Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold51
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: 3712191
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.32
Warning! 131352 characters in sequence are not A, C, G, or T
File 17 of 23
Found at i:2603835 original size:126 final size:126
Alignment explanation
Indices: 2603716--2604089 Score: 419
Period size: 125 Copynumber: 3.0 Consensus size: 126
2603706 ATTTGAAAAA
*
2603716 TAAAAAATATTATTATAATAAAAACTTTTTTTTAATTTAAAATTTTTTATTTTAAAAAACATAAT
1 TAAAAAATATTATAATAATAAAAACTTTTTTTTAATTTAAAATTTTTTATTTT-AAAAACATAAT
* *
2603781 AATTAATA-TTTATATTTGTTAATGTAAATTTTTTAAACTTAATTAAATATTATTTTTTATTT
65 AATTAATATTTTA-ATTTGTTAATGTAAATTTTTTAAACTTAATTAAATATTATTTTTAATAT
* * *
2603843 TATTAAAA-ATTATAATAA-AAAAAC-CTTTTTTATTTTAAAATTTTTTATTTTTATTAAAACAT
1 TA-AAAAATATTATAATAATAAAAACTTTTTTTTAATTTAAAATTTTTTA-TTTTA--AAAACAT
*
2603905 AATAATTAATATTTTAATTTGTTAATGT-AATTTTTTAAATTTAATTAAATATTATTTTTAATTT
62 AATAATTAATATTTTAATTTGTTAATGTAAATTTTTTAAACTTAATTAAATATTATTTTTAA---
2603969 TAT
124 TAT
** * * *
2603972 TAAAAAATA--ATAATAATAAACCCTTTTCATTTTTATTT-AATTTTTTTATTTT-TAAA-A-AA
1 TAAAAAATATTATAATAATAAAAACTTTT--TTTTAATTTAAAATTTTTTATTTTAAAAACATAA
* ** * *
2604031 TAATTAATATTTTAATTTATTAACATAATTTTTTTAAAGTTAATTAAATATTATTTTTA
64 TAATTAATATTTTAATTTGTTAATGTAAATTTTTTAAACTTAATTAAATATTATTTTTA
2604090 TTAAAAATAA
Statistics
Matches: 213, Mismatches: 20, Indels: 30
0.81 0.08 0.11
Matches are distributed among these distances:
124 25 0.12
125 53 0.25
126 44 0.21
127 48 0.23
128 16 0.08
129 11 0.05
130 9 0.04
131 7 0.03
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (126 bp):
TAAAAAATATTATAATAATAAAAACTTTTTTTTAATTTAAAATTTTTTATTTTAAAAACATAATA
ATTAATATTTTAATTTGTTAATGTAAATTTTTTAAACTTAATTAAATATTATTTTTAATAT
Found at i:2605086 original size:91 final size:91
Alignment explanation
Indices: 2604636--2605773 Score: 1321
Period size: 91 Copynumber: 12.6 Consensus size: 91
2604626 CTGTAAAAAA
* *
2604636 TAGACTAATACAT-AGATTATATCTGAGAATTGAATTCTTTTTTATGAAAAAAAAAGAAAAGTTG
1 TAGACTAATGCATGA-ATTATATCTGAGAATCGAATTCTTTTTTATG--AAAAAAAGAAAAGTTG
* * *
2604700 ATTGATTGTAAATGTTAGACTGCAAAGTT
63 ATTGATTGTAAATGTCAGACTGCAAGGAT
* * *
2604729 TAGACTAATACATGAATTATATTTGAGAATCGGATTCTTTTTTAT----AAAA-AAAAGTTGATT
1 TAGACTAATGCATGAATTATATCTGAGAATCGAATTCTTTTTTATGAAAAAAAGAAAAGTTGATT
**
2604789 GATTGTAAATGTCAGACTATAAGGAT
66 GATTGTAAATGTCAGACTGCAAGGAT
* * * * *
2604815 TAGACTAATACATGAATTATATCTGAGAATCGGATTC-TTTATA-GAAAGAAAG-AAAGACTGAT
1 TAGACTAATGCATGAATTATATCTGAGAATCGAATTCTTTTTTATGAAAAAAAGAAAAG-TTGAT
* * *
2604877 TAATTGTAAATGTCAGACTGTAAGAAT
65 TGATTGTAAATGTCAGACTGCAAGGAT
* * *
2604904 TAGACTAATGTATGAATTATATTTGAGAATC-AATTCTTTTTTAT---AGAAA-AAAAGTTGATT
1 TAGACTAATGCATGAATTATATCTGAGAATCGAATTCTTTTTTATGAAAAAAAGAAAAGTTGATT
* * *
2604964 GATTGTAAATATTAGACTGCAAAGAT
66 GATTGTAAATGTCAGACTGCAAGGAT
*
2604990 TAGACTAATGTATGAATTATATCTGAGAATCGAATTCTTTTTTATGAAAAAAAGAAAAGTTGATT
1 TAGACTAATGCATGAATTATATCTGAGAATCGAATTCTTTTTTATGAAAAAAAGAAAAGTTGATT
*
2605055 GATTGTAAATGTCAGACTGCAATGAT
66 GATTGTAAATGTCAGACTGCAAGGAT
* * * *
2605081 TAGACTAATACATGAATTATATCTAAGAATC-AGATTC-TTTATA-GAAAAAAAG-AAAGACTGA
1 TAGACTAATGCATGAATTATATCTGAGAATCGA-ATTCTTTTTTATGAAAAAAAGAAAAG-TTGA
*
2605142 TTAATTGTAAATGTCAGACTGCAAGGAT
64 TTGATTGTAAATGTCAGACTGCAAGGAT
* * *
2605170 TAGTCCAATGTATGAATTATATCTGAGAATC-AATTCTTTTTTAT-AGAAAAAAGAAAAGTTGAT
1 TAGACTAATGCATGAATTATATCTGAGAATCGAATTCTTTTTTATGA-AAAAAAGAAAAGTTGAT
* *
2605233 TGATTGTAAATGTCAGACTACAAAGAT
65 TGATTGTAAATGTCAGACTGCAAGGAT
*
2605260 TAGACTAATGCAT-AATTATATCTGAGAATCGGATTCTTTTTTATG---AAAA-AAAAGTTGATT
1 TAGACTAATGCATGAATTATATCTGAGAATCGAATTCTTTTTTATGAAAAAAAGAAAAGTTGATT
2605320 GATTGTAAATGTCAGACTGCAAGGAT
66 GATTGTAAATGTCAGACTGCAAGGAT
* * * *
2605346 TAGACTAATGCATGAATTATATCTGAGAAGCGGATTCTTTTTTATAGAAAAAAATGAAGA-CTGA
1 TAGACTAATGCATGAATTATATCTGAGAATCGAATTCTTTTTTAT-GAAAAAAA-GAAAAGTTGA
* * **
2605410 TTGATTATAAATGTCAAACTATAAGGAT
64 TTGATTGTAAATGTCAGACTGCAAGGAT
* * *
2605438 TAAACTAATGTATGAATTATATCTGAAAAATC-AATTCTTTTTTATAGAAAAAAAAAAAGAAAAG
1 TAGACTAATGCATGAATTATATCTG-AGAATCGAATTCTTTTTTAT-G----AAAAAAAGAAAAG
* *
2605502 TTGATTGATTATAAATGTCAGACTGCAAAGAT
60 TTGATTGATTGTAAATGTCAGACTGCAAGGAT
*
2605534 TAGACTAATGCATGAATTATATATGAGAATC-AGATTCTTTTTTATGAAAAAAAGAAAAGTTGAT
1 TAGACTAATGCATGAATTATATCTGAGAATCGA-ATTCTTTTTTATGAAAAAAAGAAAAGTTGAT
**
2605598 TGATTGTAAATGTCAGACTGCAATAAT
65 TGATTGTAAATGTCAGACTGCAAGGAT
* * *
2605625 TAGACTAATGCATGAATTATATCTAAGAAT-TAGATTCTTTTTTATAGAAAAAAAG-AAAGACTG
1 TAGACTAATGCATGAATTATATCTGAGAATCGA-ATTCTTTTTTAT-GAAAAAAAGAAAAG-TTG
* *
2605688 ATTGATTGTAAATATCAGACTGTAAGGAT
63 ATTGATTGTAAATGTCAGACTGCAAGGAT
* * * *
2605717 TAGATTAATGTATGAATTATATATGAGAATCG-ATTCTTTTTTATAGAAAAAACGAAA
1 TAGACTAATGCATGAATTATATCTGAGAATCGAATTCTTTTTTAT-GAAAAAAAGAAA
2605774 GACTGTAAAG
Statistics
Matches: 910, Mismatches: 93, Indels: 85
0.84 0.09 0.08
Matches are distributed among these distances:
85 5 0.01
86 171 0.19
87 60 0.07
88 20 0.02
89 149 0.16
90 67 0.07
91 183 0.20
92 128 0.14
93 47 0.05
94 1 0.00
95 11 0.01
96 68 0.07
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.34
Consensus pattern (91 bp):
TAGACTAATGCATGAATTATATCTGAGAATCGAATTCTTTTTTATGAAAAAAAGAAAAGTTGATT
GATTGTAAATGTCAGACTGCAAGGAT
Found at i:2605135 original size:266 final size:264
Alignment explanation
Indices: 2604611--2605765 Score: 1500
Period size: 266 Copynumber: 4.3 Consensus size: 264
2604601 CTAATGTATA
* ** * ** *
2604611 AATTATAAAT-TCAGACTGTAAAAAATAGACTAATACAT-AGATTATATCTGAGAATTGAATTCT
1 AATTGTAAATGTCAGACTGTAAGGATTAGACTAATGTATGA-ATTATATCTGAGAA-TCAATTCT
* * * *
2604674 TTTTTATGAAAAAAAAAGAAAAGTTGATTGATTGTAAATGTTAGACTGCAAAGTTTAGACTAATA
64 TTTTTAT-----AGAAAGAAAAGTTGATTGATTGTAAATGTCAGACTGCAAAGATTAGACTAATG
* *
2604739 CATGAATTATATTTGAGAATCGGATTCTTTTTTAT-AAAAAAAAGTTGATTGATTGTAAATGTCA
124 CATGAATTATATCTGAGAATCGAATTCTTTTTTATGAAAAAAAAGTTGATTGATTGTAAATGTCA
** * * *
2604803 GACTATAAGGATTAGACTAATACATGAATTATATCTGAGAATCGGATTC-TTTATAGAAAGAAAG
189 GACTGCAAGGATTAGACTAATACATGAATTATATCTAAGAATCAGATTCTTTTATAGAAAAAAAG
2604867 AAAGACTGATT
254 AAAGACTGATT
* *
2604878 AATTGTAAATGTCAGACTGTAAGAATTAGACTAATGTATGAATTATATTTGAGAATCAATTCTTT
1 AATTGTAAATGTCAGACTGTAAGGATTAGACTAATGTATGAATTATATCTGAGAATCAATTCTTT
* * *
2604943 TTTATAGAAA-AAAAGTTGATTGATTGTAAATATTAGACTGCAAAGATTAGACTAATGTATGAAT
66 TTTATAGAAAGAAAAGTTGATTGATTGTAAATGTCAGACTGCAAAGATTAGACTAATGCATGAAT
2605007 TATATCTGAGAATCGAATTCTTTTTTATGAAAAAAAGAAAAGTTGATTGATTGTAAATGTCAGAC
131 TATATCTGAGAATCGAATTCTTTTTTATG---AAAA-AAAAGTTGATTGATTGTAAATGTCAGAC
*
2605072 TGCAATGATTAGACTAATACATGAATTATATCTAAGAATCAGATTC-TTTATAGAAAAAAAGAAA
192 TGCAAGGATTAGACTAATACATGAATTATATCTAAGAATCAGATTCTTTTATAGAAAAAAAGAAA
2605136 GACTGATT
257 GACTGATT
* * *
2605144 AATTGTAAATGTCAGACTGCAAGGATTAGTCCAATGTATGAATTATATCTGAGAATCAATTCTTT
1 AATTGTAAATGTCAGACTGTAAGGATTAGACTAATGTATGAATTATATCTGAGAATCAATTCTTT
*
2605209 TTTATAGAAAAAAGAAAAGTTGATTGATTGTAAATGTCAGACTACAAAGATTAGACTAATGCAT-
66 TTTATAG---AAAGAAAAGTTGATTGATTGTAAATGTCAGACTGCAAAGATTAGACTAATGCATG
*
2605273 AATTATATCTGAGAATCGGATTCTTTTTTATGAAAAAAAAGTTGATTGATTGTAAATGTCAGACT
128 AATTATATCTGAGAATCGAATTCTTTTTTATGAAAAAAAAGTTGATTGATTGTAAATGTCAGACT
* * * *
2605338 GCAAGGATTAGACTAATGCATGAATTATATCTGAGAAGCGGATTCTTTTTTATAGAAAAAAATG-
193 GCAAGGATTAGACTAATACATGAATTATATCTAAGAATCAGATTC--TTTTATAGAAAAAAA-GA
2605402 AAGACTGATT
255 AAGACTGATT
* * * * * *
2605412 GATTATAAATGTCAAACTATAAGGATTAAACTAATGTATGAATTATATCTGAAAAATCAATTCTT
1 AATTGTAAATGTCAGACTGTAAGGATTAGACTAATGTATGAATTATATCTG-AGAATCAATTCTT
*
2605477 TTTTATAGAAAAAAAAAAAGAAAAGTTGATTGATTATAAATGTCAGACTGCAAAGATTAGACTAA
65 TTTTATAG--------AAAGAAAAGTTGATTGATTGTAAATGTCAGACTGCAAAGATTAGACTAA
*
2605542 TGCATGAATTATATATGAGAATC-AGATTCTTTTTTATGAAAAAAAGAAAAGTTGATTGATTGTA
122 TGCATGAATTATATCTGAGAATCGA-ATTCTTTTTTATG---AAAA-AAAAGTTGATTGATTGTA
** * *
2605606 AATGTCAGACTGCAATAATTAGACTAATGCATGAATTATATCTAAGAATTAGATTCTTTTTTATA
182 AATGTCAGACTGCAAGGATTAGACTAATACATGAATTATATCTAAGAATCAGATTC--TTTTATA
2605671 GAAAAAAAGAAAGACTGATT
245 GAAAAAAAGAAAGACTGATT
* * * * *
2605691 GATTGTAAATATCAGACTGTAAGGATTAGATTAATGTATGAATTATATATGAGAATCGATTCTTT
1 AATTGTAAATGTCAGACTGTAAGGATTAGACTAATGTATGAATTATATCTGAGAATCAATTCTTT
2605756 TTTATAGAAA
66 TTTATAGAAA
2605766 AAACGAAAGA
Statistics
Matches: 797, Mismatches: 63, Indels: 53
0.87 0.07 0.06
Matches are distributed among these distances:
261 76 0.10
262 4 0.01
265 73 0.09
266 165 0.21
267 23 0.03
268 104 0.13
269 56 0.07
270 49 0.06
274 55 0.07
275 29 0.04
278 24 0.03
279 139 0.17
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.34
Consensus pattern (264 bp):
AATTGTAAATGTCAGACTGTAAGGATTAGACTAATGTATGAATTATATCTGAGAATCAATTCTTT
TTTATAGAAAGAAAAGTTGATTGATTGTAAATGTCAGACTGCAAAGATTAGACTAATGCATGAAT
TATATCTGAGAATCGAATTCTTTTTTATGAAAAAAAAGTTGATTGATTGTAAATGTCAGACTGCA
AGGATTAGACTAATACATGAATTATATCTAAGAATCAGATTCTTTTATAGAAAAAAAGAAAGACT
GATT
Found at i:2605836 original size:69 final size:69
Alignment explanation
Indices: 2605704--2605837 Score: 155
Period size: 69 Copynumber: 1.9 Consensus size: 69
2605694 TGTAAATATC
* * * * * * *
2605704 AGACTGTAAGGATTAGATTAATGTATGAATTATATATGAGAATCGATTCTTTTTTATAGAAAAAA
1 AGACTGTAAAGATTAGACTAATGTATGAATTACACATAAGAATCGATTCTTTTTGATAAAAAAAA
2605769 CGAA
66 CGAA
* *
2605773 AGACTGTAAAGATTAGACTAAT-TCATGAATTGCACATAAGAATCGAATT-TTTTTGGTAAAAAA
1 AGACTGTAAAGATTAGACTAATGT-ATGAATTACACATAAGAATCG-ATTCTTTTTGATAAAAAA
2605836 AA
64 AA
2605838 AGTTTTTTAT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
68 1 0.02
69 50 0.93
70 3 0.06
ACGTcount: A:0.43, C:0.07, G:0.16, T:0.33
Consensus pattern (69 bp):
AGACTGTAAAGATTAGACTAATGTATGAATTACACATAAGAATCGATTCTTTTTGATAAAAAAAA
CGAA
Found at i:2605847 original size:544 final size:526
Alignment explanation
Indices: 2604651--2605775 Score: 1459
Period size: 544 Copynumber: 2.1 Consensus size: 526
2604641 TAATACATAG
* * * * *
2604651 ATTATATCTGAGAATTGAATTCTTTTTTATGAAAAAAAAAGAAAAGTTGATTGATTGTAAATGTT
1 ATTATATATGAGAA-TCAATTCTTTTTTAT--AGAAAAAAG-AAA---GA-TGACTGTAAATGTC
* * * **** **
2604716 AGACTGCAAAGTTTAGACTAAT-ACATGAATTATATTTGAGAATCGGATTCTTTTTTAT-AAAAA
58 AGACTACAAAGATTAGACTAATGA-AT-AATTATATCTGAGAAAAAAAAACTTTTTTATGAAAAA
*
2604779 AAAGTTGATTGATTGTAAATGTCAGACTATAAGGATTAGACTAATACATGAATTATATCTGAGAA
121 AAAGTTGATTGATTGTAAATGTCAGACTACAAGGATTAGACTAATACATGAATTATATCTGAGAA
* * * * * *
2604844 TCGGATTCTTTATAGAAAGAAAGAAAGACTGATTAATTGTAAATGTCAGACTGTAAGAATTAGAC
186 GCGGATTCTTTATAGAAAAAAAGAAAGACTGATTAATTATAAATGTCAAACTATAAGAATTAAAC
* * *
2604909 TAATGTATGAATTATATTTGAGAATCAATTCTTTTTTATAGAAAAAAAGTTGATTGATTGTAAAT
251 TAATGTATGAATTATATCTGAAAATCAATTCTTTTTTATAGAAAAAAAGTTGATTGATTATAAAT
* * *
2604974 ATTAGACTGCAAAGATTAGACTAATGTATGAATTATATCTGAGAATCGAATTCTTTTTTATGAAA
316 ATCAGACTGCAAAGATTAGACTAATGCATGAATTATATATGAGAATCGAATTCTTTTTTATGAAA
*
2605039 AAAAGAAAAGTTGATTGATTGTAAATGTCAGACTGCAATGATTAGACTAATACATGAATTATATC
381 AAAAGAAAAGTTGATTGATTGTAAATGTCAGACTGCAATAATTAGACTAATACATGAATTATATC
*
2605104 TAAGAATCAGATTCTTTATAGAAAAAAAGAAAGACTGATTAATTGTAAATGTCAGACTGCAAGGA
446 TAAGAATCAGATTCTTTATAGAAAAAAAGAAAGACTGATTAATTGTAAATATCAGACTGCAAGGA
2605169 TTAGTCCAATGTATGA
511 TTAGTCCAATGTATGA
* *
2605185 ATTATATCTGAGAATCAATTCTTTTTTATAGAAAAAAGAAAAGTTGATTGATTGTAAATGTCAGA
1 ATTATATATGAGAATCAATTCTTTTTTATAGAAAAAAG-AAA---GA-TGACTGTAAATGTCAGA
* **** **
2605250 CTACAAAGATTAGACTAATGCATAATTATATCTGAGAATCGGATTCTTTTTTATGAAAAAAAAGT
61 CTACAAAGATTAGACTAATGAATAATTATATCTGAGAAAAAAAAACTTTTTTATGAAAAAAAAGT
* *
2605315 TGATTGATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAAGCGGA
126 TGATTGATTGTAAATGTCAGACTACAAGGATTAGACTAATACATGAATTATATCTGAGAAGCGGA
* *
2605380 TTCTTTTTTATAGAAAAAAATG-AAGACTGATTGATTATAAATGTCAAACTATAAGGATTAAACT
191 TTC---TTTATAGAAAAAAA-GAAAGACTGATTAATTATAAATGTCAAACTATAAGAATTAAACT
2605444 AATGTATGAATTATATCTGAAAAATCAATTCTTTTTTATAGAAAAAAAAAAAGAAAAGTTGATTG
252 AATGTATGAATTATATCTG-AAAATCAATTCTTTTTTATAG--------AAA-AAAAGTTGATTG
*
2605509 ATTATAAATGTCAGACTGCAAAGATTAGACTAATGCATGAATTATATATGAGAATC-AGATTCTT
307 ATTATAAATATCAGACTGCAAAGATTAGACTAATGCATGAATTATATATGAGAATCGA-ATTCTT
*
2605573 TTTTATGAAAAAAAGAAAAGTTGATTGATTGTAAATGTCAGACTGCAATAATTAGACTAATGCAT
371 TTTTATGAAAAAAAGAAAAGTTGATTGATTGTAAATGTCAGACTGCAATAATTAGACTAATACAT
* *
2605638 GAATTATATCTAAGAATTAGATTCTTTTTTATAGAAAAAAAGAAAGACTGATTGATTGTAAATAT
436 GAATTATATCTAAGAATCAGATTC---TTTATAGAAAAAAAGAAAGACTGATTAATTGTAAATAT
* *
2605703 CAGACTGTAAGGATTAGAT-TAATGTATGA
498 CAGACTGCAAGGATTAG-TCCAATGTATGA
*
2605732 ATTATATATGAGAATCGATTCTTTTTTATAGAAAAAACGAAAGA
1 ATTATATATGAGAATCAATTCTTTTTTATAGAAAAAA-GAAAGA
2605776 CTGTAAAGAT
Statistics
Matches: 535, Mismatches: 34, Indels: 34
0.89 0.06 0.06
Matches are distributed among these distances:
530 30 0.06
531 127 0.24
533 14 0.03
534 81 0.15
535 21 0.04
543 4 0.01
544 157 0.29
547 99 0.19
548 2 0.00
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.34
Consensus pattern (526 bp):
ATTATATATGAGAATCAATTCTTTTTTATAGAAAAAAGAAAGATGACTGTAAATGTCAGACTACA
AAGATTAGACTAATGAATAATTATATCTGAGAAAAAAAAACTTTTTTATGAAAAAAAAGTTGATT
GATTGTAAATGTCAGACTACAAGGATTAGACTAATACATGAATTATATCTGAGAAGCGGATTCTT
TATAGAAAAAAAGAAAGACTGATTAATTATAAATGTCAAACTATAAGAATTAAACTAATGTATGA
ATTATATCTGAAAATCAATTCTTTTTTATAGAAAAAAAGTTGATTGATTATAAATATCAGACTGC
AAAGATTAGACTAATGCATGAATTATATATGAGAATCGAATTCTTTTTTATGAAAAAAAGAAAAG
TTGATTGATTGTAAATGTCAGACTGCAATAATTAGACTAATACATGAATTATATCTAAGAATCAG
ATTCTTTATAGAAAAAAAGAAAGACTGATTAATTGTAAATATCAGACTGCAAGGATTAGTCCAAT
GTATGA
Found at i:2605859 original size:87 final size:87
Alignment explanation
Indices: 2605753--2605929 Score: 354
Period size: 87 Copynumber: 2.0 Consensus size: 87
2605743 GAATCGATTC
2605753 TTTTTTATAGAAAAAACGAAAGACTGTAAAGATTAGACTAATTCATGAATTGCACATAAGAATCG
1 TTTTTTATAGAAAAAACGAAAGACTGTAAAGATTAGACTAATTCATGAATTGCACATAAGAATCG
2605818 AATTTTTTTGGTAAAAAAAAAG
66 AATTTTTTTGGTAAAAAAAAAG
2605840 TTTTTTATAGAAAAAACGAAAGACTGTAAAGATTAGACTAATTCATGAATTGCACATAAGAATCG
1 TTTTTTATAGAAAAAACGAAAGACTGTAAAGATTAGACTAATTCATGAATTGCACATAAGAATCG
2605905 AATTTTTTTGGTAAAAAAAAAG
66 AATTTTTTTGGTAAAAAAAAAG
2605927 TTT
1 TTT
2605930 GTTGATTATA
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 90 1.00
ACGTcount: A:0.45, C:0.08, G:0.15, T:0.32
Consensus pattern (87 bp):
TTTTTTATAGAAAAAACGAAAGACTGTAAAGATTAGACTAATTCATGAATTGCACATAAGAATCG
AATTTTTTTGGTAAAAAAAAAG
Found at i:2609808 original size:11 final size:11
Alignment explanation
Indices: 2609794--2609844 Score: 66
Period size: 11 Copynumber: 4.6 Consensus size: 11
2609784 TATAATTTAT
2609794 AAATAAATTAA
1 AAATAAATTAA
* *
2609805 AAATAATTTAT
1 AAATAAATTAA
2609816 AAATAAATTAA
1 AAATAAATTAA
* *
2609827 AAATAATTTAT
1 AAATAAATTAA
2609838 AAATAAA
1 AAATAAA
2609845 AAGTAATAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAAATTAA
Found at i:2609813 original size:22 final size:22
Alignment explanation
Indices: 2609785--2609844 Score: 120
Period size: 22 Copynumber: 2.7 Consensus size: 22
2609775 ATAAATTTGT
2609785 ATAATTTATAAATAAATTAAAA
1 ATAATTTATAAATAAATTAAAA
2609807 ATAATTTATAAATAAATTAAAA
1 ATAATTTATAAATAAATTAAAA
2609829 ATAATTTATAAATAAA
1 ATAATTTATAAATAAA
2609845 AAGTAATAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
ATAATTTATAAATAAATTAAAA
Found at i:2609819 original size:18 final size:20
Alignment explanation
Indices: 2609785--2609851 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 20
2609775 ATAAATTTGT
2609785 ATAATTTATAAATAAATTAAAA
1 ATAA-TTAT-AATAAATTAAAA
2609807 ATAATTTATAAATAAATTAAAA
1 ATAA-TTAT-AATAAATTAAAA
2609829 ATAATT-T-ATAAA-TAAAA
1 ATAATTATAATAAATTAAAA
2609846 AGTAAT
1 A-TAAT
2609852 AATACATGTA
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.14
18 9 0.20
20 1 0.02
21 2 0.05
22 26 0.59
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAATTATAATAAATTAAAA
Found at i:2610381 original size:111 final size:114
Alignment explanation
Indices: 2610186--2610408 Score: 341
Period size: 109 Copynumber: 2.0 Consensus size: 114
2610176 TAATATATTA
2610186 TTTATTAAAAAATAATAATAAACACTTTTTAATTTAATTTTTTATTTTAAAAAATAATTAATATT
1 TTTATTAAAAAATAATAATAAACACTTTTTAATTTAATTTTTTATTTTAAAAAATAATTAATATT
*
2610251 TTAATTTATTAATATAAATTTTTTTAAAGTTAATTAAATATTATTTTTAAT
66 TTAATTTATTAATATAAA--TTTTTAAAATTAATTAAATATTATTTTTAAT
***
2610302 TTTATT-AAAAA-AATAATAAATGTTTTTTAATTTAA-TTTTTATTTT-AAAAA-AATTAATATT
1 TTTATTAAAAAATAATAATAAACACTTTTTAATTTAATTTTTTATTTTAAAAAATAATTAATATT
2610362 TTAATTTATTAATGA-AAATTTTTAAAATTAATTAAATATTATTTTTA
66 TTAATTTATTAAT-ATAAATTTTTAAAATTAATTAAATATTATTTTTA
2610409 TTAAAAAATA
Statistics
Matches: 102, Mismatches: 4, Indels: 9
0.89 0.03 0.08
Matches are distributed among these distances:
109 28 0.27
111 26 0.25
112 6 0.06
113 10 0.10
114 21 0.21
115 5 0.05
116 6 0.06
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (114 bp):
TTTATTAAAAAATAATAATAAACACTTTTTAATTTAATTTTTTATTTTAAAAAATAATTAATATT
TTAATTTATTAATATAAATTTTTAAAATTAATTAAATATTATTTTTAAT
Found at i:2610408 original size:61 final size:64
Alignment explanation
Indices: 2610343--2610462 Score: 140
Period size: 66 Copynumber: 1.9 Consensus size: 64
2610333 TTAATTTTTA
* *
2610343 TTTTA-AAAAAATTAATATTTTA-AT-TTATTAATGA-AAATTTTTAAAATTAATTAAATATTAT
1 TTTTATAAAAAA-TAATAATTAATATATTATTAATGATAAATTTTTAAAATTAATTAAATATTAT
* * *
2610404 TTTTATTAAAAAATAATAATTAATATATTATTATTTATTAAATTTTTAAATTTAATTAA
1 TTTTA-TAAAAAATAATAATTAATATATTATTAATGA-TAAATTTTTAAAATTAATTAA
2610463 TTTATAAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
61 5 0.10
62 8 0.17
63 8 0.17
64 8 0.17
66 19 0.40
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (64 bp):
TTTTATAAAAAATAATAATTAATATATTATTAATGATAAATTTTTAAAATTAATTAAATATTAT
Found at i:2610448 original size:109 final size:108
Alignment explanation
Indices: 2610172--2610451 Score: 331
Period size: 109 Copynumber: 2.5 Consensus size: 108
2610162 TAAAAAATAA
* * *
2610172 TAATT-AATA-TATTATTTATTAAAAAATAATAATAAACACTTTTTAATTTAATTTTTTATTTTA
1 TAATTAAATATTATT-TTTATTAAAAAATAATAATAAATATTTTTTAA-TTAAATTTTTATTTTA
*
2610235 AAAAATAATTAATATTTTAATTTATTAATATAAATTTTTTTAAAGT
64 AAAAATAATTAATATTTTAATTTATTAATATAAA-TTTTTTAAAAT
* *
2610281 TAATTAAATATTATTTTTAATTTTATTAAAAA-AATAATAAATGTTTTTTAATTTAATTTTTATT
1 TAATTAAATATTATTTTT-A--TTA--AAAAATAATAATAAATATTTTTTAATTAAATTTTTATT
2610345 TT-AAAAA-AATTAATATTTTAATTTATTAATGA-AAA-TTTTTAAAAT
61 TTAAAAAATAATTAATATTTTAATTTATTAAT-ATAAATTTTTTAAAAT
*
2610390 TAATTAAATATTATTTTTATTAAAAAATAATAATTAATATATTATTATTTATTAAATTTTTA
1 TAATTAAATATTATTTTTATTAAAAAATAATAA-TAA-ATATT-TT-TTAATTAAATTTTTA
2610452 AATTTAATTA
Statistics
Matches: 149, Mismatches: 9, Indels: 26
0.81 0.05 0.14
Matches are distributed among these distances:
104 5 0.03
105 5 0.03
106 6 0.04
107 4 0.03
108 3 0.02
109 45 0.30
110 7 0.05
111 31 0.21
112 6 0.04
113 16 0.11
114 16 0.11
115 5 0.03
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (108 bp):
TAATTAAATATTATTTTTATTAAAAAATAATAATAAATATTTTTTAATTAAATTTTTATTTTAAA
AAATAATTAATATTTTAATTTATTAATATAAATTTTTTAAAAT
Found at i:2610577 original size:15 final size:16
Alignment explanation
Indices: 2610539--2610585 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
2610529 TAATATATTC
2610539 ATAAAAAAAT-TTTAT
1 ATAAAAAAATATTTAT
* *
2610554 TTTAAAAAATATTT-T
1 ATAAAAAAATATTTAT
2610569 ATAAAAAAATTATTTAT
1 ATAAAAAAA-TATTTAT
2610586 GAAATTATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 16 0.64
16 8 0.32
17 1 0.04
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATAAAAAAATATTTAT
Found at i:2611863 original size:14 final size:13
Alignment explanation
Indices: 2611844--2611880 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
2611834 AATTTATTCG
2611844 TATTTTATTTATA
1 TATTTTATTTATA
*
2611857 TTATTTTATTTTTA
1 -TATTTTATTTATA
2611871 TATTTTATTT
1 TATTTTATTT
2611881 TAAAAGTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TATTTTATTTATA
Found at i:2612640 original size:2 final size:2
Alignment explanation
Indices: 2612633--2612661 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2612623 TACTTAAGTT
2612633 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2612662 TTATCAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2615469 original size:2 final size:2
Alignment explanation
Indices: 2615464--2615490 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2615454 ACTTTTTTTG
2615464 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
2615491 TTATCAACTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2616213 original size:16 final size:17
Alignment explanation
Indices: 2616155--2616213 Score: 52
Period size: 16 Copynumber: 3.6 Consensus size: 17
2616145 GTTCAAATAA
* *
2616155 AATTATTTTTGAA-TTC
1 AATTATTTTTAAATTTG
*
2616171 AATTTTTTTTAAATTTG
1 AATTATTTTTAAATTTG
*
2616188 AGTT-TATTTT-AATTTG
1 AATTAT-TTTTAAATTTG
2616204 AATTATTTTT
1 AATTATTTTT
2616214 CTTTTGGATT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
16 25 0.71
17 10 0.29
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.63
Consensus pattern (17 bp):
AATTATTTTTAAATTTG
Found at i:2625321 original size:51 final size:51
Alignment explanation
Indices: 2625187--2625324 Score: 147
Period size: 51 Copynumber: 2.7 Consensus size: 51
2625177 ATTTAATTGG
* *
2625187 ATGTATCGATACATTGAAGAATGTATTTATACATTTAGGTCAAAAACCTAGA
1 ATGTATCGATACAATGAAAAATGTA-TTATACATTTAGGTCAAAAACCTAGA
** * * * *
2625239 ATGTATTAATACAATGAATAAT-AATTGATACATTTGGGTCAAAAACGC-ATA
1 ATGTATCGATACAATGAAAAATGTATT-ATACATTTAGGTCAAAAAC-CTAGA
2625290 ATGTATCGATACAAT-AAAAATGTATCTATACATTT
1 ATGTATCGATACAATGAAAAATGTAT-TATACATTT
2625325 TCTTCCAAAA
Statistics
Matches: 71, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
50 7 0.10
51 44 0.62
52 20 0.28
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (51 bp):
ATGTATCGATACAATGAAAAATGTATTATACATTTAGGTCAAAAACCTAGA
Found at i:2627196 original size:34 final size:33
Alignment explanation
Indices: 2627131--2627196 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 33
2627121 TTACAAGCAA
* *
2627131 TGTATCGATACAATTCATCATTTATCGATACAT
1 TGTATCGATACAATTCACCATGTATCGATACAT
2627164 TGTATCGATACTAATGT-ACCATGTATCGATACA
1 TGTATCGATAC-AAT-TCACCATGTATCGATACA
2627197 AACAGTGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 11 0.38
34 17 0.59
35 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.36
Consensus pattern (33 bp):
TGTATCGATACAATTCACCATGTATCGATACAT
Found at i:2627270 original size:19 final size:19
Alignment explanation
Indices: 2627226--2627281 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
2627216 CTGCTAGTTT
**
2627226 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
2627246 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
2627265 CATGTATTGATACAATG
1 CATGTATCGATACAATG
2627282 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:2632713 original size:3 final size:3
Alignment explanation
Indices: 2632698--2632744 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
2632688 TTAAAAATTA
*
2632698 ATT ATT AAT -TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2632745 TCAAAATAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 1 0.02
3 40 0.98
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:2636490 original size:20 final size:20
Alignment explanation
Indices: 2636438--2636493 Score: 87
Period size: 20 Copynumber: 2.8 Consensus size: 20
2636428 GTATCGATAC
2636438 AATGTATCGAA-ACATTGAAT
1 AATGTATC-AATACATTGAAT
*
2636458 AATGTATCGATACATTGAAT
1 AATGTATCAATACATTGAAT
2636478 AATGTATCAATACATT
1 AATGTATCAATACATT
2636494 TCTTTGGCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 1 0.03
20 32 0.97
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (20 bp):
AATGTATCAATACATTGAAT
Found at i:2637453 original size:52 final size:49
Alignment explanation
Indices: 2637345--2638201 Score: 320
Period size: 48 Copynumber: 18.8 Consensus size: 49
2637335 CGGAGAATGA
* *
2637345 CAATGTGCTGATTCATGGCCAGCGACATTAGACTT--GAA-GAAGAATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGAATGAAG-ATGC
** *
2637392 CAATGTGCTGAGACAAGGCCAGCGACATTGGGCTTAAGAATGTTAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGAATG---AAGATGC
* * * * *
2637444 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAGGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGAATGAAGATGC
* ** *
2637493 CAATGTGCTGATTCAAGGCTAGCGACATTGGTTTTAA-AGATGGTTAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGA-AT-G--AAGATGC
* * ** * *
2637545 CAATGTGTTGATTCAAGGCCAACGACATCAGTCTTAA-AGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGA-ATGAAGATGC
* * * *
2637594 CAATGTGCTGATTCAAGGCTAACGACATTGGTCTTAA-AGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGA-ATGAAGATGC
* * * * *
2637643 CAATATGCTGATTCAAGGCCAGCAATATGGGGC-T-----T---G-TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGAATGAAGATGC
* * * * *
2637682 CAATGTGCTAATTCAAGGCCAGCAACATTGGTCTT-AGAGA-CAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGA-ATGAAGATGC
* * *
2637730 CAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T---G-TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGAATGAAGATGC
* * * *
2637769 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAA-AGTCAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGAATGAAGATGC
* * * *
2637817 CAATATGCTGATTCAAGGCCAGGGATATTGGGC-T-----T----ATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGAATGAAGATGC
* * * * *
2637856 CAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAA-AGA-CAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGA-ATGAAGATGC
* * * * *
2637904 TAATATGCTGATTCAAGGCTAGCGATATTGGGC-T-----T----ATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGAATGAAGATGC
* * * * * * * *
2637943 TAATGTGCTTATTCACGGCCAACGACATTGGTCTT-AGAGA-CAAGGTGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGA-ATGAAGATGC
* * *
2637991 CAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T---G-TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGAATGAAGATGC
* * *
2638030 CAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAA-AGAT-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGA-ATGAAGATGC
* * * *
2638078 CAATATGCTAATTCAAGGCCAGCGATATTGGGC-T-----T----ATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGAATGAAGATGC
* * * *
2638117 CAATGTGCTGATTCAAGGCTAGCGACATTGGTCTT-AGAGA-CAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGA-ATGAAGATGC
* * *
2638165 CAATATGCTGATTCAAGGCTAGCGATATTGGACTTAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAA
2638202 AGGTGCCACG
Statistics
Matches: 632, Mismatches: 106, Indels: 142
0.72 0.12 0.16
Matches are distributed among these distances:
39 185 0.29
40 9 0.01
42 1 0.00
43 2 0.00
44 1 0.00
45 1 0.00
47 38 0.06
48 187 0.30
49 121 0.19
50 2 0.00
51 1 0.00
52 81 0.13
53 3 0.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGAATGAAGATGC
Found at i:2637520 original size:101 final size:96
Alignment explanation
Indices: 2637345--2638201 Score: 650
Period size: 87 Copynumber: 9.4 Consensus size: 96
2637335 CGGAGAATGA
* * * * * **
2637345 CAATGTGCTGATTCATGGCCAGCGACATTAGACTTGAAGAAGAA-TGCCAATGTGCTGAGACAAG
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAGATGAAGTGCCAATGTGCTGATTCAAG
* *
2637409 GCCAGCGACATTGGGCTTAAGAATGTTAAAGATGC
65 GCCAGCGACATTGGTCTTAA-AATG-T-AAGGTGC
*
2637444 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAGGATGAAGGTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA-GATGAA-GTGCCAATGTGCTGATTCAA
* *
2637509 GGCTAGCGACATTGGTTTTAAAGATGGTTAAGGTGC
64 GGCCAGCGACATTGGTCTTAAA-AT-G-TAAGGTGC
* * * * ** *
2637545 CAATGTGTTGATTCAAGGCCAACGACATCAGTCTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAGATGAA-GTGCCAATGTGCTGATTCAA
* *
2637610 GGCTAACGACATTGGTCTTAAAGATG-AAGGTGC
64 GGCCAGCGACATTGGTCTTAAA-ATGTAAGGTGC
* * * *
2637643 CAATATGCTGATTCAAGGCCAGCAATATGGGGC-T----T---GTGCCAATGTGCTAATTCAAGG
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGAAGTGCCAATGTGCTGATTCAAGG
* * *
2637700 CCAGCAACATTGGTCTT-AGA-GACAAGGTGC
66 CCAGCGACATTGGTCTTAAAATG-TAAGGTGC
*
2637730 CAATATGCTGATTCAAGGCCAGCGATATTGGGC-T----T---GTGCCAATGTGCTGATTCAAGG
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGAAGTGCCAATGTGCTGATTCAAGG
2637787 CCAGCGACATTGGTCTT-AAA-GTCAAGGTGC
66 CCAGCGACATTGGTCTTAAAATGT-AAGGTGC
* * *
2637817 CAATATGCTGATTCAAGGCCAGGGATATTGGGC-T----T--A-TGCCAATGTGTTGATTCAAGG
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGAAGTGCCAATGTGCTGATTCAAGG
* *
2637874 CCAACGACATTGGTCTT-AAA-GACAAGGTGC
66 CCAGCGACATTGGTCTTAAAATG-TAAGGTGC
* * * * * *
2637904 TAATATGCTGATTCAAGGCTAGCGATATTGGGC-T----T--A-TGCTAATGTGCTTATTCACGG
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGAAGTGCCAATGTGCTGATTCAAGG
* * * *
2637961 CCAACGACATTGGTCTT-AGA-GACAAGGTGA
66 CCAGCGACATTGGTCTTAAAATG-TAAGGTGC
*
2637991 CAATATGCTGATTCAAGGCCAGCGATATTGGGC-T----T---GTGCCAATGTGCTGATTCAAGG
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGAAGTGCCAATGTGCTGATTCAAGG
*
2638048 CTAGCGACATTGGTCTT-AAA-GATAAGGTGC
66 CCAGCGACATTGGTCTTAAAATG-TAAGGTGC
* *
2638078 CAATATGCTAATTCAAGGCCAGCGATATTGGGC-T----T--A-TGCCAATGTGCTGATTCAAGG
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGAAGTGCCAATGTGCTGATTCAAGG
* * *
2638135 CTAGCGACATTGGTCTT-AGA-GACAAGGTGC
66 CCAGCGACATTGGTCTTAAAATG-TAAGGTGC
*
2638165 CAATATGCTGATTCAAGGCTAGCGATATTGGACTTAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA
2638202 AGGTGCCACG
Statistics
Matches: 674, Mismatches: 68, Indels: 41
0.86 0.09 0.05
Matches are distributed among these distances:
85 1 0.00
86 1 0.00
87 436 0.65
88 36 0.05
92 1 0.00
97 1 0.00
98 34 0.05
99 35 0.05
100 2 0.00
101 122 0.18
102 5 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (96 bp):
CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGAAGTGCCAATGTGCTGATTCAAGG
CCAGCGACATTGGTCTTAAAATGTAAGGTGC
Found at i:2637696 original size:39 final size:39
Alignment explanation
Indices: 2637639--2637791 Score: 153
Period size: 39 Copynumber: 3.7 Consensus size: 39
2637629 AAAGATGAAG
2637639 GTGCCAATATGCTGATTCAAGGCCAGCAATATGGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCAATATGGGGCTT
* * * **
2637678 GTGCCAATGTGCTAATTCAAGGCCAGCAACATTGGTCTTAGAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCAATA-TGG-----G-G-C-TT
* *
2637726 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCAATATGGGGCTT
*
2637765 GTGCCAATGTGCTGATTCAAGGCCAGC
1 GTGCCAATATGCTGATTCAAGGCCAGC
2637792 GACATTGGTC
Statistics
Matches: 92, Mismatches: 13, Indels: 18
0.75 0.11 0.15
Matches are distributed among these distances:
39 54 0.59
40 4 0.04
41 1 0.01
42 1 0.01
45 1 0.01
46 1 0.01
47 3 0.03
48 27 0.29
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAGCAATATGGGGCTT
Found at i:2637763 original size:87 final size:87
Alignment explanation
Indices: 2637590--2638195 Score: 942
Period size: 87 Copynumber: 7.0 Consensus size: 87
2637580 AAAGATGAAG
* * *
2637590 GTGCCAATGTGCTGATTCAAGGCTAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
* *
2637655 TCAAGGCCAGCAATATGGGGCTT
65 TCAAGGCCAGCGATATTGGGCTT
* * *
2637678 GTGCCAATGTGCTAATTCAAGGCCAGCAACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
2637743 CAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
*
2637765 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGTCAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
*
2637830 CAAGGCCAGGGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* * * *
2637852 ATGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCTAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
*
2637917 CAAGGCTAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* * * * * * *
2637939 ATGCTAATGTGCTTATTCACGGCCAACGACATTGGTCTTAGAGACAAGGTGACAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
2638004 CAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* * *
2638026 GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGATAAGGTGCCAATATGCTAATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
2638091 CAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* * *
2638113 ATGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
*
2638178 CAAGGCTAGCGATATTGG
66 CAAGGCCAGCGATATTGG
2638196 ACTTAAAGGT
Statistics
Matches: 475, Mismatches: 43, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
87 436 0.92
88 39 0.08
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (87 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGGCTT
Found at i:2638243 original size:34 final size:34
Alignment explanation
Indices: 2638200--2638398 Score: 228
Period size: 34 Copynumber: 5.9 Consensus size: 34
2638190 TATTGGACTT
2638200 AAAGG-TGCCACGGAGTTGTGGACTT-AAAGGAA
1 AAAGGATGCCACGGAGTTGTGGACTTAAAAGGAA
** * * * *
2638232 AAAGGAATGCCATAGAGGTATGGGCTTAAAAGGGA
1 AAAGG-ATGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
2638267 AAAGGGTGCTACGGAGTCGTGGACTTAAAAGGAA
1 AAAGGATGCCACGGAGTTGTGGACTTAAAAGGAA
2638301 AAA-GATGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGGATGCCACGGAGTTGTGGACTTAAAAGGAA
* **
2638334 AAA-GATGCCACGAAGTTGTGGACTTAAAAGGGTG
1 AAAGGATGCCACGGAGTTGTGGACTTAAAA-GGAA
*
2638368 CAAGG-TGCCACGGAGTTGTGGACTTAAAAGG
1 AAAGGATGCCACGGAGTTGTGGACTTAAAAGG
2638399 GTGAGGAATG
Statistics
Matches: 139, Mismatches: 23, Indels: 9
0.81 0.13 0.05
Matches are distributed among these distances:
32 5 0.04
33 57 0.41
34 65 0.47
35 12 0.09
ACGTcount: A:0.36, C:0.12, G:0.34, T:0.19
Consensus pattern (34 bp):
AAAGGATGCCACGGAGTTGTGGACTTAAAAGGAA
Found at i:2638337 original size:67 final size:66
Alignment explanation
Indices: 2638200--2638398 Score: 229
Period size: 67 Copynumber: 3.0 Consensus size: 66
2638190 TATTGGACTT
** * * *
2638200 AAAGGTGCCACGGAGTTGTGGACTT-AAAGGAAAAAGGAATGCCATAGAGGTATGGGCTTAAAAG
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA-G-ATGCCACGGAGTTGTGGACTTAAAA-
2638264 GGAA
63 GGAA
* * *
2638268 AAGGGTGCTACGGAGTCGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGA
2638333 A
66 A
* * *** *
2638334 AAAGATGCCACGAAGTTGTGGACTTAAAAGGGTGCAAGGTGCCACGGAGTTGTGGACTTAAAAGG
1 AAAGGTGCCACGGAGTTGTGGACTTAAAA-GGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGG
2638399 GTGAGGAATG
Statistics
Matches: 112, Mismatches: 17, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
66 28 0.25
67 51 0.46
68 23 0.21
69 10 0.09
ACGTcount: A:0.36, C:0.12, G:0.34, T:0.19
Consensus pattern (66 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGA
A
Found at i:2638401 original size:34 final size:33
Alignment explanation
Indices: 2638200--2638398 Score: 229
Period size: 33 Copynumber: 5.9 Consensus size: 33
2638190 TATTGGACTT
2638200 AAAGGTGCCACGGAGTTGTGGACTT-AAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
** * * *
2638232 AAAGGAATGCCATAGAGGTATGGGCTTAAAAGGGAA
1 AAAGG--TGCCACGGAGTTGTGGACTTAAAA-GGAA
* * *
2638268 AAGGGTGCTACGGAGTCGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
2638301 AAAGATGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * **
2638334 AAAGATGCCACGAAGTTGTGGACTTAAAAGGGTG
1 AAAGGTGCCACGGAGTTGTGGACTTAAAA-GGAA
*
2638368 CAAGGTGCCACGGAGTTGTGGACTTAAAAGG
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGG
2638399 GTGAGGAATG
Statistics
Matches: 139, Mismatches: 23, Indels: 9
0.81 0.13 0.05
Matches are distributed among these distances:
32 5 0.04
33 63 0.45
34 60 0.43
35 3 0.02
36 8 0.06
ACGTcount: A:0.36, C:0.12, G:0.34, T:0.19
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
Found at i:2653764 original size:20 final size:20
Alignment explanation
Indices: 2653739--2653793 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
2653729 ATTTGCCTGC
2653739 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
2653759 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
2653779 ATGTATCGATACATT
1 ATGTATCGATACATT
2653794 TCCTTGGCAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGAATA
Found at i:2654733 original size:18 final size:18
Alignment explanation
Indices: 2654710--2654751 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
2654700 AACCAAAATA
*
2654710 ATATAAAATTAATTTGTT
1 ATATAAAATCAATTTGTT
2654728 ATATAAAATCAATTTGTT
1 ATATAAAATCAATTTGTT
*
2654746 AAATAA
1 ATATAA
2654752 TTTTATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (18 bp):
ATATAAAATCAATTTGTT
Found at i:2659321 original size:44 final size:43
Alignment explanation
Indices: 2659269--2659407 Score: 131
Period size: 44 Copynumber: 3.2 Consensus size: 43
2659259 AAGCCTACTG
** * *
2659269 GGGACAAAGCTGACAAGTAAACAAAGGGTAAGAAAGGTTGACC
1 GGGACAAAGCCAACAGGTAAACAAAGAGTAAGAAAGGTTGACC
* * * *
2659312 GAGGACAAAGCCAACAGGT-CACCAAGAGTAA-AAA-GTTTATC
1 G-GGACAAAGCCAACAGGTAAACAAAGAGTAAGAAAGGTTGACC
* * *
2659353 GGAGACATAGCCAACAGGTAAACAAAGTGTAAGAAAGGCTGACC
1 GG-GACAAAGCCAACAGGTAAACAAAGAGTAAGAAAGGTTGACC
2659397 GGGGACAAAGC
1 -GGGACAAAGC
2659408 TGATAGTTCA
Statistics
Matches: 74, Mismatches: 16, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
40 1 0.01
41 21 0.28
42 12 0.16
43 13 0.18
44 25 0.34
45 2 0.03
ACGTcount: A:0.43, C:0.17, G:0.28, T:0.12
Consensus pattern (43 bp):
GGGACAAAGCCAACAGGTAAACAAAGAGTAAGAAAGGTTGACC
Found at i:2659455 original size:85 final size:85
Alignment explanation
Indices: 2659271--2659455 Score: 185
Period size: 85 Copynumber: 2.2 Consensus size: 85
2659261 GCCTACTGGG
* *
2659271 GACAAAGCTGACAAGTAAACAAAGGGTAAGAAAGGTTGACCGAGGACAAAGCCAACAGGTCACCA
1 GACAAAGCTGACAGGTAAACAAAGGGTAAGAAAGGCTGACCGAGGACAAAGCCAACAGGTCACCA
** * *
2659336 AGAGTAAAAAGTTTATCGGA
66 AGAGTAAAAAGCCTACCAGA
* ** * * ** * *
2659356 GACATAGCCAACAGGTAAACAAAGTGTAAGAAAGGCTGACCGGGGACAAAGCTGATAGTTCACCA
1 GACAAAGCTGACAGGTAAACAAAGGGTAAGAAAGGCTGACCGAGGACAAAGCCAACAGGTCACCA
*
2659421 AGAGTAATGAAGCCT-CCA-A
66 AGAGTAA-AAAGCCTACCAGA
*
2659440 GGTCAAAGCTGACAGG
1 -GACAAAGCTGACAGG
2659456 CAGACTAAGG
Statistics
Matches: 78, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
84 1 0.01
85 73 0.94
86 4 0.05
ACGTcount: A:0.42, C:0.18, G:0.26, T:0.14
Consensus pattern (85 bp):
GACAAAGCTGACAGGTAAACAAAGGGTAAGAAAGGCTGACCGAGGACAAAGCCAACAGGTCACCA
AGAGTAAAAAGCCTACCAGA
Found at i:2659530 original size:43 final size:43
Alignment explanation
Indices: 2659434--2660752 Score: 634
Period size: 43 Copynumber: 31.0 Consensus size: 43
2659424 GTAATGAAGC
* * * *
2659434 CTCCAAGGTCAAAGCTGACAGGCAGAC-TAAGGGTTGGAAAGT
1 CTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGATAGGAAAGT
* * *
2659476 CTCTAGGGTCAAAGCCGACAGGCAGAGTGAAGGATAGGAAAGT
1 CTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGATAGGAAAGT
* * * * *
2659519 CTCCAGGGTCAAAGCCGATAGGCAGACTAAAGGGTCGAAAAGT
1 CTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGATAGGAAAGT
* * * * * * *
2659562 CGCTAGGGTCAAAACCGATAGGACAAACTTTA-GATGAGG-AAGC
1 CTCCAGGGTCAAAGCCGACAGG-CAGACTTAAGGAT-AGGAAAGT
* * * * *
2659605 CTCTAAGATCAAAGCCGACAGGCAGACTAAAGGGTAGGAAAGT
1 CTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGATAGGAAAGT
* * * * *
2659648 CTCCAGGGTCGAAGCCGACAGGCAGACTT-TGGACGAGGCAA-C
1 CTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGA-TAGGAAAGT
* * * *
2659690 CTCCAAGGTCAAAGTCGACAGGCAGACTAAAGG-TAGTAAAAGT
1 CTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGATAG-GAAAGT
* ** * * *
2659733 CTCTAGGGTCAAAGCTAACAGGCAAACTTTA-GATGAGG-CAGT
1 CTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGAT-AGGAAAGT
* * * * *
2659775 CTCCAAGGTCAAAGCTGACAAGCAGACTTTA-GATAAGG-TAGT
1 CTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGAT-AGGAAAGT
* * * * * * *
2659817 CTCTAAGGTCAAAGTCGACAAGCAGACTTTA-GATAAGACAGT
1 CTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGATAGGAAAGT
* * * * * * * * *
2659859 CTCTAGGGTCAAAACCAATAGGCAAACTGAGGGGTAGAAAAGT
1 CTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGATAGGAAAGT
** * * * *
2659902 CTCTTGGGTCAAAGCCGACAAGCAAACTTTA-GATAAGG-CAGT
1 CTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGAT-AGGAAAGT
** * * * **
2659944 CTTTAGGGTCAAAGCCAACAAGCAGACTGAAGGATAAAAAAGT
1 CTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGATAGGAAAGT
* * * * * * *
2659987 CTCCAAGGTCAAAGCCAACACGTAGACTGAGGGGTAGGAAAGT
1 CTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGATAGGAAAGT
* * * * *
2660030 CTCCA-GGTCAAAGCTGATAGGCAAACTTTA-GATGAGGCAA-T
1 CTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGAT-AGGAAAGT
* * * *
2660071 CTCTAGGGTCAAAGCCGACAGCCAGACTGAAAGATAGGAAAGT
1 CTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGATAGGAAAGT
* * * * * * * *
2660114 TTCCAAGCTCAAAGCTGACATGTAGACTTTA-GATAAGG-CAGT
1 CTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGAT-AGGAAAGT
* ** * *
2660156 CTCCAAGGTCAAAATCGACAGGCAGACTAAAGGGTAGGAAAGT
1 CTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGATAGGAAAGT
* * * * *
2660199 CTCTAGGGTCAAAGCTGATAGGCAAACATTAA--ATGAGGCAA-T
1 CTCCAGGGTCAAAGCCGACAGGCAGAC-TTAAGGAT-AGGAAAGT
* ** * *
2660241 CTCTAGGGTCAAAGTTGACAGGTAGACTAAAGGATAGGAAAGT
1 CTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGATAGGAAAGT
* * * * *
2660284 CTCCAAGGTCAAAGCCGACAGGCAAACTAAAGGGTAGGAAAAT
1 CTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGATAGGAAAGT
* * * * *
2660327 CTCTAGGGTCAAAGTCCGACAAGCAAACTTTA-GATAAGG-TAGT
1 CTCCAGGGTCAAAG-CCGACAGGCAGACTTAAGGAT-AGGAAAGT
* ** * * * * *
2660370 CTCTAGGGTCAAAGATGATAGGTAGACTAAAGGGTAAGAAAGT
1 CTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGATAGGAAAGT
** * * *
2660413 CTTTAAGGTCAACA-CTGACAGGCAGACTAAAGGATAGGAAAGT
1 CTCCAGGGTCAA-AGCCGACAGGCAGACTTAAGGATAGGAAAGT
* * * * * *
2660456 CTCCAAGGTCAAAGTCGATAGGCAAACTTTA-GATGAGG-CAGT
1 CTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGAT-AGGAAAGT
* * * * ** * *
2660498 CTTCAAGGACAAAGTCGACAGATAGACTTTA-GATAAGG-CAGT
1 CTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGAT-AGGAAAGT
* * * * * * * *
2660540 CTTCAGGGTCAAAACTGATAAGTAGA-TTGAAGGGTAGAAAAGT
1 CTCCAGGGTCAAAGCCGACAGGCAGACTT-AAGGATAGGAAAGT
* * *
2660583 CTCCAGGTTCAAAGCCGATAGGCAGACTGAAGGATAGGAAAGT
1 CTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGATAGGAAAGT
* * ** * * *
2660626 CTTCAGGGTTAAAGATGATAGGCAGACTTTA-GATAAGG-CAGT
1 CTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGAT-AGGAAAGT
* * * * *
2660668 CTCTAGGGTCAAAGCCGACAGGTAAACTTTA-GATAAGG-CAGT
1 CTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGAT-AGGAAAGT
* * * * * *
2660710 CTCTAAGGTCAAAGTCGACAGGCAGACTGAGGGGTAGGAAAGT
1 CTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGATAGGAAAGT
2660753 TCATATGGTT
Statistics
Matches: 964, Mismatches: 271, Indels: 83
0.73 0.21 0.06
Matches are distributed among these distances:
41 16 0.02
42 433 0.45
43 484 0.50
44 31 0.03
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.18
Consensus pattern (43 bp):
CTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGATAGGAAAGT
Found at i:2659543 original size:85 final size:85
Alignment explanation
Indices: 2659434--2660752 Score: 670
Period size: 85 Copynumber: 15.5 Consensus size: 85
2659424 GTAATGAAGC
* *
2659434 CTCCAAGGTCAAAGCTGACAGGCAGACTAAGGGTTGGAAAGTCTCTAGGGTCAAAGCCGACAGGC
1 CTCCAAGGTCAAAGCTGATAGGCAGACTAAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAGGC
* *
2659499 AGAGTGAAGGATAGGAAAGT
66 AGACTTAAGGATAGGAAAGT
* * * * * * *
2659519 CTCCAGGGTCAAAGCCGATAGGCAGACTAAAGGGTCGAAAAGTCGCTAGGGTCAAAACCGATAGG
1 CTCCAAGGTCAAAGCTGATAGGCAGACT-AAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAGG
* * *
2659584 ACAAACTTTA-GATGAGG-AAGC
65 -CAGACTTAAGGAT-AGGAAAGT
* * * * * *
2659605 CTCTAAGATCAAAGCCGACAGGCAGACTAAAGGGTAGGAAAGTCTCCAGGGTCGAAGCCGACAGG
1 CTCCAAGGTCAAAGCTGATAGGCAGACT-AAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAGG
* * * *
2659670 CAGACTT-TGGACGAGGCAA-C
65 CAGACTTAAGGA-TAGGAAAGT
* * * **
2659690 CTCCAAGGTCAAAG-TCGACAGGCAGACTAAAGGTAGTAAAAGTCTCTAGGGTCAAAGCTAACAG
1 CTCCAAGGTCAAAGCT-GATAGGCAGACTAAGGGTAG-GAAAGTCTCTAGGGTCAAAGCCGACAG
* * *
2659754 GCAAACTTTA-GATGAGG-CAGT
64 GCAGACTTAAGGAT-AGGAAAGT
* * * * * * * *
2659775 CTCCAAGGTCAAAGCTGACAAGCAGACTTTA-GATAAGG-TAGTCTCTAAGGTCAAAGTCGACAA
1 CTCCAAGGTCAAAGCTGATAGGCAGAC-TAAGGGT-AGGAAAGTCTCTAGGGTCAAAGCCGACAG
* * *
2659838 GCAGACTTTA-GATAAGACAGT
64 GCAGACTTAAGGATAGGAAAGT
* * * ** * * * * *
2659859 CTCTAGGGTCAAAACCAATAGGCAAACTGAGGGGTAGAAAAGTCTCTTGGGTCAAAGCCGACAAG
1 CTCCAAGGTCAAAGCTGATAGGCAGACT-AAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAGG
* * *
2659924 CAAACTTTA-GATAAGG-CAGT
65 CAGACTTAAGGAT-AGGAAAGT
** * ** * * * ** * * * *
2659944 CTTTAGGGTCAAAGCCAACAAGCAGACTGAAGGATAAAAAAGTCTCCAAGGTCAAAGCCAACACG
1 CTCCAAGGTCAAAGCTGATAGGCAGACT-AAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAGG
* * * *
2660009 TAGACTGAGGGGTAGGAAAGT
65 CAGACTTAAGGATAGGAAAGT
* * * *
2660030 CTCC-AGGTCAAAGCTGATAGGCAAACTTTA-GATGAGGCAA-TCTCTAGGGTCAAAGCCGACAG
1 CTCCAAGGTCAAAGCTGATAGGCAGAC-TAAGGGT-AGGAAAGTCTCTAGGGTCAAAGCCGACAG
* * *
2660092 CCAGACTGAAAGATAGGAAAGT
64 GCAGACTTAAGGATAGGAAAGT
* * * * * * * * * * **
2660114 TTCCAAGCTCAAAGCTGACATGTAGACTTTA-GATAAGG-CAGTCTCCAAGGTCAAAATCGACAG
1 CTCCAAGGTCAAAGCTGATAGGCAGAC-TAAGGGT-AGGAAAGTCTCTAGGGTCAAAGCCGACAG
* *
2660177 GCAGACTAAAGGGTAGGAAAGT
64 GCAGACTTAAGGATAGGAAAGT
* * * ** * **
2660199 CTCTAGGGTCAAAGCTGATAGGCAAACATTAAATG-AGGCAA-TCTCTAGGGTCAAAGTTGACAG
1 CTCCAAGGTCAAAGCTGATAGGCAGAC--TAAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAG
* *
2660262 GTAGACTAAAGGATAGGAAAGT
64 GCAGACTTAAGGATAGGAAAGT
* * * * *
2660284 CTCCAAGGTCAAAGCCGACAGGCAAACTAAAGGGTAGGAAAATCTCTAGGGTCAAAGTCCGACAA
1 CTCCAAGGTCAAAGCTGATAGGCAGACT-AAGGGTAGGAAAGTCTCTAGGGTCAAAG-CCGACAG
* * *
2660349 GCAAACTTTA-GATAAGG-TAGT
64 GCAGACTTAAGGAT-AGGAAAGT
* * * * * * * *
2660370 CTCTAGGGTCAAAGATGATAGGTAGACTAAAGGGTAAGAAAGTCTTTAAGGTCAACA-CTGACAG
1 CTCCAAGGTCAAAGCTGATAGGCAGACT-AAGGGTAGGAAAGTCTCTAGGGTCAA-AGCCGACAG
*
2660434 GCAGACTAAAGGATAGGAAAGT
64 GCAGACTTAAGGATAGGAAAGT
* * * * * * *
2660456 CTCCAAGGTCAAAG-TCGATAGGCAAACTTTA-GATGAGG-CAGTCT-TCAAGGACAAAGTCGAC
1 CTCCAAGGTCAAAGCT-GATAGGCAGAC-TAAGGGT-AGGAAAGTCTCT-AGGGTCAAAGCCGAC
** * *
2660517 AGATAGACTTTA-GATAAGG-CAGT
62 AGGCAGACTTAAGGAT-AGGAAAGT
* * * * * * * * * *
2660540 CTTCAGGGTCAAAACTGATAAGTAGATTGAAGGGTAGAAAAGTCTCCAGGTTCAAAGCCGATAGG
1 CTCCAAGGTCAAAGCTGATAGGCAGACT-AAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAGG
*
2660605 CAGACTGAAGGATAGGAAAGT
65 CAGACTTAAGGATAGGAAAGT
* * * * * * *
2660626 CTTCAGGGTTAAAGATGATAGGCAGACTTTA-GATAAGG-CAGTCTCTAGGGTCAAAGCCGACAG
1 CTCCAAGGTCAAAGCTGATAGGCAGAC-TAAGGGT-AGGAAAGTCTCTAGGGTCAAAGCCGACAG
* * * *
2660689 GTAAACTTTA-GATAAGG-CAGT
64 GCAGACTTAAGGAT-AGGAAAGT
* * *
2660710 CTCTAAGGTCAAAG-TCGACAGGCAGACTGAGGGGTAGGAAAGT
1 CTCCAAGGTCAAAGCT-GATAGGCAGACT-AAGGGTAGGAAAGT
2660753 TCATATGGTT
Statistics
Matches: 935, Mismatches: 243, Indels: 112
0.72 0.19 0.09
Matches are distributed among these distances:
83 7 0.01
84 167 0.18
85 500 0.53
86 237 0.25
87 24 0.03
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.18
Consensus pattern (85 bp):
CTCCAAGGTCAAAGCTGATAGGCAGACTAAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAGGC
AGACTTAAGGATAGGAAAGT
Found at i:2659715 original size:171 final size:170
Alignment explanation
Indices: 2659429--2659802 Score: 475
Period size: 171 Copynumber: 2.2 Consensus size: 170
2659419 CAAGAGTAAT
* *
2659429 GAAGCCTCCAAGGTCAAAGCTGACAGGCAGACTAAGGGTTGGAAAGTCTCTAGGGTCAAAGCCGA
1 GAAGCCTCCAAGGTCAAAGCTGACAGGCAGACTAAGGGTAGGAAAGTCTCCAGGGTCAAAGCCGA
* * * * * *
2659494 CAGGCAGAGTGAAGGATAGGAAAGTCTCCAGGGTCAAAGCCGATAGGCAGACTAAAGGGTCG-AA
66 CAGGCAGACTGAAGGAGAGGAAAGCCTCCAAGGTCAAAGCCGACAGGCAGACTAAA-GGTAGTAA
* *
2659558 AAGTCGCTAGGGTCAAAACCGATAGGACAAACTTTAGATGAG
130 AAGTCGCTAGGGTCAAAACCAACAGG-CAAACTTTAGATGAG
* * * *
2659600 GAAGCCTCTAAGATCAAAGCCGACAGGCAGACTAAAGGGTAGGAAAGTCTCCAGGGTCGAAGCCG
1 GAAGCCTCCAAGGTCAAAGCTGACAGGCAGACT-AAGGGTAGGAAAGTCTCCAGGGTCAAAGCCG
** * *
2659665 ACAGGCAGACT-TTGGACGAGGCAA-CCTCCAAGGTCAAAGTCGACAGGCAGACTAAAGGTAGTA
65 ACAGGCAGACTGAAGGA-GAGGAAAGCCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTAGTA
* * *
2659728 AAAGTCTCTAGGGTCAAAGCTAACAGGCAAACTTTAGATGAG
129 AAAGTCGCTAGGGTCAAAACCAACAGGCAAACTTTAGATGAG
* * *
2659770 GCAGTCTCCAAGGTCAAAGCTGACAAGCAGACT
1 GAAGCCTCCAAGGTCAAAGCTGACAGGCAGACT
2659803 TTAGATAAGG
Statistics
Matches: 173, Mismatches: 27, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
170 46 0.27
171 84 0.49
172 43 0.25
ACGTcount: A:0.35, C:0.21, G:0.29, T:0.15
Consensus pattern (170 bp):
GAAGCCTCCAAGGTCAAAGCTGACAGGCAGACTAAGGGTAGGAAAGTCTCCAGGGTCAAAGCCGA
CAGGCAGACTGAAGGAGAGGAAAGCCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTAGTAAA
AGTCGCTAGGGTCAAAACCAACAGGCAAACTTTAGATGAG
Found at i:2659829 original size:127 final size:126
Alignment explanation
Indices: 2659613--2660128 Score: 387
Period size: 127 Copynumber: 4.1 Consensus size: 126
2659603 GCCTCTAAGA
* * * * * * * *
2659613 TCAAAGCCGACAGGCAGACT-AAAGGGTAGGAAAGTCTCCAGGGTCGAAGCCGACAGGCAGACTT
1 TCAAAGCCAACAGGCAAACTGAGA-GGTAGG-AAGTCTCCAAGGTCAAAGCTGACAAGCAAACTT
* ** ** * * * * *
2659677 TGGACGAGGCAACCTCCAAGGTCAAAGTCGACAGGCAGACTAAAGGTAGTAAAAGTCTCTAGGG
64 TAGATAAGGCAGTCTCTAAGGTCAAAGCCGACAAGCAGACTAAAGGTA-TAAAAGTCTCCAAGG
* * * * *
2659741 TCAAAGCTAACAGGCAAACTTTAGATG-AGGCAGTCTCCAAGGTCAAAGCTGACAAGCAGACTTT
1 TCAAAGCCAACAGGCAAAC-TGAGAGGTAGGAAGTCTCCAAGGTCAAAGCTGACAAGCAAACTTT
* * ** * *
2659805 AGATAAGGTAGTCTCTAAGGTCAAAGTCGACAAGCAGACTTTA-G-ATAAGACAGTCTCTAGGG
65 AGATAAGGCAGTCTCTAAGGTCAAAGCCGACAAGCAGACTAAAGGTATAA-A-AGTCTCCAAGG
* * * * *** *
2659867 TCAAAACCAATAGGCAAACTGAGGGGTAGAAAAGTCTCTTGGGTCAAAGCCGACAAGCAAACTTT
1 TCAAAGCCAACAGGCAAACTGAGAGGTAG-GAAGTCTCCAAGGTCAAAGCTGACAAGCAAACTTT
* * * * *
2659932 AGATAAGGCAGTCTTTAGGGTCAAAGCCAACAAGCAGACTGAAGGATAAAAAAGTCTCCAAGG
65 AGATAAGGCAGTCTCTAAGGTCAAAGCCGACAAGCAGACTAAAGG-TATAAAAGTCTCCAAGG
* * * * * *
2659995 TCAAAGCCAACACGTAGACTGAGGGGTAGGAAAGTCTCC-AGGTCAAAGCTGATAGGCAAACTTT
1 TCAAAGCCAACAGGCAAACTGAGAGGTAGG-AAGTCTCCAAGGTCAAAGCTGACAAGCAAACTTT
* * * * ** * *
2660059 AGATGAGGCAATCTCTAGGGTCAAAGCCGAC-AGCCAGACTGAAAGATAGGAAAGTTTCCAAGC
65 AGATAAGGCAGTCTCTAAGGTCAAAGCCGACAAG-CAGACT-AAAGGTATAAAAGTCTCCAAGG
2660122 TCAAAGC
1 TCAAAGC
2660129 TGACATGTAG
Statistics
Matches: 312, Mismatches: 64, Indels: 25
0.78 0.16 0.06
Matches are distributed among these distances:
124 3 0.01
125 6 0.02
126 32 0.10
127 200 0.64
128 63 0.20
129 3 0.01
130 5 0.02
ACGTcount: A:0.36, C:0.20, G:0.26, T:0.17
Consensus pattern (126 bp):
TCAAAGCCAACAGGCAAACTGAGAGGTAGGAAGTCTCCAAGGTCAAAGCTGACAAGCAAACTTTA
GATAAGGCAGTCTCTAAGGTCAAAGCCGACAAGCAGACTAAAGGTATAAAAGTCTCCAAGG
Found at i:2674507 original size:22 final size:23
Alignment explanation
Indices: 2674474--2674521 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
2674464 TATTTTTTCC
2674474 TTTTTCTCTTTCTTT-TTCCTTT
1 TTTTTCTCTTTCTTTCTTCCTTT
*
2674496 TTTTGTCT-TTTCTTTCTTTCTTT
1 TTTT-TCTCTTTCTTTCTTCCTTT
2674519 TTT
1 TTT
2674522 AGCTGAACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (23 bp):
TTTTTCTCTTTCTTTCTTCCTTT
Found at i:2678284 original size:13 final size:13
Alignment explanation
Indices: 2678266--2678291 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2678256 CAATTTTAGG
2678266 TGTATCGATACAT
1 TGTATCGATACAT
2678279 TGTATCGATACAT
1 TGTATCGATACAT
2678292 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2678305 original size:32 final size:33
Alignment explanation
Indices: 2678246--2678309 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
2678236 TACAAGCCAA
*
2678246 TGTATCGATACAATTTTAGGTGTATCGATACAT
1 TGTATCGATACAATCTTAGGTGTATCGATACAT
2678279 TGTATCGATAC-ATACTT-GGTGTATCGATACA
1 TGTATCGATACAAT-CTTAGGTGTATCGATACA
2678310 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 16 0.55
33 13 0.45
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.38
Consensus pattern (33 bp):
TGTATCGATACAATCTTAGGTGTATCGATACAT
Found at i:2678316 original size:19 final size:18
Alignment explanation
Indices: 2678246--2678316 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
2678236 TACAAGCCAA
2678246 TGTATCGATACAATTTTAGG
1 TGTATCGATACAA-TTT-GG
2678266 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
2678279 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
2678298 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
2678317 CTACTGCTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 1 0.02
16 1 0.02
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:2679828 original size:22 final size:21
Alignment explanation
Indices: 2679793--2679842 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
2679783 TTTGTTGATG
*
2679793 ATTTTG-A-TGAAAAATGAAGT
1 ATTTTGAAGTGAAAAAT-AAGA
2679813 ATTTTGAAGTGAAAAATAAGA
1 ATTTTGAAGTGAAAAATAAGA
*
2679834 AATTTGAAG
1 ATTTTGAAG
2679843 ATGATTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 12 0.46
22 8 0.31
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAATAAGA
Found at i:2679839 original size:21 final size:22
Alignment explanation
Indices: 2679800--2679842 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
2679790 ATGATTTTGA
* *
2679800 TGAAAAATGAAGTATTTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
2679822 TGAAAAAT-AAGAAATTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
2679843 ATGATTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (22 bp):
TGAAAAATGAAGAAATTTGAAG
Found at i:2682794 original size:13 final size:13
Alignment explanation
Indices: 2682776--2682800 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2682766 ATATTGCACA
2682776 GTATCGATACATT
1 GTATCGATACATT
2682789 GTATCGATACAT
1 GTATCGATACAT
2682801 GACCAAATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:2682942 original size:33 final size:32
Alignment explanation
Indices: 2682882--2682945 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
2682872 CTTAACTGTT
* *
2682882 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCAATACACACAAAATGTATCGATACAA
*
2682914 TGTATCAATACATCCCAAAATGTATCGATACA
1 TGTATCAATACA-CACAAAATGTATCGATACA
2682946 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (32 bp):
TGTATCAATACACACAAAATGTATCGATACAA
Found at i:2691275 original size:21 final size:22
Alignment explanation
Indices: 2691251--2691291 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2691241 AACATGCCAT
2691251 AAATGCATGAAGCAT-AGCTCA
1 AAATGCATGAAGCATGAGCTCA
*
2691272 AAATGCATGAATCATGAGCT
1 AAATGCATGAAGCATGAGCT
2691292 GTTAACATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (22 bp):
AAATGCATGAAGCATGAGCTCA
Found at i:2692285 original size:52 final size:52
Alignment explanation
Indices: 2692137--2692265 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
2692127 CAAAATATGA
*
2692137 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGAGC
* *
2692189 AAATTTGCCTACATGTATCGATACATTTTATAGTGTATCGATACATCTGAGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGAGC
2692241 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2692266 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGAGC
Found at i:2692365 original size:19 final size:19
Alignment explanation
Indices: 2692341--2692456 Score: 121
Period size: 19 Copynumber: 6.7 Consensus size: 19
2692331 TAGCTTATAT
*
2692341 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
2692360 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
2692379 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
*
2692392 TGTATTGATACAACACTTA
1 TGTATCGATACAACACTTA
2692411 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
2692424 TGTATCGATACAACACTTTA
1 TGTATCGATACAACAC-TTA
2692444 TGTATCGATACAA
1 TGTATCGATACAA
2692457 ATCGTTGAAA
Statistics
Matches: 81, Mismatches: 3, Indels: 25
0.74 0.03 0.23
Matches are distributed among these distances:
13 17 0.21
14 2 0.02
16 12 0.15
18 1 0.01
19 36 0.44
20 13 0.16
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:2692401 original size:13 final size:13
Alignment explanation
Indices: 2692379--2692435 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
2692369 ACAACACTTA
2692379 TGTATCGATACAT
1 TGTATCGATACAT
*
2692392 TGTATTGATACAACACTT
1 TGTATCGAT---ACA--T
2692410 ATGTATCGATACAT
1 -TGTATCGATACAT
2692424 TGTATCGATACA
1 TGTATCGATACA
2692436 ACACTTTATG
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 20 0.56
14 1 0.03
16 6 0.17
18 1 0.03
19 8 0.22
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2692402 original size:32 final size:32
Alignment explanation
Indices: 2692360--2692455 Score: 174
Period size: 32 Copynumber: 3.0 Consensus size: 32
2692350 ACAAAACTTA
2692360 TGTATCGATACAACACTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
*
2692392 TGTATTGATACAACACTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
2692424 TGTATCGATACAACACTTTATGTATCGATACA
1 TGTATCGATACAACAC-TTATGTATCGATACA
2692456 AATCGTTGAA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 46 0.75
33 15 0.25
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAACACTTATGTATCGATACAT
Found at i:2693351 original size:52 final size:49
Alignment explanation
Indices: 2693269--2694042 Score: 879
Period size: 52 Copynumber: 16.1 Consensus size: 49
2693259 CTTAGGAATG
* * *
2693269 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAA
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
2693318 TTAAAGATGACAGAGACGCCAATATGCTAATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATGA-AG-G-TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
2693370 TTAAAGATGACAAAGGCGCCAATATGCTGATTTAAGGCCAGCGATATTGGAC
1 TTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
2693422 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
2693465 TTAAAAGATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TT-AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
2693515 TTAAAGATGACAAAGGCGCCAATATGCTTATTTAAGGCCAGCGATATTGGAC
1 TTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
2693567 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
2693610 TTAAAAGATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TT-AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
2693660 TTAAAGATGACAGAGACGCCAATATGCTGATTCAAGGCCAGCGATATTAGAC
1 TTAAAGATGA-AG-G-TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
2693712 TTAAAGATGACAGAGACGCCGATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATGA-AG-G-TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
2693764 TT---G--G-AGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
2693807 TTAAAGATGAAGGTGCCAATATGCTAATTCAAGGCCAACGATATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * *
2693856 TT---G--G-AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
2693899 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
2693948 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
2693991 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
2694040 TTA
1 TTA
2694043 GAAGGGTTGC
Statistics
Matches: 621, Mismatches: 60, Indels: 88
0.81 0.08 0.11
Matches are distributed among these distances:
43 181 0.29
44 2 0.00
45 3 0.00
46 3 0.00
47 2 0.00
48 6 0.01
49 139 0.22
50 79 0.13
51 2 0.00
52 200 0.32
53 1 0.00
54 2 0.00
55 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
Found at i:2693442 original size:43 final size:45
Alignment explanation
Indices: 2693382--2694047 Score: 607
Period size: 43 Copynumber: 14.1 Consensus size: 45
2693372 AAAGATGACA
* *
2693382 AAGGCGCCAATATGCTGATTTAAGGCCAGCGATATTGGACTT-A-
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAG
* * *
2693425 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--AAG
2693472 ATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
1 A--A-GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A-G
* * *
2693524 ACAAAGGCGCCAATATGCTTATTTAAGGCCAGCGATATTGGACTT-A-
1 ---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAG
* * *
2693570 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--AAG
2693617 ATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
1 A--A-GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A-G
* *
2693669 ACAGAGACGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATG
1 A-AG-G-TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A-G
* *
2693721 ACAGAGACGCCGATATGCTGATTCAAGGCCAGCGATATTGGACTT--G
1 A-AG-G-TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAG
* * *
2693767 GAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A-G
* *
2693816 AAGGTGCCAATATGCTAATTCAAGGCCAACGATATTGGACTT--G
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAG
* * * * *
2693859 GAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A-G
2693908 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-A-
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAG
* * *
2693951 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A-G
*
2694000 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-AG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAG
2694044 AAGG
1 AAGG
2694048 GTTGCCACCG
Statistics
Matches: 528, Mismatches: 54, Indels: 81
0.80 0.08 0.12
Matches are distributed among these distances:
43 182 0.34
44 6 0.01
45 4 0.01
46 3 0.01
47 3 0.01
48 1 0.00
49 116 0.22
50 81 0.15
51 4 0.01
52 126 0.24
53 1 0.00
55 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (45 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAG
Found at i:2693548 original size:145 final size:144
Alignment explanation
Indices: 2693278--2693953 Score: 929
Period size: 145 Copynumber: 4.7 Consensus size: 144
2693268 GTTAAAGATG
* **
2693278 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAATTAAAGATGACAGAGACGCCAATAT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--AG-GGTGCCAATAT
* *
2693343 GCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTTAAGGC
63 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGC
2693408 CAGCGATATTGGACTTA
128 CAGCGATATTGGACTTA
*
2693425 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAGATGAGGGTGCCAATATGC
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATGAGGGTGCCAATATGC
* *
2693490 TGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCGCCAATATGCTTATTTAAGGCCA
65 TGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCA
2693555 GCGATATTGGACTTA
130 GCGATATTGGACTTA
*
2693570 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAGATGAGGGTGCCAATATGC
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATGAGGGTGCCAATATGC
* *
2693635 TGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAGAGACGCCAATATGCTGATTCAAGGCCA
65 TGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCA
*
2693700 GCGATATTAGACTTAAAGA
130 GCGATATTGGACTT----A
* * * *
2693719 TGACAGAGACGCCGATATGCTGATTCAAGGCCAGCGATATTGGACTT---G--GA-GGTGCCAAT
1 --A-AG-G-TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGGGTGCCAAT
* * * *
2693778 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG---AAGGTGCCAATATGCTAATTCAAG
61 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAG
* *
2693840 GCCAACGATATTGGACTTG
126 GCCAGCGATATTGGACTTA
* * * *
2693859 GAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGAAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGGGTGCCAATATGCT
2693924 GATTCAAGGCCAGCGATATTGGACTTAAAG
66 GATTCAAGGCCAGCGATATTGGACTTAAAG
2693954 GTGCCAATGT
Statistics
Matches: 479, Mismatches: 34, Indels: 38
0.87 0.06 0.07
Matches are distributed among these distances:
135 32 0.07
136 1 0.00
137 2 0.00
138 1 0.00
140 2 0.00
141 42 0.09
144 36 0.08
145 228 0.48
146 2 0.00
147 85 0.18
148 9 0.02
149 1 0.00
150 1 0.00
151 1 0.00
152 2 0.00
153 1 0.00
154 33 0.07
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (144 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGGGTGCCAATATGCT
GATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAG
CGATATTGGACTTA
Found at i:2693567 original size:197 final size:192
Alignment explanation
Indices: 2693269--2694042 Score: 895
Period size: 197 Copynumber: 4.0 Consensus size: 192
2693259 CTTAGGAATG
* * * * *
2693269 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAATTAAAGATGACAGAGA
1 TTAAAGATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGACAAAGA
* * *
2693334 CGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCGCCAATATGCTG
66 CGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---G-TG--AAAGGTGCCAATGTGCTG
* * *
2693399 ATTTAAGGCCAGCGATATTGGACTT-A-AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTG
125 ATTCAAGGCCAGCGATATTGGACTTAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
*
2693462 GGC
190 GAC
* *
2693465 TTAAAAGATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAG
1 TT-AAAGATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGACAAAG
* * *
2693530 GCGCCAATATGCTTATTTAAGGCCAGCGATATTGGAC-T-T-AAAGGTGCCAATGTGCTGATTCA
65 ACGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGTGAAAGGTGCCAATGTGCTGATTCA
* *
2693592 AGGCCAGCGACATTGGGCTTAAAAGATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
130 AGGCCAGCGATATTGGACTT--AAGA--A-GGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
2693657 GAC
190 GAC
** * *
2693660 TTAAAGATGACAGAGACGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGACAG
1 TTAAAGATG--AG-GGTGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGACAA
*
2693725 AGACGCCGATATGCTGATTCAAGGCCAGCGATATTGGACTTG-G--AGGTGCCAATGTGCTGATT
63 AGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGTGAAAGGTGCCAATGTGCTGATT
* * *
2693787 CAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTAATTCAAGGCCAACGATATT
128 CAAGGCCAGCGATATTGGACTT--A-A-GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT
2693852 GGAC
189 GGAC
* * *
2693856 TT---G--GA-GGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATG---AAGG
1 TTAAAGATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGACAAAGA
*
2693912 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-T-AAAGGTGCCAATGTGCTGATTCAA
66 CGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGTGAAAGGTGCCAATGTGCTGATTCAA
* * *
2693974 GGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGG
131 GGCCAGCGATATTGGACTT--A-A-GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
2694039 C
192 C
2694040 TTA
1 TTA
2694043 GAAGGGTTGC
Statistics
Matches: 516, Mismatches: 42, Indels: 51
0.85 0.07 0.08
Matches are distributed among these distances:
183 1 0.00
184 122 0.24
187 42 0.08
188 38 0.07
189 1 0.00
191 3 0.01
192 1 0.00
193 1 0.00
194 8 0.02
195 37 0.07
196 43 0.08
197 215 0.42
198 2 0.00
199 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (192 bp):
TTAAAGATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGACAAAGA
CGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGTGAAAGGTGCCAATGTGCTGATTCAA
GGCCAGCGATATTGGACTTAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
Found at i:2693868 original size:92 final size:92
Alignment explanation
Indices: 2693677--2694037 Score: 587
Period size: 92 Copynumber: 3.9 Consensus size: 92
2693667 TGACAGAGAC
* * * * *
2693677 GCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGACAGAGACGCCGATATGCTGA
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGA-AG-G-TGCCAATATGCTGA
2693742 TTCAAGGCCAGCGATATTGGACTTGGAGGT
63 TTCAAGGCCAGCGATATTGGACTTGGAGGT
* * *
2693772 GCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTAATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGAAGGTGCCAATATGCTGATTC
*
2693837 AAGGCCAACGATATTGGACTTGGAGGT
66 AAGGCCAGCGATATTGGACTTGGAGGT
2693864 GCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGAAGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGAAGGTGCCAATATGCTGATTC
**
2693929 AAGGCCAGCGATATTGGACTTAAAGGT
66 AAGGCCAGCGATATTGGACTTGGAGGT
*
2693956 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGAAGGTGCCAATATGCTGATTC
2694021 AAGGCCAGCGATATTGG
66 AAGGCCAGCGATATTGG
2694038 GCTTAGAAGG
Statistics
Matches: 252, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
92 207 0.82
93 1 0.00
94 2 0.01
95 42 0.17
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (92 bp):
GCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTGGAGGT
Found at i:2694086 original size:33 final size:33
Alignment explanation
Indices: 2694042--2694115 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 33
2694032 TATTGGGCTT
*
2694042 AGAAGGGTTGCCACCGACTTGCATGGGCTTTAG
1 AGAAGGGTTGCCACCAACTTGCATGGGCTTTAG
* **
2694075 AGAATGGTTGCCACCAACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCAACTTGCATGGGCTTTAG
2694107 AAGAAGGGT
1 -AGAAGGGT
2694116 GAAAGATGCC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 1 0.03
33 34 0.97
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.26
Consensus pattern (33 bp):
AGAAGGGTTGCCACCAACTTGCATGGGCTTTAG
Found at i:2694159 original size:33 final size:33
Alignment explanation
Indices: 2694130--2694830 Score: 545
Period size: 33 Copynumber: 21.2 Consensus size: 33
2694120 GATGCCACAA
*
2694130 AGTTGTGGACTTAAAAAGAACAAGGTGCCATGG
1 AGTTGTGGACTTAAAAAGAACAAGGTGCCACGG
* * *
2694163 AGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGG
1 AGTTGTGGAC-TTAAAA-AGAACAAG-GTGCCACGG
* * *
2694199 AGTTGTGGGCTTTGAAAAG---AAGGTACCACGG
1 AGTTGTGGAC-TTAAAAAGAACAAGGTGCCACGG
* * ** *
2694230 AGTCGCGGACTTTGAAAG--GAAGGTGCCACGG
1 AGTTGTGGACTTAAAAAGAACAAGGTGCCACGG
* *
2694261 AGTCGTGGACTTAAAAGGAACAAGGTGCCACGG
1 AGTTGTGGACTTAAAAAGAACAAGGTGCCACGG
* * *
2694294 GGTTGTGGACTTTAAAAAGGAAAAAGAGTGCCATGG
1 AGTTGTGGAC-TTAAAAA-GAACAAG-GTGCCACGG
* ** * **
2694330 AGTTGTGGGCTT-TGAA-AATAAGGTGCCATAG
1 AGTTGTGGACTTAAAAAGAACAAGGTGCCACGG
* *
2694361 AGTCGTGGACTTAAAAGGAACAAGGTGCCACGG
1 AGTTGTGGACTTAAAAAGAACAAGGTGCCACGG
*
2694394 AGTCGTGGACTTAAAAAGAA-AAGGTGCCACGG
1 AGTTGTGGACTTAAAAAGAACAAGGTGCCACGG
* * * *
2694426 AGTGGTGGGCTTTGAAAAGAAAAAGGTGCCACGG
1 AGTTGTGGAC-TTAAAAAGAACAAGGTGCCACGG
* *
2694460 AGTTGTGGGCTTTAAAAAG--GAAGGTGCCACGG
1 AGTTGTGGAC-TTAAAAAGAACAAGGTGCCACGG
* * *
2694492 AGTCGTGGACTTAAAAGGAACAAGATGCCACGG
1 AGTTGTGGACTTAAAAAGAACAAGGTGCCACGG
* * * *
2694525 AGTCGTGGACTTAAAAGGAACAAGATGCCATGG
1 AGTTGTGGACTTAAAAAGAACAAGGTGCCACGG
* ** **
2694558 GGTCATGGACTTTGAAAG---AAGGTGCCACGG
1 AGTTGTGGACTTAAAAAGAACAAGGTGCCACGG
** * *
2694588 AGTCATGGACTTAAAAGGAA-AAGGTGCCACAG
1 AGTTGTGGACTTAAAAAGAACAAGGTGCCACGG
* * * *
2694620 AGTGGTGGGCTTTGAAAAGAAAAAGGTGCCACGG
1 AGTTGTGGAC-TTAAAAAGAACAAGGTGCCACGG
* * *
2694654 AGTTGTGGGCTTTAAAAAG--GAAGGTGCCACAG
1 AGTTGTGGAC-TTAAAAAGAACAAGGTGCCACGG
* * * *
2694686 AGTCGTGGACTTAAAAGGAACAAGATGCCACAG
1 AGTTGTGGACTTAAAAAGAACAAGGTGCCACGG
*
2694719 AGTTGTGGACTTAAAAGGAACAAAGAGTGCCACGG
1 AGTTGTGGACTTAAAAAGAAC-AAG-GTGCCACGG
* *
2694754 AGTTGTGGGCTTTGAAAAA-AAAAAGAGTGCCACGG
1 AGTTGTGGAC-TT-AAAAAGAACAAG-GTGCCACGG
* * *
2694789 AGTTGTGGGCTTTAACAAGAAAAAGGTGCCACGG
1 AGTTGTGGAC-TTAAAAAGAACAAGGTGCCACGG
2694823 AGTTGTGG
1 AGTTGTGG
2694831 GCTTTGGAAA
Statistics
Matches: 558, Mismatches: 84, Indels: 51
0.81 0.12 0.07
Matches are distributed among these distances:
30 30 0.05
31 72 0.13
32 86 0.15
33 164 0.29
34 95 0.17
35 63 0.11
36 44 0.08
37 4 0.01
ACGTcount: A:0.33, C:0.14, G:0.34, T:0.19
Consensus pattern (33 bp):
AGTTGTGGACTTAAAAAGAACAAGGTGCCACGG
Found at i:2694320 original size:131 final size:131
Alignment explanation
Indices: 2694116--2694835 Score: 628
Period size: 131 Copynumber: 5.5 Consensus size: 131
2694106 GAAGAAGGGT
* ** * * * *
2694116 GAAAGATGCCACAAAGTTGTGGACTTAAAAAGAACAAGGTGCCATGGAGTTGTGGGCTTTAAAAG
1 GAAAGGTGCCACGGAGTCGTGGACTTAAAAAGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAA
* * *
2694181 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTACCACGGAGTCGCGGACTTTGAA
66 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGAC-TTAAA
2694246 AG
130 AG
* *
2694248 G-AAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAAAA
1 GAAAGGTGCCACGGAGTCGTGGACTTAAAAAGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAA
* * **
2694312 GGAAAAAGAGTGCCATGGAGTTGTGGGCTTTGAAAATAAGGTGCCATAGAGTCGTGGACTTAAAA
66 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAA
2694377 G
131 G
* * *
2694378 GAACAAGGTGCCACGGAGTCGTGGACTTAAAAAGAA-AAGGTGCCACGGAGTGGTGGGCTTTGAA
1 G-A-AAGGTGCCACGGAGTCGTGGACTTAAAAAGAACAAGGTGCCACGGAGTTGTGGACTTTAAA
*
2694442 AA-GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGGAAGGTGCCACGGAGTCGTGGACTTA
64 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAGGTGCCACGGAGTCGTGGACTTA
2694505 AAAG
128 AAAG
* * * * * ** *
2694509 GAACAAGATGCCACGGAGTCGTGGACTTAAAAGGAACAAGATGCCATGGGGTCATGGACTTT-GA
1 G-A-AAGGTGCCACGGAGTCGTGGACTTAAAAAGAACAAGGTGCCACGGAGTTGTGGACTTTAAA
** * * * *
2694573 AA-G---AAG-GTGCCACGGAGTCATGGAC-TT-AAAAGGAAAAGGTGCCACAGAGTGGTGGGCT
64 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-G--AAGGTGCCACGGAGTCGTGGAC-
2694631 TTGAAAAG
125 TT-AAAAG
* * * * * *
2694639 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG--GAAGGTGCCACAGAGTCGTGGAC-TT-AA
1 -GAAAGGTGCCACGGAGTCGTGGAC-TTAAAAAGAACAAGGTGCCACGGAGTTGTGGACTTTAAA
* * * ** * * *
2694700 AAGGAACAAGA-TGCCACAGAGTTGTGGACTTAAAAGGAACAAAGAGTGCCACGGAGTTGTGGGC
64 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAA--AA-GAAG-GTGCCACGGAGTCGTGGAC
*
2694764 TTTGAAAAAA
125 -TT--AAAAG
* * * * * *
2694774 AAAAGAGTGCCACGGAGTTGTGGGCTTTAACAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
1 GAAAG-GTGCCACGGAGTCGTGGAC-TTAAAAAGAACAAGGTGCCACGGAGTTGTGGACTTT
2694836 GGAAAGAGAT
Statistics
Matches: 494, Mismatches: 68, Indels: 46
0.81 0.11 0.08
Matches are distributed among these distances:
126 6 0.01
127 7 0.01
128 56 0.11
129 21 0.04
130 45 0.09
131 197 0.40
132 47 0.10
133 36 0.07
134 25 0.05
135 33 0.07
137 19 0.04
138 2 0.00
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.19
Consensus pattern (131 bp):
GAAAGGTGCCACGGAGTCGTGGACTTAAAAAGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAA
GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAA
G
Found at i:2694599 original size:194 final size:197
Alignment explanation
Indices: 2694382--2694842 Score: 694
Period size: 194 Copynumber: 2.3 Consensus size: 197
2694372 TAAAAGGAAC
2694382 AAGGTGCCACGGAGTCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTGGTGGGCTTTGAAAAGAA
1 AAGGTGCCACGGAGTCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTGGTGGGCTTTGAAAAGAA
*
2694447 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAA
66 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGAAGGTGCCACAGAGTCGTGGACTTAAAAGGAA
* * *
2694512 CAAGATGCCACGGAGTCGTGGACTTAAAAGGAAC-AAGA-TGCCATGGGGTCATGGACTTTG-AA
131 CAAGATGCCACAGAGTCGTGGACTTAAAAGGAACAAAGAGTGCCACGGAGTCATGGACTTTGAAA
*
2694574 AG
196 AA
* * *
2694576 AAGGTGCCACGGAGTCATGGACTTAAAAGGAAAAGGTGCCACAGAGTGGTGGGCTTTGAAAAGAA
1 AAGGTGCCACGGAGTCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTGGTGGGCTTTGAAAAGAA
2694641 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGAAGGTGCCACAGAGTCGTGGACTTAAAAGGAA
66 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGAAGGTGCCACAGAGTCGTGGACTTAAAAGGAA
* ** *
2694706 CAAGATGCCACAGAGTTGTGGACTTAAAAGGAACAAAGAGTGCCACGGAGTTGTGGGCTTTGAAA
131 CAAGATGCCACAGAGTCGTGGACTTAAAAGGAACAAAGAGTGCCACGGAGTCATGGACTTTG---
2694771 AAAAA
193 AAAAA
* * * * *
2694776 AAGAGTGCCACGGAGTTGTGGGCTTTAACAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGGAAA
1 AAG-GTGCCACGGAGTCGTGGAC-TTAAAAAG-AAAAGGTGCCACGGAGTGGTGGGCTTTGAAAA
2694841 GA
63 GA
2694843 GATGCCACTA
Statistics
Matches: 238, Mismatches: 20, Indels: 9
0.89 0.07 0.03
Matches are distributed among these distances:
194 158 0.66
195 4 0.02
196 17 0.07
200 6 0.03
201 16 0.07
202 6 0.03
203 31 0.13
ACGTcount: A:0.34, C:0.14, G:0.33, T:0.18
Consensus pattern (197 bp):
AAGGTGCCACGGAGTCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTGGTGGGCTTTGAAAAGAA
AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGAAGGTGCCACAGAGTCGTGGACTTAAAAGGAA
CAAGATGCCACAGAGTCGTGGACTTAAAAGGAACAAAGAGTGCCACGGAGTCATGGACTTTGAAA
AA
Found at i:2702425 original size:13 final size:13
Alignment explanation
Indices: 2702407--2702432 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2702397 TACACAAAGT
2702407 ATGTATCGATACA
1 ATGTATCGATACA
2702420 ATGTATCGATACA
1 ATGTATCGATACA
2702433 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2702430 original size:32 final size:33
Alignment explanation
Indices: 2702389--2702452 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
2702379 TAGCCAAACT
**
2702389 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
2702421 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2702453 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2704689 original size:21 final size:21
Alignment explanation
Indices: 2704656--2704705 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
2704646 TTGCAAGTTG
*
2704656 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2704678 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
2704699 AAATAAA
1 AAATAAA
2704706 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2707463 original size:74 final size:74
Alignment explanation
Indices: 2707342--2707490 Score: 289
Period size: 74 Copynumber: 2.0 Consensus size: 74
2707332 TAAGTTAATG
2707342 CAAGGTCAATTCGAAATGAGCATGATGGGAGAACTAGCATTCTTTTTGGGACTACAAGTAAGGCA
1 CAAGGTCAATTCGAAATGAGCATGATGGGAGAACTAGCATTCTTTTTGGGACTACAAGTAAGGCA
2707407 AACCAAAGA
66 AACCAAAGA
*
2707416 CAAGGTGAATTCGAAATGAGCATGATGGGAGAACTAGCATTCTTTTTGGGACTACAAGTAAGGCA
1 CAAGGTCAATTCGAAATGAGCATGATGGGAGAACTAGCATTCTTTTTGGGACTACAAGTAAGGCA
2707481 AACCAAAGA
66 AACCAAAGA
2707490 C
1 C
2707491 GGGATCTTCA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (74 bp):
CAAGGTCAATTCGAAATGAGCATGATGGGAGAACTAGCATTCTTTTTGGGACTACAAGTAAGGCA
AACCAAAGA
Found at i:2708702 original size:13 final size:13
Alignment explanation
Indices: 2708684--2708721 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
2708674 CATTTGTCTT
2708684 TGTATCGATACAA
1 TGTATCGATACAA
*
2708697 TGTATCGATACAC
1 TGTATCGATACAA
2708710 TGTATCGATACA
1 TGTATCGATACA
2708722 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2710200 original size:23 final size:21
Alignment explanation
Indices: 2710158--2710200 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 21
2710148 GTTTAATGTT
**
2710158 TTTGCTTGACTTTGTGTTTTA
1 TTTGCTTGACTTTGAATTTTA
2710179 TTTGCATTGTACTTTGAATTTT
1 TTTGC-TTG-ACTTTGAATTTT
2710201 TAATCTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 3 0.17
23 10 0.56
ACGTcount: A:0.14, C:0.09, G:0.16, T:0.60
Consensus pattern (21 bp):
TTTGCTTGACTTTGAATTTTA
Found at i:2711105 original size:13 final size:13
Alignment explanation
Indices: 2711087--2711112 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2711077 TACACAAAGT
2711087 ATGTATCGATACA
1 ATGTATCGATACA
2711100 ATGTATCGATACA
1 ATGTATCGATACA
2711113 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2711110 original size:32 final size:33
Alignment explanation
Indices: 2711069--2711132 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
2711059 TAGCCAAACT
**
2711069 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
2711101 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2711133 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2713064 original size:52 final size:52
Alignment explanation
Indices: 2712958--2713073 Score: 171
Period size: 52 Copynumber: 2.2 Consensus size: 52
2712948 TTTGCCTGCA
* ***
2712958 TGTATCGATACATCTGGGTAAATTTGCCTACATGTATCGATACATTTTATAG
1 TGTATCGATACATCTGGGCAAATTTGCCTACATGTATCGATACATAAGATAG
*
2713010 TGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACA-AAGATCAG
1 TGTATCGATACATCTGGGCAAATTTGCCTACATGTATCGATACATAAGAT-AG
2713062 TGTATCGATACA
1 TGTATCGATACA
2713074 ATGTATCGAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
51 2 0.03
52 56 0.97
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
TGTATCGATACATCTGGGCAAATTTGCCTACATGTATCGATACATAAGATAG
Found at i:2713080 original size:13 final size:13
Alignment explanation
Indices: 2713062--2713086 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2713052 CAAAGATCAG
2713062 TGTATCGATACAA
1 TGTATCGATACAA
2713075 TGTATCGATACA
1 TGTATCGATACA
2713087 GTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2713153 original size:19 final size:19
Alignment explanation
Indices: 2713129--2713213 Score: 101
Period size: 19 Copynumber: 4.7 Consensus size: 19
2713119 TAGCTTATAT
2713129 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
2713148 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
2713167 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
2713180 TGTATCGATACAACACTTTA
1 TGTATCGATACAAAAC-TTA
2713200 TGTATCGATACAAA
1 TGTATCGATACAAA
2713214 TCATTGAAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
13 11 0.19
14 1 0.02
16 2 0.04
19 30 0.53
20 13 0.23
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:2713185 original size:13 final size:13
Alignment explanation
Indices: 2713167--2713191 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2713157 ACAACACTTA
2713167 TGTATCGATACAT
1 TGTATCGATACAT
2713180 TGTATCGATACA
1 TGTATCGATACA
2713192 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2713189 original size:32 final size:33
Alignment explanation
Indices: 2713148--2713211 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 33
2713138 ACAAAACTTA
2713148 TGTATCGATACAACAC-TTATGTATCGATACAT
1 TGTATCGATACAACACTTTATGTATCGATACAT
2713180 TGTATCGATACAACACTTTATGTATCGATACA
1 TGTATCGATACAACACTTTATGTATCGATACA
2713212 AATCATTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 16 0.52
33 15 0.48
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAACACTTTATGTATCGATACAT
Found at i:2716041 original size:33 final size:32
Alignment explanation
Indices: 2715981--2716042 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 32
2715971 CTTAACTGTT
* *
2715981 TGTATCGATAGACACAAGATGTATCGATATAA
1 TGTATCGATACACACAAAATGTATCGATATAA
*
2716013 TGTATCGATACATCCCAAAATGTATCGATA
1 TGTATCGATACA-CACAAAATGTATCGATA
2716043 CATTGGCTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 11 0.42
33 15 0.58
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATATAA
Found at i:2720567 original size:19 final size:19
Alignment explanation
Indices: 2720517--2720572 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
2720507 CTGCCAGTTT
**
2720517 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
*
2720537 CACGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
* *
2720556 CATGTATTGATATAATG
1 CATGTATCGATACAATG
2720573 TATCGATACA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:2723766 original size:19 final size:19
Alignment explanation
Indices: 2723742--2723795 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
2723732 ATTCAACAAT
*
2723742 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTA
*
2723761 TTGTATCAATACATAAGTA
1 TTGTATCGATACATAAGTA
2723780 TTGTATCGATACATAA
1 TTGTATCGATACATAA
2723796 TTAGCTACTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTA
Found at i:2723853 original size:13 final size:13
Alignment explanation
Indices: 2723835--2723860 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2723825 CATTTTTCTG
2723835 TGTATCGATACAT
1 TGTATCGATACAT
2723848 TGTATCGATACAT
1 TGTATCGATACAT
2723861 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2723857 original size:33 final size:33
Alignment explanation
Indices: 2723815--2723878 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
2723805 GCCAAGGAAA
***
2723815 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
2723848 TGTATCGATACATGGATCTTTGTATCGATAC
1 TGTATCGATACATGGATCTGTGTATCGATAC
2723879 TTTGGAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:2726141 original size:51 final size:54
Alignment explanation
Indices: 2726072--2726466 Score: 196
Period size: 54 Copynumber: 7.5 Consensus size: 54
2726062 AGTTTCTCAA
* * * ** *
2726072 TTCTCCACAATTGGGGATATTCCAACTCCGATTTTATTT-TTA-AAACACTAAT
1 TTCTCTACAATCGGGGATACTCCAACTCCGATTTTATTTCCAACAAACACCAAT
*
2726124 TT-TCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAACAAACACCAAT
1 TTCTCTACAATCGGGGATACTCCAACTCCGATTTTATTTCCAACAAACACCAAT
* * * * **** * * *
2726177 TTCTTTACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAAC
1 TTCTCTACAATCGGGGATACTCCAACTCCGATTTTAT-TTCCAACAAACACCAAT
** ** * * * ***
2726230 CCCGT-TA-TTTCCGAGGGGATACTCCAACCCCGACTTTATTTCC-A-AAATATTGAT
1 TTC-TCTACAAT-C--GGGGATACTCCAACTCCGATTTTATTTCCAACAAACACCAAT
* * * * * * *
2726284 TTTTC-ATAATCGGGGATACTCCAACCCCGGTTTTA-TTGCTAC-AACACTAATT
1 TTCTCTACAATCGGGGATACTCCAACTCCGATTTTATTTCCAACAAACACCAA-T
* * * *
2726336 TTTTTTCACAATCGGGGATACTCCAA-TCCCGGTTTTATTTTC-A-AAACACCAAT
1 TTCTCT-ACAATCGGGGATACTCCAACT-CCGATTTTATTTCCAACAAACACCAAT
**
2726389 TT-TCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAA-AAACACCAAT
1 TTCT-CTACAATCGGGGATACTCCAACTCCGATTTTATTTCCAACAAACACCAAT
* *
2726442 TTTTC-ACAATCGAGGATACTCCAAC
1 TTCTCTACAATCGGGGATACTCCAAC
2726467 CTCGTTATTT
Statistics
Matches: 261, Mismatches: 58, Indels: 48
0.71 0.16 0.13
Matches are distributed among these distances:
50 3 0.01
51 60 0.23
52 60 0.23
53 46 0.18
54 65 0.25
55 21 0.08
56 2 0.01
57 4 0.02
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (54 bp):
TTCTCTACAATCGGGGATACTCCAACTCCGATTTTATTTCCAACAAACACCAAT
Found at i:2726216 original size:27 final size:28
Alignment explanation
Indices: 2726186--2726261 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
2726176 TTTCTTTACA
2726186 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
2726213 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
2726241 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
2726262 ACTTTATTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 24 0.55
28 20 0.45
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:2726486 original size:28 final size:28
Alignment explanation
Indices: 2726450--2726526 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
2726440 ATTTTTCACA
* * *
2726450 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
2726478 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
2726506 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
2726527 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:2726566 original size:265 final size:264
Alignment explanation
Indices: 2726077--2726576 Score: 799
Period size: 265 Copynumber: 1.9 Consensus size: 264
2726067 CTCAATTCTC
* * * *
2726077 CACAATTGGGGATATTCCAACTCCGATTTTATTTTTAAAACACTAATTTTCTATAATCGGGGATA
1 CACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATA
* *
2726142 CTCCAACTCCGATTTTATTTCCAACAAACACCAATTTCTTTACAATCGGGGATACTCCAACCCCG
66 CTCCAACTCCGATTTTATTTCCAACAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCG
* *
2726207 TTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTC
131 TTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTCC
*
2726272 CAAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTACAACACTAATTT
196 CAAAATATTGATTTCTCATAATCGGGGATACT-CAACCCCGGTTTTATTGCTACAACACTAATTT
2726337 TTTTT
260 TTTTT
* *
2726342 CACAATCGGGGATACTCCAA-TCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGA
1 CACAATCGGGGATACTCCAACT-CCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGGA
*
2726406 TACTCCAACTCCGATTTTATTTCCAA-AAACACCAATTT-TTCACAATCGAGGATACTCCAACCT
64 TACTCCAACTCCGATTTTATTTCCAACAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
* *
2726469 CGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTAT
129 CGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTAT
* *
2726534 TCCCAAAATATTGATTTCTCATATTTGGGGATACTCAACCCCG
193 TCCCAAAATATTGATTTCTCATAATCGGGGATACTCAACCCCG
2726577 TTATTTTCGA
Statistics
Matches: 216, Mismatches: 16, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
264 36 0.17
265 142 0.66
266 38 0.18
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (264 bp):
CACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAACAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCG
TTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTCC
CAAAATATTGATTTCTCATAATCGGGGATACTCAACCCCGGTTTTATTGCTACAACACTAATTTT
TTTT
Found at i:2726618 original size:78 final size:80
Alignment explanation
Indices: 2726481--2726632 Score: 204
Period size: 78 Copynumber: 1.9 Consensus size: 80
2726471 TTATTTCATC
* *
2726481 GGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATT
1 GGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCGGCTTTATTCCCAAAATATT
*
2726546 -GATTTCTCATATTT
66 AAATTTCTCATATTT
* * *
2726560 GGGGATACT-CAACCCCGTTATTTTCGAGGGAACACTCCAACCCC-GTTATTA-TCTCCAAAATA
1 GGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCGGCT-TTATTC-CCAAAATA
2726622 TTAAATTTCTC
64 TTAAATTTCTC
2726633 TTCGGGAAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
77 4 0.06
78 44 0.69
79 16 0.25
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.30
Consensus pattern (80 bp):
GGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCGGCTTTATTCCCAAAATATT
AAATTTCTCATATTT
Found at i:2768763 original size:22 final size:21
Alignment explanation
Indices: 2768722--2768767 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
2768712 TTCAGAATAG
2768722 ATTTTATTTTATTAATATTTTT
1 ATTTTATTTTA-TAATATTTTT
*
2768744 ATTTTAATTTTA-AATA-ATTT
1 ATTTT-ATTTTATAATATTTTT
2768764 ATTT
1 ATTT
2768768 AAAGATATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 7 0.32
21 4 0.18
22 5 0.23
23 6 0.27
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTTTATTTTATAATATTTTT
Found at i:2769013 original size:17 final size:17
Alignment explanation
Indices: 2768986--2769027 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
2768976 AATTATTATT
*
2768986 TAATAAATTTTAATTTAA
1 TAATTAATTTTAA-TTAA
*
2769004 -AATTAATTTTTATTAA
1 TAATTAATTTTAATTAA
2769020 TAATTAAT
1 TAATTAAT
2769028 AAAATTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TAATTAATTTTAATTAA
Found at i:2771105 original size:19 final size:20
Alignment explanation
Indices: 2771081--2771131 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
2771071 AATAAGAAAT
2771081 TTTTATTATAAAATT-TATA
1 TTTTATTATAAAATTATATA
* *
2771100 TTTTATAATATAATTATATA
1 TTTTATTATAAAATTATATA
*
2771120 TATT-TTATAAAA
1 TTTTATTATAAAA
2771132 ACAGTTATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTATTATAAAATTATATA
Found at i:2771608 original size:21 final size:19
Alignment explanation
Indices: 2771582--2771622 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
2771572 TTTATATTTT
*
2771582 TTTAATAATTTATATATTAAA
1 TTTAATAAATT-TA-ATTAAA
2771603 TTTAATAAATTTAATTAAA
1 TTTAATAAATTTAATTAAA
2771622 T
1 T
2771623 CGTCAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 2 0.11
21 10 0.53
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTAATAAATTTAATTAAA
Found at i:2772315 original size:28 final size:28
Alignment explanation
Indices: 2772284--2772338 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
2772274 AAAAAAAAAT
* * *
2772284 TTAAATTTATTTTTAATTTAATTATATA
1 TTAAATTTAATATTAATATAATTATATA
*
2772312 TTAATTTTAATATTAATATAATTATAT
1 TTAAATTTAATATTAATATAATTATAT
2772339 TATGAATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
TTAAATTTAATATTAATATAATTATATA
Found at i:2773135 original size:2 final size:2
Alignment explanation
Indices: 2773128--2773167 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
2773118 GAAAGTCCAA
*
2773128 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2773168 TTTTATTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2774313 original size:3 final size:3
Alignment explanation
Indices: 2774305--2774346 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
2774295 TGGCTTCCCC
* * *
2774305 TAT TAT TAT TAT TAT TGT TAT TAT TAT T-T TAT AAT TTT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
2774347 CAAGTTGCAG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:2776693 original size:94 final size:94
Alignment explanation
Indices: 2776532--2776717 Score: 327
Period size: 94 Copynumber: 2.0 Consensus size: 94
2776522 GCAACTTGAG
*
2776532 TGTTAACATTTTTGGTTGAAAATATTTGCAAGTTGTTCCTGCATATTCCATTTGCTCATCAGTAA
1 TGTTAACATTTTTGGTTGAAAATATTTGCAAGTTGTTCCTGCATATTCCATTTGCTAATCAGTAA
* *
2776597 CTACTTATTCTTTTCACCAGATATATAAA
66 CTACTTAGTATTTTCACCAGATATATAAA
2776626 TGTTAACATTTTTGGTTGAAAATATTTGCAAGTTGTTCCTGCATATTCCATTTGCTAATCAGTAA
1 TGTTAACATTTTTGGTTGAAAATATTTGCAAGTTGTTCCTGCATATTCCATTTGCTAATCAGTAA
* *
2776691 CTACTTAGTATTTTCACCGGATCTATA
66 CTACTTAGTATTTTCACCAGATATATA
2776718 GATCCGATTA
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
94 87 1.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (94 bp):
TGTTAACATTTTTGGTTGAAAATATTTGCAAGTTGTTCCTGCATATTCCATTTGCTAATCAGTAA
CTACTTAGTATTTTCACCAGATATATAAA
Found at i:2777553 original size:27 final size:28
Alignment explanation
Indices: 2777523--2777578 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
2777513 GAAACACGAA
2777523 CATGACATGAT-TAAT-ATTCGTGTTACT
1 CATGACATGATATAATAATT-GTGTTACT
*
2777550 CATGACATGATATGATAATTGTGTTACT
1 CATGACATGATATAATAATTGTGTTACT
2777578 C
1 C
2777579 GCGACACGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 11 0.42
28 12 0.46
29 3 0.12
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.39
Consensus pattern (28 bp):
CATGACATGATATAATAATTGTGTTACT
Found at i:2777584 original size:28 final size:28
Alignment explanation
Indices: 2777526--2777593 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
2777516 ACACGAACAT
* *
2777526 GACATGAT-TAATATTCGTGTTACTCAT
1 GACATGATATGATATTCGTGTTACTCAC
*
2777553 GACATGATATGATAATT-GTGTTACTCGC
1 GACATGATATGAT-ATTCGTGTTACTCAC
*
2777581 GACACGATATGAT
1 GACATGATATGAT
2777594 TAATACGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 8 0.23
28 24 0.69
29 3 0.09
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (28 bp):
GACATGATATGATATTCGTGTTACTCAC
Found at i:2778594 original size:22 final size:22
Alignment explanation
Indices: 2778569--2778631 Score: 90
Period size: 22 Copynumber: 2.9 Consensus size: 22
2778559 ATATATTCTG
*
2778569 TTATAGTGATATGTACATATTA
1 TTATAGTCATATGTACATATTA
*
2778591 TTATAGTCATATGTATATATTA
1 TTATAGTCATATGTACATATTA
* *
2778613 TTATAATTATATGTACATA
1 TTATAGTCATATGTACATA
2778632 CAACATGCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.48
Consensus pattern (22 bp):
TTATAGTCATATGTACATATTA
Found at i:2779098 original size:22 final size:22
Alignment explanation
Indices: 2779049--2779098 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
2779039 TAAATTTGTG
* * *
2779049 ATATGTACATACTATTATAGTG
1 ATATGTAAAGACTATTATAGTC
*
2779071 AGATGTAAAGACTATTATAGTC
1 ATATGTAAAGACTATTATAGTC
2779093 ATATGT
1 ATATGT
2779099 GCATATATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (22 bp):
ATATGTAAAGACTATTATAGTC
Found at i:2779198 original size:22 final size:23
Alignment explanation
Indices: 2779173--2779219 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
2779163 ATATTTTTGG
2779173 AGGGGTT-G-GTTCCTTAGTGAAA
1 AGGGGTTAGTGTTCCTTA-TGAAA
*
2779195 A-GGGTTAGTGTTCTTTATGAAA
1 AGGGGTTAGTGTTCCTTATGAAA
2779217 AGG
1 AGG
2779220 TTAGATCTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
21 5 0.24
22 8 0.38
23 8 0.38
ACGTcount: A:0.26, C:0.06, G:0.34, T:0.34
Consensus pattern (23 bp):
AGGGGTTAGTGTTCCTTATGAAA
Found at i:2779200 original size:21 final size:22
Alignment explanation
Indices: 2779181--2779223 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
2779171 GGAGGGGTTG
2779181 GTTCCTTAGTGAAAAGGGTTAGT
1 GTTCCTTA-TGAAAAGGGTTAGT
*
2779204 GTTCTTTATGAAAA-GGTTAG
1 GTTCCTTATGAAAAGGGTTAG
2779224 ATCTCTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 6 0.32
23 7 0.37
ACGTcount: A:0.28, C:0.07, G:0.28, T:0.37
Consensus pattern (22 bp):
GTTCCTTATGAAAAGGGTTAGT
Found at i:2779654 original size:2 final size:2
Alignment explanation
Indices: 2779647--2779683 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2779637 TGTTATACTG
2779647 AT AT AT AT AT 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 AT AT AT AT AT A
2779684 GTTTAGAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2784383 original size:52 final size:52
Alignment explanation
Indices: 2784305--2784432 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
2784295 CGAAATATGA
*
2784305 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
2784357 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
2784409 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2784433 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 21 0.28
52 48 0.65
53 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:2784459 original size:13 final size:13
Alignment explanation
Indices: 2784441--2784465 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2784431 CAAAGATCAG
2784441 TGTATCGATACAA
1 TGTATCGATACAA
2784454 TGTATCGATACA
1 TGTATCGATACA
2784466 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2784543 original size:33 final size:33
Alignment explanation
Indices: 2784506--2784572 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2784496 AGTAGCTTAA
2784506 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
2784539 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
2784572 A
1 A
2784573 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:2784546 original size:13 final size:13
Alignment explanation
Indices: 2784528--2784552 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2784518 CAAAAAAATA
2784528 TGTATCGATACAT
1 TGTATCGATACAT
2784541 TGTATCGATACA
1 TGTATCGATACA
2784553 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2785566 original size:171 final size:168
Alignment explanation
Indices: 2785371--2785755 Score: 611
Period size: 171 Copynumber: 2.3 Consensus size: 168
2785361 TTTTAGAGAT
2785371 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
1 GATGAA-GTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
2785436 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
65 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
* *
2785501 TGTCAACGTGCTGATTCAAGGCCAGC-TACATTGAACT-TAAA
130 TGTCAACGTGCTGATTCAAGGCCAGCTTA-A-AG-A-TGGAAA
* * *
2785542 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAAA
1 GATGAAG-TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
*
2785607 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA
65 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
2785672 TGTCAACGTGCTGATTCAAGGCCAGCTTAAAGATGGAAA
130 TGTCAACGTGCTGATTCAAGGCCAGCTTAAAGATGGAAA
*
2785711 -AT---GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GATGAAGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAG
2785756 GTGCCAATGT
Statistics
Matches: 203, Mismatches: 8, Indels: 13
0.91 0.04 0.06
Matches are distributed among these distances:
164 40 0.20
165 1 0.00
168 3 0.01
169 4 0.02
170 2 0.01
171 151 0.74
172 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (168 bp):
GATGAAGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAAG
TGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGAT
GTCAACGTGCTGATTCAAGGCCAGCTTAAAGATGGAAA
Found at i:2785588 original size:49 final size:49
Alignment explanation
Indices: 2785442--2785600 Score: 147
Period size: 49 Copynumber: 3.1 Consensus size: 49
2785432 AAAAGTGATA
* * * * *
2785442 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G
* ** * * *
2785493 AAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG
1 ---AA-GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
2785546 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
2785595 ATGATG
1 AAGATG
2785601 AGAAAAGTGA
Statistics
Matches: 85, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
49 45 0.53
50 2 0.02
53 1 0.01
54 2 0.02
55 35 0.41
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.25
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:2785703 original size:45 final size:42
Alignment explanation
Indices: 2785651--2785783 Score: 117
Period size: 43 Copynumber: 3.1 Consensus size: 42
2785641 ACGATATTGG
* *
2785651 GCTTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAGGCCA
1 GCTTAAAGATG-G-AAAAGG-TGCCAACATGCTGATTCAAGGCCA
* *
2785696 GCTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAGGCCA
1 GCTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCA
* * ** *
2785738 GC-TATA-TTGGACTTAAAGGTGCCAATGTGCTAATTCAAGGCCA
1 GCTTAAAGATGGA---AAAGGTGCCAACATGCTGATTCAAGGCCA
2785781 GCT
1 GCT
2785784 ACATTGGACT
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
40 4 0.05
41 3 0.04
42 23 0.31
43 33 0.44
44 1 0.01
45 11 0.15
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (42 bp):
GCTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCA
Found at i:2785732 original size:42 final size:42
Alignment explanation
Indices: 2785680--2785783 Score: 122
Period size: 43 Copynumber: 2.5 Consensus size: 42
2785670 GATGTCAACG
*
2785680 TGCTGATTCAAGGCCAGCTTAAAGATGGA-AAATGTGCCAATA
1 TGCTGATTCAAGGCCAGCTTAAA-ATGGATAAAGGTGCCAATA
* * *
2785722 TGCTGATTCAAGGCCAGC-TATATTGGACTTAAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTTAAAATGGA--TAAAGGTGCCAATA
*
2785765 TGCTAATTCAAGGCCAGCT
1 TGCTGATTCAAGGCCAGCT
2785784 ACATTGGACT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
40 4 0.08
41 3 0.06
42 18 0.34
43 28 0.53
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (42 bp):
TGCTGATTCAAGGCCAGCTTAAAATGGATAAAGGTGCCAATA
Found at i:2785812 original size:49 final size:49
Alignment explanation
Indices: 2785714--2786643 Score: 1413
Period size: 49 Copynumber: 19.1 Consensus size: 49
2785704 ATGGAAAATG
2785714 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G--G-
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGA
* * *
2785757 TGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGA
* *
2785806 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGA
* * *
2785855 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGA
* *
2785904 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGA
* * *
2785953 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGA
* *
2786002 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGA
* *
2786051 TGCCAATATGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGA
* * *
2786100 TGCCGATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGA
* * *
2786149 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGA
* *
2786198 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGA
* * *
2786247 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGA
* *
2786296 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGA
* * *
2786345 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGA
* *
2786394 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGA
* * *
2786443 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGA
* *
2786492 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGA
* * *
2786541 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGA
* *
2786590 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGA
2786639 TGCCA
1 TGCCA
2786644 TGCAATAAAG
Statistics
Matches: 793, Mismatches: 88, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
43 35 0.04
44 2 0.00
45 1 0.00
46 1 0.00
48 1 0.00
49 753 0.95
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGA
Found at i:2785894 original size:98 final size:98
Alignment explanation
Indices: 2785714--2786643 Score: 1773
Period size: 98 Copynumber: 9.6 Consensus size: 98
2785704 ATGGAAAATG
* * *
2785714 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTGCTAATT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
2785773 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
2785806 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
2785871 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
2785904 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
2785969 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
*
2786002 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
2786067 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
*
2786100 TGCCGATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
2786165 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
2786198 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
2786263 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
2786296 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
2786361 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
2786394 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
2786459 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
2786492 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
2786557 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
2786590 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCA
2786644 TGCAATAAAG
Statistics
Matches: 825, Mismatches: 7, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
92 37 0.04
96 1 0.00
98 787 0.95
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.24
Consensus pattern (98 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
Found at i:2787089 original size:82 final size:82
Alignment explanation
Indices: 2786941--2787094 Score: 209
Period size: 82 Copynumber: 1.9 Consensus size: 82
2786931 AAATTCAACC
** *
2786941 AAGACAACTCATCTTAAGACATATCTATTTTAGATATTGTCTTGTTAAGACAAGCTTAACCGTAT
1 AAGACAACTCATCTTAAGACATATCTACGTTAGATATTGTCTTGTTAAGACAAGCTTAACCATAT
2787006 TGTCTTATCAAGGTATT
66 TGTCTTATCAAGGTATT
* * * * * * * *
2787023 AAGACAACTTATCTTGATACATGTCTACGTTAGATATTTTTTTGTTAAGACAAGTTTATCCATAT
1 AAGACAACTCATCTTAAGACATATCTACGTTAGATATTGTCTTGTTAAGACAAGCTTAACCATAT
2787088 TGTCTTA
66 TGTCTTA
2787095 GTAAGACAAG
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
82 61 1.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (82 bp):
AAGACAACTCATCTTAAGACATATCTACGTTAGATATTGTCTTGTTAAGACAAGCTTAACCATAT
TGTCTTATCAAGGTATT
Found at i:2787099 original size:28 final size:28
Alignment explanation
Indices: 2787068--2787122 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
2787058 ATTTTTTTGT
*
2787068 TAAGACAAGTTTATCCATATTGTCTTAG
1 TAAGACAAGTATATCCATATTGTCTTAG
*
2787096 TAAGACAAGTATATCCATTTTGTCTTA
1 TAAGACAAGTATATCCATATTGTCTTA
2787123 ACATATGTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.40
Consensus pattern (28 bp):
TAAGACAAGTATATCCATATTGTCTTAG
Found at i:2787166 original size:84 final size:85
Alignment explanation
Indices: 2787041--2787252 Score: 230
Period size: 84 Copynumber: 2.5 Consensus size: 85
2787031 TTATCTTGAT
* * * * * *
2787041 ACATGTCTACGTTAGATATTTTTTTGTTAAGACAAGTTTATCCATATTGTCTTAGTAAGACAAG-
1 ACATGTCTACTTTAGACATTATCTTGTTAAGAAAACTTTATCCATATTGTCTTAGTAAGACAAGC
*
2787105 TATATCCATTTTGTCT-TAAC
66 T-TATCCATTTTGTCTGGAAC
* * * * * * *
2787125 ATATGTCTACTTTGGACATTATCTTGTTAAGATAACCTTATCTATATTGTCTTATTAAGATAAGC
1 ACATGTCTACTTTAGACATTATCTTGTTAAGAAAACTTTATCCATATTGTCTTAGTAAGACAAGC
* *
2787190 TTATCTATTTTGTCTGGAAT
66 TTATCCATTTTGTCTGGAAC
* * *
2787210 ACATGTCTACTTTAGATATTATCCTATTAAGAAAACTTTATCC
1 ACATGTCTACTTTAGACATTATCTTGTTAAGAAAACTTTATCC
2787253 GTTGTCTTAT
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
84 65 0.63
85 38 0.37
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (85 bp):
ACATGTCTACTTTAGACATTATCTTGTTAAGAAAACTTTATCCATATTGTCTTAGTAAGACAAGC
TTATCCATTTTGTCTGGAAC
Found at i:2787186 original size:28 final size:28
Alignment explanation
Indices: 2787146--2787204 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
2787136 TTGGACATTA
*
2787146 TCTTGTTAAGATAACCTTATCTATATTG
1 TCTTATTAAGATAACCTTATCTATATTG
* *
2787174 TCTTATTAAGATAAGCTTATCTATTTTG
1 TCTTATTAAGATAACCTTATCTATATTG
2787202 TCT
1 TCT
2787205 GGAATACATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.27, C:0.14, G:0.10, T:0.49
Consensus pattern (28 bp):
TCTTATTAAGATAACCTTATCTATATTG
Found at i:2788827 original size:13 final size:13
Alignment explanation
Indices: 2788809--2788834 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2788799 CAATTTAATC
2788809 ATGTATCGATACA
1 ATGTATCGATACA
2788822 ATGTATCGATACA
1 ATGTATCGATACA
2788835 GTCGAAGCGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2788905 original size:20 final size:20
Alignment explanation
Indices: 2788882--2788933 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
2788872 TAATTCATAA
*
2788882 TGTATCGATACAAAGTAATT
1 TGTATCGATACAAAGAAATT
***
2788902 TGTATCGATACCTTGAAATT
1 TGTATCGATACAAAGAAATT
2788922 TGTATCGATACA
1 TGTATCGATACA
2788934 TTTAGGTGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (20 bp):
TGTATCGATACAAAGAAATT
Found at i:2789650 original size:15 final size:15
Alignment explanation
Indices: 2789632--2789662 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2789622 AAATGTTCTC
2789632 CCCTAAATTTATAAA
1 CCCTAAATTTATAAA
2789647 CCCTAAATTTATAAA
1 CCCTAAATTTATAAA
2789662 C
1 C
2789663 AACAATTTCT
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:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (15 bp):
CCCTAAATTTATAAA
Found at i:2791605 original size:23 final size:23
Alignment explanation
Indices: 2791579--2791629 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
2791569 TGGTACCTTA
*
2791579 TTGATTATATGTTAATTTTAAT-T
1 TTGATTATAT-TTAATTTCAATAT
* *
2791602 TTGATTTTATTTGATTTCAATAT
1 TTGATTATATTTAATTTCAATAT
2791625 TTGAT
1 TTGAT
2791630 ATTTAATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (23 bp):
TTGATTATATTTAATTTCAATAT
Found at i:2793057 original size:155 final size:157
Alignment explanation
Indices: 2792333--2793185 Score: 853
Period size: 157 Copynumber: 5.5 Consensus size: 157
2792323 AAGCTCAAGA
* * * * *
2792333 AAAATTACGAAAATG-CCTCTAGAGG-ATATCTTCGATGTAAAAGTATCCCGGCAACCCTAAAGG
1 AAAATAACAAAAATGCCCT-TAGAGGTATACCTTCGACGTAAAAGTATCCCGGTAACCCTAAAGG
* * ** *
2792396 ACTTAAAAAGACTCATAAAAAGGATAAACCTATCCTAAATGCCTACCTTCCACATAAAAGCGGAC
65 ACTTAAAAAGACTCATAAAAGGGATGAACCTATCCTAAATGCCTACCTTCGGCATAAAAGCAGAC
* *
2792461 CCGGTGACGACCTAGGAGTTGGTTCTAG
130 CCGGTGATGACCTAGGACTTGGTTCTAG
* * * * * ** *
2792489 AAAATTACCAAAATGTCCC-TAAAGGTATATCTTCGACATAAAAGTATCCCGACAACCCTAAAAG
1 AAAATAACAAAAATG-CCCTTAGAGGTATACCTTCGACGTAAAAGTATCCCGGTAACCCTAAAGG
* * *
2792553 ACTTAAAAAGACTCATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCAGCATAAAACCAGAC
65 ACTTAAAAAGACTCATAAAAGGGATGAACCTATCCTAAATGCCTACCTTCGGCATAAAAGCAGAC
** * * * *
2792618 CTAGTGATGACCTAAGAGTTCGTTCTAA
130 CCGGTGATGACCTAGGACTTGGTTCTAG
** * * * * * * *** *
2792646 AAAATTTCCAAAATTCCCCTAGGGGTATACTTTCGATGTAAAAGTATCCCGACGACCTTAAAGGA
1 AAAATAACAAAAATGCCCTTAGAGGTATACCTTCGACGTAAAAGTATCCCGGTAACCCTAAAGGA
* * *
2792711 CTTAAAAAGACTCATAAAAGGGATGAATCTATCCTAAATGCCCACCTTCGACATAAAAGCAGACC
66 CTTAAAAAGACTCATAAAAGGGATGAACCTATCCTAAATGCCTACCTTCGGCATAAAAGCAGACC
*
2792776 CGGTGATGACCTAGGAGTTGGTTCTAG
131 CGGTGATGACCTAGGACTTGGTTCTAG
* * * * * *
2792803 AAAATTACAAAAATACGCC-TA-AGGGATACC-TCGACATGAAAGTATCCCGGTACCCCTAAAGG
1 AAAATAACAAAAATGC-CCTTAGAGGTATACCTTCGACGTAAAAGTATCCCGGTAACCCTAAAGG
** ** * * *
2792865 ACTT-AAAAGGGTTTTAAAAGGGATGAACCTATCCTAAATGCCTACCTTTGGCATAAAAGCGGAT
65 ACTTAAAAAGACTCATAAAAGGGATGAACCTATCCTAAATGCCTACCTTCGGCATAAAAGCAGAC
* *
2792929 TCGGTGATGACCTAGGACTCGGTTCT-G
130 CCGGTGATGACCTAGGACTTGGTTCTAG
* * * * *
2792956 AAAAAAACAAAAATGCCCTTAGAGGTATACCTTCAACGTGAAAGTATCCCAGTATCCCTAAAGGA
1 AAAATAACAAAAATGCCCTTAGAGGTATACCTTCGACGTAAAAGTATCCCGGTAACCCTAAAGGA
* ** * * *
2793021 CTTAAAAAG-GTTTTAAAAGGGATGAACCTATTCTAAATGCCTACCTTTGGCATAAAAGCAAACC
66 CTTAAAAAGACTCATAAAAGGGATGAACCTATCCTAAATGCCTACCTTCGGCATAAAAGCAGACC
* * *
2793085 CGGCGACGACTTAGGACTTGGTTCTAG
131 CGGTGATGACCTAGGACTTGGTTCTAG
** * * ** * * *
2793112 AAAATAATGAAAAT-ACCTCTAGGGGTATATTTTTGACGTGAAAGTATCCCGGTAACCCTAAAAG
1 AAAATAACAAAAATGCCCT-TAGAGGTATACCTTCGACGTAAAAGTATCCCGGTAACCCTAAAGG
2793176 ACTTAAAAAG
65 ACTTAAAAAG
2793186 GACTATAGAC
Statistics
Matches: 591, Mismatches: 95, Indels: 22
0.83 0.13 0.03
Matches are distributed among these distances:
152 2 0.00
153 16 0.03
154 81 0.14
155 134 0.23
156 92 0.16
157 262 0.44
158 4 0.01
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.23
Consensus pattern (157 bp):
AAAATAACAAAAATGCCCTTAGAGGTATACCTTCGACGTAAAAGTATCCCGGTAACCCTAAAGGA
CTTAAAAAGACTCATAAAAGGGATGAACCTATCCTAAATGCCTACCTTCGGCATAAAAGCAGACC
CGGTGATGACCTAGGACTTGGTTCTAG
Found at i:2795576 original size:160 final size:162
Alignment explanation
Indices: 2795205--2795652 Score: 527
Period size: 160 Copynumber: 2.8 Consensus size: 162
2795195 GAAAAAGTTT
* * * * *
2795205 AAAAACTCATGAAAATGAATAAATTTTTAAAAACTGAATTAATAT--CATTAGTGATGATGTTTG
1 AAAAACTCATAAAAATGAATGAATTTTTAAAAACTGAATTAATATGAAATAAGTAATGATGTTTG
* * **
2795268 ATGAATTAT-AAAATTGAAAATTGAGAAAAATCCATTCGAAAAAATTTACGGAGTAGAAAACACC
66 ATGAATTTTAAAAATTGAAAATTAAGAAAAATCCCCTCGAAAAAATTTACGGAGTAGAAAACACC
** *
2795332 GTAATTAGCAAAAAGGGAAGTTTCGAGGAAAAATA
131 GTAATTAAAAAAAAGGGAAGTTTCAAGG---AATA
* * *
2795367 AAAAACTCATGAAAATGAATGAATTTTTAAAAAATGAATTAATATGAAATAAGTAATGATGTTGG
1 AAAAACTCATAAAAATGAATGAATTTTTAAAAACTGAATTAATATGAAATAAGTAATGATGTTTG
** *
2795432 ATGAATTTTAAAAATTGAAAACCAAGAAAAAATCCCCTCGAAAAAATTTACGGAGTAGAAAATAC
66 ATGAATTTTAAAAATTGAAAATTAAG-AAAAATCCCCTCGAAAAAATTTACGGAGTAGAAAACAC
*
2795497 CGTATTTTTAAAAAAAAGGGAAGTTTCAAGG-A-A
130 CGTA--ATTAAAAAAAAGGGAAGTTTCAAGGAATA
* * *
2795530 AAAAA-T-A-AAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATAATGATATTTG
1 AAAAACTCATAAAAATGAATGAATTTTTAAAAACTGAATTAATATGAAATAAGTAATGATGTTTG
* * * * *
2795592 ATGAATTTTAAAAATTAAAAATTAAGAAAAATCCTCCT-AAAAAAATTCACAGAGTAAAAAA
66 ATGAATTTTAAAAATTGAAAATTAAGAAAAATCC-CCTCGAAAAAATTTACGGAGTAGAAAA
2795653 ATCTCATAAT
Statistics
Matches: 249, Mismatches: 30, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
159 27 0.11
160 75 0.30
161 1 0.00
162 44 0.18
163 6 0.02
164 23 0.09
165 13 0.05
166 39 0.16
168 21 0.08
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.27
Consensus pattern (162 bp):
AAAAACTCATAAAAATGAATGAATTTTTAAAAACTGAATTAATATGAAATAAGTAATGATGTTTG
ATGAATTTTAAAAATTGAAAATTAAGAAAAATCCCCTCGAAAAAATTTACGGAGTAGAAAACACC
GTAATTAAAAAAAAGGGAAGTTTCAAGGAATA
Found at i:2802865 original size:21 final size:20
Alignment explanation
Indices: 2802819--2802872 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
2802809 GTTGGGCCAA
*
2802819 ATGTATCGATACAATTCTTG
1 ATGTATCGATACAATTCTTC
2802839 ATGTATCGATACAATT-TAATC
1 ATGTATCGATACAATTCT--TC
2802860 ATGTATCGATACA
1 ATGTATCGATACA
2802873 GTGGAAGGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 1 0.03
20 16 0.52
21 14 0.45
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACAATTCTTC
Found at i:2806266 original size:20 final size:20
Alignment explanation
Indices: 2806241--2806315 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
2806231 AAAAAAATAG
* * *
2806241 AATGTATCGATATATAGAAA
1 AATGTATCAATACATTGAAA
* *
2806261 AATGTATCAATACATTCATA
1 AATGTATCAATACATTGAAA
*
2806281 CATGTATCAATACATTGAAA
1 AATGTATCAATACATTGAAA
*
2806301 AATGTATCGATACAT
1 AATGTATCAATACAT
2806316 GTACTATTCA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.32
Consensus pattern (20 bp):
AATGTATCAATACATTGAAA
Found at i:2806573 original size:28 final size:29
Alignment explanation
Indices: 2806541--2806615 Score: 109
Period size: 28 Copynumber: 2.7 Consensus size: 29
2806531 TTGAGTTATT
*
2806541 GACTTGTTGGCTTTGAAAA-GATGCCACC
1 GACTTGTGGGCTTTGAAAAGGATGCCACC
**
2806569 GACTTGTGGGCTTT-AAAAGGATGCCATT
1 GACTTGTGGGCTTTGAAAAGGATGCCACC
2806597 GACTTGTGGGCTTTGAAAA
1 GACTTGTGGGCTTTGAAAA
2806616 TGGGTCGTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 4 0.10
28 34 0.81
29 4 0.10
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (29 bp):
GACTTGTGGGCTTTGAAAAGGATGCCACC
Done.