
11627124 TATCTCCCTAAGCAGCAACGGAGTAGGTCGAA
1 TATCTCCCTAAGCAGCAGCGGAGTAGATCGAA
11627156 GATTGTAGAT
Statistics
Matches: 90, Mismatches: 24, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 55 0.61
44 27 0.30
45 3 0.03
46 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (43 bp):
TATCTCCCTAAGCAGCAGCGGAGTAGATCGAAAGCACCAGCTC
Found at i:11627127 original size:87 final size:87
Alignment explanation
Indices: 11626991--11627200 Score: 339
Period size: 87 Copynumber: 2.4 Consensus size: 87
11626981 AAAAAAGAAG
* * * * *
11626991 TCTTATCTCCCTAAGTAGTAGTGAAGCAGATCGAAAGCACCAGCTCTATCTCCCTAAGTAACAGC
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGCACCAGCCCTATCTCCCTAAGCAACAAC
11627056 GGAGTAGGTCGAAGATTGTAGA
66 GGAGTAGGTCGAAGATTGTAGA
* * *
11627078 TCTTATCTCCCTAAACAGTAGTGGAGTAGATCGAAAGCACCAGCCCTATCTCCCTAAGCAGCAAC
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGCACCAGCCCTATCTCCCTAAGCAACAAC
11627143 GGAGTAGGTCGAAGATTGTAGA
66 GGAGTAGGTCGAAGATTGTAGA
*
11627165 TCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAA
11627201 ACCACAGATC
Statistics
Matches: 112, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 112 1.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.23
Consensus pattern (87 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGCACCAGCCCTATCTCCCTAAGCAACAAC
GGAGTAGGTCGAAGATTGTAGA
Found at i:11627199 original size:44 final size:43
Alignment explanation
Indices: 11626991--11627279 Score: 160
Period size: 44 Copynumber: 6.7 Consensus size: 43
11626981 AAAAAAGAAG
* * *
11626991 TCTTATCTCCCTAAGTAGTAGTGAAGCAGATCGAA-A-GCACCA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGCA-GA
* * ** * * * *
11627033 GCTCTATCTCCCTAAGTAACAGCGGAGTAGGTCGAAGATTGTAGA
1 TCT-TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-TGCAGA
* * *
11627078 TCTTATCTCCCTAAACAGTAGTGGAGTAGATCGAA-A-GCACCA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGCA-GA
* * * ** * * *
11627120 GCCCTATCTCCCTAAGCAGCAACGGAGTAGGTCGAAGATTGTAGA
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-TGCAGA
* * **
11627165 TCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAAACCACAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-TGCAGA
* ** * * * *
11627209 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCG--CATCCAG-
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGATGCAGA
11627250 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
11627280 CAGAAGAAAT
Statistics
Matches: 185, Mismatches: 52, Indels: 22
0.71 0.20 0.08
Matches are distributed among these distances:
40 14 0.08
41 13 0.07
42 6 0.03
43 56 0.30
44 70 0.38
45 22 0.12
46 4 0.02
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (43 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGCAGA
Found at i:11627336 original size:129 final size:129
Alignment explanation
Indices: 11627184--11627489 Score: 470
Period size: 129 Copynumber: 2.4 Consensus size: 129
11627174 CCTAAGCAGT
* **
11627184 AGTAGAGCAGATCGAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCA
1 AGTAGAGCGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCA
*
11627249 GTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAA-TCAATCCTATCTCTCTAAAGTTGC
66 GTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACT-AATACTATCTCTCTAAAGTTGC
* * * * * *
11627313 AGTGGAGTGGATTAAAAAACACAGATCCTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCCA
1 AGTAGAGCGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCA
* *
11627378 GTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACTAATACTATCTTTCTGAAGTTGC
66 GTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACTAATACTATCTCTCTAAAGTTGC
* *
11627442 AGTAGAGCGGATTAAAAACCGCAGATCTTATCTCCCTGAAGTTGCAGT
1 AGTAGAGCGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAGT
11627490 GGAACAGACT
Statistics
Matches: 157, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
129 156 0.99
130 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (129 bp):
AGTAGAGCGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCA
GTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACTAATACTATCTCTCTAAAGTTGC
Found at i:11627481 original size:45 final size:45
Alignment explanation
Indices: 11627432--11627534 Score: 116
Period size: 45 Copynumber: 2.3 Consensus size: 45
11627422 TACTATCTTT
* * * * * *
11627432 CTGAAGTTGCAGTAGAGCGGATTAAAAACCGCAGATCTTATCTCC
1 CTGAAGTTGCAGTAGAACAGACTAAAAACAGCAAACCTTATCTCC
* * *
11627477 CTGAAGTTGCAGTGGAACAGACTGAAAATAGCAAACCTTATCTCC
1 CTGAAGTTGCAGTAGAACAGACTAAAAACAGCAAACCTTATCTCC
*
11627522 CTGTAGTTGCAGT
1 CTGAAGTTGCAGT
11627535 GGAGTAGGTT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.25
Consensus pattern (45 bp):
CTGAAGTTGCAGTAGAACAGACTAAAAACAGCAAACCTTATCTCC
Found at i:11629452 original size:12 final size:12
Alignment explanation
Indices: 11629432--11629470 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
11629422 TTATAATTCT
* *
11629432 TATATACATATA
1 TATACACATACA
11629444 TATACACATACA
1 TATACACATACA
*
11629456 CATACACATACA
1 TATACACATACA
11629468 TAT
1 TAT
11629471 TTTTATAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.31
Consensus pattern (12 bp):
TATACACATACA
Found at i:11631732 original size:3 final size:3
Alignment explanation
Indices: 11631724--11631787 Score: 55
Period size: 3 Copynumber: 22.0 Consensus size: 3
11631714 TAATTATTTA
*
11631724 ATT ATT ATT A-T ATT A-T ATC ATT ATGT ATT ATT A-T ATT ATTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT A-TT ATT
* *
11631768 ATT ATT GTC ATT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT
11631788 TGTACATTCG
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
2 8 0.16
3 35 0.71
4 6 0.12
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:11631869 original size:2 final size:2
Alignment explanation
Indices: 11631862--11631888 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11631852 TGTCTTTACA
11631862 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
11631889 AATGCATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11638828 original size:21 final size:20
Alignment explanation
Indices: 11638800--11638838 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
11638790 TTTTTTTTAT
* *
11638800 ATATTTTTTATTTTTAATAC
1 ATATTTTTGACTTTTAATAC
11638820 ATATGTTTTGACTTTTAAT
1 ATAT-TTTTGACTTTTAAT
11638839 TTATAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (20 bp):
ATATTTTTGACTTTTAATAC
Found at i:11641970 original size:18 final size:18
Alignment explanation
Indices: 11641937--11641994 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
11641927 AATGTTTTCT
11641937 TATTGATGATA-T--CGA
1 TATTGATGATAGTGACGA
11641952 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
* * *
11641970 TATTGATGCTAGTGATGC
1 TATTGATGATAGTGACGA
11641988 TATTGAT
1 TATTGAT
11641995 CGTGACCTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.30
16 1 0.03
18 25 0.68
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.40
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Found at i:11649156 original size:21 final size:20
Alignment explanation
Indices: 11649132--11649182 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
11649122 GTATGGCGAC
*
11649132 TTATTGCAACTTACTGGCAGT
1 TTATTGCAAC-TACTGACAGT
*
11649153 TTATCTACAACTACTGACAGT
1 TTAT-TGCAACTACTGACAGT
11649174 TTAATTGCA
1 TT-ATTGCA
11649183 TATTGATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (20 bp):
TTATTGCAACTACTGACAGT
Found at i:11655274 original size:23 final size:24
Alignment explanation
Indices: 11655227--11655277 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
11655217 ACCATTTATT
11655227 TCTCCTTTCATCTTCCTCTTTTTTC
1 TCTCCTTTCATCTT-CTCTTTTTTC
*
11655252 TCTCCTTTCTTCTT-TCTTTTTTC
1 TCTCCTTTCATCTTCTCTTTTTTC
11655275 TCT
1 TCT
11655278 TACCGCCGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 12 0.48
25 13 0.52
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (24 bp):
TCTCCTTTCATCTTCTCTTTTTTC
Found at i:11657383 original size:100 final size:98
Alignment explanation
Indices: 11657274--11657555 Score: 281
Period size: 95 Copynumber: 2.9 Consensus size: 98
11657264 AAAATATTTC
* *
11657274 TTTTAACATAATGATATAGAAAAATATATATTTCCATTATGTAATTACATATTTATTATTTTATT
1 TTTTGACATAATGATATAGAAAAATATATATTT-CATTATATAATTACATATTTATTATTTTATT
** *
11657339 TATATAAATAATGGAAG-TATTAATTTAAAAAATA
65 TATATAAATAAAAG-AGTTATTAATTTAAAAAACA
* * *
11657373 TTTTTGACATAATGATATATATAAAATGTATATTTTATTATATAATTAC--ATTT-TTA--TTAT
1 -TTTTGACATAATGATATAGA-AAAATATATATTTCATTATATAATTACATATTTATTATTTTAT
* *
11657433 TTTTATAAATAAAAGAGTTATTAATTTAAAATACA
64 TTATATAAATAAAAGAGTTATTAATTTAAAAAACA
* * * * *
11657468 TTTAG-CATAATGATTTATGTAAAAAATATATATTTTGATTATATAAGTACATGTTTATTATTTT
1 TTTTGACATAATGATATA-G--AAAAATATATA-TTTCATTATATAATTACATATTTATTATTTT
* * *
11657532 GTTTATATAAATAAATGATTTATT
62 ATTTATATAAATAAAAGAGTTATT
11657556 GTAACACCCC
Statistics
Matches: 150, Mismatches: 21, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
93 11 0.07
94 6 0.04
95 40 0.27
96 16 0.11
97 3 0.02
98 7 0.05
99 3 0.02
100 30 0.20
101 34 0.23
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.48
Consensus pattern (98 bp):
TTTTGACATAATGATATAGAAAAATATATATTTCATTATATAATTACATATTTATTATTTTATTT
ATATAAATAAAAGAGTTATTAATTTAAAAAACA
Found at i:11657537 original size:28 final size:29
Alignment explanation
Indices: 11657498--11657555 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
11657488 AAAAAATATA
* *
11657498 TATTTTGATTATATAAGTACATG-TTTAT
1 TATTTTGATTATATAAATAAATGATTTAT
*
11657526 TATTTTGTTTATATAAATAAATGATTTAT
1 TATTTTGATTATATAAATAAATGATTTAT
11657555 T
1 T
11657556 GTAACACCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 20 0.77
29 6 0.23
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (29 bp):
TATTTTGATTATATAAATAAATGATTTAT
Found at i:11661957 original size:35 final size:35
Alignment explanation
Indices: 11661892--11661976 Score: 107
Period size: 35 Copynumber: 2.4 Consensus size: 35
11661882 GATAATCTAA
* * *
11661892 CCGAAACACACTAGATGCTCATAAGGGCTAATCCAT
1 CCGAAACACACCA-ATGCTCAGAAGAGCTAATCCAT
*
11661928 CCGAAACACACCAATGCTTAGAAGAGCTAATCCAT
1 CCGAAACACACCAATGCTCAGAAGAGCTAATCCAT
* *
11661963 TCGAAATACACCAA
1 CCGAAACACACCAA
11661977 AACATAGAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
35 31 0.72
36 12 0.28
ACGTcount: A:0.40, C:0.28, G:0.14, T:0.18
Consensus pattern (35 bp):
CCGAAACACACCAATGCTCAGAAGAGCTAATCCAT
Found at i:11669989 original size:23 final size:23
Alignment explanation
Indices: 11669963--11670083 Score: 197
Period size: 23 Copynumber: 5.3 Consensus size: 23
11669953 GTGTTATTGA
*
11669963 TCAGTGGTAGCTTCGGCTACGTT
1 TCAGTGGTAGCTTCGGCTACATT
11669986 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
11670009 TCAGTGGTATCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
11670032 TCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
* *
11670055 ACAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
11670078 TCAGTG
1 TCAGTG
11670084 TTGCACTTAT
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 92 1.00
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.33
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:11672693 original size:15 final size:17
Alignment explanation
Indices: 11672653--11672694 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
11672643 TGTAATAATT
*
11672653 AAATATTGTTGGTGTAG
1 AAATATTATTGGTGTAG
*
11672670 AAATCTTATTGGT-TA-
1 AAATATTATTGGTGTAG
11672685 AAATATTATT
1 AAATATTATT
11672695 ATACTATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 9 0.41
16 2 0.09
17 11 0.50
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (17 bp):
AAATATTATTGGTGTAG
Found at i:11674290 original size:18 final size:19
Alignment explanation
Indices: 11674269--11674318 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
11674259 GTCCAAAAAA
*
11674269 ATATATTTAATAAA-AAGT
1 ATATATTTAATAAATAAAT
*
11674287 ATATTTGATTAA-AAATAAAT
1 ATATAT--TTAATAAATAAAT
11674307 ATATATTTAATA
1 ATATATTTAATA
11674319 TAATTCGGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 7
0.71 0.09 0.20
Matches are distributed among these distances:
18 9 0.36
19 4 0.16
20 12 0.48
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (19 bp):
ATATATTTAATAAATAAAT
Found at i:11674300 original size:16 final size:16
Alignment explanation
Indices: 11674264--11674303 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
11674254 TAAAAGTCCA
11674264 AAAAAATATATTTAAT
1 AAAAAATATATTTAAT
* *
11674280 AAAAAGTATATTTGAT
1 AAAAAATATATTTAAT
*
11674296 TAAAAATA
1 AAAAAATA
11674304 AATATATATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (16 bp):
AAAAAATATATTTAAT
Found at i:11677799 original size:20 final size:20
Alignment explanation
Indices: 11677763--11677800 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11677753 TAGATCTATC
*
11677763 TATATTTTTTATTTTTAAAT
1 TATATTTTTTATATTTAAAT
11677783 TATATTATTTTA-ATTTAA
1 TATATT-TTTTATATTTAA
11677801 TATATAACAG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TATATTTTTTATATTTAAAT
Found at i:11682315 original size:13 final size:13
Alignment explanation
Indices: 11682297--11682321 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11682287 TTTTCTCGAG
11682297 TATTTAATGAAAA
1 TATTTAATGAAAA
11682310 TATTTAATGAAA
1 TATTTAATGAAA
11682322 TGTGGTGACG
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:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (13 bp):
TATTTAATGAAAA
Found at i:11686468 original size:97 final size:97
Alignment explanation
Indices: 11686302--11686498 Score: 358
Period size: 97 Copynumber: 2.0 Consensus size: 97
11686292 ATTCGCAAAA
*
11686302 CAACTAACAAGCAAAGACATCCTAGGTACATGCCATTACAAAATTAAACATCACCGCACTTGAGA
1 CAACTAACAAGCAAAGACATCCTAGGTACATGCCATTACAAAATTAAACATCACCACACTTGAGA
*
11686367 TCGAGATCGTCGTTGGATACTGAGTCAGTGAC
66 TCGAGATAGTCGTTGGATACTGAGTCAGTGAC
11686399 CAACTAACAAGCAAAGACATCCTAGGTACATGCCATTACAAAATTAAACATCACCACACTTGAGA
1 CAACTAACAAGCAAAGACATCCTAGGTACATGCCATTACAAAATTAAACATCACCACACTTGAGA
* *
11686464 TCGAGATAGTCGTTGGATGCTGAGTCGGTGAC
66 TCGAGATAGTCGTTGGATACTGAGTCAGTGAC
11686496 CAA
1 CAA
11686499 AAGAGAGCAC
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
97 96 1.00
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (97 bp):
CAACTAACAAGCAAAGACATCCTAGGTACATGCCATTACAAAATTAAACATCACCACACTTGAGA
TCGAGATAGTCGTTGGATACTGAGTCAGTGAC
Found at i:11687209 original size:74 final size:72
Alignment explanation
Indices: 11687147--11687397 Score: 262
Period size: 74 Copynumber: 3.5 Consensus size: 72
11687137 CTGATGGAAG
* *
11687147 TTGTGCCCAATGCTAATTGGATAAATCGACG-AATAATTAGTGAGCCCAGCTCTAGTTGGATAAA
1 TTGTGCCCAATGCTAGTCGGATAAATCGACGAAATAATTAGT-AGCCCAGCTCTAGTTGGATAAA
11687211 CCAATGATA
65 -CAATGATA
* * * *
11687220 TTTGCGCCCACTGCTAGTCGGATAAA-CAGATGAAATAATTAGTAAGCCCAGCTCTAGTTGGACA
1 -TTGTGCCCAATGCTAGTCGGATAAATC-GACGAAATAATTAGT-AGCCCAGCTCTAGTTGGATA
*
11687284 AACCAACGATA
63 AA-CAATGATA
*
11687295 TTGTGCCCAGTGCTAGTCGGATAAATCGACGAAATAATTAGTA----AGCTCTAGTTGGATAAAC
1 TTGTGCCCAATGCTAGTCGGATAAATCGACGAAATAATTAGTAGCCCAGCTCTAGTTGGATAAA-
*
11687356 CAACGATA
65 CAATGATA
* * * **
11687364 TTTGCGCCCAGTGCTAGTCAGATAAGCCGACGAA
1 -TTGTGCCCAATGCTAGTCGGATAAATCGACGAA
11687398 TGTGTGTCCG
Statistics
Matches: 157, Mismatches: 16, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
69 25 0.16
70 29 0.18
73 2 0.01
74 61 0.39
75 40 0.25
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (72 bp):
TTGTGCCCAATGCTAGTCGGATAAATCGACGAAATAATTAGTAGCCCAGCTCTAGTTGGATAAAC
AATGATA
Found at i:11687381 original size:35 final size:35
Alignment explanation
Indices: 11687187--11687374 Score: 118
Period size: 35 Copynumber: 5.3 Consensus size: 35
11687177 GAATAATTAG
*
11687187 TGAGCCCAGCTCTAGTTGGATAAACCAATGATATT
1 TGAGCCCAGCTCTAGTTGGATAAACCAACGATATT
* * *
11687222 TGCGCCCA-CTGCTAGTCGGATAAA-CAGATGAAATAATT
1 TGAGCCCAGCT-CTAGTTGGATAAACCA-ACG--AT-ATT
* *
11687260 AGTAAGCCCAGCTCTAGTTGGACAAACCAACGATA-T
1 --TGAGCCCAGCTCTAGTTGGATAAACCAACGATATT
* * * * *
11687296 TGTGCCCAG-TGCTAGTCGGATAAATCGACGAAATAAT
1 TGAGCCCAGCT-CTAGTTGGATAAACCAACG--ATATT
**
11687333 T-AG-TAAGCTCTAGTTGGATAAACCAACGATATT
1 TGAGCCCAGCTCTAGTTGGATAAACCAACGATATT
*
11687366 TGCGCCCAG
1 TGAGCCCAG
11687375 TGCTAGTCAG
Statistics
Matches: 114, Mismatches: 23, Indels: 32
0.67 0.14 0.19
Matches are distributed among these distances:
33 6 0.05
34 27 0.24
35 42 0.37
36 6 0.05
37 5 0.04
38 5 0.04
40 19 0.17
41 4 0.04
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (35 bp):
TGAGCCCAGCTCTAGTTGGATAAACCAACGATATT
Found at i:11688594 original size:17 final size:17
Alignment explanation
Indices: 11688552--11688598 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
11688542 AATTCAATTT
11688552 TAATATAAAT-ATTCAA
1 TAATATAAATAATTCAA
11688568 T-ATGACTAAATAATTCAA
1 TAAT-A-TAAATAATTCAA
11688586 TAATATAAATAAT
1 TAATATAAATAAT
11688599 ATAAAATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.07
16 2 0.07
17 13 0.48
18 8 0.30
19 2 0.07
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.36
Consensus pattern (17 bp):
TAATATAAATAATTCAA
Found at i:11689146 original size:9 final size:9
Alignment explanation
Indices: 11689132--11689168 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
11689122 TATAGTTTGA
11689132 TATTCGAAT
1 TATTCGAAT
11689141 TATTCGAAT
1 TATTCGAAT
*
11689150 TATTCGAGT
1 TATTCGAAT
*
11689159 TATTCAAAT
1 TATTCGAAT
11689168 T
1 T
11689169 TGAAAACGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:11692949 original size:74 final size:75
Alignment explanation
Indices: 11692856--11693032 Score: 180
Period size: 74 Copynumber: 2.4 Consensus size: 75
11692846 AAAAATGTGT
** ** * *
11692856 GCCCAGCACTAGTCAGATAAACTGACAGA-AGTTGCGCTCAACTCTAGTTGGATAAA-CCAACG-
1 GCCCAGCACTAGTTGGATAAACCAAC-GATAGTTGCGCCCAACGCTAGTTGGATAAAGCCAA-GA
11692918 AATAATTAGTGA
64 AATAATTAGTGA
* * * **
11692930 GCCCAGCTCTAGTTGGATAAACCAACGATATTTGCGCCCAGCGCTAGTTGGATAAAGTGAAGAAA
1 GCCCAGCACTAGTTGGATAAACCAACGATAGTTGCGCCCAACGCTAGTTGGATAAAGCCAAGAAA
11692995 TAATTAGTGA
66 TAATTAGTGA
* * * *
11693005 ACCCAGCGCTAGTTGAATAAACCGACGA
1 GCCCAGCACTAGTTGGATAAACCAACGA
11693033 AATAATTAGT
Statistics
Matches: 85, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
73 2 0.02
74 45 0.53
75 38 0.45
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.21
Consensus pattern (75 bp):
GCCCAGCACTAGTTGGATAAACCAACGATAGTTGCGCCCAACGCTAGTTGGATAAAGCCAAGAAA
TAATTAGTGA
Found at i:11693065 original size:40 final size:39
Alignment explanation
Indices: 11692897--11693069 Score: 194
Period size: 40 Copynumber: 4.5 Consensus size: 39
11692887 TTGCGCTCAA
11692897 CTCTAGTTGGATAAACCAACGAATAATTAGTGAGCCCAG
1 CTCTAGTTGGATAAACCAACGAATAATTAGTGAGCCCAG
*
11692936 CTCTAGTTGGATAAACCAACG-AT-ATT--TGCGCCCAG
1 CTCTAGTTGGATAAACCAACGAATAATTAGTGAGCCCAG
* ** *
11692971 CGCTAGTTGGATAAAGTGAA-GAAATAATTAGTGAACCCAG
1 CTCTAGTTGGATAAA-CCAACG-AATAATTAGTGAGCCCAG
* * *
11693011 CGCTAGTTGAATAAACCGACGAAATAATTAGTGAGCCCAG
1 CTCTAGTTGGATAAACCAACG-AATAATTAGTGAGCCCAG
**
11693051 CTCTAGTCAGATAAACCAA
1 CTCTAGTTGGATAAACCAA
11693070 TGATATTTGC
Statistics
Matches: 111, Mismatches: 16, Indels: 13
0.79 0.11 0.09
Matches are distributed among these distances:
35 23 0.21
36 2 0.02
37 5 0.05
38 5 0.05
39 22 0.20
40 54 0.49
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (39 bp):
CTCTAGTTGGATAAACCAACGAATAATTAGTGAGCCCAG
Found at i:11694142 original size:7 final size:7
Alignment explanation
Indices: 11694118--11694161 Score: 65
Period size: 7 Copynumber: 6.4 Consensus size: 7
11694108 ATTTTATTAC
11694118 TATATAA
1 TATATAA
11694125 T-TA-ATA
1 TATATA-A
11694131 TATATAA
1 TATATAA
11694138 TATATAA
1 TATATAA
11694145 TATATAA
1 TATATAA
11694152 TATATAA
1 TATATAA
11694159 TAT
1 TAT
11694162 CCTTATAAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 1 0.03
6 4 0.12
7 28 0.82
8 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
TATATAA
Found at i:11696081 original size:27 final size:27
Alignment explanation
Indices: 11696005--11696193 Score: 195
Period size: 27 Copynumber: 7.1 Consensus size: 27
11695995 CCATAGGATG
**
11696005 AAATGACCGTAACACCC-TGTAGGGTA
1 AAATGACCGTAATGCCCTTGTAGGGTA
* ** *
11696031 AAATGACTGTAATGAGAC-TATAGGGTA
1 AAATGACCGTAATG-CCCTTGTAGGGTA
11696058 AAATGACCGTAATGCCCTTGTAGGGTA
1 AAATGACCGTAATGCCCTTGTAGGGTA
* *
11696085 AAATGACCATAATGCCCCTGTAGGGTA
1 AAATGACCGTAATGCCCTTGTAGGGTA
* ** * * *
11696112 AAATAACTATAATACCCCTATAGGGTA
1 AAATGACCGTAATGCCCTTGTAGGGTA
**
11696139 AAATGTTCGTAATGCCCTTGTAGGGTA
1 AAATGACCGTAATGCCCTTGTAGGGTA
*
11696166 AAATGACCGTAATGCCCTAGT-GGGTA
1 AAATGACCGTAATGCCCTTGTAGGGTA
11696192 AA
1 AA
11696194 TGATTATTTT
Statistics
Matches: 134, Mismatches: 27, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
26 19 0.14
27 115 0.86
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (27 bp):
AAATGACCGTAATGCCCTTGTAGGGTA
Done.