Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 109 of 208
Found at i:35909253 original size:38 final size:38
Alignment explanation
Indices: 35909183--35909297 Score: 158
Period size: 38 Copynumber: 2.9 Consensus size: 38
35909173 AAATTAAATC
*
35909183 TCTAAGATTACAAAATCATATATTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATC--ATA-TCTAAGATTGCATATCATA
*
35909225 TCTAAGATTATATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
* *
35909263 TCTAGGATTGCATATCATATCTAAGATTGCATATC
1 TCTAAGATTACATATCATATCTAAGATTGCATATC
35909298 CTCAAAAATT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
38 51 0.75
39 3 0.04
41 4 0.06
42 10 0.15
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:35909554 original size:45 final size:44
Alignment explanation
Indices: 35909504--35909831 Score: 137
Period size: 44 Copynumber: 7.4 Consensus size: 44
35909494 GGAGCTAGTG
35909504 CTTCAATCTATTCCACTGCAACTGCAGGGAGATAAAACTTACAAT
1 CTTCAATCTATTCCACTGCAACTGCAGGGAGATAAAA-TTACAAT
* * * *
35909549 CTTCAACCTATTCCACTGCTGAC--CAGGGAGATAGAATTACTGA-
1 CTTCAATCTATTCCACTGC-AACTGCAGGGAGATAAAATTAC-AAT
* * * ** * * *
35909592 CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCAT
1 CTTCAATCTATTCCACTGCAACTGCAGGGAGATAAAAT-TACAAT
* * *
35909637 CTTCGATCTACTCCACT---ACTGCTTAGGGAGATAAGATCTGA-AAT
1 CTTCAATCTATTCCACTGCAACTGC--AGGGAGATAAAAT-T-ACAAT
* * * *
35909681 CTTCAATCTATTCCACT---ATTGCCTAGGGA-AGTAGAATTACTAG
1 CTTCAATCTATTCCACTGCAACTG-C-AGGGAGA-TAAAATTACAAT
* * * ** * **
35909724 CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCAAT
1 CTTCAATCTATTCCACTGCAACTGCAGGGAGATAAAAT-TACAAT
** *
35909769 CTTCAATCTGCTCCACT---ACTGCTTAGGGAGATAAGATCTGA-AAT
1 CTTCAATCTATTCCACTGCAACTGC--AGGGAGATAAAAT-T-ACAAT
35909813 CTTCAATCTATTCCACTGC
1 CTTCAATCTATTCCACTGC
35909832 TGCCCAGGGA
Statistics
Matches: 212, Mismatches: 49, Indels: 43
0.70 0.16 0.14
Matches are distributed among these distances:
42 9 0.04
43 37 0.17
44 108 0.51
45 55 0.26
46 3 0.01
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (44 bp):
CTTCAATCTATTCCACTGCAACTGCAGGGAGATAAAATTACAAT
Found at i:35909665 original size:44 final size:44
Alignment explanation
Indices: 35909617--35909961 Score: 166
Period size: 44 Copynumber: 7.8 Consensus size: 44
35909607 CTGTAACCAC
* *
35909617 AGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGCTT
1 AGGGAGGTAAAATCCACAATCTTCAATCTACTCCACTACTGCTT
* * * * * *
35909661 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTATTGCCT
1 AGGGAGGTAAAATC-CACAATCTTCAATCTACTCCACTACTGCTT
* * * * * * **
35909705 AGGGAAGTAGAAT-TACTAGCTTCAATGTACTCCACTGTAAC--CAC
1 AGGGAGGTAAAATCCACAATCTTCAATCTACTCCAC--T-ACTGCTT
* *
35909749 AGGGAGGTAAAATCCGCAATCTTCAATCTGCTCCACTACTGCTT
1 AGGGAGGTAAAATCCACAATCTTCAATCTACTCCACTACTGCTT
* * * * * **
35909793 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGCTGCCC
1 AGGGAGGTAAAATC-CACAATCTTCAATCTACTCCACTACTGCTT
* * * *** * * **
35909837 AGGGAAGTAGAAT-TACTGGCTTCAATGTACTCCACTA-TAACCAC
1 AGGGAGGTAAAATCCACAATCTTCAATCTACTCCACTACT--GCTT
* * * * *
35909881 ATGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
1 AGGGAGGTAAAATCCACAATCTTCAATCTACTCCACTACTGCTT
* * * *
35909925 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACT
1 AGGGAGGTAAAATC-CACAATCTTCAATCTACTCCACT
35909962 GTTGCCCAGG
Statistics
Matches: 211, Mismatches: 75, Indels: 30
0.67 0.24 0.09
Matches are distributed among these distances:
42 5 0.02
43 31 0.15
44 139 0.66
45 34 0.16
46 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (44 bp):
AGGGAGGTAAAATCCACAATCTTCAATCTACTCCACTACTGCTT
Found at i:35909771 original size:132 final size:132
Alignment explanation
Indices: 35909529--35910316 Score: 1217
Period size: 132 Copynumber: 6.0 Consensus size: 132
35909519 CTGCAACTGC
* * * * *
35909529 AGGGAGATAA-AACTTACAATCTTCAACCTATTCCACTGCTGACCAGGG-AGATAGAATTACTGA
1 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGG
* * *
35909592 CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACT
64 CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACT
35909657 GCTT
129 GCTT
** * *
35909661 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTATTGCCTAGGGAAGTAGAATTACTAGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
* * *
35909726 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCAATCTTCAATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
35909791 TT
131 TT
35909793 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
*
35909858 TCAATGTACTCCACTATAACCACATGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
35909923 TT
131 TT
*
35909925 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
* * *
35909990 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTTCGCT-GT-C
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
*
35910053 AAT
131 -TT
* ** * *
35910056 ACAGGA-ATGCAAGATCTGCTATCTTTAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTATTG
1 A-GGGAGAT--AAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTG
* * *
35910120 GCTTCAATGTACTCCACTATAACCACATGGAGGTAAAATCCTCCATCTTCGATCTACTCCACTAC
63 GCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTAC
35910185 TGCTT
128 TGCTT
35910190 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
*
35910255 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCGACTAC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTAC
35910317 AAACGAGGAA
Statistics
Matches: 598, Mismatches: 49, Indels: 18
0.90 0.07 0.03
Matches are distributed among these distances:
130 1 0.00
131 5 0.01
132 470 0.79
133 116 0.19
134 5 0.01
135 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (132 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
TT
Found at i:35910193 original size:265 final size:264
Alignment explanation
Indices: 35909546--35910316 Score: 1244
Period size: 265 Copynumber: 2.9 Consensus size: 264
35909536 TAAAACTTAC
* * * *
35909546 AATCTTCAACCTATTCCACTGCTGACCAGGG-AGATAGAATTACTGACTTCAATGTACTCCACTG
1 AATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTA
*
35909610 TAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATC
65 TAACCACATGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATC
* * *
35909675 TGAAATCTTCAATCTATTCCACTATTGCCTAGGGAAGTAGAATTACTAGCTTCAATGTACTCCAC
130 TGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCAC
* * * * *
35909740 TGTAACCACAGGGAGGTAAAATCCGCAATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGA
195 TATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCATAAGGAGATAAGA
35909805 TCTGA
260 TCTGA
35909810 AATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
* *
35909875 AACCACATGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACATGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCT
35909940 GAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACT
131 GAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACT
* * *
35910005 ATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTTCGCT-GT-CAATACAGGA-ATGCA
196 ATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC-ATA-AGGAGAT--A
*
35910067 AGATCTGC
257 AGATCTGA
* * *
35910075 TATCTTTAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTATTGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
*
35910140 AACCACATGGAGGTAAAATCCTCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACATGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCT
*
35910205 GAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACT
131 GAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACT
*
35910270 ATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCGACTAC
196 ATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTAC
35910317 AAACGAGGAA
Statistics
Matches: 472, Mismatches: 29, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
262 1 0.00
263 5 0.01
264 225 0.48
265 241 0.51
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (264 bp):
AATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
AACCACATGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCT
GAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACT
ATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCATAAGGAGATAAGAT
CTGA
Found at i:35910261 original size:397 final size:396
Alignment explanation
Indices: 35909529--35910316 Score: 1217
Period size: 397 Copynumber: 2.0 Consensus size: 396
35909519 CTGCAACTGC
*
35909529 AGGGAGATAAAACTTACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGAATTACTGACT
1 AGGGAGATAAAACTGACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGAATTACTGACT
*
35909594 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGC
* * * *
35909659 TTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTATTGCCTAGGGAAGTAGAATTACTAG
131 ATAAGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACTGCCCAGGGAAGTAGAATTACTAG
* *
35909724 CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCAATCTTCAATCTGCTCCACTACT
196 CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCAATCTTCAATCTACTCCACTACT
35909789 GCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACT
261 GCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACT
*
35909854 GGCTTCAATGTACTCCACTATAACCACATGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTA
326 GGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTA
35909919 CTGCTT
391 CTGCTT
* * * * *
35909925 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTGCCCAGGGA-AGTAGAATTACTGG
1 AGGGAGATAA-AACTGACAATCTTCAACCTATTCCACTGCTGACCAGGGAGA-TAGAATTACTGA
* * * * *
35909988 CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTTCGCT-GT
64 CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACT
** * *
35910052 -CAATACAGGA-ATGCAAGATCTGCTATCTTTAATCTATTCCACTGCTGCCCAGGGAAGTAGAAT
129 GC-ATA-AGGAGAT--AAGATCTGAAATCTTCAATCTATTCCACTACTGCCCAGGGAAGTAGAAT
* * * * * *
35910115 TATTGGCTTCAATGTACTCCACTATAACCACATGGAGGTAAAATCCTCCATCTTCGATCTACTCC
190 TACTAGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCAATCTTCAATCTACTCC
35910180 ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGA
255 ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGA
35910245 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
320 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
*
35910310 CGACTAC
385 CCACTAC
35910317 AAACGAGGAA
Statistics
Matches: 356, Mismatches: 30, Indels: 11
0.90 0.08 0.03
Matches are distributed among these distances:
394 1 0.00
395 6 0.02
396 110 0.31
397 239 0.67
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (396 bp):
AGGGAGATAAAACTGACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGAATTACTGACT
TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGC
ATAAGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACTGCCCAGGGAAGTAGAATTACTAG
CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCAATCTTCAATCTACTCCACTACT
GCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACT
GGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTA
CTGCTT
Found at i:35911575 original size:6 final size:6
Alignment explanation
Indices: 35911566--35911609 Score: 58
Period size: 6 Copynumber: 7.7 Consensus size: 6
35911556 TCACTTTCAT
35911566 TTTTTG TTTTTG TTTTTG TTTTT- TATTTT- TTTTTG TTTTT- TTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG T-TTTTG TTTTTG TTTTTG TTTT
35911610 AATCTGAACT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
5 9 0.25
6 27 0.75
ACGTcount: A:0.02, C:0.00, G:0.09, T:0.89
Consensus pattern (6 bp):
TTTTTG
Found at i:35914830 original size:85 final size:85
Alignment explanation
Indices: 35914737--35914916 Score: 335
Period size: 85 Copynumber: 2.1 Consensus size: 85
35914727 ATTCCCCAGT
35914737 GGAGTCGCCAAGCTGTCGAAACCATTTTTTTTTTGAAAACAAAAAATTTTAGGTTGTCGACTT-A
1 GGAGTCGCCAAGCTGTCGAAACCATTTTTTTTTT-AAAACAAAAAATTTTAGGTTGTCGACTTAA
35914801 AAAAAAAGAAAATGAAAGTTG
65 AAAAAAAGAAAATGAAAGTTG
*
35914822 GGAGTCGCCAAGCTGTCGAAACCATTTTTTTTTTAAAATAAAAAATTTTAGGTTGTCGACTTAAA
1 GGAGTCGCCAAGCTGTCGAAACCATTTTTTTTTTAAAACAAAAAATTTTAGGTTGTCGACTTAAA
35914887 AAAAAAGAAAATGAAAGTTG
66 AAAAAAGAAAATGAAAGTTG
35914907 GGAGTCGCCA
1 GGAGTCGCCA
35914917 CCAATCTTTT
Statistics
Matches: 93, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
84 27 0.29
85 66 0.71
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.29
Consensus pattern (85 bp):
GGAGTCGCCAAGCTGTCGAAACCATTTTTTTTTTAAAACAAAAAATTTTAGGTTGTCGACTTAAA
AAAAAAGAAAATGAAAGTTG
Found at i:35915399 original size:98 final size:98
Alignment explanation
Indices: 35915230--35915424 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
35915220 ATACAATAAA
*
35915230 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
35915295 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
* *
35915328 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
* *
35915393 CCTTTAGAATCTCAAACTTGGAATATTTCCTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTT
35915425 CATGATTTTT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
Found at i:35916507 original size:19 final size:19
Alignment explanation
Indices: 35916483--35916566 Score: 132
Period size: 19 Copynumber: 4.4 Consensus size: 19
35916473 AATCATATAT
35916483 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
35916502 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
35916521 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
35916540 TCTAGGATTGCATGTCATA
1 TCTAAGATTGCATATCATA
35916559 TCTAAGAT
1 TCTAAGAT
35916567 CTATCCTCAA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 58 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:35916530 original size:38 final size:38
Alignment explanation
Indices: 35916460--35916566 Score: 133
Period size: 38 Copynumber: 2.7 Consensus size: 38
35916450 AAATTAAATC
*
35916460 TCTAAGATTACAAAATCATATATTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATC--ATA-TCTAAGATTGCATATCATA
*
35916502 TCTAAGATTATATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
* * *
35916540 TCTAGGATTGCATGTCATATCTAAGAT
1 TCTAAGATTACATATCATATCTAAGAT
35916567 CTATCCTCAA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
38 42 0.71
39 3 0.05
41 4 0.07
42 10 0.17
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.37
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:35920275 original size:70 final size:70
Alignment explanation
Indices: 35920180--35920719 Score: 527
Period size: 70 Copynumber: 7.7 Consensus size: 70
35920170 TTGAATAAGT
* * * * *
35920180 GAGCCTTTGCA-TATCAGTTGGGAGCTTTGGCTCGTGCTTATTATTTTGAAGGACGCGATATTGA
1 GAGCCTTTGGATTA-CAGTTGGGAGCTTTGGCTCGCGCTTACTATTTTGGAGGTCGCGATATTGA
35920244 ATCAAC
65 ATCAAC
* * * * * * *
35920250 GAGTCTTTGGATTACAGCTAGGAGC-TTGATCTCACACTGACTATTTTGGAGGTCGCGATATTGA
1 GAGCCTTTGGATTACAGTTGGGAGCTTTG-GCTCGCGCTTACTATTTTGGAGGTCGCGATATTGA
35920314 ATCAAC
65 ATCAAC
* * * * * * * *
35920320 AAGCATTTGGATTACAATTGAGAGCTTTGGCTCGCGCTAACTGTTTTGGAGGTTGCGATATTAAA
1 GAGCCTTTGGATTACAGTTGGGAGCTTTGGCTCGCGCTTACTATTTTGGAGGTCGCGATATTGAA
35920385 TCAAC
66 TCAAC
** * * * *
35920390 GAGCCTTTGGATTACAACTGGGAGCTTTGGCTCGTGCTAACTATTTTGGAGGCCGTGATATTGAA
1 GAGCCTTTGGATTACAGTTGGGAGCTTTGGCTCGCGCTTACTATTTTGGAGGTCGCGATATTGAA
*
35920455 TCAGC
66 TCAAC
* * * *** * *
35920460 GAGCCTTTGCA-TATTAGTTGGGAGCTTTAGCTTATGCTTACTATTTTGAAGGTTGCGATATTGA
1 GAGCCTTTGGATTA-CAGTTGGGAGCTTTGGCTCGCGCTTACTATTTTGGAGGTCGCGATATTGA
*
35920524 ATCAGC
65 ATCAAC
* * * *
35920530 GAGCCTTTGGATTATAGTTGGGAGC-TTGAGCTCGCGCTTATTGTTTTGGAGGCCGCGATATTGA
1 GAGCCTTTGGATTACAGTTGGGAGCTTTG-GCTCGCGCTTACTATTTTGGAGGTCGCGATATTGA
35920594 ATCAAC
65 ATCAAC
* * * *
35920600 GAGCCTTTAGATTACAGTTGGAAGCTTTGGCTCGCG-TTGACTATTTTAGAGGTTGCGATATTGA
1 GAGCCTTTGGATTACAGTTGGGAGCTTTGGCTCGCGCTT-ACTATTTTGGAGGTCGCGATATTGA
*
35920664 ATTAGA-
65 ATCA-AC
* * * *
35920670 GAGCCTCTGGATTACAGTTAGGAGC-TTGAGCTCACGCTGACTATTTTGGA
1 GAGCCTTTGGATTACAGTTGGGAGCTTTG-GCTCGCGCTTACTATTTTGGA
35920720 AGGACATGTT
Statistics
Matches: 383, Mismatches: 76, Indels: 22
0.80 0.16 0.05
Matches are distributed among these distances:
69 12 0.03
70 359 0.94
71 12 0.03
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (70 bp):
GAGCCTTTGGATTACAGTTGGGAGCTTTGGCTCGCGCTTACTATTTTGGAGGTCGCGATATTGAA
TCAAC
Found at i:35920520 original size:210 final size:210
Alignment explanation
Indices: 35920198--35920722 Score: 595
Period size: 210 Copynumber: 2.5 Consensus size: 210
35920188 GCATATCAGT
* * * * * *
35920198 TGGGAGCTTTGGCTCGTGCTTATTATTTTGAAGGACGCGATATTGAATCAACGAGTCTTTGGATT
1 TGGGAGCTTTGGCTCGTGCTAACTATTTTGGAGGACGCGATATTGAATCAGCGAGCCTTTGCATT
* *
35920263 ACAGCTAGGAGCTTGATCTCACACTGACTATTTTGGAGGTCGCGATATTGAATCAACAAGCATTT
66 ACAGCTAGGAGCTTGAGCTCACACTGACTATTTTGAAGGTCGCGATATTGAATCAACAAGCATTT
**
35920328 GGATTACAATTGAGAGCTTTG-GCTCGCGCTAACTGTTTTGGAGGTTGCGATATTAAATCAACGA
131 GGATTACAATTGAGAGC-TTGAGCTCGCGCTAACTGTTTTGGAGGCCGCGATATTAAATCAACGA
*
35920392 GCCTTTGGATTACAAC
195 GCCTTTAGATTACAAC
* *
35920408 TGGGAGCTTTGGCTCGTGCTAACTATTTTGGAGGCCGTGATATTGAATCAGCGAGCCTTTGCA-T
1 TGGGAGCTTTGGCTCGTGCTAACTATTTTGGAGGACGCGATATTGAATCAGCGAGCCTTTGCATT
* * * * * ** * * * * *
35920472 ATTAGTTGGGAGCTTTAGCTTATGCTTACTATTTTGAAGGTTGCGATATTGAATCAGCGAGCCTT
66 A-CAGCTAGGAGCTTGAGCTCACACTGACTATTTTGAAGGTCGCGATATTGAATCAACAAGCATT
* * * * * *
35920537 TGGATTATAGTTGGGAGCTTGAGCTCGCGCTTATTGTTTTGGAGGCCGCGATATTGAATCAACGA
130 TGGATTACAATTGAGAGCTTGAGCTCGCGCTAACTGTTTTGGAGGCCGCGATATTAAATCAACGA
**
35920602 GCCTTTAGATTACAGT
195 GCCTTTAGATTACAAC
* * * * * ** * * * *
35920618 TGGAAGCTTTGGCTCGCGTTGACTATTTTAGAGGTTGCGATATTGAATTAGAGAGCCTCTGGATT
1 TGGGAGCTTTGGCTCGTGCTAACTATTTTGGAGGACGCGATATTGAATCAGCGAGCCTTTGCATT
* *
35920683 ACAGTTAGGAGCTTGAGCTCACGCTGACTATTTTGGAAGG
66 ACAGCTAGGAGCTTGAGCTCACACTGACTATTTT-GAAGG
35920723 ACATGTTGTA
Statistics
Matches: 260, Mismatches: 51, Indels: 7
0.82 0.16 0.02
Matches are distributed among these distances:
209 5 0.02
210 248 0.95
211 7 0.03
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.33
Consensus pattern (210 bp):
TGGGAGCTTTGGCTCGTGCTAACTATTTTGGAGGACGCGATATTGAATCAGCGAGCCTTTGCATT
ACAGCTAGGAGCTTGAGCTCACACTGACTATTTTGAAGGTCGCGATATTGAATCAACAAGCATTT
GGATTACAATTGAGAGCTTGAGCTCGCGCTAACTGTTTTGGAGGCCGCGATATTAAATCAACGAG
CCTTTAGATTACAAC
Found at i:35922708 original size:30 final size:30
Alignment explanation
Indices: 35922674--35922770 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
35922664 TAAACTAAAA
*
35922674 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
35922704 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
35922734 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
35922763 ATGAGCTA
1 -TGAGCTA
35922771 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:35924313 original size:19 final size:20
Alignment explanation
Indices: 35924268--35924315 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
35924258 TACATATTAT
*
35924268 CACTATTCATGACTTGACTC
1 CACTATTCACGACTTGACTC
* *
35924288 TACTATTCACGATTTGA-TC
1 CACTATTCACGACTTGACTC
35924307 CACTATTCA
1 CACTATTCA
35924316 TAGGACTGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.38
Consensus pattern (20 bp):
CACTATTCACGACTTGACTC
Found at i:35928945 original size:9 final size:9
Alignment explanation
Indices: 35928931--35928955 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
35928921 CTAAAAAGTT
35928931 AGAGAATTG
1 AGAGAATTG
35928940 AGAGAATTG
1 AGAGAATTG
35928949 AGAGAAT
1 AGAGAAT
35928956 GAAACTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.32, T:0.20
Consensus pattern (9 bp):
AGAGAATTG
Found at i:35946533 original size:188 final size:189
Alignment explanation
Indices: 35946185--35946595 Score: 655
Period size: 188 Copynumber: 2.2 Consensus size: 189
35946175 GCAGCAACCT
* *
35946185 TCACAATTCTATCTCAATGCCTAATCATATAATGCAAGTTCAAGAATCTAGAGCTTAATTCAGTC
1 TCACAATTCTATCTCAATGCCTAATCAGATAATGCAAGTTCAAGAACCTAGAGCTTAATTCAGTC
* *
35946250 GGTTCATGCAATCTCCCTTTAGAGATGGTATTTTGATACATCTCAAGTTAGATTCTCAACATTGC
66 AGTTCATGCAATCACCCTTTAGAGATGGTATTTTGATACATCTCAAGTTAGATTCTCAACATTGC
35946315 AATCCTTCCCCTATCCCCATACTAAGGCCTCCTATACACAAAATAATGCAAGTTCAACA
131 AATCCTTCCCCTATCCCCATACTAAGGCCTCCTATACACAAAATAATGCAAGTTCAACA
* * *
35946374 TCACAATTATACCTCAATGCCTAATCAGATGATGCAAGTTCAAGAACCTAGAGCTTAATTCAGTC
1 TCACAATTCTATCTCAATGCCTAATCAGATAATGCAAGTTCAAGAACCTAGAGCTTAATTCAGTC
**
35946439 AGTTCATGCAATCACCC-TTATGAG-TGGTATTTTGATATGTCTCAAGTTAGATTCTCAACATTG
66 AGTTCATGCAATCACCCTTTA-GAGATGGTATTTTGATACATCTCAAGTTAGATTCTCAACATTG
* * * *
35946502 CAATCGTTCCCCTATCCCCATACTAAGGCCTCCTTTACACGAAATATTGCAAGTTCAACA
130 CAATCCTTCCCCTATCCCCATACTAAGGCCTCCTATACACAAAATAATGCAAGTTCAACA
* * *
35946562 GCACAATTCTATCTCAATGCCTAACCAAATAATG
1 TCACAATTCTATCTCAATGCCTAATCAGATAATG
35946596 TGCTTAGTTG
Statistics
Matches: 202, Mismatches: 19, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
188 124 0.61
189 78 0.39
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (189 bp):
TCACAATTCTATCTCAATGCCTAATCAGATAATGCAAGTTCAAGAACCTAGAGCTTAATTCAGTC
AGTTCATGCAATCACCCTTTAGAGATGGTATTTTGATACATCTCAAGTTAGATTCTCAACATTGC
AATCCTTCCCCTATCCCCATACTAAGGCCTCCTATACACAAAATAATGCAAGTTCAACA
Found at i:35947456 original size:6 final size:7
Alignment explanation
Indices: 35947431--35947455 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
35947421 AAAATGAAAA
35947431 AAAAAGG
1 AAAAAGG
35947438 AAAAAGG
1 AAAAAGG
35947445 AAAAAGG
1 AAAAAGG
35947452 AAAA
1 AAAA
35947456 GAAGAAGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (7 bp):
AAAAAGG
Found at i:35948359 original size:11 final size:11
Alignment explanation
Indices: 35948343--35948368 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
35948333 TATTTTTTAA
35948343 TTTTAAAATAT
1 TTTTAAAATAT
35948354 TTTTAAAATAT
1 TTTTAAAATAT
35948365 TTTT
1 TTTT
35948369 TTTTATTTTT
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:35949945 original size:17 final size:17
Alignment explanation
Indices: 35949923--35949955 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
35949913 GTAATACGGA
35949923 TAGGCCAAACTCCAATT
1 TAGGCCAAACTCCAATT
35949940 TAGGCCAAACTCCAAT
1 TAGGCCAAACTCCAAT
35949956 ATGGTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.21
Consensus pattern (17 bp):
TAGGCCAAACTCCAATT
Found at i:35957656 original size:13 final size:13
Alignment explanation
Indices: 35957640--35957731 Score: 116
Period size: 13 Copynumber: 7.1 Consensus size: 13
35957630 TTTAAACCAA
35957640 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
35957653 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
*
35957666 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGC
35957679 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
35957692 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
*
35957705 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGC
35957718 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
35957731 A
1 A
35957732 TTGCCAAACT
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
12 8 0.12
13 51 0.76
14 8 0.12
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:35957684 original size:39 final size:39
Alignment explanation
Indices: 35957640--35957731 Score: 184
Period size: 39 Copynumber: 2.4 Consensus size: 39
35957630 TTTAAACCAA
35957640 ACTTTTCAAAAGCACTTTTCAAAAGTACTTTTCCACAAC
1 ACTTTTCAAAAGCACTTTTCAAAAGTACTTTTCCACAAC
35957679 ACTTTTCAAAAGCACTTTTCAAAAGTACTTTTCCACAAC
1 ACTTTTCAAAAGCACTTTTCAAAAGTACTTTTCCACAAC
35957718 ACTTTTCAAAAGCA
1 ACTTTTCAAAAGCA
35957732 TTGCCAAACT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (39 bp):
ACTTTTCAAAAGCACTTTTCAAAAGTACTTTTCCACAAC
Found at i:35964683 original size:19 final size:19
Alignment explanation
Indices: 35964640--35964697 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 19
35964630 CACCAATTTT
*
35964640 GTTAATTATGATTAAAGTT-A
1 GTTAATTATAATT-AA-TTAA
35964660 GTTAATTATAATTAATTAA
1 GTTAATTATAATTAATTAA
35964679 GTTAATTA-AGATTAATTAA
1 GTTAATTATA-ATTAATTAA
35964698 TTATTAATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
18 3 0.09
19 20 0.57
20 12 0.34
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (19 bp):
GTTAATTATAATTAATTAA
Found at i:35967528 original size:25 final size:25
Alignment explanation
Indices: 35967492--35967554 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
35967482 TTCGAACAAT
* *
35967492 AGACACAA-TTAAAGTGTCTGAACTA
1 AGAC-CAATTTAAAGTGTCTAAACCA
**
35967517 AGACCAATTTAATTTGTCTAAACCA
1 AGACCAATTTAAAGTGTCTAAACCA
35967542 AGACCAATTTAAA
1 AGACCAATTTAAA
35967555 TCACAAAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 3 0.09
25 29 0.91
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.27
Consensus pattern (25 bp):
AGACCAATTTAAAGTGTCTAAACCA
Found at i:35978269 original size:458 final size:459
Alignment explanation
Indices: 35977411--35978330 Score: 1662
Period size: 458 Copynumber: 2.0 Consensus size: 459
35977401 ACATGAGTGT
35977411 GTGGGTTTTGGGCCAGGCCGTGTGGGACATACGGGGAAGGCCAATTTGAGCGTGTAGGCCCACAC
1 GTGGGTTTTGGGCCAGGCCGTGTGGGACATACGGGGAAGGCCAATTTGAGCGTGTAGGCCCACAC
* * *
35977476 GGGCATGTTGGCCCATAATTCTAAAATTTTCCCTAAGGTCGCACGATTTGTTCCGATCAATTGTA
66 GGGCATGTTGGCCCATAATTCTAAAATTTTCCCTAAGGTCACACAATTTGTTCCGATCAACTGTA
35977541 GGCCTACCGTAGGGTCAGTAAGGGCAAACCAAGCCCTGAGTTATGTGATTTGATATTCTGATAGG
131 GGCCTACCGTAGGGTCAGTAAGGGCAAACCAAGCCCTGAGTTATGTGATTTGATATTCTGATAGG
*
35977606 CTGCCATCTGTAGGATTCCAATATGTATATCTGTTCTGTTTAGAGCATATATATACTATCTGTAT
196 CTGCCATCTGTAGGATTCCAATATGGATATCTGTTCTGTTTAGAGCATATATATACTATCTGTAT
35977671 ATGAGCATGTTATGCATGATATGACTGTATCTGTTATTTCTATATTTGTGATTGGGGTGGGTTTT
261 ATGAGCATGTTATGCATGATATGACTGTATCTGTTATTTCTATATTTGTGATTGGGGTGGGTTTT
* *
35977736 GCACATGTGGAGGAAGTGATCTATAAAGCGGCACTTCGCCTATATTCTGGCAGCTTGACTGCAAA
326 GCACATGTGGAGAAAGTGATCTATAAAGCGACACTTCGCCTATATTCTGGCAGCTTGACTGCAAA
*
35977801 TAATCTGTAATGTGTCGGATCGACACTATATGGTGTGTAAAGATGGGTAGATGTTTTGAACCCCA
391 TAATCTGTAATGTGTCGCATCGACACTATATGGTGTGTAAAGATGGGTAGATGTTTTGAACCCCA
35977866 TATG
456 TATG
* *
35977870 GTGGGTTTTGGGCCAGGCCGTGTGGGACATACGGGGAAGGCCAATTTGGGCTTGTAGGCCCACAC
1 GTGGGTTTTGGGCCAGGCCGTGTGGGACATACGGGGAAGGCCAATTTGAGCGTGTAGGCCCACAC
35977935 GGGCATGTTGG-CCATAATTCTAAAATTTTCCCTAAGGTCACACAATTTGTTCCGATCAACTGTA
66 GGGCATGTTGGCCCATAATTCTAAAATTTTCCCTAAGGTCACACAATTTGTTCCGATCAACTGTA
*
35977999 GGCCTACCGTAGGGTCGGTAAGGGCAAACCAAGCCCTGAGTTATGTGATTTGATATTCTGATAGG
131 GGCCTACCGTAGGGTCAGTAAGGGCAAACCAAGCCCTGAGTTATGTGATTTGATATTCTGATAGG
* *
35978064 CTGCCATCTGTAGGATTCCAATATGGATATCTGTTTTGTTTAGAGCATATATATGCTATCTGTAT
196 CTGCCATCTGTAGGATTCCAATATGGATATCTGTTCTGTTTAGAGCATATATATACTATCTGTAT
*
35978129 ATGAGCATGTTATGCATGATATTACTGTATCTGTTATTTCTATATTTGTGATTGGGGTGGGTTTT
261 ATGAGCATGTTATGCATGATATGACTGTATCTGTTATTTCTATATTTGTGATTGGGGTGGGTTTT
* *
35978194 GCACATGTGGAGAAAGTGATCTATACAGCGACATTTCGCCTATATTCTGGCAGCTTGACTGCAAA
326 GCACATGTGGAGAAAGTGATCTATAAAGCGACACTTCGCCTATATTCTGGCAGCTTGACTGCAAA
** * *
35978259 TAATCTGTAATGTGTCGCATCGACACTATATGGTGTGTAGGGATGGGTGGATGTTTTTAACCCCA
391 TAATCTGTAATGTGTCGCATCGACACTATATGGTGTGTAAAGATGGGTAGATGTTTTGAACCCCA
35978324 TATG
456 TATG
35978328 GTG
1 GTG
35978331 TGTTGGGATG
Statistics
Matches: 442, Mismatches: 19, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
458 368 0.83
459 74 0.17
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (459 bp):
GTGGGTTTTGGGCCAGGCCGTGTGGGACATACGGGGAAGGCCAATTTGAGCGTGTAGGCCCACAC
GGGCATGTTGGCCCATAATTCTAAAATTTTCCCTAAGGTCACACAATTTGTTCCGATCAACTGTA
GGCCTACCGTAGGGTCAGTAAGGGCAAACCAAGCCCTGAGTTATGTGATTTGATATTCTGATAGG
CTGCCATCTGTAGGATTCCAATATGGATATCTGTTCTGTTTAGAGCATATATATACTATCTGTAT
ATGAGCATGTTATGCATGATATGACTGTATCTGTTATTTCTATATTTGTGATTGGGGTGGGTTTT
GCACATGTGGAGAAAGTGATCTATAAAGCGACACTTCGCCTATATTCTGGCAGCTTGACTGCAAA
TAATCTGTAATGTGTCGCATCGACACTATATGGTGTGTAAAGATGGGTAGATGTTTTGAACCCCA
TATG
Found at i:35982438 original size:18 final size:17
Alignment explanation
Indices: 35982415--35982513 Score: 81
Period size: 17 Copynumber: 5.7 Consensus size: 17
35982405 GCACATCTCT
*
35982415 GAGCTCACCCAAAGATGC
1 GAGCTCA-CCAAAAATGC
35982433 GAGCTCACCAAAAAATGC
1 GAGCTCACC-AAAAATGC
* * ** *
35982451 AAGCTCAACAAAGCTGT
1 GAGCTCACCAAAAATGC
* *
35982468 GAGCTCACCAAAAACGT
1 GAGCTCACCAAAAATGC
**
35982485 GAGCTCACCAAATCTGC
1 GAGCTCACCAAAAATGC
*
35982502 GAGCTCATCAAA
1 GAGCTCACCAAA
35982514 GTTACAAAGT
Statistics
Matches: 64, Mismatches: 16, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
17 43 0.67
18 21 0.33
ACGTcount: A:0.38, C:0.29, G:0.18, T:0.14
Consensus pattern (17 bp):
GAGCTCACCAAAAATGC
Found at i:35982490 original size:34 final size:33
Alignment explanation
Indices: 35982414--35982513 Score: 110
Period size: 34 Copynumber: 2.9 Consensus size: 33
35982404 CGCACATCTC
*
35982414 TGAGCTCACCCAAAGATGCGAGCTCACCAAAAAA
1 TGAGCTCA-CCAAAGCTGCGAGCTCACCAAAAAA
* * *
35982448 TGCAAGCTCAACAAAGCTGTGAGCTCACCAAAAACG
1 TG--AGCTCACCAAAGCTGCGAGCTCACCAAAAA-A
* *
35982484 TGAGCTCACCAAATCTGCGAGCTCATCAAA
1 TGAGCTCACCAAAGCTGCGAGCTCACCAAA
35982514 GTTACAAAGT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
34 26 0.47
35 21 0.38
36 8 0.15
ACGTcount: A:0.38, C:0.29, G:0.18, T:0.15
Consensus pattern (33 bp):
TGAGCTCACCAAAGCTGCGAGCTCACCAAAAAA
Found at i:35988130 original size:206 final size:205
Alignment explanation
Indices: 35987845--35988276 Score: 574
Period size: 211 Copynumber: 2.1 Consensus size: 205
35987835 GGCGGTTGTA
*
35987845 GAAAACGTCGCTATATCCCGCAATTAGCGGCGCTTAACTAAAAAACGCCAGAAAATTTTAAAACG
1 GAAAACGCCGCTATATCCCGCAATTAGCGGCGCTTAACTAAAAAACGCCAGAAAATTTTAAAACG
* *
35987910 AAATGCAACGTTTCGTCTT-A-AT-C-TGA-TGGCGCTTACCCGAAAACGCCGCTATATATCAGC
66 AAACGCAACGTTTCGTCTTGACATCCGTGAGCGGCGCTTACCCGAAAACGCCGCTATATATCAGC
* *
35987970 TTGTAGTGGAAGCGCCACAAAAATTTTGACCAAAACGCATCGTTCCGGCTTGATCTATAGAGGCG
131 TTGTAGT-G--GCG---CAAAAATTTTGACCAAAACGCATCGTTCCGGCTTGACCTATAGAGGCA
35988035 TTAGCGGCGCTTACCT
190 TTAGCGGCGCTTACCT
*
35988051 GAAAACGCCGCTATATCCCTCAATTAGCGGCGCTTAACTAAAAAACGCC-GAAAAATTTT-AAAC
1 GAAAACGCCGCTATATCCCGCAATTAGCGGCGCTTAACTAAAAAACGCCAG-AAAATTTTAAAAC
*
35988114 AGAAACG-AAGCGTTTCGTCTTGAGCTATAGCGCCGTTAGCGGCGCTTACCCGAAAACGCCGCTA
65 -GAAACGCAA-CGTTTCGTCTTGA-C-AT----CCGTGAGCGGCGCTTACCCGAAAACGCCGCTA
* *
35988178 TATATTAGCTTTTAGTGGCGCAAAAATTTTGACCAAAACGCATCGTTCCGGCTTGACCTATAGAG
122 TATATCAGCTTGTAGTGGCGCAAAAATTTTGACCAAAACGCATCGTTCCGGCTTGACCTATAGAG
**
35988243 GCATTAGCGGCGCTTATTT
187 GCATTAGCGGCGCTTACCT
35988262 GAAAACGCCGCTATA
1 GAAAACGCCGCTATA
35988277 GAGCAACTTT
Statistics
Matches: 201, Mismatches: 11, Indels: 23
0.86 0.05 0.10
Matches are distributed among these distances:
205 7 0.03
206 71 0.35
207 1 0.00
210 2 0.01
211 75 0.37
214 3 0.01
215 1 0.00
216 3 0.01
217 38 0.19
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (205 bp):
GAAAACGCCGCTATATCCCGCAATTAGCGGCGCTTAACTAAAAAACGCCAGAAAATTTTAAAACG
AAACGCAACGTTTCGTCTTGACATCCGTGAGCGGCGCTTACCCGAAAACGCCGCTATATATCAGC
TTGTAGTGGCGCAAAAATTTTGACCAAAACGCATCGTTCCGGCTTGACCTATAGAGGCATTAGCG
GCGCTTACCT
Found at i:35988780 original size:22 final size:21
Alignment explanation
Indices: 35988749--35988791 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
35988739 TTGGTGATGT
*
35988749 TGTTTGTGGTTTACGGGTTTAA
1 TGTTTATGGTTTA-GGGTTTAA
35988771 TGTTTATGGTTTAGGGTTTAA
1 TGTTTATGGTTTAGGGTTTAA
35988792 GATTTTCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.16, C:0.02, G:0.30, T:0.51
Consensus pattern (21 bp):
TGTTTATGGTTTAGGGTTTAA
Found at i:35988901 original size:21 final size:22
Alignment explanation
Indices: 35988872--35988934 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
35988862 TAATTGACGG
*
35988872 GTTTAGGGTTTAAAGTTTACGA
1 GTTTGGGGTTTAAAGTTTACGA
* *
35988894 -TTTGGGGTTTAAGGTTTA-TA
1 GTTTGGGGTTTAAAGTTTACGA
35988914 GTTTGGGGTTT-AAGATTTACG
1 GTTTGGGGTTTAAAG-TTTACG
35988935 GTTAAGGCTT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
20 3 0.09
21 30 0.91
ACGTcount: A:0.22, C:0.03, G:0.30, T:0.44
Consensus pattern (22 bp):
GTTTGGGGTTTAAAGTTTACGA
Found at i:35989081 original size:15 final size:15
Alignment explanation
Indices: 35989061--35989090 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35989051 GATATTTTAG
*
35989061 AATATAAATGTAAAT
1 AATATAAATATAAAT
35989076 AATATAAATATAAAT
1 AATATAAATATAAAT
35989091 TATTATTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
AATATAAATATAAAT
Found at i:35989324 original size:21 final size:20
Alignment explanation
Indices: 35989284--35989321 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
35989274 AATATATTAA
*
35989284 TGTATTTATTTTTTAAAATG
1 TGTAATTATTTTTTAAAATG
35989304 TGTAATTATTTTTTAAAA
1 TGTAATTATTTTTTAAAA
35989322 ATGCATTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
TGTAATTATTTTTTAAAATG
Found at i:35989841 original size:19 final size:19
Alignment explanation
Indices: 35989819--35989863 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
35989809 TTGTCATCTC
*
35989819 CCCCAAATCCCTAAAATTT
1 CCCCAAATCCCTAAAAGTT
* * *
35989838 CCCCTAATCTCTAATAGTT
1 CCCCAAATCCCTAAAAGTT
35989857 CCCCAAA
1 CCCCAAA
35989864 CCCGACGTAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.38, G:0.02, T:0.27
Consensus pattern (19 bp):
CCCCAAATCCCTAAAAGTT
Found at i:35995827 original size:43 final size:43
Alignment explanation
Indices: 35995722--35995978 Score: 277
Period size: 43 Copynumber: 6.0 Consensus size: 43
35995712 TTATTACGGC
* * ** *
35995722 AAAGAACATGACCTTTAGTGGCGCTTGCAGAAAAAGCGCCGCT
1 AAAGAACATGACCTTTAGCGGCGTTTGTGGAATAAGCGCCGCT
* * * * * *
35995765 AAA-AGTCAAGATCTATAGCGGCGATTGTGGGATAAGCGCCGCT
1 AAAGA-ACATGACCTTTAGCGGCGTTTGTGGAATAAGCGCCGCT
* **
35995808 AAAGAACATGACCTTTAGCGGCATTT-TTTAGATAAGCGCCGCT
1 AAAGAACATGACCTTTAGCGGCGTTTGTGGA-ATAAGCGCCGCT
* *
35995851 AAAGAACATTACTTTTAGCGGCGTTTGTGGAATAAGCGCCGCT
1 AAAGAACATGACCTTTAGCGGCGTTTGTGGAATAAGCGCCGCT
* * * *
35995894 AAA-AAGTATGACCTTTAGTGGCGTTTGAGGGATAAGCGCCGCT
1 AAAGAA-CATGACCTTTAGCGGCGTTTGTGGAATAAGCGCCGCT
*
35995937 AAAGAACATGAGCTTTAGCGGCGTTTGTGGAATAAGCGCCGC
1 AAAGAACATGACCTTTAGCGGCGTTTGTGGAATAAGCGCCGC
35995979 AAAACTTAGC
Statistics
Matches: 173, Mismatches: 35, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
42 4 0.02
43 164 0.95
44 5 0.03
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (43 bp):
AAAGAACATGACCTTTAGCGGCGTTTGTGGAATAAGCGCCGCT
Found at i:35995953 original size:129 final size:129
Alignment explanation
Indices: 35995722--35995958 Score: 332
Period size: 129 Copynumber: 1.8 Consensus size: 129
35995712 TTATTACGGC
* *
35995722 AAAGAACATGACCTTTAGTGGCGCTTGCAGAAAAAGCGCCGCTAAAAGTCAAGATCTATAGCGGC
1 AAAGAACATGACCTTTAGCGGCGCTTGCAGAAAAAGCGCCGCTAAAAGTCAAGACCTATAGCGGC
*
35995787 GATTGTGGGATAAGCGCCGCTAAAGAACATGACCTTTAGCGGCATTTTTTAGATAAGCGCCGCT
66 GATTGAGGGATAAGCGCCGCTAAAGAACATGACCTTTAGCGGCATTTTTTAGATAAGCGCCGCT
* * * ** * * * *
35995851 AAAGAACATTACTTTTAGCGGCGTTTGTGGAATAAGCGCCGCTAAAAAGT-ATGACCTTTAGTGG
1 AAAGAACATGACCTTTAGCGGCGCTTGCAGAAAAAGCGCCGCT-AAAAGTCAAGACCTATAGCGG
* *
35995915 CGTTTGAGGGATAAGCGCCGCTAAAGAACATGAGCTTTAGCGGC
65 CGATTGAGGGATAAGCGCCGCTAAAGAACATGACCTTTAGCGGC
35995959 GTTTGTGGAA
Statistics
Matches: 93, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
129 87 0.94
130 6 0.06
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (129 bp):
AAAGAACATGACCTTTAGCGGCGCTTGCAGAAAAAGCGCCGCTAAAAGTCAAGACCTATAGCGGC
GATTGAGGGATAAGCGCCGCTAAAGAACATGACCTTTAGCGGCATTTTTTAGATAAGCGCCGCT
Found at i:35999241 original size:17 final size:16
Alignment explanation
Indices: 35999219--35999279 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 16
35999209 ATGTGCGAGG
*
35999219 TCACCAAAGATGCTAGC
1 TCACCAAAG-TGCAAGC
*
35999236 TCACCAAATCTGCAAGC
1 TCACCAAA-GTGCAAGC
* *
35999253 TCATCAAATGTGCGAGC
1 TCACCAAA-GTGCAAGC
35999270 TCACCAAAGT
1 TCACCAAAGT
35999280 TGTAAGTGTA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
16 2 0.05
17 35 0.95
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (16 bp):
TCACCAAAGTGCAAGC
Found at i:36001230 original size:57 final size:60
Alignment explanation
Indices: 36001137--36001284 Score: 187
Period size: 57 Copynumber: 2.5 Consensus size: 60
36001127 ACCCTAATTC
* * * *
36001137 GGATTACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCGAGAGGGGTATATC-A-A
1 GGATCACCCGTCCGGGCTAGATCCTTTTTCCACATATTCTTCGAGAGGGATATATCGATA
* *
36001195 -GATCACCCGTTCGGGCTAGAT-CTTTTTCACACATATTCTTCGGGAGGGATATATCAGGATA
1 GGATCACCCGTCCGGGCTAGATCCTTTTTC-CACATATTCTTCGAGAGGGATATATC--GATA
36001256 GGATCACCCGTCCGGGCTAGATCCTTTTT
1 GGATCACCCGTCCGGGCTAGATCCTTTTT
36001285 ACCGTCAATT
Statistics
Matches: 76, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
56 6 0.08
57 42 0.55
60 1 0.01
61 1 0.01
62 20 0.26
63 6 0.08
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.30
Consensus pattern (60 bp):
GGATCACCCGTCCGGGCTAGATCCTTTTTCCACATATTCTTCGAGAGGGATATATCGATA
Found at i:36006555 original size:21 final size:22
Alignment explanation
Indices: 36006525--36006566 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
36006515 CACTTCACAA
*
36006525 TCATAAGTCATACATCATCATC
1 TCATAAGTCAAACATCATCATC
36006547 TCAT-AGTCAAACATCATCAT
1 TCATAAGTCAAACATCATCAT
36006567 AAAGTCCGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.31
Consensus pattern (22 bp):
TCATAAGTCAAACATCATCATC
Found at i:36008658 original size:42 final size:42
Alignment explanation
Indices: 36008595--36008721 Score: 123
Period size: 42 Copynumber: 3.0 Consensus size: 42
36008585 GTGTTATCAA
* * * *
36008595 ATAT-CGATGCCACTATCCCAGACAGGGTCCTACACGAAATC
1 ATATACGATGCCAATGTCCCAGACAAGGTCTTACACGAAATC
* * *
36008636 ATATACGATGCCAATGTTCCAGACATGGTCTTACACGTAATC
1 ATATACGATGCCAATGTCCCAGACAAGGTCTTACACGAAATC
* * * *
36008678 -TCTAATTGATGCTAATGTCCCAGACAAGGTCTTACACGATATC
1 ATAT-A-CGATGCCAATGTCCCAGACAAGGTCTTACACGAAATC
36008721 A
1 A
36008722 CATCTCGGAA
Statistics
Matches: 69, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
41 6 0.09
42 32 0.46
43 31 0.45
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (42 bp):
ATATACGATGCCAATGTCCCAGACAAGGTCTTACACGAAATC
Found at i:36014364 original size:20 final size:20
Alignment explanation
Indices: 36014341--36014413 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 20
36014331 TTTTGATGCA
*
36014341 TTTTATAATTTTTTTATGAT
1 TTTTATAATTTTTTTAAGAT
** *
36014361 TTTTATAA-AATTTTAAAAT
1 TTTTATAATTTTTTTAAGAT
*
36014380 ATTTTATAATTTTTTTACGAT
1 -TTTTATAATTTTTTTAAGAT
*
36014401 TTTAAT-ATTTTTT
1 TTTTATAATTTTTT
36014414 ATTTTTTATT
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
19 14 0.33
20 21 0.50
21 7 0.17
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTTATAATTTTTTTAAGAT
Found at i:36014385 original size:29 final size:28
Alignment explanation
Indices: 36014352--36014430 Score: 79
Period size: 29 Copynumber: 2.8 Consensus size: 28
36014342 TTTATAATTT
36014352 TTTTATGATTTTTATAAAATTTTAAAATA
1 TTTTAT-ATTTTTATAAAATTTTAAAATA
* ** * *
36014381 TTTTATAATTTTTTTACGATTTTAATATT
1 TTTTAT-ATTTTTATAAAATTTTAAAATA
36014410 TTTTAT-TTTTTATTAAAATTT
1 TTTTATATTTTTA-TAAAATTT
36014431 AATAATTTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
27 5 0.12
28 6 0.15
29 29 0.73
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (28 bp):
TTTTATATTTTTATAAAATTTTAAAATA
Found at i:36014440 original size:29 final size:30
Alignment explanation
Indices: 36014340--36014443 Score: 87
Period size: 27 Copynumber: 3.6 Consensus size: 30
36014330 TTTTTGATGC
*
36014340 ATTTTATAAT-TTTTTTATGATTTTTA-TAAA
1 ATTTAATAATATTTTTTAT--TTTTTATTAAA
* * **
36014370 ATTTTAA-AATATTTTATAATTTTT-TTACG
1 A-TTTAATAATATTTTTTATTTTTTATTAAA
36014399 ATTT--TAATATTTTTTATTTTTTATTAAA
1 ATTTAATAATATTTTTTATTTTTTATTAAA
36014427 ATTTAATAAT-TTTTTTA
1 ATTTAATAATATTTTTTA
36014444 AACTTTTATT
Statistics
Matches: 58, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
27 15 0.26
28 10 0.17
29 15 0.26
30 8 0.14
31 10 0.17
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (30 bp):
ATTTAATAATATTTTTTATTTTTTATTAAA
Found at i:36014758 original size:82 final size:81
Alignment explanation
Indices: 36014639--36014791 Score: 216
Period size: 82 Copynumber: 1.9 Consensus size: 81
36014629 AGGAGCTTAA
* * * * *
36014639 TTTTTTTTTTAAATTTATGGCCTTTTTAATTCATTTTAAAAGTTCAAGTACCCAATTGAGTGCAA
1 TTTTTTTTTTAAATTTAGGGCCTTTTTAATGCATTTTAAAAATTCAAGTACCCAATTAAGTACAA
36014704 AAAAAAGGCTTAATTG
66 AAAAAAGGCTTAATTG
* * * *
36014720 TTTTTTTTTTAAGTTTGAGGGGCTTTTTTATGCATTTTAAAAATTCAAGTACCCAATTAAGTATA
1 TTTTTTTTTTAAATTT-AGGGCCTTTTTAATGCATTTTAAAAATTCAAGTACCCAATTAAGTACA
36014785 AAAAAAA
65 AAAAAAA
36014792 AGAACTTAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
81 15 0.24
82 47 0.76
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.43
Consensus pattern (81 bp):
TTTTTTTTTTAAATTTAGGGCCTTTTTAATGCATTTTAAAAATTCAAGTACCCAATTAAGTACAA
AAAAAAGGCTTAATTG
Found at i:36014811 original size:83 final size:78
Alignment explanation
Indices: 36014576--36014811 Score: 195
Period size: 82 Copynumber: 2.9 Consensus size: 78
36014566 ATCAAAGAGT
* * * * *
36014576 CTTTGTAATGCATTTT-ACAATTCAAATACCTAATTGAGTGCCAAAAAAAAGTCAGGAGCTTAAT
1 CTTTTTAATGCATTTTAAAAATTCAAGTACCCAATTAAGTG--AAAAAAAA---A-GA-CTTAAT
*
36014640 TTTTTTTTTAAATTTATGGC
59 TTTTTTTTTAAATTTAGGGC
* * * * *
36014660 CTTTTTAATTCATTTTAAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAGGCTTAATTGTTTTT
1 CTTTTTAATGCATTTTAAAAATTCAAGTACCCAATTAAGTGAAAAAAAAAGACTTAA---TTTTT
* *
36014725 TTTTTAAGTTTGAGGGG
63 TTTTTAAATTT-AGGGC
* * *
36014742 CTTTTTTATGCATTTTAAAAATTCAAGTACCCAATTAAGTATAAAAAAAAAGAACTTAATTACTT
1 CTTTTTAATGCATTTTAAAAATTCAAGTACCCAATTAAGT-GAAAAAAAAAG-ACTTAATT-TTT
36014807 TTTTT
63 TTTTT
36014812 GAAAAGTTTG
Statistics
Matches: 125, Mismatches: 19, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
78 5 0.04
79 1 0.01
80 1 0.01
81 17 0.14
82 46 0.37
83 16 0.13
84 19 0.15
85 20 0.16
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (78 bp):
CTTTTTAATGCATTTTAAAAATTCAAGTACCCAATTAAGTGAAAAAAAAAGACTTAATTTTTTTT
TTAAATTTAGGGC
Found at i:36014831 original size:82 final size:81
Alignment explanation
Indices: 36014660--36014830 Score: 191
Period size: 82 Copynumber: 2.1 Consensus size: 81
36014650 AATTTATGGC
* * * * * *
36014660 CTTTTTAATTCATTTTAAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAGGCTTAATTGTTTTT
1 CTTTTT-ATGCATTTTAAAAATTCAAGTACCCAATTAAGTGAAAAAAAAAGACTTAATTCTTTTT
*** *
36014725 TTTTTAAGTTTGAGGGG
65 TTGAAAAGTTTGAGGAG
*
36014742 CTTTTTTATGCATTTTAAAAATTCAAGTACCCAATTAAGTATAAAAAAAAAGAACTTAATTACTT
1 C-TTTTTATGCATTTTAAAAATTCAAGTACCCAATTAAGT-GAAAAAAAAAG-ACTTAATT-CTT
36014807 TTTTTGAAAAGTTTGA-GAG
62 TTTTTGAAAAGTTTGAGGAG
36014826 CTTTT
1 CTTTT
36014831 AATACCCTTA
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
82 31 0.42
83 18 0.24
84 10 0.14
85 15 0.20
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (81 bp):
CTTTTTATGCATTTTAAAAATTCAAGTACCCAATTAAGTGAAAAAAAAAGACTTAATTCTTTTTT
TGAAAAGTTTGAGGAG
Found at i:36019324 original size:26 final size:27
Alignment explanation
Indices: 36019270--36019324 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
36019260 ACAAGTTTAG
* * *
36019270 ATATCAAATCGGATAAAAAAATCTTAA
1 ATATCAAATCAGAAAAAAAAATCTCAA
*
36019297 ATATCAAATTAGAAAAAAAAAT-TCAA
1 ATATCAAATCAGAAAAAAAAATCTCAA
36019323 AT
1 AT
36019325 TTAAGTACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.60, C:0.09, G:0.05, T:0.25
Consensus pattern (27 bp):
ATATCAAATCAGAAAAAAAAATCTCAA
Found at i:36024291 original size:19 final size:18
Alignment explanation
Indices: 36024256--36024295 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
36024246 GTAAATTTTC
*
36024256 TTTTTTTTTCTTCTGATT
1 TTTTTTTTTCTTATGATT
*
36024274 TTTTTTATTTGTTATGATT
1 TTTTTT-TTTCTTATGATT
36024293 TTT
1 TTT
36024296 CTTAATTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.10, C:0.05, G:0.07, T:0.78
Consensus pattern (18 bp):
TTTTTTTTTCTTATGATT
Found at i:36025349 original size:29 final size:28
Alignment explanation
Indices: 36025317--36025385 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
36025307 GAGAGAGCTG
*
36025317 ATTTTAAATTTGAAAAATAGAGGGACTCA
1 ATTTTAAATTT-AAAAATAGAGGGACTAA
** * *
36025346 ATTTCTAAAAATAAAAGTATAGGGACTAA
1 ATTT-TAAATTTAAAAATAGAGGGACTAA
36025375 ATTTTAAATTT
1 ATTTTAAATTT
36025386 CTAAAAAGTA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
28 5 0.16
29 22 0.69
30 5 0.16
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (28 bp):
ATTTTAAATTTAAAAATAGAGGGACTAA
Found at i:36025748 original size:24 final size:24
Alignment explanation
Indices: 36025714--36025759 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
36025704 TATATGAAAT
* *
36025714 ATAAATTTTAAATATTTTTAAACC
1 ATAAATATTAAATATTTATAAACC
*
36025738 ATAAATATTAATTATTTATAAA
1 ATAAATATTAAATATTTATAAA
36025760 ATTTAATTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (24 bp):
ATAAATATTAAATATTTATAAACC
Found at i:36027847 original size:28 final size:28
Alignment explanation
Indices: 36027807--36027866 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
36027797 TCGATGGATA
36027807 CAAAATTCTCTAATGTGCAGACCAGGAG
1 CAAAATTCTCTAATGTGCAGACCAGGAG
36027835 CAAAATTCTCTAATGTGCAGACCAGGAG
1 CAAAATTCTCTAATGTGCAGACCAGGAG
36027863 CAAA
1 CAAA
36027867 GTCAGAACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (28 bp):
CAAAATTCTCTAATGTGCAGACCAGGAG
Found at i:36030068 original size:3 final size:3
Alignment explanation
Indices: 36030062--36030099 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
36030052 TACTATACTA
36030062 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
36030100 ATATATACAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:36033735 original size:30 final size:30
Alignment explanation
Indices: 36033699--36033763 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
36033689 TCGTCAAGAA
* *
36033699 ATTTAAAATTTTATTTGTTT-TAGTTTGTTT
1 ATTTAAAATTATATGTGTTTATA-TTTGTTT
*
36033729 ATTTAAAATTATGTGTGTTTATATTTGTTT
1 ATTTAAAATTATATGTGTTTATATTTGTTT
36033759 ATTTA
1 ATTTA
36033764 CGGTACACGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (30 bp):
ATTTAAAATTATATGTGTTTATATTTGTTT
Found at i:36033999 original size:23 final size:23
Alignment explanation
Indices: 36033969--36034018 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
36033959 ACTTATCAAA
*
36033969 TTCTCTGTCTTTTGACACGCTTT
1 TTCTCTGTCTTTTGACACGATTT
36033992 TTCTCTGTCTTTTGACACGATTT
1 TTCTCTGTCTTTTGACACGATTT
36034015 TTCT
1 TTCT
36034019 TCTAGACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.10, C:0.24, G:0.12, T:0.54
Consensus pattern (23 bp):
TTCTCTGTCTTTTGACACGATTT
Found at i:36035108 original size:15 final size:15
Alignment explanation
Indices: 36035088--36035121 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
36035078 AGGAAGCGAG
36035088 TAGTCCAATAACGCA
1 TAGTCCAATAACGCA
36035103 TAGTCCAATAACGCA
1 TAGTCCAATAACGCA
36035118 TAGT
1 TAGT
36035122 GATGGACTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.24
Consensus pattern (15 bp):
TAGTCCAATAACGCA
Found at i:36042113 original size:14 final size:14
Alignment explanation
Indices: 36042094--36042128 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
36042084 TTAAAAATAA
36042094 ACATTTTAATAAAT
1 ACATTTTAATAAAT
*
36042108 ACATTTTATTAAAT
1 ACATTTTAATAAAT
*
36042122 AAATTTT
1 ACATTTT
36042129 TAAATTCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (14 bp):
ACATTTTAATAAAT
Found at i:36042321 original size:21 final size:21
Alignment explanation
Indices: 36042297--36042336 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
36042287 ATCGCTATCG
*
36042297 CTATAGTATCCAATCTCACAA
1 CTATAGTAACCAATCTCACAA
*
36042318 CTATAGTAACTAATCTCAC
1 CTATAGTAACCAATCTCAC
36042337 TACCACCATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.28, G:0.05, T:0.30
Consensus pattern (21 bp):
CTATAGTAACCAATCTCACAA
Found at i:36050865 original size:57 final size:56
Alignment explanation
Indices: 36050755--36050867 Score: 140
Period size: 56 Copynumber: 2.0 Consensus size: 56
36050745 TTTAGGTCAT
* *
36050755 TTTCATTGTGGAGGAAACCACATTCATTTCCAAATGATTCAATTTCTCCATTTTCA
1 TTTCATTGTGGAGAAAACCAAATTCATTTCCAAATGATTCAATTTCTCCATTTTCA
* * *
36050811 TTTCATTTTGGAGAAAACCATAATT-ATTTCCAAAT-ATTTTCTATTTCTCTATTTTCA
1 TTTCATTGTGGAGAAAACCA-AATTCATTTCCAAATGA--TTCAATTTCTCCATTTTCA
36050868 CCATTTCTGT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
55 1 0.02
56 28 0.57
57 20 0.41
ACGTcount: A:0.29, C:0.19, G:0.08, T:0.44
Consensus pattern (56 bp):
TTTCATTGTGGAGAAAACCAAATTCATTTCCAAATGATTCAATTTCTCCATTTTCA
Found at i:36050884 original size:10 final size:10
Alignment explanation
Indices: 36050869--36050893 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
36050859 CTATTTTCAC
36050869 CATTTCTGTT
1 CATTTCTGTT
36050879 CATTTCTGTT
1 CATTTCTGTT
36050889 CATTT
1 CATTT
36050894 GATTCAACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.20, G:0.08, T:0.60
Consensus pattern (10 bp):
CATTTCTGTT
Found at i:36060927 original size:41 final size:41
Alignment explanation
Indices: 36060869--36061195 Score: 370
Period size: 41 Copynumber: 8.0 Consensus size: 41
36060859 GAGCTTTTGG
* *
36060869 GGCTTTAGCGGCTTTTTTGGGAAAGCGCTGCTAATGCTCAA
1 GGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAA
* * * *
36060910 GGCTTTAGCAGTGTTTTTGGGGAAGCGCCACTAATGCTC-A
1 GGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAA
* * *
36060950 GGTTTTTAGCGGCGTTTTTGGGAAAGCGTCGCTAATGCTCAG
1 GG-CTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAA
* * * * * *
36060992 GGATTTAGCGACGTTTCTGTGAAAGCGCTGCTAATGCTCAG
1 GGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAA
* *
36061033 GGCTTTAGCGGCATTTTTGGGAAAGTGCCGCTAATGCTC-A
1 GGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAA
* * **
36061073 GGCTTTTAGCGACATTTTTGGGAAAGCGCCGCTAATGCTCCT
1 GGC-TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAA
* * **
36061115 GGCTTTAGCGGCGTTCTTGGGAAAGCGCTGCTAATGCTCGG
1 GGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAA
* **
36061156 GGCTTTAGCGGCGTTTGTGATAAAGCGCCGCTAATGCTCA
1 GGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
36061196 GGGATTTAAA
Statistics
Matches: 240, Mismatches: 42, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
40 6 0.03
41 229 0.95
42 5 0.02
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.30
Consensus pattern (41 bp):
GGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAA
Found at i:36061091 original size:123 final size:123
Alignment explanation
Indices: 36060885--36061197 Score: 430
Period size: 123 Copynumber: 2.5 Consensus size: 123
36060875 AGCGGCTTTT
* * * * *
36060885 TTGGGAAAGCGCTGCTAATGCTCAAGGCTTTAGCAGTGTTTTTGGGGAAGCGCCACTAATGCTCA
1 TTGGGAAAGCGCTGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
* * * *
36060950 GGTTTTTAGCGGCGTTTTTGGGAAAGCGTCGCTAATGCTCAGGGATTTAGCGACGTT-
66 GGCTTTTAGCGACATTTTTGGGAAAGCGCCGCTAATGCTCAGGGATTTAGCGACGTTC
* * *
36061007 TCTGTGAAAGCGCTGCTAATGCTCAGGGCTTTAGCGGCATTTTTGGGAAAGTGCCGCTAATGCTC
1 T-TGGGAAAGCGCTGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTC
** * *
36061072 AGGCTTTTAGCGACATTTTTGGGAAAGCGCCGCTAATGCTCCTGGCTTTAGCGGCGTTC
65 AGGCTTTTAGCGACATTTTTGGGAAAGCGCCGCTAATGCTCAGGGATTTAGCGACGTTC
* * **
36061131 TTGGGAAAGCGCTGCTAATGCTCGGGGCTTTAGCGGCGTTTGTGATAAAGCGCCGCTAATGCTCA
1 TTGGGAAAGCGCTGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
36061196 GG
66 GG
36061198 GATTTAAAAT
Statistics
Matches: 166, Mismatches: 23, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
122 1 0.01
123 164 0.99
124 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.29
Consensus pattern (123 bp):
TTGGGAAAGCGCTGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
GGCTTTTAGCGACATTTTTGGGAAAGCGCCGCTAATGCTCAGGGATTTAGCGACGTTC
Found at i:36061863 original size:15 final size:15
Alignment explanation
Indices: 36061843--36061871 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
36061833 AAATTTTAAG
36061843 GTTTAGGGATTATGT
1 GTTTAGGGATTATGT
36061858 GTTTAGGGATTATG
1 GTTTAGGGATTATG
36061872 GATTATGGTT
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:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (15 bp):
GTTTAGGGATTATGT
Found at i:36061944 original size:14 final size:15
Alignment explanation
Indices: 36061916--36061947 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
36061906 GATTCAGGGG
36061916 TTAGGGGTTAGAGGT
1 TTAGGGGTTAGAGGT
36061931 TTAGGGGTTA-AGGT
1 TTAGGGGTTAGAGGT
36061945 TTA
1 TTA
36061948 TGTTTTATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.38
Consensus pattern (15 bp):
TTAGGGGTTAGAGGT
Found at i:36061968 original size:7 final size:7
Alignment explanation
Indices: 36061837--36061968 Score: 50
Period size: 7 Copynumber: 18.6 Consensus size: 7
36061827 ATATCCAAAT
*
36061837 TTTAAGG
1 TTTAGGG
36061844 TTTAGGG
1 TTTAGGG
* *
36061851 ATTATGTG
1 TTTA-GGG
36061859 TTTAGGG
1 TTTAGGG
* *
36061866 ATTATGG
1 TTTAGGG
* *
36061873 ATTATGG
1 TTTAGGG
*
36061880 TTTATGG
1 TTTAGGG
36061887 TTTAAGGG
1 TTT-AGGG
*
36061895 -TTGGGG
1 TTTAGGG
* *
36061901 TTTAAGA
1 TTTAGGG
*
36061908 TTCAGGG
1 TTTAGGG
*
36061915 GTTAGGG
1 TTTAGGG
*
36061922 GTTAGAGG
1 TTTAG-GG
36061930 TTTAGGG
1 TTTAGGG
* *
36061937 GTTAAGG
1 TTTAGGG
* *
36061944 TTTATGT
1 TTTAGGG
* *
36061951 TTTATGA
1 TTTAGGG
36061958 TTTAGGG
1 TTTAGGG
36061965 TTTA
1 TTTA
36061969 AGAGATAGGG
Statistics
Matches: 94, Mismatches: 27, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
6 3 0.03
7 77 0.82
8 14 0.15
ACGTcount: A:0.21, C:0.01, G:0.35, T:0.43
Consensus pattern (7 bp):
TTTAGGG
Found at i:36066094 original size:43 final size:43
Alignment explanation
Indices: 36066033--36066273 Score: 277
Period size: 43 Copynumber: 5.6 Consensus size: 43
36066023 AAAATATTTT
* **
36066033 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGTTGC
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * * * **
36066076 TAAAGGTCTTATTATTTAGCGGCGTTTGTGGAAAAAGAGCTAC
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * * ** *
36066119 TAAAGGTCTTGTTTTTTTAGCGGCGTTTGTTGAAAAATTGCAGC
1 TAAAGGTCTTG-TTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
36066163 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGG-AAAGCGCCGC
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * * * * *
36066205 TAAAGGTCTTGCTCTATAACGGCTTTTTTGGGAAAAGTGCCGC
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
36066248 TAAAGGTCTTGTTCTTTAGCGGCGTT
1 TAAAGGTCTTGTTCTTTAGCGGCGTT
36066274 GTCAATAGCG
Statistics
Matches: 166, Mismatches: 30, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
42 34 0.20
43 95 0.57
44 37 0.22
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (43 bp):
TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
Found at i:36066166 original size:87 final size:85
Alignment explanation
Indices: 36066033--36066273 Score: 277
Period size: 87 Copynumber: 2.8 Consensus size: 85
36066023 AAAATATTTT
* * * ** * *
36066033 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGTTGCTAAAGGTCTTATTATTTAGCGG
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTTGGAAAAGTGCAGCTAAAGGTCTTGTTCTTTAGCGG
*
36066098 CGTTTGTGGAAAAAGAGCTAC
66 CGTTTGTGG-AAAAGAGCCAC
* * *
36066119 TAAAGGTCTTGTTTTTTTAGCGGCGTTTGTTGAAAAATTGCAGCTAAAGGTCTTGTTCTTTAGCG
1 TAAAGGTCTTG-TTCTTTAGCGGCGTTTGTTGGAAAAGTGCAGCTAAAGGTCTTGTTCTTTAGCG
* * *
36066184 GCGTTTGTGGGAAAGCGCCGC
65 GCGTTTGTGGAAAAGAGCCAC
* * * * *
36066205 TAAAGGTCTTGCTCTATAACGGC-TTTTTTGGGAAAAGTGCCGCTAAAGGTCTTGTTCTTTAGCG
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTT-GGAAAAGTGCAGCTAAAGGTCTTGTTCTTTAGCG
36066269 GCGTT
65 GCGTT
36066274 GTCAATAGCG
Statistics
Matches: 131, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
84 5 0.04
85 44 0.34
86 28 0.21
87 54 0.41
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (85 bp):
TAAAGGTCTTGTTCTTTAGCGGCGTTTGTTGGAAAAGTGCAGCTAAAGGTCTTGTTCTTTAGCGG
CGTTTGTGGAAAAGAGCCAC
Found at i:36067895 original size:50 final size:50
Alignment explanation
Indices: 36067771--36068111 Score: 425
Period size: 50 Copynumber: 6.8 Consensus size: 50
36067761 CTATATAACA
* * * ** * * *
36067771 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * ** * *
36067820 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * ** *
36067870 TGCCCATGTCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
36067920 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
36067970 TGCCAACGCTATGTCCCTGACATGGTCTTACATGGGACCTCTCATCTCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
36068020 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
36068070 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
36068112 TTACTCAAAT
Statistics
Matches: 253, Mismatches: 37, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
49 36 0.14
50 217 0.86
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:36072638 original size:12 final size:12
Alignment explanation
Indices: 36072618--36072649 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
36072608 TACCACACAC
*
36072618 GGCCGTGTGCTA
1 GGCCATGTGCTA
36072630 GGCCATGTGCTA
1 GGCCATGTGCTA
36072642 GGCCATGT
1 GGCCATGT
36072650 AATTCACTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.12, C:0.25, G:0.38, T:0.25
Consensus pattern (12 bp):
GGCCATGTGCTA
Found at i:36077155 original size:17 final size:17
Alignment explanation
Indices: 36077133--36077165 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
36077123 GTTAGTGCAC
36077133 ATTGTCATTGCATTTTT
1 ATTGTCATTGCATTTTT
*
36077150 ATTGTCATTGTATTTT
1 ATTGTCATTGCATTTT
36077166 AATTTTAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.09, G:0.12, T:0.61
Consensus pattern (17 bp):
ATTGTCATTGCATTTTT
Found at i:36082859 original size:21 final size:22
Alignment explanation
Indices: 36082812--36082878 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 22
36082802 AAAAAAGGTA
*
36082812 TTTAATAATATTAATAAT-GAT
1 TTTAATAATAATAATAATAGAT
**
36082833 GCTAATAATAATAATAATAG-T
1 TTTAATAATAATAATAATAGAT
* *
36082854 TTTAATAGTAATATATAATAAAT
1 TTTAATAATAATA-ATAATAGAT
36082877 TT
1 TT
36082879 ATTAGTAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
21 26 0.72
22 7 0.19
23 3 0.08
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.43
Consensus pattern (22 bp):
TTTAATAATAATAATAATAGAT
Found at i:36082879 original size:22 final size:22
Alignment explanation
Indices: 36082835--36082891 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
36082825 ATAATGATGC
* **
36082835 TAATAATAATA-ATAATAGTTT
1 TAATAGTAATATATAATAAATT
36082856 TAATAGTAATATATAATAAATT
1 TAATAGTAATATATAATAAATT
* *
36082878 TATTAGTAAAATAT
1 TAATAGTAATATAT
36082892 CCAAAATAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 10 0.33
22 20 0.67
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (22 bp):
TAATAGTAATATATAATAAATT
Found at i:36084532 original size:44 final size:44
Alignment explanation
Indices: 36084479--36084573 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 44
36084469 GATCTGACCT
36084479 ACTGCAACTTCAGAGAGATAAGATCTGTG-GTTTT-AATCCGCTCC
1 ACTGCAACTTCAGAGAGATAAGAT-TG-GCGTTTTCAATCCGCTCC
* * * *
36084523 ACTGCAACTTCAGGGAGATAGGATTGGCTTTTTCAATCTGCTCC
1 ACTGCAACTTCAGAGAGATAAGATTGGCGTTTTCAATCCGCTCC
36084567 ACTGCAA
1 ACTGCAA
36084574 TGTCGGGGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
42 1 0.02
43 6 0.13
44 38 0.84
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (44 bp):
ACTGCAACTTCAGAGAGATAAGATTGGCGTTTTCAATCCGCTCC
Found at i:36084633 original size:50 final size:50
Alignment explanation
Indices: 36084554--36085560 Score: 626
Period size: 50 Copynumber: 20.2 Consensus size: 50
36084544 GATTGGCTTT
* *
36084554 TTCAATCTGCTCCACTGCAAT-GTCGGGGAAGTAAGATTCGCCGTAGTAGC
1 TTCAATCTGTTCCACTGC-ATCGTCGGGGAAGTAAGATTCGCCGTTGTAGC
* * * *
36084604 TTCAATCTATTCCACTGCATCGTCTGGGAAGTAAGATTCGCTGTTGTGGC
1 TTCAATCTGTTCCACTGCATCGTCGGGGAAGTAAGATTCGCCGTTGTAGC
* ** * * *
36084654 TTCAATCTTTTTAATTGCAAT-GTCGAGGAAAG-AAGATTCGCTGTTGTAGC
1 TTCAATCTGTTCCACTGC-ATCGTCG-GGGAAGTAAGATTCGCCGTTGTAGC
* * * * * *
36084704 TTCAATCTATTCCACTGCACCGCCTGGGAAGTAAGATTCACCGTTGTGGC
1 TTCAATCTGTTCCACTGCATCGTCGGGGAAGTAAGATTCGCCGTTGTAGC
* ** * * * *
36084754 TTCAATCTTTTTAATTGCAAT-GTCGGGGAAGCAAGATTCACCGTTGTATC
1 TTCAATCTGTTCCACTGC-ATCGTCGGGGAAGTAAGATTCGCCGTTGTAGC
* * * * * * * * *
36084804 TTTAATCTATTCCACTGCACCGCCTGAGAACTAAGATTCACCGTTGTGGC
1 TTCAATCTGTTCCACTGCATCGTCGGGGAAGTAAGATTCGCCGTTGTAGC
* ** * * *
36084854 TTCAATCTTTTTAATTGCAAT-GTCGGGGAAGCAAGATTCACCGTTGTAGC
1 TTCAATCTGTTCCACTGC-ATCGTCGGGGAAGTAAGATTCGCCGTTGTAGC
* * * * *
36084904 TTCAATCTGTTCCACTGCACCGCCTGGGAAGTAAGATTCGCTGTTGTGGC
1 TTCAATCTGTTCCACTGCATCGTCGGGGAAGTAAGATTCGCCGTTGTAGC
* ** * *
36084954 TTCAATCTTTTTAATTGCAAT-GTCGGGGAAGCAAGATTCGCCGTTGTAGC
1 TTCAATCTGTTCCACTGC-ATCGTCGGGGAAGTAAGATTCGCCGTTGTAGC
** * * * *
36085004 TTCAATCTGTTCCACTGCATCAACTGGAAAGTAAGATTTGCCGTTGT-GG
1 TTCAATCTGTTCCACTGCATCGTCGGGGAAGTAAGATTCGCCGTTGTAGC
* ** * * * *
36085053 TCTCAATCTTTTTAATTGCAAT-GTCGGGGGAGCAATATTCGCCGTTGTAGC
1 T-TCAATCTGTTCCACTGC-ATCGTCGGGGAAGTAAGATTCGCCGTTGTAGC
* * * ** * *
36085104 TTCAATTTGTTCCACTGCACCGCCAAGGAAATAAGATTCGCCGTTGTGGC
1 TTCAATCTGTTCCACTGCATCGTCGGGGAAGTAAGATTCGCCGTTGTAGC
* ** * * * * *
36085154 CTCAATCT-TTTAATTGTAAT-GTCGGGGAAGCAAGATTCACTGTTGTAGC
1 TTCAATCTGTTCCACTG-CATCGTCGGGGAAGTAAGATTCGCCGTTGTAGC
* * * * *
36085203 TTCAATCTGTTCCACTGTA-CTGCCAGAGAAGTAAGATTCGCCGTTGTGGC
1 TTCAATCTGTTCCACTGCATC-GTCGGGGAAGTAAGATTCGCCGTTGTAGC
* ** * * * ** *
36085253 TTCAATCTTTTTAATTGTAATAC--CGGGGAAGCAAGATTCATCGTCGTAGC
1 TTCAATCTGTTCCACTG-CAT-CGTCGGGGAAGTAAGATTCGCCGTTGTAGC
* * * * * *
36085303 TTCAATCTGTTCCGCTGCACCGCCTTGGGAAGTAAGATTCACCGTTGTGGC
1 TTCAATCTGTTCCACTGCATCGTC-GGGGAAGTAAGATTCGCCGTTGTAGC
* ** * * ** *
36085354 CTCAATCT-TTTAATTG-ATATGTCGGGGAAGCGAGATTCGCTGTTGTAGC
1 TTCAATCTGTTCCACTGCAT-CGTCGGGGAAGTAAGATTCGCCGTTGTAGC
* ** * * * *
36085403 TTCAATCTGTTCCACTGCACCACCTGGGAAAGTGAGATTCGCTGTTGTGGC
1 TTCAATCTGTTCCACTGCATCGTC-GGGGAAGTAAGATTCGCCGTTGTAGC
* ** * * * *
36085454 CTCAATCT-TTTAATTGCAAT-GTCGGGGAAGCAAGAGTCACCGTTGTAGC
1 TTCAATCTGTTCCACTGC-ATCGTCGGGGAAGTAAGATTCGCCGTTGTAGC
* * * * *
36085503 TTCAATCTTTTCCACTGCATCGCCAGAGAAGTAAGATTCGCCGTTGTGGC
1 TTCAATCTGTTCCACTGCATCGTCGGGGAAGTAAGATTCGCCGTTGTAGC
36085553 TTCAATCT
1 TTCAATCT
36085561 TTTTAATTGC
Statistics
Matches: 706, Mismatches: 219, Indels: 64
0.71 0.22 0.06
Matches are distributed among these distances:
48 1 0.00
49 106 0.15
50 523 0.74
51 75 0.11
53 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (50 bp):
TTCAATCTGTTCCACTGCATCGTCGGGGAAGTAAGATTCGCCGTTGTAGC
Found at i:36084731 original size:100 final size:100
Alignment explanation
Indices: 36084569--36085572 Score: 1390
Period size: 100 Copynumber: 10.1 Consensus size: 100
36084559 TCTGCTCCAC
* * * * *
36084569 TGCAATGTCGGGGAAGTAAGATTCGCCGTAGTAGCTTCAATCTATTCCACTGCATCGTCTGGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
*
36084634 GTAAGATTCGCTGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
* * *
36084669 TGCAATGTCGAGGAAAG-AAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCCTGGGA
1 TGCAATGTCG-GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGA
*
36084733 AGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAAT
65 AGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
* * * * *
36084769 TGCAATGTCGGGGAAGCAAGATTCACCGTTGTATCTTTAATCTATTCCACTGCACCGCCTGAGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
* *
36084834 CTAAGATTCACCGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
*
36084869 TGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
*
36084934 GTAAGATTCGCTGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
* ** *
36084969 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATCAACTGGAAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
*
36085034 GTAAGATTTGCCGTTGTGG-TCTCAATCTTTTTAAT
66 GTAAGATTCGCCGTTGTGGCT-TCAATCTTTTTAAT
* * * **
36085069 TGCAATGTCGGGGGAGCAATATTCGCCGTTGTAGCTTCAATTTGTTCCACTGCACCGCCAAGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
* *
36085134 ATAAGATTCGCCGTTGTGGCCTCAATC-TTTTAAT
66 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
* * * * * * *
36085168 TGTAATGTCGGGGAAGCAAGATTCACTGTTGTAGCTTCAATCTGTTCCACTGTACTGCCAGAGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
36085233 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
* ** ** * *
36085268 TGTAATACCGGGGAAGCAAGATTCATCGTCGTAGCTTCAATCTGTTCCGCTGCACCGCCTTGGGA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCC-TGGGA
* *
36085333 AGTAAGATTCACCGTTGTGGCCTCAATC-TTTTAAT
65 AGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
* * *
36085368 TG-ATATGTCGGGGAAGCGAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCACCTGGGA
1 TGCA-ATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGG-
* * *
36085432 AAGTGAGATTCGCTGTTGTGGCCTCAATC-TTTTAAT
64 AAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
* * * * * *
36085468 TGCAATGTCGGGGAAGCAAGAGTCACCGTTGTAGCTTCAATCTTTTCCACTGCATCGCCAGAGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
36085533 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
36085568 TGCAA
1 TGCAA
36085573 ACTATGGTGT
Statistics
Matches: 806, Mismatches: 88, Indels: 20
0.88 0.10 0.02
Matches are distributed among these distances:
99 124 0.15
100 647 0.80
101 35 0.04
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (100 bp):
TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
GTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
Found at i:36085649 original size:45 final size:45
Alignment explanation
Indices: 36085600--36085810 Score: 164
Period size: 44 Copynumber: 4.7 Consensus size: 45
36085590 CTGCTTCACC
* *
36085600 GTCAGTACAGGAAGGTAAGATCTGCTATCTTCAGTCTGCTCCGTT
1 GTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCT
* * * *
36085645 GTCAGTACAGGAAGGCAAG-GCTGGTGTCTTC-GATCTGCTTCGCT
1 GTCAGTACAGGAAGGCAAGATCTGCTATCTTCAG-TCTGCTCCGCT
* * ** * * *
36085689 G-CTAGCAGAGGAAGGCATTATCTACTATCTTCAGTCTACTCCACT
1 GTC-AGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCT
* * * *
36085734 GTCAGTACAGGAAGGCAAG-GCTGGTGTCTTC-GATCTGCTTCGCT
1 GTCAGTACAGGAAGGCAAGATCTGCTATCTTCAG-TCTGCTCCGCT
* **
36085778 G-CTAGTGCAGGAAGGCATTATCTGCTATCTTCA
1 GTC-AGTACAGGAAGGCAAGATCTGCTATCTTCA
36085811 CTGATCTGTT
Statistics
Matches: 123, Mismatches: 34, Indels: 17
0.71 0.20 0.10
Matches are distributed among these distances:
43 4 0.03
44 61 0.50
45 56 0.46
46 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (45 bp):
GTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCT
Found at i:36085701 original size:44 final size:44
Alignment explanation
Indices: 36085577--36085794 Score: 133
Period size: 45 Copynumber: 4.9 Consensus size: 44
36085567 TTGCAAACTA
* * * * *
36085577 TGGTGTCTTCGATCTGCTTCACCG-TCAGTACAGGAAGGTAAGATC
1 TGGTGTCTTCGATCTGCTTCGCTGCT-AGCACAGGAAGGCAAG-GC
* * * * *
36085622 TGCTATCTTC-AGTCTGCTCCGTTG-TCAGTACAGGAAGGCAAGGC
1 TGGTGTCTTCGA-TCTGCTTCGCTGCT-AGCACAGGAAGGCAAGGC
* *
36085666 TGGTGTCTTCGATCTGCTTCGCTGCTAGCAGAGGAAGGCATTA-TC
1 TGGTGTCTTCGATCTGCTTCGCTGCTAGCACAGGAAGGCA--AGGC
** * * * * *
36085711 TACTATCTTC-AGTCTACTCCACTG-TCAGTACAGGAAGGCAAGGC
1 TGGTGTCTTCGA-TCTGCTTCGCTGCT-AGCACAGGAAGGCAAGGC
**
36085755 TGGTGTCTTCGATCTGCTTCGCTGCTAGTGCAGGAAGGCA
1 TGGTGTCTTCGATCTGCTTCGCTGCTAGCACAGGAAGGCA
36085795 TTATCTGCTA
Statistics
Matches: 132, Mismatches: 31, Indels: 21
0.72 0.17 0.11
Matches are distributed among these distances:
43 1 0.01
44 64 0.48
45 66 0.50
46 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (44 bp):
TGGTGTCTTCGATCTGCTTCGCTGCTAGCACAGGAAGGCAAGGC
Found at i:36085737 original size:89 final size:88
Alignment explanation
Indices: 36085577--36085810 Score: 326
Period size: 89 Copynumber: 2.6 Consensus size: 88
36085567 TTGCAAACTA
* * * * ** *
36085577 TGGTGTCTTCGATCTGCTTCACCG-TCAGTACAGGAAGGTAAGATCTGCTATCTTCAGTCTGCTC
1 TGGTGTCTTCGATCTGCTTCGCTGCT-AG-AGAGGAAGGCATTATCTGCTATCTTCAGTCTACTC
**
36085641 CGTTGTCAGTACAGGAAGGCAAGGC
64 CACTGTCAGTACAGGAAGGCAAGGC
*
36085666 TGGTGTCTTCGATCTGCTTCGCTGCTAGCAGAGGAAGGCATTATCTACTATCTTCAGTCTACTCC
1 TGGTGTCTTCGATCTGCTTCGCTGCTAG-AGAGGAAGGCATTATCTGCTATCTTCAGTCTACTCC
36085731 ACTGTCAGTACAGGAAGGCAAGGC
65 ACTGTCAGTACAGGAAGGCAAGGC
*
36085755 TGGTGTCTTCGATCTGCTTCGCTGCTAGTGCAGGAAGGCATTATCTGCTATCTTCA
1 TGGTGTCTTCGATCTGCTTCGCTGCTAGAG-AGGAAGGCATTATCTGCTATCTTCA
36085811 CTGATCTGTT
Statistics
Matches: 130, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
88 1 0.01
89 128 0.98
90 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.30
Consensus pattern (88 bp):
TGGTGTCTTCGATCTGCTTCGCTGCTAGAGAGGAAGGCATTATCTGCTATCTTCAGTCTACTCCA
CTGTCAGTACAGGAAGGCAAGGC
Found at i:36087946 original size:27 final size:29
Alignment explanation
Indices: 36087916--36087981 Score: 91
Period size: 31 Copynumber: 2.3 Consensus size: 29
36087906 ACGTGTGAAT
*
36087916 TTATGAAT-A-ATTATCTGTACAGTATGA
1 TTATGAATAAGATTATCTGCACAGTATGA
36087943 TTATGAATGAAAGATTATCTGCACAGTATGA
1 TTATGAAT--AAGATTATCTGCACAGTATGA
36087974 TTATGAAT
1 TTATGAAT
36087982 GAAATATTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
27 8 0.24
30 1 0.03
31 25 0.74
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (29 bp):
TTATGAATAAGATTATCTGCACAGTATGA
Found at i:36087960 original size:31 final size:31
Alignment explanation
Indices: 36087925--36087985 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
36087915 TTTATGAATA
*
36087925 ATTATCTGTACAGTATGATTATGAATGAAAG
1 ATTATCTGCACAGTATGATTATGAATGAAAG
36087956 ATTATCTGCACAGTATGATTATGAATGAAA
1 ATTATCTGCACAGTATGATTATGAATGAAA
36087986 TATTGATTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.34
Consensus pattern (31 bp):
ATTATCTGCACAGTATGATTATGAATGAAAG
Found at i:36092168 original size:3 final size:3
Alignment explanation
Indices: 36092162--36092204 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
36092152 ATAATGATGC
* **
36092162 TAA TAA TAA TAA TAA TAA TAG TTT TAA TAA TAA TATA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
36092205 ATTTATTAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:36098711 original size:6 final size:6
Alignment explanation
Indices: 36098697--36098725 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
36098687 TCGAAAAAGG
36098697 AAAAT- AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA
36098726 CAATAAGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
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):
AAAATA
Found at i:36098711 original size:11 final size:11
Alignment explanation
Indices: 36098697--36098731 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
36098687 TCGAAAAAGG
36098697 AAAATAAAATA
1 AAAATAAAATA
36098708 AAAATAAAAATA
1 AAAAT-AAAATA
*
36098720 AAAATACAATA
1 AAAATAAAATA
36098731 A
1 A
36098732 GTTGTCCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:36110132 original size:17 final size:16
Alignment explanation
Indices: 36110073--36110134 Score: 52
Period size: 17 Copynumber: 3.7 Consensus size: 16
36110063 ACTTTGCAAA
*
36110073 TTTGATGAGCTCGCAC
1 TTTGATGAGCTCGAAC
* *
36110089 TGTTGGTGAGCTCGTAGC
1 T-TTGATGAGCTCG-AAC
* *
36110107 CTTGCTGAGCTCGAAC
1 TTTGATGAGCTCGAAC
36110123 ATTTGATGAGCT
1 -TTTGATGAGCT
36110135 TGCAATTTTG
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
16 3 0.09
17 31 0.89
18 1 0.03
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (16 bp):
TTTGATGAGCTCGAAC
Found at i:36113192 original size:36 final size:36
Alignment explanation
Indices: 36113095--36113215 Score: 134
Period size: 36 Copynumber: 3.4 Consensus size: 36
36113085 CGCGAACTGG
* * * *
36113095 GCTTTGTAGGAGGGTTTGAAAGGTACAACAGATTGG
1 GCTTCGTAGGAGGGTTTGAAAGGTATAACAAATTGC
* *
36113131 GCTTCGTAGGAGGGTTTGCAAGGTATATCAAATTGC
1 GCTTCGTAGGAGGGTTTGAAAGGTATAACAAATTGC
* * * * *
36113167 GCTTCGTAGGAGGGTTCGTAAGGTATAGCAAACTAC
1 GCTTCGTAGGAGGGTTTGAAAGGTATAACAAATTGC
*
36113203 GGTTCGTAGGAGG
1 GCTTCGTAGGAGG
36113216 CAGCGAACAT
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 73 1.00
ACGTcount: A:0.26, C:0.12, G:0.35, T:0.27
Consensus pattern (36 bp):
GCTTCGTAGGAGGGTTTGAAAGGTATAACAAATTGC
Found at i:36114539 original size:34 final size:33
Alignment explanation
Indices: 36114501--36114611 Score: 114
Period size: 34 Copynumber: 3.3 Consensus size: 33
36114491 ACTTCACAGC
*
36114501 TTTGATGAGCTAGCACTGTTGGTGAGCTCGCACA
1 TTTGATGAGCTAGCAAT-TTGGTGAGCTCGCACA
* * * *
36114535 TTTGATGAACTTGCAATCTTGGTGAGCCCACACA
1 TTTGATGAGCTAGCAAT-TTGGTGAGCTCGCACA
* * *
36114569 TTTGATGAGCTCGAAATTTCGGTGAGCTCGCAGA
1 TTTGATGAGCTAGCAATTT-GGTGAGCTCGCACA
*
36114603 TTTGGTGAG
1 TTTGATGAG
36114612 TTTGTATCTT
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
33 2 0.03
34 61 0.97
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (33 bp):
TTTGATGAGCTAGCAATTTGGTGAGCTCGCACA
Found at i:36114594 original size:17 final size:17
Alignment explanation
Indices: 36114519--36114611 Score: 73
Period size: 17 Copynumber: 5.5 Consensus size: 17
36114509 GCTAGCACTG
*
36114519 TTGGTGAGCTCGCACAT
1 TTGGTGAGCTCGCAAAT
* * *
36114536 TTGATGAACTTGC-AAT
1 TTGGTGAGCTCGCAAAT
* * *
36114552 CTTGGTGAGCCCACACAT
1 -TTGGTGAGCTCGCAAAT
*
36114570 TTGATGAGCTCG-AAAT
1 TTGGTGAGCTCGCAAAT
*
36114586 TTCGGTGAGCTCGCAGAT
1 TT-GGTGAGCTCGCAAAT
36114604 TTGGTGAG
1 TTGGTGAG
36114612 TTTGTATCTT
Statistics
Matches: 56, Mismatches: 16, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
16 7 0.12
17 42 0.75
18 7 0.12
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (17 bp):
TTGGTGAGCTCGCAAAT
Found at i:36122272 original size:21 final size:21
Alignment explanation
Indices: 36122248--36122343 Score: 60
Period size: 21 Copynumber: 4.5 Consensus size: 21
36122238 GCGTATGCGC
36122248 ATATAAATAAGTATAATAATA
1 ATATAAATAAGTATAATAATA
*
36122269 ATAT--ATCAG-ATAATAATAA
1 ATATAAATAAGTATAATAAT-A
36122288 ACTAATAACAATACA-T-TAATAATA
1 A-T-AT-A-AATA-AGTATAATAATA
*
36122312 ATATAAA-AAGTATTAAAAATA
1 ATATAAATAAGTA-TAATAATA
36122333 ATAATAAATAA
1 AT-ATAAATAA
36122344 ATAAAACTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 26
0.67 0.03 0.30
Matches are distributed among these distances:
18 9 0.16
19 8 0.14
20 3 0.05
21 16 0.28
22 7 0.12
23 3 0.05
24 2 0.03
25 9 0.16
26 1 0.02
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.30
Consensus pattern (21 bp):
ATATAAATAAGTATAATAATA
Found at i:36122911 original size:17 final size:18
Alignment explanation
Indices: 36122882--36122918 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
36122872 TTTTTTTTAT
36122882 AAACGAAAG-AAAAACAA
1 AAACGAAAGAAAAAACAA
36122899 AAAC-AAAGTAAAAAACAA
1 AAACGAAAG-AAAAAACAA
36122917 AA
1 AA
36122919 GGAAAAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.22
17 4 0.22
18 10 0.56
ACGTcount: A:0.78, C:0.11, G:0.08, T:0.03
Consensus pattern (18 bp):
AAACGAAAGAAAAAACAA
Found at i:36123960 original size:50 final size:49
Alignment explanation
Indices: 36123880--36124161 Score: 217
Period size: 50 Copynumber: 5.7 Consensus size: 49
36123870 TGCACCGCCA
*
36123880 GGGAGATAAGATCTGCCGT-GTGGCTTCAATCTTTTAAATTGCAATGTCG
1 GGGAAATAAGATC-GCCGTCGTGGCTTCAATCTTTTAAATTGCAATGTCG
* * ** * * * *
36123929 GGGAAATAAGACTCGCTGTCGTGGCTTCAATCTGTTCCACTGCACTGCCA
1 GGGAAATAAGA-TCGCCGTCGTGGCTTCAATCTTTTAAATTGCAATGTCG
* * * * *
36123979 GGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATCGCAATTTCG
1 GGGAAATAAGAT-CGCCGTCGTGGCTTCAATCTTTTAAATTGCAATGTCG
** * * ** * * * *
36124029 GGGAAACCAGATTCGCCGTCGTGACTTCAATCTGTTCCACTGCACTGCCA
1 GGGAAATAAGA-TCGCCGTCGTGGCTTCAATCTTTTAAATTGCAATGTCG
* * * *
36124079 AGGAAGTAAGATCCGTCGTTGTGGCTTCAATC-TTTATAATTGCAATGTCG
1 GGGAAATAAGAT-CGCCGTCGTGGCTTCAATCTTTTA-AATTGCAATGTCG
* *
36124129 GGGAAACAAGATTCGCCGTCGTGACTTCAATCT
1 GGGAAATAAGA-TCGCCGTCGTGGCTTCAATCT
36124162 GCTCCACTAG
Statistics
Matches: 170, Mismatches: 55, Indels: 14
0.71 0.23 0.06
Matches are distributed among these distances:
49 18 0.11
50 150 0.88
51 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (49 bp):
GGGAAATAAGATCGCCGTCGTGGCTTCAATCTTTTAAATTGCAATGTCG
Found at i:36124057 original size:100 final size:100
Alignment explanation
Indices: 36123705--36124223 Score: 602
Period size: 100 Copynumber: 5.2 Consensus size: 100
36123695 GGATTATTTT
* * * * * *
36123705 CTTCAAT-TTATTTAACTGTAATGTCGGGAAAACAAGATTCGCCATTGTGACTTCAATCTATTCC
1 CTTCAATCTT-TTTAATTGCAATGTCGGGGAAACAAGATTCGCCGTCGTGACTTCAATCTGTTCC
* * * * *
36123769 GCTACACCGCCAGGGAGGTAAGATCCGCCGTTATGG
65 ACTGCACTGCCAGGGAAGTAAGATCCGCCGTTGTGG
* * * * * * * *
36123805 CTTCAATCTTTTAAATCGTAATGTC-GAGAGAACCAG-TCCGCTGTTGT-AGCTTCAATCTGTTC
1 CTTCAATCTTTTTAATTGCAATGTCGGGGA-AACAAGATTCGCCGTCGTGA-CTTCAATCTGTTC
* * *
36123867 CTCTGCACCGCCAGGG-AGATAAGATCTGCCG-TGTGG
64 CACTGCACTGCCAGGGAAG-TAAGATCCGCCGTTGTGG
* * * * *
36123903 CTTCAATCTTTTAAATTGCAATGTCGGGGAAATAAGACTCGCTGTCGTGGCTTCAATCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATTCGCCGTCGTGACTTCAATCTGTTCCA
36123968 CTGCACTGCCAGGGAAGTAAGATCCGCCGTTGTGG
66 CTGCACTGCCAGGGAAGTAAGATCCGCCGTTGTGG
* * *
36124003 CTTCAATCTTTTTAATCGCAATTTCGGGGAAACCAGATTCGCCGTCGTGACTTCAATCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATTCGCCGTCGTGACTTCAATCTGTTCCA
* *
36124068 CTGCACTGCCAAGGAAGTAAGATCCGTCGTTGTGG
66 CTGCACTGCCAGGGAAGTAAGATCCGCCGTTGTGG
* *
36124103 CTTCAATCTTTATAATTGCAATGTCGGGGAAACAAGATTCGCCGTCGTGACTTCAATCTGCTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATTCGCCGTCGTGACTTCAATCTGTTCCA
* * * *
36124168 CTAG-ACTGCCAAGGAAATAAGATCCGTCTTTGTGG
66 CT-GCACTGCCAGGGAAGTAAGATCCGCCGTTGTGG
36124203 CTTCAATCTTTTTAATTGCAA
1 CTTCAATCTTTTTAATTGCAA
36124224 CGTCATGGCG
Statistics
Matches: 364, Mismatches: 45, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
98 33 0.09
99 96 0.26
100 232 0.64
101 3 0.01
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.30
Consensus pattern (100 bp):
CTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATTCGCCGTCGTGACTTCAATCTGTTCCA
CTGCACTGCCAGGGAAGTAAGATCCGCCGTTGTGG
Found at i:36124207 original size:50 final size:50
Alignment explanation
Indices: 36123847--36124211 Score: 211
Period size: 50 Copynumber: 7.3 Consensus size: 50
36123837 CCAGTCCGCT
* * * * * * *
36123847 GTTGTAGCTTCAATCTGTTCCTCTGCACCGCCAGGGAGATAAGATCTGCC
1 GTTGTGGCTTCAATCTGTTCCACTGCACTGCCAAGGAAATAAGATCCGTC
* ** * * * **
36123897 G-TGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAATAAGA-CTCG-C
1 GTTGTGGCTTCAATCTGTTCCACTGCACTGCCAAGGAAATAAGATC-CGTC
* * * *
36123945 TGTCGTGGCTTCAATCTGTTCCACTGCACTGCCAGGGAAGTAAGATCCGCC
1 -GTTGTGGCTTCAATCTGTTCCACTGCACTGCCAAGGAAATAAGATCCGTC
** * * ** ** ** * *
36123996 GTTGTGGCTTCAATCT-TTTTAATCGCAATTTCGGGGAAACCAGATTCGCC
1 GTTGTGGCTTCAATCTGTTCCACT-GCACTGCCAAGGAAATAAGATCCGTC
* * *
36124046 GTCGTGACTTCAATCTGTTCCACTGCACTGCCAAGGAAGTAAGATCCGTC
1 GTTGTGGCTTCAATCTGTTCCACTGCACTGCCAAGGAAATAAGATCCGTC
** * * * ** * * *
36124096 GTTGTGGCTTCAATCT-TTATAATTGCAATGTCGGGGAAACAAGATTCGCC
1 GTTGTGGCTTCAATCTGTT-CCACTGCACTGCCAAGGAAATAAGATCCGTC
* * *
36124146 GTCGTGACTTCAATCTGCTCCACTAG-ACTGCCAAGGAAATAAGATCCGTC
1 GTTGTGGCTTCAATCTGTTCCACT-GCACTGCCAAGGAAATAAGATCCGTC
*
36124196 TTTGTGGCTTCAATCT
1 GTTGTGGCTTCAATCT
36124212 TTTTAATTGC
Statistics
Matches: 228, Mismatches: 77, Indels: 20
0.70 0.24 0.06
Matches are distributed among these distances:
48 2 0.01
49 39 0.17
50 179 0.79
51 8 0.04
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (50 bp):
GTTGTGGCTTCAATCTGTTCCACTGCACTGCCAAGGAAATAAGATCCGTC
Found at i:36125666 original size:14 final size:15
Alignment explanation
Indices: 36125628--36125656 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36125618 CCTTAGCCTC
36125628 TCCA-TTTTCATTTT
1 TCCATTTTTCATTTT
36125642 TCCATTTTTCATTTT
1 TCCATTTTTCATTTT
36125657 CATTTTTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.14, C:0.21, G:0.00, T:0.66
Consensus pattern (15 bp):
TCCATTTTTCATTTT
Found at i:36125677 original size:15 final size:15
Alignment explanation
Indices: 36125659--36125694 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
36125649 TTCATTTTCA
36125659 TTTTTTCACATCTCT
1 TTTTTTCACATCTCT
* *
36125674 TTTTTTCTCTTCTCT
1 TTTTTTCACATCTCT
36125689 TTTTTT
1 TTTTTT
36125695 TTCACTCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTTTCACATCTCT
Found at i:36126185 original size:11 final size:10
Alignment explanation
Indices: 36126166--36126238 Score: 56
Period size: 10 Copynumber: 6.8 Consensus size: 10
36126156 CCGGTGGAGG
36126166 TTTTTTTTTC
1 TTTTTTTTTC
36126176 TTTTTCTTTTTAC
1 -TTTT-TTTTT-C
36126189 TTTTTTTGTTC
1 TTTTTTT-TTC
*
36126200 TTCTTTTGTTC
1 TT-TTTTTTTC
* *
36126211 TCTTTTTTCC
1 TTTTTTTTTC
* *
36126221 TCTTTTTTTG
1 TTTTTTTTTC
36126231 TTTTTTTT
1 TTTTTTTT
36126239 GTTTTGTTTG
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
10 21 0.41
11 14 0.27
12 15 0.29
13 1 0.02
ACGTcount: A:0.01, C:0.14, G:0.04, T:0.81
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:36126216 original size:23 final size:22
Alignment explanation
Indices: 36126168--36126238 Score: 74
Period size: 21 Copynumber: 3.3 Consensus size: 22
36126158 GGTGGAGGTT
* *
36126168 TTTTTTTCTTTTTCTTTT-TAC
1 TTTTTTTCTTCTTCTTTTGTTC
*
36126189 TTTTTTTGTTCTTCTTTTGTTC
1 TTTTTTTCTTCTTCTTTTGTTC
* *
36126211 TCTTTTTTCCTCTTTTTTTGTT-
1 T-TTTTTTCTTCTTCTTTTGTTC
36126233 TTTTTT
1 TTTTTT
36126239 GTTTTGTTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
21 21 0.50
22 4 0.10
23 17 0.40
ACGTcount: A:0.01, C:0.14, G:0.04, T:0.80
Consensus pattern (22 bp):
TTTTTTTCTTCTTCTTTTGTTC
Found at i:36131298 original size:3 final size:3
Alignment explanation
Indices: 36131215--36131275 Score: 54
Period size: 3 Copynumber: 20.0 Consensus size: 3
36131205 ATAAATAAGT
* * *
36131215 ATA ATA ATA ATA ATA ATA TATC AT- ATA ATA ATA A-A CTA ATA ACA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
36131259 ATA CAGTA ATA ATA ATA
1 ATA -A-TA ATA ATA ATA
36131276 TAAACAGTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
2 3 0.06
3 39 0.81
4 4 0.08
5 2 0.04
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:36131315 original size:14 final size:14
Alignment explanation
Indices: 36131289--36131329 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
36131279 ACAGTATTAA
36131289 AAATAATAA-TAAAT
1 AAATAA-AACTAAAT
36131303 AAATAAAACTAAAAT
1 AAATAAAACT-AAAT
36131318 AAA-AAAACTAAA
1 AAATAAAACTAAA
36131330 GGTTAAGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 5 0.20
14 13 0.52
15 7 0.28
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.20
Consensus pattern (14 bp):
AAATAAAACTAAAT
Found at i:36131319 original size:15 final size:14
Alignment explanation
Indices: 36131299--36131329 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 14
36131289 AAATAATAAT
36131299 AAATAAATAAAACTA
1 AAATAAA-AAAACTA
36131314 AAATAAAAAAACTA
1 AAATAAAAAAACTA
36131328 AA
1 AA
36131330 GGTTAAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.16
Consensus pattern (14 bp):
AAATAAAAAAACTA
Found at i:36131329 original size:20 final size:20
Alignment explanation
Indices: 36131286--36131329 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
36131276 TAAACAGTAT
*
36131286 TAAAAATAATAATAAATAAA
1 TAAAAATAATAATAAAAAAA
*
36131306 TAAAACTAA-AATAAAAAAA
1 TAAAAATAATAATAAAAAAA
36131325 CTAAA
1 -TAAA
36131330 GGTTAAGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAAAATAATAATAAAAAAA
Found at i:36131881 original size:17 final size:17
Alignment explanation
Indices: 36131852--36131884 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
36131842 TTGTTTTTAT
36131852 AAACGAAAGAAAAACAA
1 AAACGAAAGAAAAACAA
36131869 AAAC-AAAGTAAAAACA
1 AAACGAAAG-AAAAACA
36131885 GTAAAAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.76, C:0.12, G:0.09, T:0.03
Consensus pattern (17 bp):
AAACGAAAGAAAAACAA
Found at i:36156481 original size:55 final size:55
Alignment explanation
Indices: 36156397--36156500 Score: 145
Period size: 55 Copynumber: 1.9 Consensus size: 55
36156387 TTCTGTTCTG
* * *
36156397 CTCTGTTCTCCTCTACTCTATTATGTTCTGTTATGTTATGTTATGCTCTATTTTT
1 CTCTGATCTACTCTACTCTATTATGTTCTGTCATGTTATGTTATGCTCTATTTTT
* * * *
36156452 CTCTGATCTACTCTATTCTATTTTGTTCTGTCCTGTTATGTTTTGCTCT
1 CTCTGATCTACTCTACTCTATTATGTTCTGTCATGTTATGTTATGCTCT
36156501 TCTCTACTCT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 42 1.00
ACGTcount: A:0.12, C:0.21, G:0.12, T:0.56
Consensus pattern (55 bp):
CTCTGATCTACTCTACTCTATTATGTTCTGTCATGTTATGTTATGCTCTATTTTT
Found at i:36156511 original size:55 final size:55
Alignment explanation
Indices: 36156392--36156511 Score: 134
Period size: 55 Copynumber: 2.2 Consensus size: 55
36156382 TTCTGTTCTG
* * * *
36156392 TTCTGCTCTGTTCTCCTCTACTCTATTATGTTCTGTTATGTTATGTTATGCTCTA
1 TTCTACTCTGATCTACTCTACTCTATTATGTTCTGTCATGTTATGTTATGCTCTA
* * * * * *
36156447 TTTTTCTCTGATCTACTCTATTCTATTTTGTTCTGTCCTGTTATGTTTTGCTCT-
1 TTCTACTCTGATCTACTCTACTCTATTATGTTCTGTCATGTTATGTTATGCTCTA
36156501 TCTCTACTCTG
1 T-TCTACTCTG
36156512 TTATGTTTTG
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
54 1 0.02
55 52 0.98
ACGTcount: A:0.11, C:0.23, G:0.12, T:0.55
Consensus pattern (55 bp):
TTCTACTCTGATCTACTCTACTCTATTATGTTCTGTCATGTTATGTTATGCTCTA
Found at i:36156536 original size:25 final size:25
Alignment explanation
Indices: 36156475--36156536 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
36156465 TATTCTATTT
* * *
36156475 TGTTCTGTCCTGTTATGTTTTGCTC
1 TGTTCTATTCTGTTATGTTTTGCTA
*
36156500 T-TCTCTACTCTGTTATGTTTTGCTA
1 TGT-TCTATTCTGTTATGTTTTGCTA
36156525 TGTTCTATTCTG
1 TGTTCTATTCTG
36156537 CTCTGCTCTG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
24 1 0.03
25 28 0.93
26 1 0.03
ACGTcount: A:0.08, C:0.19, G:0.16, T:0.56
Consensus pattern (25 bp):
TGTTCTATTCTGTTATGTTTTGCTA
Found at i:36156548 original size:20 final size:20
Alignment explanation
Indices: 36156520--36156570 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
36156510 TGTTATGTTT
*
36156520 TGCTATGTTCTATTCTGCTC
1 TGCTCTGTTCTATTCTGCTC
* *
36156540 TGCTCTGTTCTATTTTGTTC
1 TGCTCTGTTCTATTCTGCTC
*
36156560 TACTCTGTTCT
1 TGCTCTGTTCT
36156571 GTTATGTCCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.08, C:0.24, G:0.14, T:0.55
Consensus pattern (20 bp):
TGCTCTGTTCTATTCTGCTC
Found at i:36156573 original size:5 final size:5
Alignment explanation
Indices: 36156525--36156602 Score: 57
Period size: 5 Copynumber: 15.6 Consensus size: 5
36156515 TGTTTTGCTA
* * * * * ** *
36156525 TGTTC TATTC TGCTC TGCTC TGTTC TATTT TGTTC TACTC TGTTC TGTTA
1 TGTTC TGTTC TGTTC TGTTC TGTTC TGTTC TGTTC TGTTC TGTTC TGTTC
* * *
36156575 TGTCC TGTTC TGTTA TGTTA TGTTC TGT
1 TGTTC TGTTC TGTTC TGTTC TGTTC TGT
36156603 CCTATTCTGG
Statistics
Matches: 55, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
5 55 1.00
ACGTcount: A:0.08, C:0.19, G:0.17, T:0.56
Consensus pattern (5 bp):
TGTTC
Found at i:36156582 original size:10 final size:10
Alignment explanation
Indices: 36156508--36156602 Score: 55
Period size: 10 Copynumber: 9.5 Consensus size: 10
36156498 TCTTCTCTAC
36156508 TCTGTTATGT
1 TCTGTTATGT
* *
36156518 TTTGCTATGT
1 TCTGTTATGT
* * *
36156528 TCTATTCTGC
1 TCTGTTATGT
* *
36156538 TCTGCTCTGT
1 TCTGTTATGT
* *
36156548 TCTATTTTGT
1 TCTGTTATGT
** *
36156558 TCTACTCTGT
1 TCTGTTATGT
36156568 TCTGTTATGT
1 TCTGTTATGT
* *
36156578 CCTGTTCTGT
1 TCTGTTATGT
*
36156588 TATGTTATGT
1 TCTGTTATGT
36156598 TCTGT
1 TCTGT
36156603 CCTATTCTGG
Statistics
Matches: 61, Mismatches: 24, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
10 61 1.00
ACGTcount: A:0.08, C:0.18, G:0.17, T:0.57
Consensus pattern (10 bp):
TCTGTTATGT
Found at i:36159906 original size:10 final size:10
Alignment explanation
Indices: 36159877--36159908 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
36159867 TACTCTATTC
*
36159877 TGTTATGTTC
1 TGTTATGTTT
36159887 TGTTATGTTT
1 TGTTATGTTT
36159897 TGTTATGTTT
1 TGTTATGTTT
36159907 TG
1 TG
36159909 CTCTGTTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.09, C:0.03, G:0.22, T:0.66
Consensus pattern (10 bp):
TGTTATGTTT
Found at i:36159921 original size:15 final size:15
Alignment explanation
Indices: 36159897--36159942 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
36159887 TGTTATGTTT
36159897 TGTTATGTTTTGCTC
1 TGTTATGTTTTGCTC
* *
36159912 TGTTATGTTTTACTT
1 TGTTATGTTTTGCTC
* *
36159927 TGTTTTGTTCTGCTC
1 TGTTATGTTTTGCTC
36159942 T
1 T
36159943 ACTCTATTCT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.07, C:0.13, G:0.17, T:0.63
Consensus pattern (15 bp):
TGTTATGTTTTGCTC
Found at i:36159930 original size:25 final size:25
Alignment explanation
Indices: 36159885--36159938 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
36159875 TCTGTTATGT
*
36159885 TCTGTTATGTTTTGTTATGTTTTGC
1 TCTGTTATGTTTTCTTATGTTTTGC
*
36159910 TCTGTTATGTTTTACTT-TGTTTTGT
1 TCTGTTATGTTTT-CTTATGTTTTGC
36159935 TCTG
1 TCTG
36159939 CTCTACTCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 24 0.92
26 2 0.08
ACGTcount: A:0.07, C:0.09, G:0.19, T:0.65
Consensus pattern (25 bp):
TCTGTTATGTTTTCTTATGTTTTGC
Found at i:36164938 original size:42 final size:42
Alignment explanation
Indices: 36164879--36164964 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
36164869 GAAATTACTG
*
36164879 TTGCTAGTGTGATTATTGTGAATATTGTATTTGTATTTAATT
1 TTGCTAGTGTGATTATTGTGAATATTGTATTTGTATTCAATT
36164921 TTGCTAGTGTGATTATTGTGAATATTGTATTTGTATTCAATT
1 TTGCTAGTGTGATTATTGTGAATATTGTATTTGTATTCAATT
36164963 TT
1 TT
36164965 ATGTTTAACA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.23, C:0.03, G:0.19, T:0.55
Consensus pattern (42 bp):
TTGCTAGTGTGATTATTGTGAATATTGTATTTGTATTCAATT
Found at i:36169821 original size:31 final size:29
Alignment explanation
Indices: 36169778--36169844 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
36169768 TTTTATAAAT
* *
36169778 AATTAATATTTAT-TAATTAAAAATATTTAC
1 AATTTATATTTATAT-ATT-AAAATATTAAC
36169808 AATTTATATTTTATATATTAAAATATTAAC
1 AATTTATA-TTTATATATTAAAATATTAAC
*
36169838 AAGTTAT
1 AATTTAT
36169845 TAATTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 23 0.72
31 8 0.25
32 1 0.03
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (29 bp):
AATTTATATTTATATATTAAAATATTAAC
Found at i:36170020 original size:13 final size:13
Alignment explanation
Indices: 36170004--36170055 Score: 68
Period size: 13 Copynumber: 4.0 Consensus size: 13
36169994 TTTAAATCAA
*
36170004 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
* *
36170017 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
*
36170030 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
36170043 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
36170056 TTCAAAATGC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:36177579 original size:19 final size:19
Alignment explanation
Indices: 36177555--36177591 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
36177545 TTATTTCTGG
36177555 AAAATAATTTACTTTTCTA
1 AAAATAATTTACTTTTCTA
36177574 AAAATAATTTACTTTTCT
1 AAAATAATTTACTTTTCT
36177592 GGTATTTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.49
Consensus pattern (19 bp):
AAAATAATTTACTTTTCTA
Found at i:36177695 original size:18 final size:18
Alignment explanation
Indices: 36177669--36177711 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
36177659 AAAAGCTGTT
*
36177669 TTTACATATACTAATAAA
1 TTTATATATACTAATAAA
*
36177687 TTTATATATATTAATAAA
1 TTTATATATACTAATAAA
*
36177705 ATTATAT
1 TTTATAT
36177712 TTTAATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTATATATACTAATAAA
Found at i:36179178 original size:9 final size:9
Alignment explanation
Indices: 36179164--36179193 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
36179154 TTTACACTAT
36179164 ATTAGAAAA
1 ATTAGAAAA
36179173 ATTAGAAAA
1 ATTAGAAAA
36179182 ATTAGAAAA
1 ATTAGAAAA
36179191 ATT
1 ATT
36179194 TACCCTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (9 bp):
ATTAGAAAA
Found at i:36179554 original size:19 final size:21
Alignment explanation
Indices: 36179492--36179548 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
36179482 ATTTTCGAGG
*
36179492 ATATACAATTTTAGATATGAT
1 ATATACAATCTTAGATATGAT
*
36179513 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
36179534 ATATACAATCTTAGA
1 ATATACAATCTTAGA
36179549 AGATATGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.39
Consensus pattern (21 bp):
ATATACAATCTTAGATATGAT
Found at i:36180085 original size:25 final size:23
Alignment explanation
Indices: 36180057--36180115 Score: 55
Period size: 25 Copynumber: 2.4 Consensus size: 23
36180047 TCTTTTTTCA
*
36180057 TTTTCTTTATTTTTTATTAATTAG
1 TTTTTTTTATTTTTTA-TAATTAG
* *
36180081 TTTTTTTATTCTTTTTTATATTTAG
1 -TTTTTT-TTATTTTTTATAATTAG
36180106 TTATTTTTTA
1 TT-TTTTTTA
36180116 AAAAAATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
24 4 0.14
25 15 0.54
26 9 0.32
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (23 bp):
TTTTTTTTATTTTTTATAATTAG
Found at i:36180198 original size:28 final size:27
Alignment explanation
Indices: 36180153--36180210 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
36180143 TATACGCATA
36180153 TTTATTTTTTGTAGTATAATATAATTAT
1 TTTATTTTTTGTAGTAT-ATATAATTAT
* *
36180181 TTTATTTTTT-TATTTATATGTAATTAT
1 TTTATTTTTTGTA-GTATATATAATTAT
36180208 TTT
1 TTT
36180211 TTATAACCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 14 0.52
28 13 0.48
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (27 bp):
TTTATTTTTTGTAGTATATATAATTAT
Found at i:36185077 original size:32 final size:33
Alignment explanation
Indices: 36185035--36185118 Score: 120
Period size: 32 Copynumber: 2.6 Consensus size: 33
36185025 TATTGAAATT
36185035 AGTTTGTTGGAT-TTAGAAATTATTATGTTTTAA
1 AGTTTGTTGGATATT-GAAATTATTATGTTTTAA
*
36185068 AGTTT-TTGGATATTGAATTTATTATGTTTT-A
1 AGTTTGTTGGATATTGAAATTATTATGTTTTAA
*
36185099 AGCTTGTTGGATATTGAAAT
1 AGTTTGTTGGATATTGAAAT
36185119 GATTGACAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
31 5 0.11
32 34 0.74
33 7 0.15
ACGTcount: A:0.29, C:0.01, G:0.19, T:0.51
Consensus pattern (33 bp):
AGTTTGTTGGATATTGAAATTATTATGTTTTAA
Found at i:36186252 original size:46 final size:46
Alignment explanation
Indices: 36186200--36186295 Score: 147
Period size: 46 Copynumber: 2.1 Consensus size: 46
36186190 ACTACTAATT
* ** *
36186200 TGTAATATTCGTTATGCACTTGGATGATATTGTAGTTACCATGTGG
1 TGTAATATTAGTTATGCACTTGGAAAATATTGTAGTTACCATGTAG
*
36186246 TGTAATATTAGTTATGCACTTGGAAAATATTGTAGTTATCATGTAG
1 TGTAATATTAGTTATGCACTTGGAAAATATTGTAGTTACCATGTAG
36186292 TGTA
1 TGTA
36186296 CTACTAATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (46 bp):
TGTAATATTAGTTATGCACTTGGAAAATATTGTAGTTACCATGTAG
Found at i:36186893 original size:125 final size:125
Alignment explanation
Indices: 36186649--36186885 Score: 404
Period size: 125 Copynumber: 1.9 Consensus size: 125
36186639 AAATCGCTTC
* * *
36186649 TACCAGGATGCTATTTAAGAAGAATTTGTGAAATAGTGGCCTCGTGGACGCGATTTCGCTACAGT
1 TACCAGGATGCTATATAAGAAGAAATTGTGAAATAGTGCCCTCGTGGACGCGATTTCGCTACAGT
36186714 GGTCATGTAAGAAATAATTTTTTTTTGACGTTTTCTGAGCAAATAGTATAAAATCACTGA
66 GGTCATGTAAGAAATAATTTTTTTTTGACGTTTTCTGAGCAAATAGTATAAAATCACTGA
* *
36186774 TACCAGGATGCTATATGAGAAGAAATTGTGAAATCGTGCCCTCGTGGACGCGATTTCGCTACAGT
1 TACCAGGATGCTATATAAGAAGAAATTGTGAAATAGTGCCCTCGTGGACGCGATTTCGCTACAG-
*
36186839 TGGTCATGTAGGAAATAATTTTTTTTTGACG-TTTCTGAGCAAATAGT
65 TGGTCATGTAAGAAATAATTTTTTTTTGACGTTTTCTGAGCAAATAGT
36186886 GTCAAATCGA
Statistics
Matches: 105, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
125 75 0.71
126 30 0.29
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (125 bp):
TACCAGGATGCTATATAAGAAGAAATTGTGAAATAGTGCCCTCGTGGACGCGATTTCGCTACAGT
GGTCATGTAAGAAATAATTTTTTTTTGACGTTTTCTGAGCAAATAGTATAAAATCACTGA
Done.