Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 40 of 141
Found at i:12774542 original size:78 final size:78
Alignment explanation
Indices: 12774316--12775416 Score: 1356
Period size: 78 Copynumber: 14.0 Consensus size: 78
12774306 CAAAAATTGA
* * * * * * *
12774316 AAATACCTTGGCGTGTGGCCCGAGGCTCAACTCACCTTTAGCATTATGATTTGATTTTTGAAAAA
1 AAATACCTCGGCATGT-GCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAA
*
12774381 CATAAATTTAAAAG
65 CAGAAATTTAAAAG
* * *
12774395 --ATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGCATTATAAGTTGA-TTTTAAAAAA
1 AAATACCTCGGCATGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAA
12774457 CAGAAATTTAAAAG
65 CAGAAATTTAAAAG
* * **
12774471 AAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATCTGAGTTGATTTAAAAAAAAC
1 AAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAC
12774536 AGAAATTTAAAAG
66 AGAAATTTAAAAG
* *
12774549 AAATACCTCGACATGTGTCTC-AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAT
1 AAATACCTCGGCATGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTA-
12774613 GAAAAACAGAAATTTAAAAG
60 -AAAAACAGAAATTTAAAAG
* *
12774633 AAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGATTTGATTTTTTTTTTAT
1 AAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-----TTTTTA-
12774698 GAAAAACAGAAATTTAAAAG
60 -AAAAACAGAAATTTAAAAG
* * *
12774718 AAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTGAAAAAC
1 AAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAC
*
12774783 AAAAATTTAAAAG
66 AGAAATTTAAAAG
* * *
12774796 AAATGCATCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAA
1 AAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-AAAAAA
* *
12774861 TAGAAATTGAAAAG
65 CAGAAATTTAAAAG
* * *
12774875 AAATACCTCAGCATG-ACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTAAAAAAC
1 AAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAC
* *
12774939 AGAAATTGAAAAT
66 AGAAATTTAAAAG
* * * *
12774952 AAATACCTCGGCATG-ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAAAT
1 AAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAC
*
12775016 AGAAATATAAAAG
66 AGAAATTTAAAAG
* * * *
12775029 AAATACCTTGGCATGTGACCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAAC
1 AAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAC
12775094 AGAAATTTAAAAG
66 AGAAATTTAAAAG
* * * * * * *
12775107 AAATACCTCAGTATG-ACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTAAAAAAAT
1 AAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAC
*
12775171 AAAAATTTAAAAG
66 AGAAATTTAAAAG
* * * *
12775184 AAATACCTCAGCATGTGTCCGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAAC
1 AAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAC
* *
12775249 AGAAATATAGAAG
66 AGAAATTTAAAAG
* * * * *
12775262 AAATACCTCAGCATGCGACCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAAC
1 AAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-AAAAAA
12775327 CA-AAATTTAAAAG
65 CAGAAATTTAAAAG
* * * * **
12775340 AAATATCTCAGCATG-ACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTAAAAAAAAA
1 AAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-TTAAAAAA
*
12775404 CAGAAATTGAAAA
65 CAGAAATTTAAAA
12775417 ATATTTCTTA
Statistics
Matches: 903, Mismatches: 100, Indels: 39
0.87 0.10 0.04
Matches are distributed among these distances:
76 23 0.03
77 286 0.32
78 401 0.44
79 35 0.04
80 5 0.01
82 4 0.00
83 1 0.00
84 66 0.07
85 82 0.09
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.28
Consensus pattern (78 bp):
AAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAC
AGAAATTTAAAAG
Found at i:12774605 original size:155 final size:156
Alignment explanation
Indices: 12774316--12775416 Score: 1312
Period size: 155 Copynumber: 7.0 Consensus size: 156
12774306 CAAAAATTGA
* * * * * * *
12774316 AAATACCTTGGCGTGTGGCCCGAGGCTCAACTCACCTTTAGCATTATGATTTGATTTTTGAAAAA
1 AAATACCTCGGCATGT-GCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAA
* ** * *
12774381 CATAAATTTAAAAG--ATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGCATTATAAGT
65 CAGAAATTTAAAAGAAATACCTCGACATGTGA-CCGAGGCTCAACTCACCTCTCGCAATATGAGT
12774444 TGA-TTTTAAAAAACAGAAATTTAAAAG
129 TGATTTTTAAAAAACAGAAATTTAAAAG
* * **
12774471 AAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATCTGAGTTGATTTAAAAAAAAC
1 AAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAC
*
12774536 AGAAATTTAAAAGAAATACCTCGACATGTGTCTC-AGGCTCAACTCACCTCTCGCAATATGAGTT
66 AGAAATTTAAAAGAAATACCTCGACATGTGAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTT
12774600 GATTTTTTTTTATGAAAAACAGAAATTTAAAAG
130 GA----TTTTTA--AAAAACAGAAATTTAAAAG
* *
12774633 AAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGATTTGATTTTTTTTTTAT
1 AAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-----TTTTTA-
* * *
12774698 GAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTAGCAATA
60 -AAAAACAGAAATTTAAAAGAAATACCTCGACATGTGACCGAGGCTCAACTCACCTCTCGCAATA
* *
12774763 TGAGTTGATTTTTGAAAAACAAAAATTTAAAAG
124 TGAGTTGATTTTTAAAAAACAGAAATTTAAAAG
* * *
12774796 AAATGCATCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAA
1 AAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-AAAAAA
* * *
12774861 TAGAAATTGAAAAGAAATACCTC-AGCA--TGACCCGAGGCTCAACTCACCTCTCGTAATATGAG
65 CAGAAATTTAAAAGAAATACCTCGA-CATGTGA-CCGAGGCTCAACTCACCTCTCGCAATATGAG
* *
12774923 TTGATTTTTAAAAAACAGAAATTGAAAAT
128 TTGATTTTTAAAAAACAGAAATTTAAAAG
* * * *
12774952 AAATACCTCGGCATG-ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAAAT
1 AAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAC
* * * *
12775016 AGAAATATAAAAGAAATACCTTGGCATGTGACCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
66 AGAAATTTAAAAGAAATACCTCGACATGTGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
12775081 ATTTTTGAAAAACAGAAATTTAAAAG
131 ATTTTTAAAAAACAGAAATTTAAAAG
* * * * * * *
12775107 AAATACCTCAGTATG-ACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTAAAAAAAT
1 AAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAC
* * *
12775171 AAAAATTTAAAAGAAATACCTC-AGCATGTGTCCGAGGCTCAACTCACATCTCGCAATATGAGTT
66 AGAAATTTAAAAGAAATACCTCGA-CATGTGACCGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
12775235 GATTTTTGAAAAACAGAAATATAGAAG
130 GATTTTTAAAAAACAGAAATTTAAAAG
* * * * *
12775262 AAATACCTCAGCATGCGACCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAAC
1 AAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-AAAAAA
* *
12775327 CA-AAATTTAAAAGAAATATCTC-AGCA--TGACCCGAGGCTCAACTCACCTCTCGCATTATGAG
65 CAGAAATTTAAAAGAAATACCTCGA-CATGTGA-CCGAGGCTCAACTCACCTCTCGCAATATGAG
** *
12775388 TTGATTTAAAAAAAAACAGAAATTGAAAA
128 TTGATTT-TTAAAAAACAGAAATTTAAAA
12775417 ATATTTCTTA
Statistics
Matches: 830, Mismatches: 87, Indels: 57
0.85 0.09 0.06
Matches are distributed among these distances:
154 81 0.10
155 330 0.40
156 158 0.19
157 34 0.04
158 5 0.01
159 1 0.00
160 5 0.01
162 70 0.08
163 68 0.08
165 5 0.01
167 4 0.00
168 1 0.00
169 68 0.08
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.28
Consensus pattern (156 bp):
AAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAC
AGAAATTTAAAAGAAATACCTCGACATGTGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTAAAAAACAGAAATTTAAAAG
Found at i:12774628 original size:941 final size:944
Alignment explanation
Indices: 12773014--12774903 Score: 3439
Period size: 941 Copynumber: 2.0 Consensus size: 944
12773004 GCAAACGTAG
12773014 CAACACTTCTGAGGCCAAAACATAATTTCGAGAAAATTTAGGGGTCATAATGTAATTTCAAAAAG
1 CAACACTTCTGAGGCCAAAACATAATTTCGAGAAAATTTAGGGGTCATAATGTAATTTCAAAAAG
12773079 TTTATGGGTCAAAATGTAATTTCAAAAAAGTTTAGGGGTCAAAATATAATTTTAGGAAAATTTAA
66 TTTATGGGTCAAAATGTAATTTCAAAAAAGTTTAGGGGTCAAAATATAATTTTAGGAAAATTTAA
12773144 GGGTCAAAATGTAATTTCAAAAAGTTTAGGGGCCAAAATGTAATTTTATATTTTTTGTATTTTTT
131 GGGTCAAAATGTAATTTCAAAAAGTTTAGGGGCCAAAATGTAATTTTATATTTTTTGTATTTTTT
*
12773209 TGTATTTTTTTAAAAAAAACACGAAATCGAGCCGGACAAAATTCAGTGATTACAACTGCCCCTAT
196 TGAATTTTTTTAAAAAAAACACGAAATCGAGCCGGACAAAATTCAGTGATTACAACTGCCCCTAT
12773274 TTGCTCATCGCTGCGAAACAGAGATAGAGCAAAGACTTAAAAGCACTGAATTTTGTTCGACTATT
261 TTGCTCATCGCTGCGAAACAGAGATAGAGCAAAGACTTAAAAGCACTGAATTTTGTTCGACTATT
* * *
12773339 CAAAAATTTTCTTTTTATTTGAAAAACAGAAATTGAAAATACCTTGGCGTGTGACCCGAGGTTTA
326 CAAAAATTTTCTTTTTATTTGAAAAACAAAAATTGAAAATACCTTGGCGTGTGACCCGAGGCTCA
12773404 ACTCACCTTTAGCATTATGAGTTGATTTTTGAAAAACATAAATTTAAAAGATACCTCGGTATGTG
391 ACTCACCTTTAGCATTATGAGTTGATTTTTGAAAAACATAAATTTAAAAGATACCTCGGTATGTG
*
12773469 ACCCGAGGCTCAACTCACCTCTTGCATTATAAGTTGATTTTAAAAAACAGAAATTTAAAAGAAAT
456 ACCCGAGGCTCAACTCACCTCTCGCATTATAAGTTGATTTTAAAAAACAGAAATTTAAAAGAAAT
*
12773534 ACCTCAGCATGTGTCCGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTGAAAAAAAACAGA
521 ACCTCAGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAAAAACAGA
12773599 AATTTAAAAGAAATACCTCGACATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
586 AATTTAAAAGAAATACCTCGACATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*
12773664 TTTTTTATGAAAAACATAAATTTAAAAGAAATACATCGGCATGTGTCCGAGGCTCAACTCACCTC
651 TTTTTTATGAAAAACAGAAATTTAAAAGAAATACATCGGCATGTGTCCGAGGCTCAACTCACCTC
*
12773729 TCGCAATATGAGTTGA-TTTTTTTTATGAAAAACAGAAATTTAAAAGAAATATCTCGGCATGTGT
716 TCGCAATATGAGTTGATTTTTTTTTATGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGT
*
12773793 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTGAAAAACAAAAATTTAAAAGAAATA
781 CCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTGAAAAACAAAAATTTAAAAGAAATA
*
12773858 CCTCAGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAA
846 CATCAGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAA
*
12773923 ATTGAAAAGAAATACCTCGGCATGACCCGAGGCT
911 ATTGAAAAGAAATACCTCAGCATGACCCGAGGCT
*
12773957 CAACACTTCTGAGGCCAAAACATAATTTCGAGAAAATTTAGGGGTCATAATGTAATTTTAAAAAG
1 CAACACTTCTGAGGCCAAAACATAATTTCGAGAAAATTTAGGGGTCATAATGTAATTTCAAAAAG
12774022 TTTATGGGTCAAAATGTAATTTCAAAAAAGTTTAGGGGTCAAAATATAATTTTAGGAAAATTTAA
66 TTTATGGGTCAAAATGTAATTTCAAAAAAGTTTAGGGGTCAAAATATAATTTTAGGAAAATTTAA
*
12774087 GGGTCAAAATGTAATTTCAAAAAGTTTAGGGGCCAAAATGTAATTTTTTATTTTTTGTA-TTTTT
131 GGGTCAAAATGTAATTTCAAAAAGTTTAGGGGCCAAAATGTAATTTTATATTTTTTGTATTTTTT
* * ** *
12774151 TGAATTTTTTT-AAAAAAACACGAAATCGAGCCGGACAAAATTTAGTGATTACAGCTGCTTCTCT
196 TGAATTTTTTTAAAAAAAACACGAAATCGAGCCGGACAAAATTCAGTGATTACAACTGCCCCTAT
* * * *
12774215 TTGCTCATCGTTGCGAAACAGGGATAGAGCAAAGACTTAAAAGCACTTAATTTTGTTTGACTATT
261 TTGCTCATCGCTGCGAAACAGAGATAGAGCAAAGACTTAAAAGCACTGAATTTTGTTCGACTATT
*
12774280 CAAAAATTTTCTTTTTATTTGAAAAACAAAAATTGAAAATACCTTGGCGTGTGGCCCGAGGCTCA
326 CAAAAATTTTCTTTTTATTTGAAAAACAAAAATTGAAAATACCTTGGCGTGTGACCCGAGGCTCA
*
12774345 ACTCACCTTTAGCATTATGATTTGATTTTTGAAAAACATAAATTTAAAAGATACCTCGGTATGTG
391 ACTCACCTTTAGCATTATGAGTTGATTTTTGAAAAACATAAATTTAAAAGATACCTCGGTATGTG
12774410 ACCCGAGGCTCAACTCACCTCTCGCATTATAAGTTGATTTTAAAAAACAGAAATTTAAAAGAAAT
456 ACCCGAGGCTCAACTCACCTCTCGCATTATAAGTTGATTTTAAAAAACAGAAATTTAAAAGAAAT
* *
12774475 ACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATCTGAGTTGATTT-AAAAAAAACAGA
521 ACCTCAGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAAAAACAGA
12774539 AATTTAAAAGAAATACCTCGACATGTGTCTC-AGGCTCAACTCACCTCTCGCAATATGAGTTGAT
586 AATTTAAAAGAAATACCTCGACATGTGTC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
*
12774603 TTTTTTTTATGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGTCCGAGGCTCAACTCACC
649 TTTTTTTTATGAAAAACAGAAATTTAAAAGAAATACATCGGCATGTGTCCGAGGCTCAACTCACC
*
12774668 TCTCGCAATATGATTTGATTTTTTTTTTATGAAAAACAGAAATTTAAAAGAAATACCTCGGCATG
714 TCTCGCAATATGAGTTGA-TTTTTTTTTATGAAAAACAGAAATTTAAAAGAAATACCTCGGCATG
12774733 TGTCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTGAAAAACAAAAATTTAAAAGAA
778 TGTCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTGAAAAACAAAAATTTAAAAGAA
* * *
12774798 ATGCATCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAATA
843 ATACATCAGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACA
12774863 GAAATTGAAAAGAAATACCTCAGCATGACCCGAGGCT
908 GAAATTGAAAAGAAATACCTCAGCATGACCCGAGGCT
12774900 CAAC
1 CAAC
12774904 TCACCTCTCG
Statistics
Matches: 912, Mismatches: 31, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
940 73 0.08
941 428 0.47
942 15 0.02
943 396 0.43
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (944 bp):
CAACACTTCTGAGGCCAAAACATAATTTCGAGAAAATTTAGGGGTCATAATGTAATTTCAAAAAG
TTTATGGGTCAAAATGTAATTTCAAAAAAGTTTAGGGGTCAAAATATAATTTTAGGAAAATTTAA
GGGTCAAAATGTAATTTCAAAAAGTTTAGGGGCCAAAATGTAATTTTATATTTTTTGTATTTTTT
TGAATTTTTTTAAAAAAAACACGAAATCGAGCCGGACAAAATTCAGTGATTACAACTGCCCCTAT
TTGCTCATCGCTGCGAAACAGAGATAGAGCAAAGACTTAAAAGCACTGAATTTTGTTCGACTATT
CAAAAATTTTCTTTTTATTTGAAAAACAAAAATTGAAAATACCTTGGCGTGTGACCCGAGGCTCA
ACTCACCTTTAGCATTATGAGTTGATTTTTGAAAAACATAAATTTAAAAGATACCTCGGTATGTG
ACCCGAGGCTCAACTCACCTCTCGCATTATAAGTTGATTTTAAAAAACAGAAATTTAAAAGAAAT
ACCTCAGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAAAAACAGA
AATTTAAAAGAAATACCTCGACATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTTTTTATGAAAAACAGAAATTTAAAAGAAATACATCGGCATGTGTCCGAGGCTCAACTCACCTC
TCGCAATATGAGTTGATTTTTTTTTATGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGT
CCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTGAAAAACAAAAATTTAAAAGAAATA
CATCAGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAA
ATTGAAAAGAAATACCTCAGCATGACCCGAGGCT
Found at i:12775029 original size:233 final size:234
Alignment explanation
Indices: 12774316--12775416 Score: 1462
Period size: 233 Copynumber: 4.7 Consensus size: 234
12774306 CAAAAATTGA
* * * * * * *
12774316 AAATACCTTGGCGTGTGGCCCGAGGCTCAACTCACCTTTAGCATTATGATTTGATTTTTG-AAAA
1 AAATACCTCGGCATGT-GACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
* * * *
12774380 ACATAAATTTAAAAG--ATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGCATTATAAG
65 ACAGAAATTTAAAAGAAATACCTCAGCA--TGACCCGAGGCTCAACTCACCTCTCGCATTATGAG
12774443 TTGA-TTTTAAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGTCCGAGGCTCAACTCACCT
128 TTGATTTTTAAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGTCCGAGGCTCAACTCACCT
* *** *
12774507 CTCGCAATCTGAGTTGATTTAAAAAAAACAGAAATTTAAAAG
193 CTCGCAATATGAGTTGATTTTTGAAAAACAGAAATATAAAAG
* * *
12774549 AAATACCTCGACATGTGTCTC-AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAT
1 AAATACCTCGGCATGTGAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGA-
* ** *
12774613 GAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATA
61 -AAAAACAGAAATTTAAAAGAAATACCTCAGCATG-ACCCGAGGCTCAACTCACCTCTCGCATTA
*
12774678 TGATTTGATTTTTTTTTTATGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGTCCGAGGC
124 TGAGTTGA-----TTTTTA--AAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGTCCGAGGC
* * *
12774743 TCAACTCACCTCTAGCAATATGAGTTGATTTTTGAAAAACAAAAATTTAAAAG
182 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATATAAAAG
* * *
12774796 AAATGCATCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAA
1 AAATACCTCGGCATGTGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAA
* * * *
12774861 TAGAAATTGAAAAGAAATACCTCAGCATGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTG
66 CAGAAATTTAAAAGAAATACCTCAGCATGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTG
* * **
12774926 ATTTTTAAAAAACAGAAATTGAAAATAAATACCTCGGCATG-ACCCGAGGCTCAACTCACCTCTC
131 ATTTTTAAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTC
* *
12774990 GCAATATGAGTTAATTTTTGAAAAATAGAAATATAAAAG
196 GCAATATGAGTTGATTTTTGAAAAACAGAAATATAAAAG
* *
12775029 AAATACCTTGGCATGTGACCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAAA
1 AAATACCTCGGCATGTGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAA
* *
12775093 CAGAAATTTAAAAGAAATACCTCAGTATGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTG
66 CAGAAATTTAAAAGAAATACCTCAGCATGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTG
* * * * *
12775158 ATTTTAAAAAAATAAAAATTTAAAAGAAATACCTCAGCATGTGTCCGAGGCTCAACTCACATCTC
131 ATTTTTAAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTC
*
12775223 GCAATATGAGTTGATTTTTGAAAAACAGAAATATAGAAG
196 GCAATATGAGTTGATTTTTGAAAAACAGAAATATAAAAG
* * * *
12775262 AAATACCTCAGCATGCGACCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAAC
1 AAATACCTCGGCATGTGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAA
*
12775327 CA-AAATTTAAAAGAAATATCTCAGCATGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTG
66 CAGAAATTTAAAAGAAATACCTCAGCATGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTG
** *
12775391 ATTTAAAAAAAAACAGAAATTGAAAA
131 ATTT-TTAAAAAACAGAAATTTAAAA
12775417 ATATTTCTTA
Statistics
Matches: 772, Mismatches: 74, Indels: 43
0.87 0.08 0.05
Matches are distributed among these distances:
232 131 0.17
233 298 0.39
234 55 0.07
235 5 0.01
236 6 0.01
238 20 0.03
239 32 0.04
240 10 0.01
241 33 0.04
242 31 0.04
244 6 0.01
245 5 0.01
246 1 0.00
247 139 0.18
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.28
Consensus pattern (234 bp):
AAATACCTCGGCATGTGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAA
CAGAAATTTAAAAGAAATACCTCAGCATGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTG
ATTTTTAAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTC
GCAATATGAGTTGATTTTTGAAAAACAGAAATATAAAAG
Found at i:12776282 original size:14 final size:15
Alignment explanation
Indices: 12776258--12776307 Score: 59
Period size: 14 Copynumber: 3.4 Consensus size: 15
12776248 TCATCTTGAT
12776258 TGTTCTTTTTATTTTA
1 TGTT-TTTTTATTTTA
*
12776274 T-TTTTTTTATTTTT
1 TGTTTTTTTATTTTA
*
12776288 TGTTTTTTTGTTTT-
1 TGTTTTTTTATTTTA
12776302 TGTTTT
1 TGTTTT
12776308 GTTTTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 17 0.55
15 13 0.42
16 1 0.03
ACGTcount: A:0.06, C:0.02, G:0.08, T:0.84
Consensus pattern (15 bp):
TGTTTTTTTATTTTA
Found at i:12776291 original size:30 final size:29
Alignment explanation
Indices: 12776257--12776317 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
12776247 TTCATCTTGA
12776257 TTGTTCTTTTTATTTTAT-TTTT-TTTATTTT
1 TTGTT-TTTTTATTTT-TGTTTTGTTT-TTTT
*
12776287 TTGTTTTTTTGTTTTTGTTTTGTTTTTTT
1 TTGTTTTTTTATTTTTGTTTTGTTTTTTT
12776316 TT
1 TT
12776318 AGGCATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 1 0.04
29 19 0.68
30 8 0.29
ACGTcount: A:0.05, C:0.02, G:0.08, T:0.85
Consensus pattern (29 bp):
TTGTTTTTTTATTTTTGTTTTGTTTTTTT
Found at i:12776315 original size:14 final size:13
Alignment explanation
Indices: 12776257--12776316 Score: 57
Period size: 14 Copynumber: 4.2 Consensus size: 13
12776247 TTCATCTTGA
12776257 TTGTTCTTTTTATTT
1 TTGTT-TTTTT-TTT
*
12776272 TATTTTTTTTATTTT
1 T-TGTTTTTT-TTTT
12776287 TTGTTTTTTTGTTT
1 TTGTTTTTTT-TTT
12776301 TTGTTTTGTTTTTT
1 TTGTTTT-TTTTTT
12776315 TT
1 TT
12776317 TAGGCATAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
13 1 0.03
14 22 0.56
15 12 0.31
16 4 0.10
ACGTcount: A:0.05, C:0.02, G:0.08, T:0.85
Consensus pattern (13 bp):
TTGTTTTTTTTTT
Found at i:12782061 original size:38 final size:36
Alignment explanation
Indices: 12782004--12782096 Score: 98
Period size: 38 Copynumber: 2.5 Consensus size: 36
12781994 TCGTGATCTA
* * * *
12782004 ATTGAAACACGATATTTTTTAAAAAAAACCGTGAATTT
1 ATTGAAACACGAAAATTTTT-AAAAAAA-CGAGAAATT
* *
12782042 ATTGAAACACGAAAATTTTTGAAAACACGAGAAATT
1 ATTGAAACACGAAAATTTTTAAAAAAACGAGAAATT
12782078 -TTGAAACACGAGAAATTTT
1 ATTGAAACACGA-AAATTTT
12782097 GAAACTCGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
35 11 0.23
36 14 0.29
37 5 0.10
38 18 0.38
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (36 bp):
ATTGAAACACGAAAATTTTTAAAAAAACGAGAAATT
Found at i:12782063 original size:17 final size:18
Alignment explanation
Indices: 12782037--12782112 Score: 97
Period size: 17 Copynumber: 4.3 Consensus size: 18
12782027 AAAAACCGTG
12782037 AATTTATTGAAACACGA-A
1 AATTT-TTGAAACACGAGA
12782055 AATTTTTGAAAACACGAGA
1 AATTTTTG-AAACACGAGA
12782074 AA-TTTTGAAACACGAGA
1 AATTTTTGAAACACGAGA
*
12782091 AA-TTTTGAAACTCGA-A
1 AATTTTTGAAACACGAGA
12782107 AATTTT
1 AATTTT
12782113 GATAAATTAC
Statistics
Matches: 54, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
16 3 0.06
17 30 0.56
18 18 0.33
19 3 0.06
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (18 bp):
AATTTTTGAAACACGAGA
Found at i:12782082 original size:35 final size:33
Alignment explanation
Indices: 12782043--12782114 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 33
12782033 CGTGAATTTA
12782043 TTGAAACACGA-AAATTTTTGAAAACACGAGAAATT
1 TTGAAACACGAGAAA-TTTTG-AAACACGA-AAATT
*
12782078 TTGAAACACGAGAAATTTTGAAACTCGAAAATT
1 TTGAAACACGAGAAATTTTGAAACACGAAAATT
12782111 TTGA
1 TTGA
12782115 TAAATTACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
33 9 0.26
34 7 0.20
35 16 0.46
36 3 0.09
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.28
Consensus pattern (33 bp):
TTGAAACACGAGAAATTTTGAAACACGAAAATT
Found at i:12782538 original size:14 final size:14
Alignment explanation
Indices: 12782519--12782565 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
12782509 AGCTCCTCCT
12782519 TTTTTTCCTTTTTC
1 TTTTTTCCTTTTTC
12782533 TTTTTTCTCTTTTT-
1 TTTTTTC-CTTTTTC
*
12782547 TCTTTT-CTTTTTC
1 TTTTTTCCTTTTTC
12782560 TTTTTT
1 TTTTTT
12782566 TTTCTGCTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 6 0.21
13 5 0.17
14 12 0.41
15 6 0.21
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTCCTTTTTC
Found at i:12782546 original size:16 final size:15
Alignment explanation
Indices: 12782517--12782552 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
12782507 CGAGCTCCTC
12782517 CTTTTTTTCCTTTTT
1 CTTTTTTTCCTTTTT
*
12782532 CTTTTTTCTCTTTTTT
1 CTTTTTT-TCCTTTTT
12782548 CTTTT
1 CTTTT
12782553 CTTTTTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
CTTTTTTTCCTTTTT
Found at i:12782557 original size:11 final size:10
Alignment explanation
Indices: 12782518--12782570 Score: 54
Period size: 11 Copynumber: 5.0 Consensus size: 10
12782508 GAGCTCCTCC
*
12782518 TTTTTTTCCT
1 TTTTTTTTCT
12782528 TTTTCTTTT-T
1 TTTT-TTTTCT
12782538 TCTCTTTTTTCT
1 T-T-TTTTTTCT
12782550 TTTCTTTTTCT
1 TTT-TTTTTCT
12782561 TTTTTTTTCT
1 TTTTTTTTCT
12782571 GCTGGCCTGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
10 14 0.38
11 19 0.51
12 4 0.11
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:12782563 original size:16 final size:15
Alignment explanation
Indices: 12782517--12782567 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 15
12782507 CGAGCTCCTC
*
12782517 CTTTTTTTCCTTTTT
1 CTTTTTTTTCTTTTT
*
12782532 C--TTTTTTCTCTTT
1 CTTTTTTTTCTTTTT
*
12782545 -TTTCTTTTCTTTTT
1 CTTTTTTTTCTTTTT
12782559 CTTTTTTTT
1 CTTTTTTTT
12782568 TCTGCTGGCC
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
13 10 0.36
14 10 0.36
15 8 0.29
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
CTTTTTTTTCTTTTT
Found at i:12782565 original size:7 final size:7
Alignment explanation
Indices: 12782519--12782565 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
12782509 AGCTCCTCCT
12782519 TTTTTTC
1 TTTTTTC
*
12782526 CTTTTTC
1 TTTTTTC
12782533 TTTTTTC
1 TTTTTTC
12782540 TCTTTTT-
1 T-TTTTTC
*
12782547 TCTTTTC
1 TTTTTTC
12782554 -TTTTTC
1 TTTTTTC
12782560 TTTTTT
1 TTTTTT
12782566 TTTCTGCTGG
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 9 0.27
7 19 0.58
8 5 0.15
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTTC
Found at i:12782570 original size:21 final size:21
Alignment explanation
Indices: 12782517--12782567 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
12782507 CGAGCTCCTC
*
12782517 CTTTTTTTCCTTTTTCTTTTTT
1 CTTTTTTTTC-TTTTCTTTTTT
*
12782539 CTCTTTTTTCTTTTC-TTTTT
1 CTTTTTTTTCTTTTCTTTTTT
12782559 CTTTTTTTT
1 CTTTTTTTT
12782568 TCTGCTGGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 13 0.50
21 5 0.19
22 8 0.31
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (21 bp):
CTTTTTTTTCTTTTCTTTTTT
Found at i:12783299 original size:29 final size:29
Alignment explanation
Indices: 12783258--12783401 Score: 157
Period size: 29 Copynumber: 4.9 Consensus size: 29
12783248 TAATTTCGAG
*
12783258 AAAA-TTTAGGGGTCATAATGTAATTTAA
1 AAAAGTTTAGGGGTCAAAATGTAATTTAA
* **
12783286 AAAAGTTTATGGGTCAAAATGTAATTTCGG
1 AAAAGTTTAGGGGTCAAAATGTAATTT-AA
* *
12783316 AAAAGTTTAGGGGTCAAAATATAATTTTAGG
1 AAAAGTTTAGGGGTCAAAATGTAA-TTTA-A
* *
12783347 AAAA-TTTAGGGGTCAAAATGAAATTTCA
1 AAAAGTTTAGGGGTCAAAATGTAATTTAA
* *
12783375 AAAAGTTTAGGAGCCAAAATGTAATTT
1 AAAAGTTTAGGGGTCAAAATGTAATTT
12783402 TCTATTTTTT
Statistics
Matches: 97, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
28 8 0.08
29 42 0.43
30 39 0.40
31 8 0.08
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (29 bp):
AAAAGTTTAGGGGTCAAAATGTAATTTAA
Found at i:12783322 original size:30 final size:30
Alignment explanation
Indices: 12783248--12783401 Score: 172
Period size: 30 Copynumber: 5.2 Consensus size: 30
12783238 GGCCAAAACA
*
12783248 TAATTTCGAGAAAA-TTTAGGGGTCATAATG
1 TAATTTCG-GAAAAGTTTAGGGGTCAAAATG
** *
12783278 TAATTT-AAAAAAGTTTATGGGTCAAAATG
1 TAATTTCGGAAAAGTTTAGGGGTCAAAATG
*
12783307 TAATTTCGGAAAAGTTTAGGGGTCAAAATA
1 TAATTTCGGAAAAGTTTAGGGGTCAAAATG
*
12783337 TAATTTTAGGAAAA-TTTAGGGGTCAAAATG
1 TAA-TTTCGGAAAAGTTTAGGGGTCAAAATG
* * * *
12783367 AAATTTC-AAAAAGTTTAGGAGCCAAAATG
1 TAATTTCGGAAAAGTTTAGGGGTCAAAATG
12783396 TAATTT
1 TAATTT
12783402 TCTATTTTTT
Statistics
Matches: 104, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
28 8 0.08
29 42 0.40
30 45 0.43
31 9 0.09
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (30 bp):
TAATTTCGGAAAAGTTTAGGGGTCAAAATG
Found at i:12783341 original size:59 final size:59
Alignment explanation
Indices: 12783248--12783401 Score: 188
Period size: 59 Copynumber: 2.6 Consensus size: 59
12783238 GGCCAAAACA
* *
12783248 TAATTTCGAGAAAA-TTTAGGGGTCATAATGTAATTTA-AAAAAGTTTATGGGTCAAAATG
1 TAATTTCG-GAAAAGTTTAGGGGTCAAAATGTAATTTAGAAAAA-TTTAGGGGTCAAAATG
* *
12783307 TAATTTCGGAAAAGTTTAGGGGTCAAAATATAATTTTAGGAAAATTTAGGGGTCAAAATG
1 TAATTTCGGAAAAGTTTAGGGGTCAAAATGTAA-TTTAGAAAAATTTAGGGGTCAAAATG
* * * *
12783367 AAATTTC-AAAAAGTTTAGGAGCCAAAATGTAATTT
1 TAATTTCGGAAAAGTTTAGGGGTCAAAATGTAATTT
12783402 TCTATTTTTT
Statistics
Matches: 83, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
58 8 0.10
59 46 0.55
60 25 0.30
61 4 0.05
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (59 bp):
TAATTTCGGAAAAGTTTAGGGGTCAAAATGTAATTTAGAAAAATTTAGGGGTCAAAATG
Found at i:12783423 original size:21 final size:19
Alignment explanation
Indices: 12783399--12783442 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
12783389 CAAAATGTAA
*
12783399 TTTTCTATTTTTTGTATTTTT
1 TTTTCAATTTTTT-T-TTTTT
*
12783420 TTTTGAATTTTTTTTTTTT
1 TTTTCAATTTTTTTTTTTT
12783439 TTTT
1 TTTT
12783443 AAAACACGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.43
20 1 0.05
21 11 0.52
ACGTcount: A:0.09, C:0.02, G:0.05, T:0.84
Consensus pattern (19 bp):
TTTTCAATTTTTTTTTTTT
Found at i:12783436 original size:13 final size:12
Alignment explanation
Indices: 12783406--12783435 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
12783396 TAATTTTCTA
*
12783406 TTTTTTGTATTT
1 TTTTTTGAATTT
12783418 TTTTTTGAATTT
1 TTTTTTGAATTT
12783430 TTTTTT
1 TTTTTT
12783436 TTTTTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (12 bp):
TTTTTTGAATTT
Found at i:12784388 original size:37 final size:36
Alignment explanation
Indices: 12784348--12784538 Score: 256
Period size: 37 Copynumber: 5.1 Consensus size: 36
12784338 ATGTGTTAAT
* *
12784348 TTCAAGACTTATGTAATGTTTTTAAATTAGGTAGTGT
1 TTCAAGACTTATGTAATGTTTTT-AATTATGTAGTGA
* * * * *
12784385 TTCAAGGCTTTTTTTATTTTTTTTAATTATGTAGTGA
1 TTCAAGAC-TTATGTAATGTTTTTAATTATGTAGTGA
12784422 TTCAAGGACTTATGTAATGTTTTTAATTATGTAGTGA
1 TTCAA-GACTTATGTAATGTTTTTAATTATGTAGTGA
12784459 TTCAAGGACTTATGTAATGTTTTTAATTATGTAGTGA
1 TTCAA-GACTTATGTAATGTTTTTAATTATGTAGTGA
*
12784496 TTCAAAGACTTATGTAATTTTTTTTAATTATGTAGTGA
1 TTC-AAGACTTATGTAA-TGTTTTTAATTATGTAGTGA
12784534 TTCAA
1 TTCAA
12784539 TTCGGTTAAA
Statistics
Matches: 137, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
37 100 0.73
38 37 0.27
ACGTcount: A:0.29, C:0.06, G:0.16, T:0.49
Consensus pattern (36 bp):
TTCAAGACTTATGTAATGTTTTTAATTATGTAGTGA
Found at i:12784436 original size:20 final size:19
Alignment explanation
Indices: 12784411--12784511 Score: 75
Period size: 20 Copynumber: 5.4 Consensus size: 19
12784401 TTTTTTTTAA
12784411 TTATGTAGTGATTCAAGGAC
1 TTATGTAGTGATTCAA-GAC
* * **
12784431 TTATGTAATGTTTTTA-A-
1 TTATGTAGTGATTCAAGAC
12784448 TTATGTAGTGATTCAAGGAC
1 TTATGTAGTGATTCAA-GAC
* * **
12784468 TTATGTAATGTTTTTA-A-
1 TTATGTAGTGATTCAAGAC
12784485 TTATGTAGTGATTCAAAGAC
1 TTATGTAGTGATTC-AAGAC
12784505 TTATGTA
1 TTATGTA
12784512 ATTTTTTTTA
Statistics
Matches: 59, Mismatches: 16, Indels: 12
0.68 0.18 0.14
Matches are distributed among these distances:
17 23 0.39
18 3 0.05
19 2 0.03
20 31 0.53
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.45
Consensus pattern (19 bp):
TTATGTAGTGATTCAAGAC
Found at i:12784453 original size:17 final size:17
Alignment explanation
Indices: 12784431--12784491 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
12784421 ATTCAAGGAC
12784431 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* * **
12784448 TTATGTAGTGATTCAAGGA
1 TTATGTAATGTTTTTA--A
12784467 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
12784485 TTATGTA
1 TTATGTA
12784492 GTGATTCAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 19 0.58
18 1 0.03
19 1 0.03
20 12 0.36
ACGTcount: A:0.30, C:0.03, G:0.16, T:0.51
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:12784453 original size:112 final size:112
Alignment explanation
Indices: 12784334--12784538 Score: 299
Period size: 112 Copynumber: 1.8 Consensus size: 112
12784324 CTTACATTTC
* * *
12784334 AATTATGT-GTTAATTTCAA-GACTTATGTAATGTTTTTAAATTAGGTAGTGTTTC-AAGGCTTT
1 AATTATGTAG-TAA-TTCAAGGACTTATGTAATGTTTTT-AATTAGGTAGTGATTCAAAGACTTA
* *
12784396 TTTTATTTTTTTTAATTATGTAGTGATTCAAGGACTTATGTAATGTTTTT
63 TGTAATTTTTTTTAATTATGTAGTGATTCAAGGACTTATGTAATGTTTTT
* *
12784446 AATTATGTAGTGATTCAAGGACTTATGTAATGTTTTTAATTATGTAGTGATTCAAAGACTTATGT
1 AATTATGTAGTAATTCAAGGACTTATGTAATGTTTTTAATTAGGTAGTGATTCAAAGACTTATGT
12784511 AATTTTTTTTAATTATGTAGTGATTCAA
66 AATTTTTTTTAATTATGTAGTGATTCAA
12784539 TTCGGTTAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
111 19 0.23
112 63 0.76
113 1 0.01
ACGTcount: A:0.29, C:0.05, G:0.16, T:0.49
Consensus pattern (112 bp):
AATTATGTAGTAATTCAAGGACTTATGTAATGTTTTTAATTAGGTAGTGATTCAAAGACTTATGT
AATTTTTTTTAATTATGTAGTGATTCAAGGACTTATGTAATGTTTTT
Found at i:12785711 original size:21 final size:20
Alignment explanation
Indices: 12785666--12785713 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
12785656 TAAATAATTC
12785666 AAAAATTATAAAATTAATAT
1 AAAAATTATAAAATTAATAT
* *
12785686 TAAAATATATAAAAGTTCATA-
1 AAAAAT-TATAAAA-TTAATAT
12785707 AAAAATT
1 AAAAATT
12785714 TTGAAAAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 6 0.26
21 12 0.52
22 5 0.22
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
AAAAATTATAAAATTAATAT
Found at i:12786197 original size:11 final size:11
Alignment explanation
Indices: 12786180--12786213 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
12786170 AATTGTGTTT
12786180 ATATATATATA
1 ATATATATATA
*
12786191 TTATATATATA
1 ATATATATATA
12786202 ATATATACTATA
1 ATATATA-TATA
12786214 GAAAAGTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (11 bp):
ATATATATATA
Found at i:12795050 original size:13 final size:13
Alignment explanation
Indices: 12795032--12795056 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12795022 AGAGAGACCG
12795032 GACATAGCCACCA
1 GACATAGCCACCA
12795045 GACATAGCCACC
1 GACATAGCCACC
12795057 TTTGTTTTAT
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:0.40, G:0.16, T:0.08
Consensus pattern (13 bp):
GACATAGCCACCA
Found at i:12797934 original size:36 final size:36
Alignment explanation
Indices: 12797883--12797972 Score: 108
Period size: 36 Copynumber: 2.5 Consensus size: 36
12797873 AGTACATCGA
* * *
12797883 TAATCCAACCAAAACACACAAGATGCTCGTAAGAGC
1 TAATCCATCCGAAACACACAAGATGCTCATAAGAGC
* *
12797919 TAATCCATCCGAAACAAACTAGATGCTCATAAGAGC
1 TAATCCATCCGAAACACACAAGATGCTCATAAGAGC
* **
12797955 TAATACATTTGAAACACA
1 TAATCCATCCGAAACACA
12797973 TTAATGGCTC
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.44, C:0.24, G:0.12, T:0.19
Consensus pattern (36 bp):
TAATCCATCCGAAACACACAAGATGCTCATAAGAGC
Found at i:12806899 original size:18 final size:17
Alignment explanation
Indices: 12806839--12806905 Score: 62
Period size: 18 Copynumber: 3.8 Consensus size: 17
12806829 TAGCTCACAC
* *
12806839 TTGATGTGCTCACAACT
1 TTGATGAGCTCGCAACT
* *
12806856 TAGGTCGAGCTCGCAACT
1 TTGAT-GAGCTCGCAACT
**
12806874 TTGATGAGCTCGCGTCT
1 TTGATGAGCTCGCAACT
12806891 TTGGATGAGCTCGCA
1 TT-GATGAGCTCGCA
12806906 GCTTCAGGTA
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
17 15 0.38
18 24 0.62
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.30
Consensus pattern (17 bp):
TTGATGAGCTCGCAACT
Found at i:12813289 original size:109 final size:108
Alignment explanation
Indices: 12813093--12813350 Score: 399
Period size: 109 Copynumber: 2.4 Consensus size: 108
12813083 AAGGAAAATT
* * * * *
12813093 TTTCTAAATAAGGTAATATTTTGCATTTGGAAATTTGAGAAAACGTGCCATAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCATAATGTGCTGGGTTT
*
12813158 CGACTTTTCTCGTTTGACCAAATAGCCAAATATCCTTTTAAAAA
66 CGACTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTT-AAAA
* *
12813202 TTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCATAATGTGCTGGGTTT
* *
12813267 TGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
66 CGACTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
* *
12813310 TTTCAAAGTAAGGCAATGTCTTGCGTTTGGAAATTCGAGAA
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAA
12813351 GGTCGTACCC
Statistics
Matches: 136, Mismatches: 13, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
108 42 0.31
109 94 0.69
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.35
Consensus pattern (108 bp):
TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCATAATGTGCTGGGTTT
CGACTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
Found at i:12813382 original size:109 final size:109
Alignment explanation
Indices: 12813093--12813382 Score: 359
Period size: 109 Copynumber: 2.7 Consensus size: 109
12813083 AAGGAAAATT
* * * * * * * * * *
12813093 TTTCTAAATAAGGTAATATTTTGCATTTGGAAATTTGAGAAAACGTGCCATAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTCTTGCGTTTGAAAATTCGAGAAAACGTACCCTAATGTACTGGGTTT
* *
12813158 CGACTTTTCTCGTTTGACCAAATAGCCAAATATCCTTTTAAAAA
66 CGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAA
* * *
12813202 TTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTCTTGCGTTTGAAAATTCGAGAAAACGTACCCTAATGTACTGGGTTT
*
12813267 TGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTT-AAAA
66 CGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAA
* * **
12813310 TTTCAAAGTAAGGCAATGTCTTGCGTTTGGAAATTCGAGAAGGTCGTACCCTAACT-TACTGGGT
1 TTTCAAAATAAGGCAATGTCTTGCGTTTGAAAATTCGAGAA-AACGTACCCTAA-TGTACTGGGT
*
12813374 TTCAATTTT
64 TTCGATTTT
12813383 CACGATGAAT
Statistics
Matches: 160, Mismatches: 19, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
108 42 0.26
109 117 0.73
110 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (109 bp):
TTTCAAAATAAGGCAATGTCTTGCGTTTGAAAATTCGAGAAAACGTACCCTAATGTACTGGGTTT
CGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAA
Found at i:12817982 original size:3 final size:3
Alignment explanation
Indices: 12817974--12818009 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
12817964 TAACAATAAA
12817974 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
12818010 CAATTGGTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:12819430 original size:45 final size:44
Alignment explanation
Indices: 12819314--12819445 Score: 158
Period size: 44 Copynumber: 3.0 Consensus size: 44
12819304 GCTATACGCT
* ****
12819314 TAAAATGAGTAAGACCATACCTGAAAGGCACTATGACATCATGA
1 TAAAATGAGTAAGACCATAACTGAAAGATGTTATGACATCATGA
* *
12819358 TAAAACT-AGTAAGACAATAACTAAAAGATGTTATGACATCATGA
1 TAAAA-TGAGTAAGACCATAACTGAAAGATGTTATGACATCATGA
* *
12819402 TAGAAATGAGTAAGACCATAGCTGAAAGATGTTAGGACATCATG
1 TA-AAATGAGTAAGACCATAACTGAAAGATGTTATGACATCATG
12819446 TGAAAACTTG
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
44 38 0.51
45 36 0.49
ACGTcount: A:0.45, C:0.14, G:0.19, T:0.23
Consensus pattern (44 bp):
TAAAATGAGTAAGACCATAACTGAAAGATGTTATGACATCATGA
Found at i:12819623 original size:33 final size:33
Alignment explanation
Indices: 12819581--12819646 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
12819571 CGGTATCATA
12819581 GATAATCCGATAGGATATTAAATGCGAGATGGT
1 GATAATCCGATAGGATATTAAATGCGAGATGGT
12819614 GATAATCCGATAGGATATTAAATGCGAGATGGT
1 GATAATCCGATAGGATATTAAATGCGAGATGGT
12819647 CAATCAAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.09, G:0.27, T:0.27
Consensus pattern (33 bp):
GATAATCCGATAGGATATTAAATGCGAGATGGT
Found at i:12820812 original size:22 final size:22
Alignment explanation
Indices: 12820764--12820816 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
12820754 TACTTATTCG
*
12820764 TATATATATATTTATATATTAA
1 TATATGTATATTTATATATTAA
* *
12820786 AATATGTATATTTTTATATGT-A
1 TATATGTATATTTATATAT-TAA
12820808 TATATGTAT
1 TATATGTAT
12820817 GTATTTCTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.55
Consensus pattern (22 bp):
TATATGTATATTTATATATTAA
Found at i:12827481 original size:45 final size:45
Alignment explanation
Indices: 12827361--12827491 Score: 156
Period size: 44 Copynumber: 2.9 Consensus size: 45
12827351 CAGATCAGTA
* * *
12827361 AAGATAGCAGATCTTGCCTTCCTGTACTGGCAGTGAAGCAGATTG
1 AAGATAGCAGATCTTGTCTTCCTGTACTGACAGTGAAGCAGACTG
* * * *
12827406 AAGACACCAG-CCTTGTATTCCTGTACTGACAGTGAAGCAGACTG
1 AAGATAGCAGATCTTGTCTTCCTGTACTGACAGTGAAGCAGACTG
* * * *
12827450 AAGATAGGAGATCTTGTCTTCTTGTACTGACAGCGAATCAGA
1 AAGATAGCAGATCTTGTCTTCCTGTACTGACAGTGAAGCAGA
12827492 TCGAAACCAC
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
44 36 0.51
45 34 0.49
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (45 bp):
AAGATAGCAGATCTTGTCTTCCTGTACTGACAGTGAAGCAGACTG
Found at i:12827657 original size:132 final size:132
Alignment explanation
Indices: 12827504--12828531 Score: 1456
Period size: 132 Copynumber: 7.8 Consensus size: 132
12827494 GAAACCACTG
* * * *
12827504 GTCCTATCTCTCTAAGCAGTAGCGGAGTAGGTCGAAGATTGTAGATTCTGTCTCCCTAAGCAGTA
1 GTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTA
* *
12827569 GTGGAGCAGATCGAAGATGGCGAATCTTATTTTCCCAAGATAATGGAGAAGCAGATTTAAGCCAT
66 GTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCAT
12827634 TA
131 TA
* *
12827636 GTCCTATCTCCCTAAGCAGTAGTGGAATAGGTTGAAGATTGCAGATTCTGTCTTCCTAAGCAGTA
1 GTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTA
* * *
12827701 GTGGAACAGATCGAAGATTGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCAT
66 GTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCAT
12827766 TA
131 TA
* * * *
12827768 GTCCTATCTCCCTAAGTACTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCTTAAGCAATA
1 GTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTA
* *
12827833 GTGGAGCAGATCGAATATGGCGAATCTTATCTTCCCAAGATAGTGGAGAAGTAGATTTAAGCCAT
66 GTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCAT
12827898 TA
131 TA
* *
12827900 GTCCTATTTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGTAGTA
1 GTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTA
** * *
12827965 GTGGAATAGATTGAAGATGGCGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCTAT
66 GTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCAT
12828030 TA
131 TA
* *
12828032 GTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATTATGTCTCCCTAAGCAGTA
1 GTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTA
* * * *
12828097 GTGGAGTAGATCGAAGATAGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGTCAT
66 GTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCAT
12828162 TA
131 TA
*
12828164 GTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTATGTCTCCCTAAGCAGTA
1 GTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTA
* * *
12828229 GTAGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAAGATAGT-GAGGAAGCAGATTTAAGCCA
66 GTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCAAGATAGTGGA-GAAGCAGATTTAAGCCA
12828293 TTA
130 TTA
* *
12828296 GTCCTATCT-CCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATCCTGTCTCCCTAAACAGTA
1 GTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTA
* * * * * **
12828360 GTGGAGCAGATTGAAGACGGC-AGATCTTATCTTCCTATACTATACTGGCAGTGAAGCAGATCGA
66 GTGGAGCAGATCGAAGATGGCGA-ATCTTATCTTCCCA-A-GATAGTGG-A--GAAGCAGAT-TT
* *
12828424 AAG-TACTA
124 AAGCCATTA
* * * * * * *
12828432 GTCATATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATGGTAGA-GCTTATCTCCCTAAGCAAT
1 GTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTC-TGTCTCCCTAAGCAGT
* *
12828496 AGTGGAGCAGATCGAAGATGGTGAATATTA-CTTCCC
65 AGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCC
12828532 TGGCGGTGTA
Statistics
Matches: 806, Mismatches: 79, Indels: 18
0.89 0.09 0.02
Matches are distributed among these distances:
130 1 0.00
131 83 0.10
132 617 0.77
133 4 0.00
134 1 0.00
135 1 0.00
136 26 0.03
137 72 0.09
138 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (132 bp):
GTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCAT
TA
Found at i:12827717 original size:44 final size:44
Alignment explanation
Indices: 12827507--12828376 Score: 206
Period size: 44 Copynumber: 19.8 Consensus size: 44
12827497 ACCACTGGTC
* * ** * *
12827507 CTATCTCTCTAAGCAGTAGCGGAGTAGGTCGAAGATTGTAGATT
1 CTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGATTGCAGATT
* * * *
12827551 CTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGC-GAAT
1 CTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGATTGCAGATT
* * ** *
12827594 CTTATTTTCCC-AAG-A-TAATGGAGAAGCAGATTTAAGCCATT--AG-TC
1 C-TA-TCTCCCTAAGCAGTAGT-G-GAA-CAGATCGAAG--ATTGCAGATT
* * *
12827639 CTATCTCCCTAAGCAGTAGTGGAATAGGTTGAAGATTGCAGATT
1 CTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGATTGCAGATT
* * * *
12827683 CTGTCTTCCTAAGCAGTAGTGGAACAGATCGAAGATTG-TGAAT
1 CTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGATTGCAGATT
** *
12827726 CTTATCTTCCC-AAG-A-TAGTGGAGAAGCAGATTTAAGCCATT--AG-TC
1 C-TATC-TCCCTAAGCAGTAGT-G-GAA-CAGATCGAAG--ATTGCAGATT
* * ** * *
12827771 CTATCTCCCTAAGTACTAGTGGAGTAGGTTGAAGATTGCAGATT
1 CTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGATTGCAGATT
* * * * * * *
12827815 CTGTCTCCTTAAGCAATAGTGGAGCAGATCGAATATGGC-GAAT
1 CTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGATTGCAGATT
* ** *
12827858 CTTATCTTCCC-AAG-A-TAGTGGAGAAGTAGATTTAAGCCATT--AG-TC
1 C-TATC-TCCCTAAGCAGTAGT-G-GAA-CAGATCGAAG--ATTGCAGATT
* ** * *
12827903 CTATTTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATT
1 CTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGATTGCAGATT
* * * * * *
12827947 CTGTCTCCCTAAGTAGTAGTGGAATAGATTGAAGATGGC-GAAT
1 CTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGATTGCAGATT
** *
12827990 CTTATCTTCCC-AAG-A-TAGTGGAGAAGCAGATTTAAGCTATT--AG-TC
1 C-TATC-TCCCTAAGCAGTAGT-G-GAA-CAGATCGAAG--ATTGCAGATT
** * * *
12828035 CTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATT
1 CTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGATTGCAGATT
* * ** * * *
12828079 ATGTCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATAG-TGAAT
1 CTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGATTGCAGATT
** *
12828122 CTTATCTTCCC-AAG-A-TAGTGGAGAAGCAGATTTAAGTCATT--AG-TC
1 C-TATC-TCCCTAAGCAGTAGT-G-GAA-CAGATCGAAG--ATTGCAGATT
** * *
12828167 CTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATT
1 CTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGATTGCAGATT
* * * * * ** *
12828211 ATGTCTCCCTAAGCAGTAGTAGAGCAGATCAAAGA-TGGTGAAT
1 CTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGATTGCAGATT
** *
12828254 CTTATCTTCCC-AAG-A-TAGTGAGGAAGCAGATTTAAGCCATT--AG-TC
1 C-TATC-TCCCTAAGCAGTAGT--GGAA-CAGATCGAAG--ATTGCAGATT
** * * *
12828299 CTATCT-CCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATC
1 CTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGATTGCAGATT
* * * *
12828342 CTGTCTCCCTAAACAGTAGTGGAGCAGATTGAAGA
1 CTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGA
12828377 CGGCAGATCT
Statistics
Matches: 609, Mismatches: 134, Indels: 166
0.67 0.15 0.18
Matches are distributed among these distances:
40 3 0.00
41 15 0.02
42 34 0.06
43 116 0.19
44 315 0.52
45 88 0.14
46 25 0.04
47 12 0.02
48 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (44 bp):
CTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGATTGCAGATT
Found at i:12828383 original size:44 final size:43
Alignment explanation
Indices: 12828297--12828396 Score: 119
Period size: 44 Copynumber: 2.3 Consensus size: 43
12828287 AAGCCATTAG
* * * **
12828297 TCCTATCTCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGA
1 TCCTATCTCCTAAACAGTAGTGGAGCAGATTGAAGACGGCAGA
*
12828340 TCCTGTCTCCCTAAACAGTAGTGGAGCAGATTGAAGACGGCAGA
1 TCCTATCT-CCTAAACAGTAGTGGAGCAGATTGAAGACGGCAGA
*
12828384 TCTTATCTTCCTA
1 TCCTATC-TCCTA
12828397 TACTATACTG
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
43 7 0.15
44 39 0.83
45 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (43 bp):
TCCTATCTCCTAAACAGTAGTGGAGCAGATTGAAGACGGCAGA
Found at i:12829154 original size:14 final size:13
Alignment explanation
Indices: 12829128--12829152 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12829118 ACAACAAGTA
12829128 AAGGGGGATTTTG
1 AAGGGGGATTTTG
12829141 AAGGGGGATTTT
1 AAGGGGGATTTT
12829153 TGTTTTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.32
Consensus pattern (13 bp):
AAGGGGGATTTTG
Found at i:12829358 original size:72 final size:73
Alignment explanation
Indices: 12829275--12829426 Score: 279
Period size: 72 Copynumber: 2.1 Consensus size: 73
12829265 CCGACCCGGG
*
12829275 AAAAAATTCATAAGCCCGGGCCCGGCCCGGCCCGTTTTTTAAATAAATACCAAAAATTTATTTT-
1 AAAAAATTCATAAGCCCGGGCCCAGCCCGGCCCGTTTTTTAAATAAATACCAAAAATTTATTTTA
12829339 AAAATTAA
66 AAAATTAA
12829347 AAAAAATTCATAAGCCCGGGCCCAGCCCGGCCCGTTTTTTAAATAAATACCAAAAATTTATTTTA
1 AAAAAATTCATAAGCCCGGGCCCAGCCCGGCCCGTTTTTTAAATAAATACCAAAAATTTATTTTA
12829412 AAAATTAA
66 AAAATTAA
12829420 AACAAAA
1 AA-AAAA
12829427 ATTAAAAAAA
Statistics
Matches: 77, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
72 63 0.82
73 10 0.13
74 4 0.05
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.26
Consensus pattern (73 bp):
AAAAAATTCATAAGCCCGGGCCCAGCCCGGCCCGTTTTTTAAATAAATACCAAAAATTTATTTTA
AAAATTAA
Found at i:12829452 original size:11 final size:11
Alignment explanation
Indices: 12829432--12829538 Score: 65
Period size: 11 Copynumber: 10.4 Consensus size: 11
12829422 CAAAAATTAA
12829432 AAAAAGTATTTT
1 AAAAA-TATTTT
12829444 AAAAATATTTT
1 AAAAATATTTT
12829455 --AAA-A--TT
1 AAAAATATTTT
* *
12829461 AAAAA-AATTA
1 AAAAATATTTT
12829471 AAAAAGTATTTT
1 AAAAA-TATTTT
*
12829483 AAAAAAATTTT
1 AAAAATATTTT
12829494 --AAA-A-TTT
1 AAAAATATTTT
12829501 AAAAA-ATTTT
1 AAAAATATTTT
12829511 AAAAAAGTATTTT
1 -AAAAA-TATTTT
*
12829524 AAAAGTATTTT
1 AAAAATATTTT
12829535 AAAA
1 AAAA
12829539 TTAAAAAAAT
Statistics
Matches: 78, Mismatches: 5, Indels: 25
0.72 0.05 0.23
Matches are distributed among these distances:
6 2 0.03
7 3 0.04
8 6 0.08
9 10 0.13
10 9 0.12
11 26 0.33
12 17 0.22
13 5 0.06
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:12829505 original size:30 final size:29
Alignment explanation
Indices: 12829464--12829527 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 29
12829454 TAAAATTAAA
12829464 AAAATTAAAAAAGTATTTTAAAAAA-ATTTT
1 AAAATTAAAAAA--ATTTTAAAAAAGATTTT
*
12829494 AAAATTTAAAAAATTTTAAAAAAGTATTTT
1 AAAATTAAAAAAATTTTAAAAAAG-ATTTT
12829524 AAAA
1 AAAA
12829528 GTATTTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 11 0.35
30 20 0.65
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (29 bp):
AAAATTAAAAAAATTTTAAAAAAGATTTT
Found at i:12829550 original size:41 final size:41
Alignment explanation
Indices: 12829405--12829556 Score: 218
Period size: 41 Copynumber: 3.7 Consensus size: 41
12829395 ACCAAAAATT
* *
12829405 TATTTTAAAAATTAAAACAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATT-AAA-AAAATTTTAAAAAAGTATTTTAAAAA
12829449 TATTTTAAAATTAAAAAAA--TTAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAATTTTAAAAAAGTATTTTAAAAA
* * *
12829488 AATTTTAAAATTTAAAAAATTTTAAAAAAGTATTTTAAAAG
1 TATTTTAAAATTAAAAAAATTTTAAAAAAGTATTTTAAAAA
12829529 TATTTTAAAATTAAAAAAATTTTAAAAA
1 TATTTTAAAATTAAAAAAATTTTAAAAA
12829557 TAAAAATATT
Statistics
Matches: 100, Mismatches: 6, Indels: 7
0.88 0.05 0.06
Matches are distributed among these distances:
39 36 0.36
41 49 0.49
42 3 0.03
43 6 0.06
44 6 0.06
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.36
Consensus pattern (41 bp):
TATTTTAAAATTAAAAAAATTTTAAAAAAGTATTTTAAAAA
Found at i:12829553 original size:11 final size:11
Alignment explanation
Indices: 12829459--12829556 Score: 58
Period size: 11 Copynumber: 9.6 Consensus size: 11
12829449 TATTTTAAAA
12829459 TTAAAAAAA--
1 TTAAAAAAATT
12829468 TTAAAAAAGTATT
1 TTAAAAAA--ATT
12829481 TTAAAAAAATT
1 TTAAAAAAATT
12829492 TT---AAAA-T
1 TTAAAAAAATT
12829499 TT-AAAAAATT
1 TTAAAAAAATT
12829509 TTAAAAAAGTATT
1 TTAAAAAA--ATT
**
12829522 TTAAAAGTATT
1 TTAAAAAAATT
12829533 TT---AAAA--
1 TTAAAAAAATT
12829539 TTAAAAAAATT
1 TTAAAAAAATT
12829550 TTAAAAA
1 TTAAAAA
12829557 TAAAAATATT
Statistics
Matches: 70, Mismatches: 4, Indels: 28
0.69 0.04 0.27
Matches are distributed among these distances:
6 2 0.03
7 3 0.04
8 6 0.09
9 16 0.23
10 3 0.04
11 23 0.33
13 17 0.24
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
TTAAAAAAATT
Found at i:12829568 original size:16 final size:17
Alignment explanation
Indices: 12829482--12829567 Score: 64
Period size: 17 Copynumber: 4.6 Consensus size: 17
12829472 AAAAGTATTT
*
12829482 TAAAAAAATTTTAAAAT
1 TAAAAAAATTTTAAAAA
*
12829499 TTAAAAAATTTTAAAAAA
1 TAAAAAAATTTT-AAAAA
* *
12829517 GTATTTTAAAAGTATTTTAAAAT
1 -TA----AAAA-AATTTTAAAAA
12829540 TAAAAAAATTTTAAAAA
1 TAAAAAAATTTTAAAAA
*
12829557 TAAAAATATTT
1 TAAAAAAATTT
12829568 ATTATATTCG
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
17 30 0.56
18 8 0.15
19 1 0.02
22 2 0.04
23 8 0.15
24 5 0.09
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.38
Consensus pattern (17 bp):
TAAAAAAATTTTAAAAA
Found at i:12830790 original size:22 final size:22
Alignment explanation
Indices: 12830742--12830794 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
12830732 TACTTATTCG
*
12830742 TATATATATATTTATATATTAA
1 TATATGTATATTTATATATTAA
* *
12830764 AATATGTATATTTTTATATGT-A
1 TATATGTATATTTATATAT-TAA
12830786 TATATGTAT
1 TATATGTAT
12830795 GTATTTCTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.55
Consensus pattern (22 bp):
TATATGTATATTTATATATTAA
Found at i:12832131 original size:67 final size:65
Alignment explanation
Indices: 12832021--12832233 Score: 245
Period size: 67 Copynumber: 3.2 Consensus size: 65
12832011 GATTATGGGG
* * * * * *
12832021 GTAAGACCATAGTTAGACTATGTCAACTATTGGAATCCACCAAGACATTAAACATGAAACCTAAT
1 GTAAGACCATAGTTAGACTATG-CAACCAATGGAGTTCGCCAAGACATTAAACATGGAACCTAA-
12832086 GA
64 GA
*
12832088 GTAAGACCATAGTTTGACTATGGCAACCAATGGAGTTCGCCAAGACATTAAACATGGAACCTGAA
1 GTAAGACCATAGTTAGACTAT-GCAACCAATGGAGTTCGCCAAGACATTAAACATGGAACCT-AA
*
12832153 GG
64 GA
* * *
12832155 GTAAGACCATAGTTCG-GT-T--AACCAATGGAGTTCGTCAAGACATTAAACATGGAACCTAACG
1 GTAAGACCATAGTTAGACTATGCAACCAATGGAGTTCGCCAAGACATTAAACATGGAACCTAA-G
12832216 A
65 A
12832217 GTAAGACCATAGGTTAG
1 GTAAGACCATA-GTTAG
12832234 CTGTGGAAGT
Statistics
Matches: 129, Mismatches: 13, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
61 2 0.02
62 49 0.38
63 4 0.03
65 1 0.01
66 1 0.01
67 69 0.53
68 3 0.02
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.23
Consensus pattern (65 bp):
GTAAGACCATAGTTAGACTATGCAACCAATGGAGTTCGCCAAGACATTAAACATGGAACCTAAGA
Found at i:12834478 original size:20 final size:22
Alignment explanation
Indices: 12834444--12834499 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 22
12834434 TTGTCACAAT
* *
12834444 ACATA-GTCTTAAGACAATG-A
1 ACATATGTCTTGAGACAAAGCA
12834464 AC-TATGTCTTGAGACAAAGCA
1 ACATATGTCTTGAGACAAAGCA
*
12834485 ACATATGTCTCGAGA
1 ACATATGTCTTGAGA
12834500 TAAAACTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 2 0.07
20 14 0.47
21 3 0.10
22 11 0.37
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (22 bp):
ACATATGTCTTGAGACAAAGCA
Found at i:12842161 original size:110 final size:110
Alignment explanation
Indices: 12841968--12842189 Score: 444
Period size: 110 Copynumber: 2.0 Consensus size: 110
12841958 AACTTGTTTG
12841968 TAAATTGGTTTCTCACCATTTGCGACCAGTTCAGGCAACGGTCCTATCATATCAGCAGGTCTTGG
1 TAAATTGGTTTCTCACCATTTGCGACCAGTTCAGGCAACGGTCCTATCATATCAGCAGGTCTTGG
12842033 ATTCACAAAAACAGGGACTGAAATTCTGTTCTTACTTCCATTAGC
66 ATTCACAAAAACAGGGACTGAAATTCTGTTCTTACTTCCATTAGC
12842078 TAAATTGGTTTCTCACCATTTGCGACCAGTTCAGGCAACGGTCCTATCATATCAGCAGGTCTTGG
1 TAAATTGGTTTCTCACCATTTGCGACCAGTTCAGGCAACGGTCCTATCATATCAGCAGGTCTTGG
12842143 ATTCACAAAAACAGGGACTGAAATTCTGTTCTTACTTCCATTAGC
66 ATTCACAAAAACAGGGACTGAAATTCTGTTCTTACTTCCATTAGC
12842188 TA
1 TA
12842190 CCACACGATG
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 112 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (110 bp):
TAAATTGGTTTCTCACCATTTGCGACCAGTTCAGGCAACGGTCCTATCATATCAGCAGGTCTTGG
ATTCACAAAAACAGGGACTGAAATTCTGTTCTTACTTCCATTAGC
Found at i:12851979 original size:46 final size:46
Alignment explanation
Indices: 12851912--12852003 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
12851902 GTTTCTCACC
*
12851912 ATTTGCGACCAGTTCAGGCAATGGTCCTATCATATCAACAGGTCTT
1 ATTTGCGACCAATTCAGGCAATGGTCCTATCATATCAACAGGTCTT
**
12851958 ATTTGCGACCAATTCAGGCAATGGTCCTATCATATCAGTAGGTCTT
1 ATTTGCGACCAATTCAGGCAATGGTCCTATCATATCAACAGGTCTT
12852004 GGATTCACAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.32
Consensus pattern (46 bp):
ATTTGCGACCAATTCAGGCAATGGTCCTATCATATCAACAGGTCTT
Found at i:12853771 original size:5 final size:6
Alignment explanation
Indices: 12853754--12853783 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
12853744 AAATGCAACG
12853754 ATAAAA ATAAAA ATAAAA AT-AAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA A
12853784 AATTATTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
ATAAAA
Found at i:12853784 original size:12 final size:12
Alignment explanation
Indices: 12853754--12853783 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
12853744 AAATGCAACG
12853754 ATAAAAATAAAA
1 ATAAAAATAAAA
12853766 ATAAAAAT-AAA
1 ATAAAAATAAAA
12853777 ATAAAAA
1 ATAAAAA
12853784 AATTATTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (12 bp):
ATAAAAATAAAA
Found at i:12857548 original size:46 final size:46
Alignment explanation
Indices: 12857477--12857569 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
12857467 ACAAAGGAAG
*
12857477 TGAGATTAAACCTTAAAAGGCTGGAATCAGAGAATGAGTTTTCACT
1 TGAGATTAAACCTTAAAAGGCTGGAAACAGAGAATGAGTTTTCACT
*
12857523 TGAGATTAAACCTTAAAAGGTTGGAAACAGAGAATGAGTTTTCACT
1 TGAGATTAAACCTTAAAAGGCTGGAAACAGAGAATGAGTTTTCACT
12857569 T
1 T
12857570 CGTTAATTGA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.29
Consensus pattern (46 bp):
TGAGATTAAACCTTAAAAGGCTGGAAACAGAGAATGAGTTTTCACT
Found at i:12862058 original size:12 final size:12
Alignment explanation
Indices: 12862041--12862067 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
12862031 AGTTGCATCA
12862041 GTGACAATGCTT
1 GTGACAATGCTT
12862053 GTGACAATGCTT
1 GTGACAATGCTT
12862065 GTG
1 GTG
12862068 GTAGTAGGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (12 bp):
GTGACAATGCTT
Found at i:12863988 original size:42 final size:42
Alignment explanation
Indices: 12863929--12864010 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
12863919 ATTTTTATTT
* *
12863929 AGATGCAATTGGTTTAATTAACAACTATCAAATAAGAAATTC
1 AGATGCAATTGGATTAATTAACAACTATAAAATAAGAAATTC
*
12863971 AGATGCAATTGGATTAATTAACAATTATAAAATAAGAAAT
1 AGATGCAATTGGATTAATTAACAACTATAAAATAAGAAAT
12864011 AGCACCTAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (42 bp):
AGATGCAATTGGATTAATTAACAACTATAAAATAAGAAATTC
Found at i:12866424 original size:20 final size:21
Alignment explanation
Indices: 12866396--12866436 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
12866386 TACCATTTTT
12866396 AAATATATAT-TTTTTATAAA
1 AAATATATATATTTTTATAAA
* *
12866416 AAATTTATATATTTTTTTAAA
1 AAATATATATATTTTTATAAA
12866437 TAAAAATGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
AAATATATATATTTTTATAAA
Found at i:12866443 original size:24 final size:24
Alignment explanation
Indices: 12866398--12866443 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
12866388 CCATTTTTAA
*
12866398 ATATATATTTTTTATAAAAAATTT
1 ATATATATTTTTTAAAAAAAATTT
12866422 ATATAT-TTTTTTAAATAAAAAT
1 ATATATATTTTTTAAA-AAAAAT
12866444 GTATTACTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
ATATATATTTTTTAAAAAAAATTT
Found at i:12867485 original size:16 final size:18
Alignment explanation
Indices: 12867452--12867489 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
12867442 TTTTTACATT
12867452 TTTTTTTCACAATATTCA
1 TTTTTTTCACAATATTCA
*
12867470 TTTTTTT-A-AATTTTCA
1 TTTTTTTCACAATATTCA
12867486 TTTT
1 TTTT
12867490 AAACCATGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 11 0.58
17 1 0.05
18 7 0.37
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTTTTCACAATATTCA
Found at i:12872395 original size:128 final size:129
Alignment explanation
Indices: 12872161--12872419 Score: 430
Period size: 128 Copynumber: 2.0 Consensus size: 129
12872151 GCAACAGAGG
*
12872161 CAAACGTCTCTTGATAGTCTACTCCATAAGTTTGAGTGAAGCCTTTAGCAACCAATCTGACTTTG
1 CAAACGTCTCTTGATAGTCTACT-CATAAGTTTGAGTGAAACCTTTAGCAACCAATCTGACTTTG
* * *
12872226 TACCTTTCAATTGAACCATCAGACTTGTGTTTCACAGTAAACACCCGTTTGCATCCTACCAAATT
65 TACCTTTCAATAGAACCATCAGACTTGTATTTCACAATAAACACCCGTTTGCATCCTACCAAATT
* *
12872291 CAAACGTCTCTTGATATTCTACT-ATAAGTTTGAGTGAAACCTTTAGCAACCAATCTGGCTTTGT
1 CAAACGTCTCTTGATAGTCTACTCATAAGTTTGAGTGAAACCTTTAGCAACCAATCTGACTTTGT
* *
12872355 ACCTTTCAATAGAACCATCAGACTTGTATTTCACAATAAACATCCGTTTGCATCCTATCAAATT
66 ACCTTTCAATAGAACCATCAGACTTGTATTTCACAATAAACACCCGTTTGCATCCTACCAAATT
12872419 C
1 C
12872420 TTGTCTACTA
Statistics
Matches: 121, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
128 99 0.82
130 22 0.18
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (129 bp):
CAAACGTCTCTTGATAGTCTACTCATAAGTTTGAGTGAAACCTTTAGCAACCAATCTGACTTTGT
ACCTTTCAATAGAACCATCAGACTTGTATTTCACAATAAACACCCGTTTGCATCCTACCAAATT
Found at i:12883663 original size:20 final size:20
Alignment explanation
Indices: 12883638--12883683 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
12883628 ATATTTATTT
12883638 TCCTTTTCTCGTTAACCTTA
1 TCCTTTTCTCGTTAACCTTA
12883658 TCCTTTTCTCGTTAACCTTA
1 TCCTTTTCTCGTTAACCTTA
12883678 TCCTTT
1 TCCTTT
12883684 ACAGCATTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.13, C:0.30, G:0.04, T:0.52
Consensus pattern (20 bp):
TCCTTTTCTCGTTAACCTTA
Found at i:12887770 original size:19 final size:19
Alignment explanation
Indices: 12887754--12887802 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
12887744 ATTTAAATTT
12887754 CAAAATAACTTCAAAATGTA
1 CAAAATAA-TTCAAAATGTA
*
12887774 CAATATAATTCAAAATGTA
1 CAAAATAATTCAAAATGTA
*
12887793 CAATATAATT
1 CAAAATAATT
12887803 AAATAATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.53, C:0.12, G:0.04, T:0.31
Consensus pattern (19 bp):
CAAAATAATTCAAAATGTA
Found at i:12887832 original size:14 final size:14
Alignment explanation
Indices: 12887794--12887836 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
12887784 CAAAATGTAC
12887794 AATATAATTAAA-T
1 AATATAATTAAATT
12887807 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
12887822 AA-ATAATTTAATT
1 AATATAATTAAATT
12887835 AA
1 AA
12887837 CTATTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:12890309 original size:3 final size:3
Alignment explanation
Indices: 12890301--12890353 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
12890291 ACAATTTAAG
* * ** * *
12890301 AAT AAT AAT ATT AAT AAT AAT AAT GAT GGT ATT AAT AAT AAT AAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
12890349 AAT AA
1 AAT AA
12890354 AAATCTAAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:12892581 original size:3 final size:3
Alignment explanation
Indices: 12892573--12892628 Score: 103
Period size: 3 Copynumber: 18.3 Consensus size: 3
12892563 TAATGTGTGC
12892573 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
12892621 TAT GTAT T
1 TAT -TAT T
12892629 CTTNNNNNNN
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 49 0.94
4 3 0.06
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:12899042 original size:7 final size:7
Alignment explanation
Indices: 12899030--12899083 Score: 58
Period size: 7 Copynumber: 8.0 Consensus size: 7
12899020 GGCACTCTGA
12899030 AAAAATG
1 AAAAATG
12899037 AAAAATG
1 AAAAATG
*
12899044 -AGAATG
1 AAAAATG
*
12899050 AAAATTG
1 AAAAATG
*
12899057 AAAAAAG
1 AAAAATG
12899064 -AAAATG
1 AAAAATG
*
12899070 AAAATTG
1 AAAAATG
12899077 AAAAATG
1 AAAAATG
12899084 GAGAAGCTAA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
6 10 0.27
7 27 0.73
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (7 bp):
AAAAATG
Found at i:12899058 original size:20 final size:20
Alignment explanation
Indices: 12899030--12899088 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
12899020 GGCACTCTGA
*
12899030 AAAAATGAAAAATGAGAATG
1 AAAATTGAAAAATGAGAATG
* *
12899050 AAAATTGAAAAAAGAAAATG
1 AAAATTGAAAAATGAGAATG
12899070 AAAATTGAAAAATGGAGAA
1 AAAATTGAAAAAT-GAGAA
12899089 GCTAAGGGGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
20 29 0.88
21 4 0.12
ACGTcount: A:0.66, C:0.00, G:0.19, T:0.15
Consensus pattern (20 bp):
AAAATTGAAAAATGAGAATG
Found at i:12900513 original size:41 final size:42
Alignment explanation
Indices: 12900356--12900687 Score: 138
Period size: 44 Copynumber: 7.6 Consensus size: 42
12900346 AGCCAGAGAT
* * * * *
12900356 CTTATCTCCCTG-AGATTACAGCGGAGCAGATCGAAGACACTATC
1 CTTATCTCCCTGAAG-TTACAGTGGAGCAGGTC-AA-ATACAAGC
* * *
12900400 C-TATCTCCCTGAAGTTATAGTGGAGCAGATTAAAATA-AAGGATC
1 CTTATCTCCCTGAAGTTACAGTGGAGCAG-GTCAAATACAA-G--C
** ** **
12900444 C-TATCTCTTTGAAGTTACAGCAGAGCAGGTCGCATA-AAGC
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGGTCAAATACAAGC
* * *
12900484 CTTATCTCCCTGAAGTTACAGTGGGGCAGGTTAAATATGCAAGT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGGTCAAATA--CAAGC
* * ** * *
12900528 CTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTC-AGAT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGGTC--A-AA-TACAAG-C
* * ** *
12900574 CTTATCTCCCTG-AGATTACAGAGGAGCAGATCGAAGCCACAAAC
1 CTTATCTCCCTGAAG-TTACAGTGGAGCAGGTC-AA-ATACAAGC
* * * *
12900618 CTTATCTCCCTAAAGTTACAGTGGGGCAGGTTAAATATGCAAGT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGGTCAAATA--CAAGC
* *
12900662 CTTATCTCCTTGAGGTTACAGTGGAG
1 CTTATCTCCCTGAAGTTACAGTGGAG
12900688 TAGACCGAAG
Statistics
Matches: 213, Mismatches: 55, Indels: 40
0.69 0.18 0.13
Matches are distributed among these distances:
40 2 0.01
41 28 0.13
42 4 0.02
43 32 0.15
44 108 0.51
45 7 0.03
46 29 0.14
47 2 0.01
48 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (42 bp):
CTTATCTCCCTGAAGTTACAGTGGAGCAGGTCAAATACAAGC
Found at i:12900546 original size:44 final size:44
Alignment explanation
Indices: 12900484--12900687 Score: 162
Period size: 44 Copynumber: 4.6 Consensus size: 44
12900474 CGCATAAAGC
* *
12900484 CTTATCTCCCTGAAGTTACAGTGGGGCAGGTTAAATATGCAAGT
1 CTTATCTCCCTGAGGTTACAGTGGAGCAGGTTAAATATGCAAGT
* * *
12900528 CTTATCTCCCTGAGGTTACAGTGGAGTAGACCG-AAGAAT-TTC-AGAT
1 CTTATCTCCCTGAGGTTACAGTGGAGCAG---GTTA-AATATGCAAG-T
* * * ** **** **
12900574 CTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCACAAAC
1 CTTATCTCCCTGAGGTTACAGTGGAGCAGGTTAAATATGCAAGT
* * *
12900618 CTTATCTCCCTAAAGTTACAGTGGGGCAGGTTAAATATGCAAGT
1 CTTATCTCCCTGAGGTTACAGTGGAGCAGGTTAAATATGCAAGT
*
12900662 CTTATCTCCTTGAGGTTACAGTGGAG
1 CTTATCTCCCTGAGGTTACAGTGGAG
12900688 TAGACCGAAG
Statistics
Matches: 118, Mismatches: 34, Indels: 16
0.70 0.20 0.10
Matches are distributed among these distances:
43 2 0.02
44 79 0.67
45 3 0.03
46 30 0.25
47 4 0.03
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (44 bp):
CTTATCTCCCTGAGGTTACAGTGGAGCAGGTTAAATATGCAAGT
Found at i:12900546 original size:85 final size:86
Alignment explanation
Indices: 12900353--12900548 Score: 202
Period size: 85 Copynumber: 2.3 Consensus size: 86
12900343 AGAAGCCAGA
* * * *
12900353 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTAT
1 GATCTTATCTCCCTGAGGTTACAGCAGAGCAGATCGAAGACAC-AGCCTATCTCCCTGAAGTTAC
12900418 AGTGGAGCAGATTAAAATAAAG
65 AGTGGAGCAGATTAAAATAAAG
* ** * * * *
12900440 GATCCTATCTCTTTGAAGTTACAGCAGAGCAGGTCGCATA-A-AGCCTTATCTCCCTGAAGTTAC
1 GATCTTATCTCCCTGAGGTTACAGCAGAGCAGATCGAAGACACAGCC-TATCTCCCTGAAGTTAC
* * *
12900503 AGTGGGGCAGGTTAAATATGCAA-
65 AGTGGAGCAGATTAAA-AT-AAAG
12900526 G-TCTTATCTCCCTGAGGTTACAG
1 GATCTTATCTCCCTGAGGTTACAG
12900549 TGGAGTAGAC
Statistics
Matches: 88, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
84 3 0.03
85 48 0.55
86 4 0.05
87 33 0.38
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (86 bp):
GATCTTATCTCCCTGAGGTTACAGCAGAGCAGATCGAAGACACAGCCTATCTCCCTGAAGTTACA
GTGGAGCAGATTAAAATAAAG
Found at i:12900584 original size:46 final size:46
Alignment explanation
Indices: 12900527--12900718 Score: 148
Period size: 44 Copynumber: 4.3 Consensus size: 46
12900517 AATATGCAAG
*
12900527 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCAGA
* * * * *
12900573 TCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCA---CAAA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAG-AATTTCAGA
* * * * * *
12900617 CCTTATCTCCCTAAAGTTACAGTGGGGCAG---GTTA-AATATGCA-A
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCG-AAGAAT-TTCAGA
* * *
12900660 GTCTTATCTCCTTGAGGTTACAGTGGAGTAGACCGAAGAATTTTAGA
1 -TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCAGA
*
12900707 TCCTATCTCCCT
1 TCTTATCTCCCT
12900719 AAGCAGTAGT
Statistics
Matches: 109, Mismatches: 25, Indels: 24
0.69 0.16 0.15
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 1 0.01
43 1 0.01
44 53 0.49
46 46 0.42
47 6 0.06
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (46 bp):
TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCAGA
Found at i:12900764 original size:134 final size:133
Alignment explanation
Indices: 12900487--12900742 Score: 415
Period size: 134 Copynumber: 1.9 Consensus size: 133
12900477 ATAAAGCCTT
*
12900487 ATCTCCCTGAAGTTACAGTGGGGCAGGTTAAATATGCAAGTCTTATCTCCCTGAGGTTACAGTGG
1 ATCTCCCTAAAGTTACAGTGGGGCAGGTTAAATATGCAAGTCTTATCTCCCTGAGGTTACAGTGG
* * *
12900552 AGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCACAAA
66 AGTAGACCGAAGAATTTCAGATCCTATCTCCCTAAGAGTA-AGAGGAGCAGATCGAAGCCACAAA
*
12900617 CCTT
130 CCTC
*
12900621 ATCTCCCTAAAGTTACAGTGGGGCAGGTTAAATATGCAAGTCTTATCTCCTTGAGGTTACAGTGG
1 ATCTCCCTAAAGTTACAGTGGGGCAGGTTAAATATGCAAGTCTTATCTCCCTGAGGTTACAGTGG
* *
12900686 AGTAGACCGAAGAATTTTAGATCCTATCTCCCTAAGCAGT-AGTGGAGCAGATCGAAG
66 AGTAGACCGAAGAATTTCAGATCCTATCTCCCTAAG-AGTAAGAGGAGCAGATCGAAG
12900743 ACGGCGAATC
Statistics
Matches: 114, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
133 16 0.14
134 96 0.84
135 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (133 bp):
ATCTCCCTAAAGTTACAGTGGGGCAGGTTAAATATGCAAGTCTTATCTCCCTGAGGTTACAGTGG
AGTAGACCGAAGAATTTCAGATCCTATCTCCCTAAGAGTAAGAGGAGCAGATCGAAGCCACAAAC
CTC
Found at i:12900816 original size:43 final size:44
Alignment explanation
Indices: 12900706--12900867 Score: 132
Period size: 44 Copynumber: 3.7 Consensus size: 44
12900696 AGAATTTTAG
** *
12900706 ATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
1 ATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCACCA
* * * **
12900750 AT-CTCATCTTCCTAAGCTGTAGTGAAGCAGATTTAAG-CCACCA
1 ATCCT-ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCACCA
* * * ****
12900793 GTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGA-TGTTA
1 ATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCACCA
* *
12900836 GATCCTATCTCCCAAAGCAGTAGCGGAGCAGA
1 -ATCCTATCTCCCTAAGCAGTAGTGGAGCAGA
12900868 CAGAAAAAAC
Statistics
Matches: 91, Mismatches: 23, Indels: 8
0.75 0.19 0.07
Matches are distributed among these distances:
43 33 0.36
44 58 0.64
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (44 bp):
ATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCACCA
Found at i:12900866 original size:87 final size:87
Alignment explanation
Indices: 12900707--12900867 Score: 200
Period size: 87 Copynumber: 1.9 Consensus size: 87
12900697 GAATTTTAGA
* * * * *
12900707 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTCATCTTCCTAAGCTGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAGAATCTCATCTCCCAAAGCAGTAG
*
12900772 TGAAGCAGATTTAAGCCACCAG
66 CGAAGCAGATTTAAGCCACCAG
* * *
12900794 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAG-ATC-CTATCTCCCAAAGCAGT
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACG-GAGAATCTC-ATCTCCCAAAGCAGT
*
12900857 AGCGGAGCAGA
64 AGCGAAGCAGA
12900868 CAGAAAAAAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
86 1 0.02
87 60 0.97
88 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (87 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAGAATCTCATCTCCCAAAGCAGTAG
CGAAGCAGATTTAAGCCACCAG
Found at i:12902413 original size:3 final size:3
Alignment explanation
Indices: 12902405--12902460 Score: 103
Period size: 3 Copynumber: 18.3 Consensus size: 3
12902395 TAATGTGTGC
12902405 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
12902453 TAT GTAT T
1 TAT -TAT T
12902461 CTTGTACACC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 49 0.94
4 3 0.06
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:12902761 original size:10 final size:10
Alignment explanation
Indices: 12902742--12902814 Score: 55
Period size: 10 Copynumber: 7.7 Consensus size: 10
12902732 CTTTATACCT
*
12902742 TATATGTACA
1 TATATATACA
12902752 TATATATAC-
1 TATATATACA
*
12902761 -ACATATACA
1 TATATATACA
* ***
12902770 TACATATTTT
1 TATATATACA
*
12902780 TATTTATACA
1 TATATATACA
12902790 TATATAT--A
1 TATATATACA
12902798 TATATATACA
1 TATATATACA
12902808 TATATAT
1 TATATAT
12902815 CCCTTCACAT
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
8 15 0.31
10 33 0.69
ACGTcount: A:0.44, C:0.10, G:0.01, T:0.45
Consensus pattern (10 bp):
TATATATACA
Found at i:12904517 original size:23 final size:23
Alignment explanation
Indices: 12904474--12904517 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
12904464 ATTCCAGCAG
*
12904474 TTACAAACTATTATTTCCAGTAA
1 TTACAAACTATTATTTACAGTAA
*
12904497 TTACAAA-TCATTTTTTACAGT
1 TTACAAACT-ATTATTTACAGT
12904518 TGGGAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 1 0.06
23 17 0.94
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.43
Consensus pattern (23 bp):
TTACAAACTATTATTTACAGTAA
Found at i:12905816 original size:69 final size:69
Alignment explanation
Indices: 12905575--12905829 Score: 255
Period size: 69 Copynumber: 3.7 Consensus size: 69
12905565 ATATAAAAAG
* * * ** * * *
12905575 TGTGCCCAACACTGGTCAAATAAACTAACAGAAGTTGTGCCCAACGCTAGTCGGATAACTGACGA
1 TGTGCCCAACACTAGTCAGATAAACTGACAGAAGTTGCACCCAACACTAGTCAGATAACCGACGA
12905640 TGGT
66 TGGT
* * * *** * *
12905644 TGTGCCCAACACTAGTCAGATAGACTGATAGAAGTT-AACCCCAGTGCTACTCAGATAACCGACA
1 TGTGCCCAACACTAGTCAGATAAACTGACAGAAGTTGCA-CCCAACACTAGTCAGATAACCGACG
12905708 ATGGT
65 ATGGT
* * * * * *
12905713 TGTG-CCTA-GCTAGTCAGATAAATTGACAAAAGTTGCACCCAACACTAGTCAAATAACCAACGA
1 TGTGCCCAACACTAGTCAGATAAACTGACAGAAGTTGCACCCAACACTAGTCAGATAACCGACGA
12905776 TGGT
66 TGGT
* * *
12905780 TGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGCGCCCAGCACTAG
1 TGTGCCCAACACTAGTCAGATAAACTGACAGAAGTTGCACCCAACACTAG
12905830 ACCATAAAAT
Statistics
Matches: 148, Mismatches: 34, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
67 48 0.32
68 6 0.04
69 94 0.64
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.21
Consensus pattern (69 bp):
TGTGCCCAACACTAGTCAGATAAACTGACAGAAGTTGCACCCAACACTAGTCAGATAACCGACGA
TGGT
Found at i:12905826 original size:35 final size:35
Alignment explanation
Indices: 12905575--12905829 Score: 157
Period size: 35 Copynumber: 7.4 Consensus size: 35
12905565 ATATAAAAAG
* * *
12905575 TGTGCCCAACACTGGTCAAATAAACTAACAGAAGT
1 TGTGCCCAACACTAGTCAGATAAACTGACAGAAGT
* * *
12905610 TGTGCCCAACGCTAGTCGGAT-AACTGAC-GATGGT
1 TGTGCCCAACACTAGTCAGATAAACTGACAGA-AGT
* *
12905644 TGTGCCCAACACTAGTCAGATAGACTGATAGAAGT
1 TGTGCCCAACACTAGTCAGATAAACTGACAGAAGT
*** *** * * *
12905679 TAACCCCAGTGCTACTCAGAT-AACCGACA-ATGGT
1 TGTGCCCAACACTAGTCAGATAAACTGACAGA-AGT
* * * *
12905713 TGTG-CCTA-GCTAGTCAGATAAATTGACAAAAGT
1 TGTGCCCAACACTAGTCAGATAAACTGACAGAAGT
** * ** *
12905746 TGCACCCAACACTAGTCAAAT-AACCAAC-GATGGT
1 TGTGCCCAACACTAGTCAGATAAACTGACAGA-AGT
*
12905780 TGTGCCCAGCACTAGTCAGATAAACTGACAGAAGT
1 TGTGCCCAACACTAGTCAGATAAACTGACAGAAGT
* *
12905815 TGCGCCCAGCACTAG
1 TGTGCCCAACACTAG
12905830 ACCATAAAAT
Statistics
Matches: 160, Mismatches: 49, Indels: 22
0.69 0.21 0.10
Matches are distributed among these distances:
32 10 0.06
33 16 0.10
34 62 0.39
35 68 0.43
36 4 0.03
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.21
Consensus pattern (35 bp):
TGTGCCCAACACTAGTCAGATAAACTGACAGAAGT
Found at i:12905863 original size:20 final size:20
Alignment explanation
Indices: 12905838--12905885 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
12905828 AGACCATAAA
12905838 ATCACATTTCATAACCCAAT
1 ATCACATTTCATAACCCAAT
**
12905858 ATCACATTTCATAACTTAAT
1 ATCACATTTCATAACCCAAT
12905878 ATCACATT
1 ATCACATT
12905886 CATTTCAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.40, C:0.25, G:0.00, T:0.35
Consensus pattern (20 bp):
ATCACATTTCATAACCCAAT
Found at i:12906505 original size:69 final size:69
Alignment explanation
Indices: 12906406--12906669 Score: 357
Period size: 69 Copynumber: 3.8 Consensus size: 69
12906396 ATAATTGACA
* * * * * *
12906406 ATGGTTGTTCCTAGCACTACTCAGATAAACTGACAGAAGTTGCGCCCAGCGGTAGTCAGATAACT
1 ATGGTTGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGCGCCCAGTGCTAGTCAGATAACC
12906471 GACG
66 GACG
* * * * * *
12906475 ATGGTTGTGTCTAACACTAGTTAGATAAACTGACAGAAGTTGCGCCCAGTGCTACTCGGATAACC
1 ATGGTTGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGCGCCCAGTGCTAGTCAGATAACC
12906540 GACG
66 GACG
* * * *
12906544 ATGGTTGTGCCCAGCACTAGTCAGATAAATTGACAGAAGTTGCACCCAATGCTAGTCAAATAACC
1 ATGGTTGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGCGCCCAGTGCTAGTCAGATAACC
*
12906609 AACG
66 GACG
* *
12906613 ATGGTTGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGTGCCCAATGCTAGTC
1 ATGGTTGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGCGCCCAGTGCTAGTC
12906670 CATAAAATCA
Statistics
Matches: 171, Mismatches: 24, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 171 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (69 bp):
ATGGTTGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGCGCCCAGTGCTAGTCAGATAACC
GACG
Found at i:12906571 original size:34 final size:35
Alignment explanation
Indices: 12906394--12906660 Score: 172
Period size: 35 Copynumber: 7.7 Consensus size: 35
12906384 ATTTAGTTCA
* * * *
12906394 AGATAATTGACA-ATGGTTGTTCCTAGCACTACTC
1 AGATAACTGACAGATGGTTGTGCCCAGCACTAGTC
* * **
12906428 AGATAAACTGACAGA-AGTTGCGCCCAGCGGTAGTC
1 AGAT-AACTGACAGATGGTTGTGCCCAGCACTAGTC
* * * *
12906463 AGATAACTGAC-GATGGTTGTGTCTAACACTAGTT
1 AGATAACTGACAGATGGTTGTGCCCAGCACTAGTC
* * ** *
12906497 AGATAAACTGACAGA-AGTTGCGCCCAGTGCTACTC
1 AGAT-AACTGACAGATGGTTGTGCCCAGCACTAGTC
* *
12906532 GGATAACCGAC-GATGGTTGTGCCCAGCACTAGTC
1 AGATAACTGACAGATGGTTGTGCCCAGCACTAGTC
* * ** ***
12906566 AGATAAATTGACAGA-AGTTGCACCCAATGCTAGTC
1 AGAT-AACTGACAGATGGTTGTGCCCAGCACTAGTC
* **
12906601 AAATAACCAAC-GATGGTTGTGCCCAGCACTAGTC
1 AGATAACTGACAGATGGTTGTGCCCAGCACTAGTC
*
12906635 AGATAAACTGACAGA-AGTTGTGCCCA
1 AGAT-AACTGACAGATGGTTGTGCCCA
12906661 ATGCTAGTCC
Statistics
Matches: 167, Mismatches: 55, Indels: 21
0.69 0.23 0.09
Matches are distributed among these distances:
33 6 0.04
34 72 0.43
35 82 0.49
36 7 0.04
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.23
Consensus pattern (35 bp):
AGATAACTGACAGATGGTTGTGCCCAGCACTAGTC
Found at i:12906668 original size:35 final size:35
Alignment explanation
Indices: 12906426--12906669 Score: 176
Period size: 35 Copynumber: 7.1 Consensus size: 35
12906416 CTAGCACTAC
* *
12906426 TCAGATAAACTGACAGAAGTTGCGCCCAGCGGTAG
1 TCAGATAAACTGACAGAAGTTGTGCCCAGCGCTAG
* * * * *
12906461 TCAGAT-AACTGAC-GATGGTTGTGTCTAACACTAG
1 TCAGATAAACTGACAGA-AGTTGTGCCCAGCGCTAG
* * * *
12906495 TTAGATAAACTGACAGAAGTTGCGCCCAGTGCTAC
1 TCAGATAAACTGACAGAAGTTGTGCCCAGCGCTAG
* * * *
12906530 TCGGAT-AACCGAC-GATGGTTGTGCCCAGCACTAG
1 TCAGATAAACTGACAGA-AGTTGTGCCCAGCGCTAG
* ** **
12906564 TCAGATAAATTGACAGAAGTTGCACCCAATGCTAG
1 TCAGATAAACTGACAGAAGTTGTGCCCAGCGCTAG
* ** * *
12906599 TCAAAT-AACCAAC-GATGGTTGTGCCCAGCACTAG
1 TCAGATAAACTGACAGA-AGTTGTGCCCAGCGCTAG
**
12906633 TCAGATAAACTGACAGAAGTTGTGCCCAATGCTAG
1 TCAGATAAACTGACAGAAGTTGTGCCCAGCGCTAG
12906668 TC
1 TC
12906670 CATAAAATCA
Statistics
Matches: 150, Mismatches: 50, Indels: 18
0.69 0.23 0.08
Matches are distributed among these distances:
33 6 0.04
34 68 0.45
35 70 0.47
36 6 0.04
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.23
Consensus pattern (35 bp):
TCAGATAAACTGACAGAAGTTGTGCCCAGCGCTAG
Found at i:12906701 original size:20 final size:20
Alignment explanation
Indices: 12906676--12906723 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
12906666 AGTCCATAAA
12906676 ATCACATTTCATAACCCAAT
1 ATCACATTTCATAACCCAAT
*
12906696 ATCACATTTCATAACTCAAT
1 ATCACATTTCATAACCCAAT
12906716 ATCACATT
1 ATCACATT
12906724 CATTTCAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (20 bp):
ATCACATTTCATAACCCAAT
Found at i:12907135 original size:2 final size:2
Alignment explanation
Indices: 12907123--12907152 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
12907113 TACAAGTATC
*
12907123 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12907153 CGAAATTCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:12908266 original size:44 final size:43
Alignment explanation
Indices: 12908134--12908582 Score: 273
Period size: 44 Copynumber: 10.4 Consensus size: 43
12908124 GATCTGCTCT
* * ** * **
12908134 ACTTCAGGAAGATAGGACTAGTAACTTCAATCTACTCCACTAAA
1 ACTTCAGGGAGATAAGACT-GTGGCTTTAATCTACTCCACTGCA
* * *** *
12908178 ACTTTAGGGAGATAAGA-T-TGGATGGGATCTACTCTACTGCA
1 ACTTCAGGGAGATAAGACTGTGGCTTTAATCTACTCCACTGCA
* * *
12908219 ACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACTCCACTGCA
1 ACTTCAGGGAGATAAGA-CTGTGGCTTTAATCTACTCCACTGCA
* * ** * **
12908263 ACTTCAGGAAGATAGGACTAGTAACTTCAATCTACTCCACTAAA
1 ACTTCAGGGAGATAAGACT-GTGGCTTTAATCTACTCCACTGCA
* * *** *
12908307 ACTTTAGGGAGATAAGA-T-TGGATGGGATCTACTCTACTGCA
1 ACTTCAGGGAGATAAGACTGTGGCTTTAATCTACTCCACTGCA
* * * *
12908348 ACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACTCCAGTGCA
1 ACTTCAGGGAGATAAGA-CTGTGGCTTTAATCTACTCCACTGCA
* * ** *
12908392 ACTTCAGGAAGATAGGACTAGTAACTTCAATCTACTCCACTGCA
1 ACTTCAGGGAGATAAGACT-GTGGCTTTAATCTACTCCACTGCA
* * * * * *
12908436 ACATCAGGGAGATAAGA-T-TGGATGTGATCTGCTCTACTGCA
1 ACTTCAGGGAGATAAGACTGTGGCTTTAATCTACTCCACTGCA
* ** * * * *
12908477 ACTTCAGGGAGATAGGACTAGTAACTTCAATCTGCTCTACTGGA
1 ACTTCAGGGAGATAAGACT-GTGGCTTTAATCTACTCCACTGCA
* * * *
12908521 ACTTCAGGGAGATAAGATTTGTTGGTTTTAATCTTCTCCA-TAGTA
1 ACTTCAGGGAGATAAGA-CTG-TGGCTTTAATCTACTCCACT-GCA
12908566 ACTTCAGGGAGATAAGA
1 ACTTCAGGGAGATAAGA
12908583 TTTGTCATCC
Statistics
Matches: 302, Mismatches: 89, Indels: 27
0.72 0.21 0.06
Matches are distributed among these distances:
41 88 0.29
42 1 0.00
43 9 0.03
44 172 0.57
45 32 0.11
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (43 bp):
ACTTCAGGGAGATAAGACTGTGGCTTTAATCTACTCCACTGCA
Found at i:12908499 original size:85 final size:85
Alignment explanation
Indices: 12908134--12908539 Score: 336
Period size: 85 Copynumber: 4.7 Consensus size: 85
12908124 GATCTGCTCT
* ** *
12908134 ACTTCAGGAAGATAGGACTAGTAACTTCAATCTACTCCACTAAAACTTTAGGGAGATAAGATTGG
1 ACTTCAGGGAGATAGGACTAGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTGG
** *
12908199 ATGGGATCTACTCTACTGCA
66 ATGTAATCTACTCCACTGCA
* * *** * * * * *
12908219 ACTTCAGAGAGATAAGATCT-GTGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGACTA
1 ACTTCAGGGAGATAGGA-CTAGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGA-TT
* **
12908283 GTAACT-TCAATCTACTCCACTAAA
64 G-GA-TGT-AATCTACTCCACTGCA
* * * * *** * *
12908307 ACTTTAGGGAGATAAGA-TTG-GA-TGGGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTG
1 ACTTCAGGGAGATAGGACTAGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGA--T-
* * * *
12908369 TGGTTTTAATCCACTCCAGTGCA
63 TGGATGTAATCTACTCCACTGCA
* *
12908392 ACTTCAGGAAGATAGGACTAGTAACTTCAATCTACTCCACTGCAACATCAGGGAGATAAGATTGG
1 ACTTCAGGGAGATAGGACTAGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTGG
* * *
12908457 ATGTGATCTGCTCTACTGCA
66 ATGTAATCTACTCCACTGCA
* * *
12908477 ACTTCAGGGAGATAGGACTAGTAACTTCAATCTGCTCTACTGGAACTTCAGGGAGATAAGATT
1 ACTTCAGGGAGATAGGACTAGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
12908540 TGTTGGTTTT
Statistics
Matches: 248, Mismatches: 61, Indels: 24
0.74 0.18 0.07
Matches are distributed among these distances:
85 174 0.70
86 12 0.05
87 4 0.02
88 58 0.23
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (85 bp):
ACTTCAGGGAGATAGGACTAGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTGG
ATGTAATCTACTCCACTGCA
Found at i:12908534 original size:129 final size:129
Alignment explanation
Indices: 12908134--12908490 Score: 642
Period size: 129 Copynumber: 2.8 Consensus size: 129
12908124 GATCTGCTCT
12908134 ACTTCAGGAAGATAGGACTAGTAACTTCAATCTACTCCACTAAAACTTTAGGGAGATAAGATTGG
1 ACTTCAGGAAGATAGGACTAGTAACTTCAATCTACTCCACTAAAACTTTAGGGAGATAAGATTGG
12908199 ATGGGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACTCCACTGCA
66 ATGGGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACTCCACTGCA
12908263 ACTTCAGGAAGATAGGACTAGTAACTTCAATCTACTCCACTAAAACTTTAGGGAGATAAGATTGG
1 ACTTCAGGAAGATAGGACTAGTAACTTCAATCTACTCCACTAAAACTTTAGGGAGATAAGATTGG
*
12908328 ATGGGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACTCCAGTGCA
66 ATGGGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACTCCACTGCA
** * *
12908392 ACTTCAGGAAGATAGGACTAGTAACTTCAATCTACTCCACTGCAACATCAGGGAGATAAGATTGG
1 ACTTCAGGAAGATAGGACTAGTAACTTCAATCTACTCCACTAAAACTTTAGGGAGATAAGATTGG
* * *
12908457 ATGTGATCTGCTCTACTGCAACTTCAGGGAGATA
66 ATGGGATCTACTCTACTGCAACTTCAGAGAGATA
12908491 GGACTAGTAA
Statistics
Matches: 220, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
129 220 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (129 bp):
ACTTCAGGAAGATAGGACTAGTAACTTCAATCTACTCCACTAAAACTTTAGGGAGATAAGATTGG
ATGGGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACTCCACTGCA
Found at i:12908797 original size:45 final size:45
Alignment explanation
Indices: 12908748--12909012 Score: 182
Period size: 45 Copynumber: 5.9 Consensus size: 45
12908738 AACTATGGTG
*
12908748 TCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAAGATTTGCTA
1 TCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTA
* * * * * * * * * *
12908793 TCTTCAGTTTGC-TCTGCTATTAGTACAGAAAGGCAAG-GCAGGTG
1 TCTTCAATCTGCTTC-ACTGTCAGTACAGGAAGGCAAGATCTGCTA
* * * * * * *
12908837 TCTTCGATCTACTTCGCT-ACCGATACAGGAAGGCATGATCTGTTA
1 TCTTCAATCTGCTTCACTGTCAG-TACAGGAAGGCAAGATCTGCTA
* * * * * *
12908882 TCTTCAGTCTGCTTCACTGTGAGTATAGGAAGGCAAG-GCTGGTG
1 TCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTA
* * *
12908926 TCTTCGATCTGCTTCGCTGTCAGTACAGAAAGGCAAGATCTGCTA
1 TCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTA
* * *
12908971 TCTTCAGTCTACTCTGCA--GTCAGTACAGGAAGACAAGATCTG
1 TCTTCAATCTGCT-T-CACTGTCAGTACAGGAAGGCAAGATCTG
12909013 TAACTTTATT
Statistics
Matches: 161, Mismatches: 51, Indels: 16
0.71 0.22 0.07
Matches are distributed among these distances:
43 1 0.01
44 62 0.39
45 95 0.59
46 2 0.01
47 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (45 bp):
TCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTA
Found at i:12909001 original size:89 final size:89
Alignment explanation
Indices: 12908743--12909007 Score: 313
Period size: 89 Copynumber: 3.0 Consensus size: 89
12908733 TTGCAAACTA
* * * *
12908743 TGGTGTCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAAGATTTGCTATCTTCAGTTTGCTCT
1 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCT
* *
12908808 GCTA-TTAGTACAGAAAGGCAAGGC
66 GC-AGTCAGTACAGGAAGGCAAGGC
* * * * * *
12908832 AGGTGTCTTCGATCTACTTCGCT-ACCGATACAGGAAGGCATGATCTGTTATCTTCAGTCTGCT-
1 TGGTGTCTTCGATCTGCTTCGCTGTCAG-TACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
* *
12908895 T-CACTGTGAGTATAGGAAGGCAAGGC
65 TGCA--GTCAGTACAGGAAGGCAAGGC
* *
12908921 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGAAAGGCAAGATCTGCTATCTTCAGTCTACTCT
1 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCT
*
12908986 GCAGTCAGTACAGGAAGACAAG
66 GCAGTCAGTACAGGAAGGCAAG
12909008 ATCTGTAACT
Statistics
Matches: 145, Mismatches: 24, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
86 1 0.01
87 1 0.01
88 3 0.02
89 135 0.93
90 3 0.02
91 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (89 bp):
TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCT
GCAGTCAGTACAGGAAGGCAAGGC
Found at i:12910254 original size:20 final size:20
Alignment explanation
Indices: 12910229--12910280 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
12910219 TCTCTCCTTT
12910229 TTCTTT-TTCTTTTCATCTTC
1 TTCTTTCTT-TTTTCATCTTC
* *
12910249 TTCTTTCTTTTTTCTTCTTT
1 TTCTTTCTTTTTTCATCTTC
12910269 TTCTTTCTTTTT
1 TTCTTTCTTTTT
12910281 CTTTTTTCCC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 27 0.93
21 2 0.07
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (20 bp):
TTCTTTCTTTTTTCATCTTC
Found at i:12910262 original size:7 final size:7
Alignment explanation
Indices: 12910225--12910288 Score: 57
Period size: 6 Copynumber: 9.7 Consensus size: 7
12910215 TTGGTCTCTC
12910225 CTTT-TT
1 CTTTCTT
12910231 CTTT-TT
1 CTTTCTT
*
12910237 CTTTTCAT
1 C-TTTCTT
12910245 C-TTCTT
1 CTTTCTT
12910251 CTTTCTT
1 CTTTCTT
*
12910258 TTTTCTT
1 CTTTCTT
12910265 CTTT-TT
1 CTTTCTT
12910271 CTTTCTT
1 CTTTCTT
12910278 -TTTCTT
1 CTTTCTT
*
12910284 TTTTC
1 CTTTC
12910289 CCTTTTTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
6 24 0.49
7 23 0.47
8 2 0.04
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.77
Consensus pattern (7 bp):
CTTTCTT
Found at i:12910281 original size:10 final size:10
Alignment explanation
Indices: 12910228--12910284 Score: 62
Period size: 10 Copynumber: 5.3 Consensus size: 10
12910218 GTCTCTCCTT
12910228 TTTCTTTTTC
1 TTTCTTTTTC
12910238 TTTTCATCTTCTTC
1 -TTTC-T-TT-TTC
12910252 TTTCTTTTT-
1 TTTCTTTTTC
12910261 TCTTCTTTTTC
1 T-TTCTTTTTC
12910272 TTTCTTTTTC
1 TTTCTTTTTC
12910282 TTT
1 TTT
12910285 TTTCCCTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
9 1 0.02
10 22 0.54
11 7 0.17
12 2 0.05
13 6 0.15
14 3 0.07
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:12910295 original size:26 final size:27
Alignment explanation
Indices: 12910246--12910299 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
12910236 TCTTTTCATC
*
12910246 TTCTTCTTTCTTTTTTCTTCTTTTTCT
1 TTCTTCTTTCTTTTTTCCTCTTTTTCT
12910273 TTCTT-TTTCTTTTTTCC-CTTTTT-T
1 TTCTTCTTTCTTTTTTCCTCTTTTTCT
12910297 TTC
1 TTC
12910300 CCTTTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 4 0.15
25 6 0.23
26 11 0.42
27 5 0.19
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (27 bp):
TTCTTCTTTCTTTTTTCCTCTTTTTCT
Found at i:12910296 original size:11 final size:11
Alignment explanation
Indices: 12910282--12910307 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12910272 TTTCTTTTTC
12910282 TTTTTTCCCTT
1 TTTTTTCCCTT
12910293 TTTTTTCCCTT
1 TTTTTTCCCTT
12910304 TTTT
1 TTTT
12910308 AAAAATCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTTCCCTT
Found at i:12924373 original size:11 final size:11
Alignment explanation
Indices: 12924357--12924453 Score: 57
Period size: 11 Copynumber: 9.4 Consensus size: 11
12924347 TTTTTTTTAA
12924357 TTTTAAAATAC
1 TTTTAAAATAC
12924368 TTTTAAAATAC
1 TTTTAAAATAC
12924379 TTTTTTAAAAT--
1 --TTTTAAAATAC
*
12924390 TTTT-TAA-A-
1 TTTTAAAATAC
* **
12924398 TTTTAAATTTT
1 TTTTAAAATAC
12924409 TTTTAAAATAC
1 TTTTAAAATAC
* *
12924420 TTTT---TTAA
1 TTTTAAAATAC
*
12924428 TTTTAAAATAT
1 TTTTAAAATAC
12924439 TTTTAAAATAC
1 TTTTAAAATAC
12924450 TTTT
1 TTTT
12924454 TTTAATTTTT
Statistics
Matches: 65, Mismatches: 12, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
8 12 0.18
9 5 0.08
11 39 0.60
13 9 0.14
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:12924400 original size:41 final size:39
Alignment explanation
Indices: 12924341--12924453 Score: 127
Period size: 41 Copynumber: 2.8 Consensus size: 39
12924331 ATAATAAATA
* *
12924341 TTTTTATTTTTTTTAATTTTAAAATACTTTTAAAATACT
1 TTTTTAATTTTTTAAATTTTAAAATACTTTTAAAATACT
* **
12924380 TTTTTAAAATTTTTTAAATTTTAAATTTTTTTTAAAATACT
1 TTTTT--AATTTTTTAAATTTTAAAATACTTTTAAAATACT
**
12924421 TTTTTAATTTTAAAATATTTTTAAAATACTTTT
1 TTTTTAATTTTTTAA-A-TTTTAAAATACTTTT
12924454 TTTAATTTTT
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
39 13 0.22
40 1 0.02
41 46 0.77
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (39 bp):
TTTTTAATTTTTTAAATTTTAAAATACTTTTAAAATACT
Found at i:12924402 original size:30 final size:29
Alignment explanation
Indices: 12924368--12924462 Score: 111
Period size: 31 Copynumber: 3.1 Consensus size: 29
12924358 TTTAAAATAC
*
12924368 TTTTAAAATACTTTTTTAAAATTTTTTAAA
1 TTTTAAAATA-TTTTTTAAAATTTTTTTAA
*
12924398 TTTT-AAATTTTTTTTAAAATACTTTTTTAA
1 TTTTAAAATATTTTTTAAAAT--TTTTTTAA
*
12924428 TTTTAAAATATTTTTAAAATACTTTTTTTAA
1 TTTTAAAATATTTTTTAAA-A-TTTTTTTAA
12924459 TTTT
1 TTTT
12924463 TGTTTTAATT
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
28 11 0.20
29 4 0.07
30 15 0.27
31 24 0.43
32 1 0.02
33 1 0.02
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (29 bp):
TTTTAAAATATTTTTTAAAATTTTTTTAA
Found at i:12924427 original size:31 final size:30
Alignment explanation
Indices: 12924368--12924462 Score: 122
Period size: 30 Copynumber: 3.1 Consensus size: 30
12924358 TTTAAAATAC
*
12924368 TTTTAAAATACTTTTTTAAAAT--TTTTTAAA
1 TTTTAAAATA--TTTTTAAAATACTTTTTTAA
* *
12924398 TTTTAAATTTTTTTTAAAATACTTTTTTAA
1 TTTTAAAATATTTTTAAAATACTTTTTTAA
12924428 TTTTAAAATATTTTTAAAATACTTTTTTTAA
1 TTTTAAAATATTTTTAAAATAC-TTTTTTAA
12924459 TTTT
1 TTTT
12924463 TGTTTTAATT
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
28 10 0.18
30 35 0.61
31 12 0.21
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (30 bp):
TTTTAAAATATTTTTAAAATACTTTTTTAA
Found at i:12927672 original size:35 final size:35
Alignment explanation
Indices: 12927633--12927701 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
12927623 GTAGGGGTTG
* *
12927633 ATATGAAGGATTTTATCGGTTTTGAGCTGGGTTTA
1 ATATGAAGGATTTTATCAGTTTAGAGCTGGGTTTA
* *
12927668 ATATGGAGGATTTTATCAGTTTAGAGTTGGGTTT
1 ATATGAAGGATTTTATCAGTTTAGAGCTGGGTTT
12927702 CCGCTATCGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.23, C:0.04, G:0.29, T:0.43
Consensus pattern (35 bp):
ATATGAAGGATTTTATCAGTTTAGAGCTGGGTTTA
Found at i:12929536 original size:18 final size:19
Alignment explanation
Indices: 12929502--12929538 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
12929492 AAGGGTGTGC
12929502 AAAATTCGGTTAAAACCGAA
1 AAAATTCGGTT-AAACCGAA
12929522 AAAATTCGGTT-AACCGA
1 AAAATTCGGTTAAACCGA
12929539 CCGAATTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (19 bp):
AAAATTCGGTTAAACCGAA
Found at i:12931152 original size:9 final size:9
Alignment explanation
Indices: 12931138--12931229 Score: 134
Period size: 9 Copynumber: 10.4 Consensus size: 9
12931128 ATATAGTGAT
12931138 TTAAATCGG
1 TTAAATCGG
12931147 TTAAATCGG
1 TTAAATCGG
12931156 TTAAATCGG
1 TTAAATCGG
* *
12931165 TTAAGTCAG
1 TTAAATCGG
12931174 TT-AATCGG
1 TTAAATCGG
*
12931182 TTAAATAGG
1 TTAAATCGG
12931191 TTAAATCGG
1 TTAAATCGG
12931200 TT-AATCGG
1 TTAAATCGG
*
12931208 TTAAATAGG
1 TTAAATCGG
12931217 TTAAATCGG
1 TTAAATCGG
12931226 TTAA
1 TTAA
12931230 TTTTTAACCA
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
8 14 0.19
9 59 0.81
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.35
Consensus pattern (9 bp):
TTAAATCGG
Found at i:12931184 original size:26 final size:26
Alignment explanation
Indices: 12931138--12931230 Score: 150
Period size: 26 Copynumber: 3.5 Consensus size: 26
12931128 ATATAGTGAT
*
12931138 TTAAATCGGTTAAATCGGTTAAATCGG
1 TTAAATCGGTT-AATCGGTTAAATAGG
* *
12931165 TTAAGTCAGTTAATCGGTTAAATAGG
1 TTAAATCGGTTAATCGGTTAAATAGG
12931191 TTAAATCGGTTAATCGGTTAAATAGG
1 TTAAATCGGTTAATCGGTTAAATAGG
12931217 TTAAATCGGTTAAT
1 TTAAATCGGTTAAT
12931231 TTTTAACCAA
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
26 52 0.85
27 9 0.15
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.35
Consensus pattern (26 bp):
TTAAATCGGTTAATCGGTTAAATAGG
Found at i:12931187 original size:35 final size:35
Alignment explanation
Indices: 12931138--12931229 Score: 141
Period size: 35 Copynumber: 2.6 Consensus size: 35
12931128 ATATAGTGAT
12931138 TTAAATCGGTTAAATCGGTTAAATCGGTTAAGTCAG
1 TTAAATCGGTTAAATCGGTTAAATCGGTTAA-TCAG
* *
12931174 TT-AATCGGTTAAATAGGTTAAATCGGTTAATCGG
1 TTAAATCGGTTAAATCGGTTAAATCGGTTAATCAG
*
12931208 TTAAATAGGTTAAATCGGTTAA
1 TTAAATCGGTTAAATCGGTTAA
12931230 TTTTTAACCA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
34 5 0.10
35 44 0.86
36 2 0.04
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.35
Consensus pattern (35 bp):
TTAAATCGGTTAAATCGGTTAAATCGGTTAATCAG
Found at i:12932451 original size:19 final size:21
Alignment explanation
Indices: 12932349--12932445 Score: 153
Period size: 21 Copynumber: 4.7 Consensus size: 21
12932339 ATTTTCGAGG
*
12932349 ATATACAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
12932368 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
12932389 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
12932410 ATATGTAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
12932431 ATATACAATCTTAGA
1 ATATGCAATCTTAGA
12932446 AGATATGATT
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
19 18 0.25
21 54 0.75
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:12932481 original size:21 final size:23
Alignment explanation
Indices: 12932437--12932481 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
12932427 TGATATATAC
*
12932437 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATATGAATTTGT
*
12932460 AATCTTA-AAGAT-TTAATTTGT
1 AATCTTAGAAGATATGAATTTGT
12932481 A
1 A
12932482 GATAACCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 5 0.25
23 7 0.35
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.44
Consensus pattern (23 bp):
AATCTTAGAAGATATGAATTTGT
Found at i:12932878 original size:14 final size:15
Alignment explanation
Indices: 12932849--12932877 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
12932839 AATTTTTAGG
12932849 ATGTAATTATTTTTT
1 ATGTAATTATTTTTT
12932864 ATGTAATTATTTTT
1 ATGTAATTATTTTT
12932878 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (15 bp):
ATGTAATTATTTTTT
Found at i:12933369 original size:19 final size:19
Alignment explanation
Indices: 12933326--12933370 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
12933316 TTTTCATATC
12933326 TTTTATATGATTTATATTT
1 TTTTATATGATTTATATTT
*
12933345 TATTTATTTG-TTTATATTAT
1 T-TTTATATGATTTATATT-T
12933365 TTTTAT
1 TTTTAT
12933371 GCCATTATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (19 bp):
TTTTATATGATTTATATTT
Found at i:12939163 original size:44 final size:43
Alignment explanation
Indices: 12939025--12939807 Score: 357
Period size: 44 Copynumber: 18.1 Consensus size: 43
12939015 CCGATAATCC
* * * * *
12939025 TATCTCCTTGAAGTTGCAGTGGAGCGGATTAA-AACCTTAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC--AAGTCT
* * * * * *
12939069 TATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGTATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCT
*
12939109 TATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGTAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCT
* *
12939153 TATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGACGGCAAAT-T
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCAAGTCT
* * *
12939197 CTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAG-AGTCGATAATCA
1 -TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-AGTCT
* * * * **
12939242 TATCTCCCTAAAGTTGCAGTGGAGCGGATTAA-AACCTTGGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAG-TCT
* * * * * * * *
12939286 TATCTCTCTGAATTTGTAG-AGAGCAGA-T-CGCATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCT
12939326 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCT
* *
12939370 TATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAATCT
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCAAGTCT
* * * *
12939415 TATCTCCCTAAAGTTGCAGTGGAGCAGA-TTA-AAGTCGATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-AGTCT
* * * * * * * ** *
12939459 TATCTTCTTAAAGTTGCAGTTGAGCGGATTAA-AACCTTGGATCG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAG-TCT
* * * * * * *
12939503 TATCTCTCTGAAGTTGCAG-AGATCAGA-T-CGCATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCT
*
12939543 TATCTCCCTGAAGTTGCAGTGGAGCAGACTCAGCAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCT
* * * *
12939587 TATC-CTCCTGAAGTTGTAGT-GAGGTAGACTGAAGATGGCAAATCT
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCAAGTCT
* * *
12939632 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAG-AGCCGATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-AGTCT
* ** **
12939676 TATCTCCCTGAAGTTGCAGTGGAGCACACTAAG-CCCTTGGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAG-TCT
** ** * * *
12939720 TATCTCTTTGAAGTTGCA-AAGAGCAGA-T-CG-CGTCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-CAAGTCT
* *
12939760 TATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAACAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCT
12939804 TATC
1 TATC
12939808 CNNNNNNNNN
Statistics
Matches: 564, Mismatches: 118, Indels: 114
0.71 0.15 0.14
Matches are distributed among these distances:
40 79 0.14
41 39 0.07
42 19 0.03
43 44 0.08
44 271 0.48
45 103 0.18
46 9 0.02
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCT
Found at i:12939391 original size:217 final size:217
Alignment explanation
Indices: 12939016--12939808 Score: 1273
Period size: 217 Copynumber: 3.7 Consensus size: 217
12939006 GATCGGTGGC
* * **
12939016 CGATAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAACCTTAAATCTTATCTCTCTGAA
1 CGATAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAA
* *
12939081 GTTGCAGAGAGCAGATCGTATCTAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGTAAG
66 GTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG
*
12939146 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGACGGCAAAT-TCTATCTCCCTGAA
131 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCT-TATCTCCCTGAA
12939210 GTTGCAGTGGAGCAGATTAGAGT
195 GTTGCAGTGGAGCAGATTAGAGT
*
12939233 CGATAATCATATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAA
1 CGATAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAA
* *
12939298 TTTGTAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG
66 GTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG
*
12939363 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAG
131 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
*
12939428 TTGCAGTGGAGCAGATTAAAGT
196 TTGCAGTGGAGCAGATTAGAGT
* * * *
12939450 CGATAATCCTATCTTCTTAAAGTTGCAGTTGAGCGGATTAAAACCTTGGATCGTATCTCTCTGAA
1 CGATAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAA
* * *
12939515 GTTGCAGAGATCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAGCAAG
66 GTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG
* *
12939580 CAAGTCTTATCCTCCTGAAGTTGTAGTGAGGTAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
131 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
*
12939645 TTGCAGTGGAGCAGATTAGAGC
196 TTGCAGTGGAGCAGATTAGAGT
* ** * ** *
12939667 CGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCACACTAAGCCCTTGGATCTTATCTCTTTGAA
1 CGATAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAA
* * * *
12939732 GTTGCAAAGAGCAGATCGCGTCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAA
66 GTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG
12939797 CAAGTCTTATCC
131 CAAGTCTTATCC
12939809 NNNNNNNNNN
Statistics
Matches: 530, Mismatches: 45, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
217 529 1.00
218 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (217 bp):
CGATAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAA
GTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG
CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
TTGCAGTGGAGCAGATTAGAGT
Found at i:12939977 original size:44 final size:43
Alignment explanation
Indices: 12939879--12939989 Score: 127
Period size: 44 Copynumber: 2.5 Consensus size: 43
12939869 NNNNNNNNNN
* * * *
12939879 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAACAAGTCT
1 TATCTCCCT-AAGTTGAAGTGGAGCAGACTAAATAAACAAATCC
12939923 TATC-CTCCTAAAGTTGAAGT-GAGGCAGACTAAATAAACAAATCC
1 TATCTC-CCT-AAGTTGAAGTGGA-GCAGACTAAATAAACAAATCC
*
12939967 TATCTCCCTAAGTTGTAGTGGAG
1 TATCTCCCTAAGTTGAAGTGGAG
12939990 TGGGTTAGAG
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
43 13 0.23
44 43 0.75
45 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (43 bp):
TATCTCCCTAAGTTGAAGTGGAGCAGACTAAATAAACAAATCC
Found at i:12940402 original size:19 final size:21
Alignment explanation
Indices: 12940300--12940396 Score: 144
Period size: 21 Copynumber: 4.7 Consensus size: 21
12940290 ATTTTCGAGG
*
12940300 ATATACAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
12940319 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
12940340 ATATGCAATATTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
12940361 ATATGTAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
12940382 ATATACAATCTTAGA
1 ATATGCAATCTTAGA
12940397 AGATATGATT
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
19 18 0.26
21 52 0.74
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:12940432 original size:21 final size:23
Alignment explanation
Indices: 12940388--12940432 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
12940378 TGATATATAC
*
12940388 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATATGAATTTGT
*
12940411 AATCTTA-AAGAT-TTAATTTGT
1 AATCTTAGAAGATATGAATTTGT
12940432 A
1 A
12940433 GATACCCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 5 0.25
23 7 0.35
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.44
Consensus pattern (23 bp):
AATCTTAGAAGATATGAATTTGT
Found at i:12942008 original size:2 final size:2
Alignment explanation
Indices: 12941968--12941997 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
12941958 GGTTTCGACA
12941968 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12941998 TTTTAATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12942856 original size:25 final size:25
Alignment explanation
Indices: 12942808--12942856 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
12942798 CATACTTAAA
* * *
12942808 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
12942833 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
12942857 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:12943310 original size:43 final size:42
Alignment explanation
Indices: 12943248--12943332 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 42
12943238 AATTTATCTA
12943248 ATTGAAATGGAAAAGATGAGAAATGAATATGAGATGAGGAAAT
1 ATTGAAATGGAAAAGATGAGAAATGAATATGAGATGA-GAAAT
* *
12943291 ATTGAAAT-GACAAATATGAGAAATGATTATGAGATGAGAAAT
1 ATTGAAATGGA-AAAGATGAGAAATGAATATGAGATGAGAAAT
12943333 GAGATATGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
42 7 0.18
43 32 0.82
ACGTcount: A:0.51, C:0.01, G:0.25, T:0.24
Consensus pattern (42 bp):
ATTGAAATGGAAAAGATGAGAAATGAATATGAGATGAGAAAT
Found at i:12944167 original size:17 final size:17
Alignment explanation
Indices: 12944145--12944179 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
12944135 AAACTTGAGT
12944145 TTTAAAGTACTTTTAGG
1 TTTAAAGTACTTTTAGG
12944162 TTTAAAGTACTTTTAGG
1 TTTAAAGTACTTTTAGG
12944179 T
1 T
12944180 GCACACACGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.17, T:0.49
Consensus pattern (17 bp):
TTTAAAGTACTTTTAGG
Found at i:12949638 original size:42 final size:42
Alignment explanation
Indices: 12949580--12949698 Score: 195
Period size: 42 Copynumber: 2.8 Consensus size: 42
12949570 GTTTACAAAC
*
12949580 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAG-G
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAG
*
12949621 AAAAAACGCCGCTAAAGACCATGTTCTTTAGAGGCGCTTAGAG
1 -AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAG
*
12949664 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCG
12949699 TTTTTCCTTA
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
42 71 0.99
43 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.23
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAG
Found at i:12949784 original size:41 final size:43
Alignment explanation
Indices: 12949711--12949802 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 43
12949701 TTTCCTTAAG
* * * *
12949711 CGCCACTGTAGATCAAGACCTTTAGCGGCGCTT-TTATC-AAAA
1 CGCCACTATAGAACAAGACCTTTAGCGACGCTTCTT-GCAAAAA
12949753 CGCCACTATAGAACAA-ACCTTTAGCGACGCTTCTTGCAAAAA
1 CGCCACTATAGAACAAGACCTTTAGCGACGCTTCTTGCAAAAA
12949795 CGCCACTA
1 CGCCACTA
12949803 AAAACATAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
41 16 0.36
42 28 0.64
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (43 bp):
CGCCACTATAGAACAAGACCTTTAGCGACGCTTCTTGCAAAAA
Done.