Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold619
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: 50914
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Found at i:699 original size:44 final size:44
Alignment explanation
Indices: 493--1085 Score: 606
Period size: 44 Copynumber: 13.9 Consensus size: 44
483 AGGGAGGTAA
* * *
493 ATCTGC-ATCGTCGATCTGCTTCGCCA--AATACAGGAAG--AAG
1 ATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACAAG
* *
533 ATCTGC-ATC-TCGATCTACTT-CCACGTAATACA-G--GACAAG
1 ATCTGCTATCTTCGATCTACTTCCCAC-CAATATAGGAAGACAAG
*
572 ATCTGCTTTCTTCGATC-ACTTCACC-CCAATATAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACAAG
615 ATCTGCTATCTTCGATCTACTT--CACCAATAT--GAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAAG
*
655 ATCTGCTTTCTTCGATCTACTTCGCCACCAATAT-GGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACAAG
* * * *
699 ATCTG---TCTTCGATCCACTTCCTACCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAAG
* * * *
740 ATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAAG
* * * *
784 ATCTGCTTTCTGCGATCAACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACAAG
* * * *
829 ATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAAG
* * *
872 ATCTGCTACCTTCGATCTACTT-CCGCCAATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAAG
* * * *
915 ATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAAG
* * * *
958 ATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAAG
* *
1002 ATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACAAG
* * *
1047 ATCTGC-ATCTTTGATCCACTTCCTACCAATATAGGAAGA
1 ATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGA
1086 TAGGACCTAT
Statistics
Matches: 460, Mismatches: 66, Indels: 51
0.80 0.11 0.09
Matches are distributed among these distances:
37 4 0.01
39 20 0.04
40 65 0.14
41 36 0.08
42 22 0.05
43 113 0.25
44 156 0.34
45 44 0.10
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAAG
Found at i:944 original size:218 final size:215
Alignment explanation
Indices: 519--1090 Score: 866
Period size: 218 Copynumber: 2.7 Consensus size: 215
509 TGCTTCGCCA
* *
519 AATACAGGAAGA-A-GATCTGC-ATC-TCGATCTACTTCCACG-TAATACA-G--GACAAGATCT
1 AATATAGGAAGATAGGATCTGCTATCTTCGATCTACTT-CACGCCAATACATGAAGACAAGATCT
* * *
576 GCTTTCTTCGATCACTTCACC-CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTT-C-
65 GCTTTCTTCGATCACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCCT
* * **
638 ACCAATAT--GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGAAGACAAGAT
129 ACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTC-CCACCAATATGGAAGACAAGAT
701 CTGTCTTCGATCCACTTCCTACC
193 CTGTCTTCGATCCACTTCCTACC
724 AATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG
1 AATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG
*
789 CTTTCTGCGATCAACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTA
66 CTTTCTTCGATC-ACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTA
*
854 CCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTT-CCGCCAATATGGGAAGACAAGATC
130 CCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCCCACCAATAT-GGAAGACAAGATC
918 TGCATCTTCGATCCACTTCCTACC
194 TG--TCTTCGATCCACTTCCTACC
942 AATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG
1 AATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG
*
1007 CTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTTGATCCACTTCCTA
66 CTTTCTTCGATC-ACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTA
1072 CCAATATAGGAAGATAGGA
130 CCAATATAGGAAGATAGGA
1091 CCTATTTACG
Statistics
Matches: 336, Mismatches: 14, Indels: 21
0.91 0.04 0.06
Matches are distributed among these distances:
205 11 0.03
206 1 0.00
207 7 0.02
208 7 0.02
209 17 0.05
210 1 0.00
212 22 0.07
213 21 0.06
214 24 0.07
215 17 0.05
216 15 0.04
217 27 0.08
218 166 0.49
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (215 bp):
AATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG
CTTTCTTCGATCACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTAC
CAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCCCACCAATATGGAAGACAAGATCTG
TCTTCGATCCACTTCCTACC
Found at i:13336 original size:3 final size:3
Alignment explanation
Indices: 13307--13374 Score: 52
Period size: 3 Copynumber: 23.3 Consensus size: 3
13297 ATACATGTAC
* * * * *
13307 ATA ATA AAA AT- ATA CTA ATA CATA ATA ATA ATA ATG GTA ATA CTA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
*
13352 ATA ATA CTA ATA AT- ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
13375 CAAGGATATT
Statistics
Matches: 49, Mismatches: 12, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
2 6 0.12
3 40 0.82
4 3 0.06
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:19200 original size:3 final size:3
Alignment explanation
Indices: 19192--19239 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
19182 AATAGTGGTG
*
19192 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATC ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
19240 TATGAGTGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:22261 original size:26 final size:26
Alignment explanation
Indices: 22230--22337 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
22220 TGAAATGCCC
*
22230 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
22256 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
22282 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
22308 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
22334 ATCA
1 ATCA
22338 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:26345 original size:3 final size:3
Alignment explanation
Indices: 26337--26488 Score: 87
Period size: 3 Copynumber: 50.3 Consensus size: 3
26327 ATTAGTTTAT
* * *
26337 TTA TTA TTA TTA TT- TTA CTA TTA CTTA -TA TTTA TTA TCA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA -TTA TTA TTA TTA TTA
* * ** * *
26382 TCA TTTA TTA TCA TTA TTA CGA CTA TCA TTA TTA TTA TT- TTA TTTA
1 TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* * * * * * *
26428 TTA TCA TTA TTC CTA TTA TTA TTA TT- TTT TTA CTG TTA ATA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
26473 TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
26489 AGTTTTTTTT
Statistics
Matches: 111, Mismatches: 29, Indels: 18
0.70 0.18 0.11
Matches are distributed among these distances:
2 8 0.07
3 91 0.82
4 12 0.11
ACGTcount: A:0.30, C:0.09, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:26435 original size:39 final size:36
Alignment explanation
Indices: 26384--26459 Score: 107
Period size: 36 Copynumber: 2.0 Consensus size: 36
26374 CATTACTATC
26384 ATTTATTATCATTATTACGACTATCATTATTATTATTTT
1 ATTTATTATCATTATT-C--CTATCATTATTATTATTTT
* *
26423 ATTTATTATCATTATTCCTATTATTATTATTTTTTT
1 ATTTATTATCATTATTCCTATCATTATTATTATTTT
26459 A
1 A
26460 CTGTTAATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
36 18 0.51
38 1 0.03
39 16 0.46
ACGTcount: A:0.29, C:0.09, G:0.01, T:0.61
Consensus pattern (36 bp):
ATTTATTATCATTATTCCTATCATTATTATTATTTT
Found at i:30431 original size:12 final size:11
Alignment explanation
Indices: 30402--30430 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
30392 AAAAAAAAAG
30402 AAAAAAATTCC
1 AAAAAAATTCC
30413 AAAAAAATTCC
1 AAAAAAATTCC
30424 AAAAAAA
1 AAAAAAA
30431 AAGGAGAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.72, C:0.14, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAAAATTCC
Found at i:32447 original size:44 final size:44
Alignment explanation
Indices: 32388--32573 Score: 210
Period size: 44 Copynumber: 4.2 Consensus size: 44
32378 GAGGTAGCAA
* * * *
32388 TGGAGTAGATCGAAGACATCAAATCTTGTCTCCCTAAGCATTAG
1 TGGAGCAGATTGAAGACAACAAATCTTGTCTCCCTAAGCAGTAG
* ** ** * * * ** *
32432 TGGAGTAGGCTGAAGATTACAGATCTTATCTCCTTAAATAATAG
1 TGGAGCAGATTGAAGACAACAAATCTTGTCTCCCTAAGCAGTAG
* *
32476 TGGAACAGATTGAAGACAACGAATCTTGTCTCCCTAAGCAGTAG
1 TGGAGCAGATTGAAGACAACAAATCTTGTCTCCCTAAGCAGTAG
*
32520 TGGAGCAGATTGAAGACAACGAATCTTGTCTCCCTAAGCAGTAG
1 TGGAGCAGATTGAAGACAACAAATCTTGTCTCCCTAAGCAGTAG
32564 TGGAGCAGAT
1 TGGAGCAGAT
32574 CATCCTATCT
Statistics
Matches: 116, Mismatches: 26, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 116 1.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (44 bp):
TGGAGCAGATTGAAGACAACAAATCTTGTCTCCCTAAGCAGTAG
Found at i:32631 original size:77 final size:77
Alignment explanation
Indices: 32504--32647 Score: 209
Period size: 77 Copynumber: 1.9 Consensus size: 77
32494 ACGAATCTTG
* * *
32504 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAACGAATCTTGTCTCCCTAAGCAGTAGTGGAG
1 TCTCCCTAAGCAGCAGTGGAGCAGACTGAAGACAACGAATCTTATCTCCCTAAGCAGTAGTGGAG
32569 CAGATCATCCTA
66 CAGATCATCCTA
* * **
32581 TCTCCCTAAGCAGCAGTGGAGTAGGCTGAAGATTAC-AGATCTTATCTCCCTAAGCAGTAGTGGA
1 TCTCCCTAAGCAGCAGTGGAGCAGACTGAAGACAACGA-ATCTTATCTCCCTAAGCAGTAGTGGA
32645 GCA
65 GCA
32648 AATTTAAGCC
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
76 1 0.02
77 58 0.98
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (77 bp):
TCTCCCTAAGCAGCAGTGGAGCAGACTGAAGACAACGAATCTTATCTCCCTAAGCAGTAGTGGAG
CAGATCATCCTA
Found at i:32798 original size:88 final size:88
Alignment explanation
Indices: 32695--33286 Score: 866
Period size: 88 Copynumber: 6.7 Consensus size: 88
32685 GAGTAGGTCA
* *
32695 AAGCCACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGACTACAAATCTCTTCTCCC
1 AAGCCACAATTCATATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCC
32760 TGAAATGGCATTGGAGC-AGCTCG
66 TGAAATGGCATTGGAGCGA-CTCG
* * * * *
32783 AAGCCACAATTCGTATCTTCTTAAAATTTCAGCGGAGTAGATCGAGGCTATAAATCTCTTCTCCC
1 AAGCCACAATTCATATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCC
32848 TGAAATGGCATTGGAGCGACTCG
66 TGAAATGGCATTGGAGCGACTCG
* * * *
32871 AAGCCAGAATTCATATCTCCTTGAAGTTTCAGTGGAGTAGATCGAGGCTACAAATCTCTTTTCCT
1 AAGCCACAATTCATATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCC
*
32936 TGAAATAGCATTGGAGCGACTCG
66 TGAAATGGCATTGGAGCGACTCG
* * *
32959 AAGCCACAATTCATATCTCCTTGAAATTTCAGCGGAGTAGATCGATGCTACAAATCCCTTCTCCC
1 AAGCCACAATTCATATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCC
* * *
33024 TAAAATGGTATTGGAGCGGCTCG
66 TGAAATGGCATTGGAGCGACTCG
* * * * *
33047 AAGTCACAATTCATATCTCTTTGAAGTTTCAGCGGAGTAGATCGAAGCTATAAACCTCTGT-TCC
1 AAGCCACAATTCATATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCT-TCTCC
33111 CTGAAATGGCATTGGAGCGACTCG
65 CTGAAATGGCATTGGAGCGACTCG
* * *
33135 AAGCCACAATTCGTATCTCCTTAAAGTTTCAGCAGAGTAGATCGAGGCTACAAATCTCTTCTCCC
1 AAGCCACAATTCATATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCC
*
33200 TGAAATGGTATTGGAGC-AGCTCG
66 TGAAATGGCATTGGAGCGA-CTCG
* * *
33223 AAGCCATAATTCTTATCTCCTTGAAGTTTCAGTGGAGTAGATCGAGGCTACAAATCTCTTCTCC
1 AAGCCACAATTCATATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCC
33287 TTGATCTCCT
Statistics
Matches: 450, Mismatches: 50, Indels: 8
0.89 0.10 0.02
Matches are distributed among these distances:
87 2 0.00
88 446 0.99
89 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (88 bp):
AAGCCACAATTCATATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCC
TGAAATGGCATTGGAGCGACTCG
Found at i:33317 original size:53 final size:53
Alignment explanation
Indices: 33237--33343 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
33227 CATAATTCTT
*
33237 ATCTCCTTGAAGTTTCAGTGGAGTAGATCGAGGCTACAAATCTCTTCTCCTTG
1 ATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCTTG
33290 ATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCTTG
1 ATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCTTG
33343 A
1 A
33344 AATGGTATTG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (53 bp):
ATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCTTG
Found at i:33403 original size:141 final size:141
Alignment explanation
Indices: 33149--33431 Score: 467
Period size: 141 Copynumber: 2.0 Consensus size: 141
33139 CACAATTCGT
33149 ATCTCCTTAAAGTTTCAGCAGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGTATTGG
1 ATCTCCTTAAAGTTTCAGCAGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGTATTGG
* * * *
33214 AGCAGCTCGAAGCCATAATTCTTATCTCCTTGAAGTTTCAGTGGAGTAGATCGAGGCTACAAATC
66 AGCAGCTCGAAGACACAATTCATATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATC
*
33279 TCTTCTCCTTG
131 ACTTCTCCTTG
* * *
33290 ATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCTTGAAATGGTATTGG
1 ATCTCCTTAAAGTTTCAGCAGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGTATTGG
** *
33355 AGTGGCTCGAAGACACAATTCATATCTCCTTGAAGTTTTAGCGGAGTAGATCGAGGCTACAAATC
66 AGCAGCTCGAAGACACAATTCATATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATC
33420 ACTTCTCCTTG
131 ACTTCTCCTTG
33431 A
1 A
33432 AATGGCATTG
Statistics
Matches: 131, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
141 131 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (141 bp):
ATCTCCTTAAAGTTTCAGCAGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGTATTGG
AGCAGCTCGAAGACACAATTCATATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATC
ACTTCTCCTTG
Found at i:33481 original size:229 final size:229
Alignment explanation
Indices: 33061--33517 Score: 648
Period size: 229 Copynumber: 2.0 Consensus size: 229
33051 CACAATTCAT
* *
33061 ATCTCTTTGAAGTTTCAGCGGAGTAGATCGAAGCTATAAACCTCTGTTCCCTGAAATGGCATTGG
1 ATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAACCTCTGTTCCCTGAAATGGCATTGG
* *
33126 AGCGACTCGAAGCCACAATTCGTATCTCCTTAAAGTTTCAGCAGAGTAGATCGAGGCTACAAATC
66 AGCGACTCGAAGACACAATTCATATCTCCTTAAAGTTTCAGCAGAGTAGATCGAGGCTACAAATC
* * * * * *
33191 TCTTCTCCCTGAAATGGTATTGGAGCAGCTCGAAGCCATAATTCTTATCTCCTTGAAGTTTCAG-
131 ACTTCTCCCTGAAATGGCATTGGAGCAGCTCGAAGCCACAATTCGTATATCCTTAAAGTTTCAGC
* * *
33255 TGGAGTAGATCGAGGCTACAAATCTCTTCTCCTTG
196 T-AAGTAAATCGAGGATACAAATCTCTTCTCCTTG
* * * *
33290 ATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCT-TCTCCTTGAAATGGTATTG
1 ATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAACCTCTGT-TCCCTGAAATGGCATTG
* * * * *
33354 GAGTGGCTCGAAGACACAATTCATATCTCCTTGAAGTTTTAGCGGAGTAGATCGAGGCTACAAAT
65 GAGCGACTCGAAGACACAATTCATATCTCCTTAAAGTTTCAGCAGAGTAGATCGAGGCTACAAAT
* *
33419 CACTTCTCCTTGAAATGGCATTGGAGCGGCTCGAAGCCACAATTCGTATATCCTTAAAGTTTCAG
130 CACTTCTCCCTGAAATGGCATTGGAGCAGCTCGAAGCCACAATTCGTATATCCTTAAAGTTTCAG
* *
33484 CTAAGTAAATCGATGATATAAATCTCTTCTCCTT
195 CTAAGTAAATCGAGGATACAAATCTCTTCTCCTT
33518 AAAATGGCAT
Statistics
Matches: 200, Mismatches: 26, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
228 1 0.00
229 198 0.99
230 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (229 bp):
ATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAACCTCTGTTCCCTGAAATGGCATTGG
AGCGACTCGAAGACACAATTCATATCTCCTTAAAGTTTCAGCAGAGTAGATCGAGGCTACAAATC
ACTTCTCCCTGAAATGGCATTGGAGCAGCTCGAAGCCACAATTCGTATATCCTTAAAGTTTCAGC
TAAGTAAATCGAGGATACAAATCTCTTCTCCTTG
Found at i:33559 original size:317 final size:317
Alignment explanation
Indices: 32973--33599 Score: 970
Period size: 317 Copynumber: 2.0 Consensus size: 317
32963 CACAATTCAT
*
32973 ATCTCCTTGAAATTTCAGCGGAGTAGATCGATGCTACAAATCCCTTCTCCCTAAAATGGTATTGG
1 ATCTCCTTGAAATTTCAGCGGAGTAGATCGAGGCTACAAATCCCTTCTCCCTAAAATGGTATTGG
* * *
33038 AGCGGCTCGAAGTCACAATTCATATCTCTTTGAAGTTTCAGCGGAGTAGATCGAAGCTATAAACC
66 AGCGGCTCGAAGACACAATTCATATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAACC
* *
33103 TCTGTTCCCTGAAATGGCATTGGAGCGACTCGAAGCCACAATTCGTATCTCCTTAAAGTTTCAGC
131 ACTGTTCCCTGAAATGGCATTGGAGCGACTCGAAGCCACAATTCGTATATCCTTAAAGTTTCAGC
* * * * *
33168 AGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGTATTGGAGCAGCTCGAAGCCATAAT
196 AGAGTAAATCGAGGATACAAATCTCTTCTCCCTAAAATGGCATTGGAGCAGCTCGAAGCCACAAT
* *
33233 TCTTATCTCCTTGAAGTTTCAGTGGAGTAGATCGAGGCTACAAATCTCTTCTCCTTG
261 TCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCTTG
* * * *
33290 ATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCTTGAAATGGTATTGG
1 ATCTCCTTGAAATTTCAGCGGAGTAGATCGAGGCTACAAATCCCTTCTCCCTAAAATGGTATTGG
* * * *
33355 AGTGGCTCGAAGACACAATTCATATCTCCTTGAAGTTTTAGCGGAGTAGATCGAGGCTACAAATC
66 AGCGGCTCGAAGACACAATTCATATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAACC
* *
33420 ACT-TCTCCTTGAAATGGCATTGGAGCGGCTCGAAGCCACAATTCGTATATCCTTAAAGTTTCAG
131 ACTGT-TCCCTGAAATGGCATTGGAGCGACTCGAAGCCACAATTCGTATATCCTTAAAGTTTCAG
* * *
33484 CTA-AGTAAATCGATGATATAAATCTCTTCTCCTTAAAATGGCATTGGAGCAGCTCGAAGCCACA
195 C-AGAGTAAATCGAGGATACAAATCTCTTCTCCCTAAAATGGCATTGGAGCAGCTCGAAGCCACA
* *
33548 ATTCGTATCTCCTTGAAGTTTTAGCGGAGTAGATCGAGGCTATAAATCTCTT
259 ATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTT
33600 TTCCCTGAAA
Statistics
Matches: 280, Mismatches: 28, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
316 1 0.00
317 278 0.99
318 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (317 bp):
ATCTCCTTGAAATTTCAGCGGAGTAGATCGAGGCTACAAATCCCTTCTCCCTAAAATGGTATTGG
AGCGGCTCGAAGACACAATTCATATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAACC
ACTGTTCCCTGAAATGGCATTGGAGCGACTCGAAGCCACAATTCGTATATCCTTAAAGTTTCAGC
AGAGTAAATCGAGGATACAAATCTCTTCTCCCTAAAATGGCATTGGAGCAGCTCGAAGCCACAAT
TCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCTTG
Found at i:33647 original size:405 final size:405
Alignment explanation
Indices: 32885--33690 Score: 1204
Period size: 405 Copynumber: 2.0 Consensus size: 405
32875 CAGAATTCAT
* *
32885 ATCTCCTTGAAGTTTCAGTGGAGTAGATCGAGGCTACAAATCTCTTTTCCTTGAAATAGCATTGG
1 ATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCTTGAAATAGCATTGG
* *
32950 AGCGACTCGAAGCCACAATTCATATCTCCTTGAAATTTCAGCGGAGTAGATCGATGCTACAAATC
66 AGCGACTCGAAGACACAATTCATATCTCCTTGAAATTTCAGCGGAGTAGATCGAGGCTACAAATC
* * * * * *
33015 CCTTCTCCCTAAAATGGTATTGGAGCGGCTCGAAGTCACAATTCATATCTCTTTGAAGTTTCAGC
131 ACTTCTCCCTAAAATGGCATTGGAGCGGCTCGAAGCCACAATTCATATATCCTTAAAGTTTCAGC
* * * *
33080 GGAGTAGATCGAAGCTATAAACCTCTGTTCCCTGAAATGGCATTGGAGCGACTCGAAGCCACAAT
196 GAAGTAAATCGAAGATATAAACCTCTGTTCCCTAAAATGGCATTGGAGCGACTCGAAGCCACAAT
*
33145 TCGTATCTCCTTAAAGTTTCAGCAGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGTA
261 TCGTATCTCCTTAAAGTTTCAGCAGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCA
* * * *
33210 TTGGAGCAGCTCGAAGCCATAATTCTTATCTCCTTGAAGTTTCAGTGGAGTAGATCGAGGCTACA
326 TTGGAGCAGCTCGAAGCCACAATTCTTATCTCCTTGAAGTTTCAGCGGAGTAGATCAAAGCTACA
33275 AATCTCTTCTCCTTG
391 AATCTCTTCTCCTTG
* *
33290 ATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCTTGAAATGGTATTGG
1 ATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCTTGAAATAGCATTGG
* * * *
33355 AGTGGCTCGAAGACACAATTCATATCTCCTTGAAGTTTTAGCGGAGTAGATCGAGGCTACAAATC
66 AGCGACTCGAAGACACAATTCATATCTCCTTGAAATTTCAGCGGAGTAGATCGAGGCTACAAATC
* * *
33420 ACTTCTCCTTGAAATGGCATTGGAGCGGCTCGAAGCCACAATTCGTATATCCTTAAAGTTTCAGC
131 ACTTCTCCCTAAAATGGCATTGGAGCGGCTCGAAGCCACAATTCATATATCCTTAAAGTTTCAGC
* * * *
33485 TAAGTAAATCGATGATATAAATCTCT-TCTCCTTAAAATGGCATTGGAGC-AGCTCGAAGCCACA
196 GAAGTAAATCGAAGATATAAACCTCTGT-TCCCTAAAATGGCATTGGAGCGA-CTCGAAGCCACA
* * * * *
33548 ATTCGTATCTCCTTGAAGTTTTAGCGGAGTAGATCGAGGCTATAAATCTCTTTTCCCTGAAATGG
259 ATTCGTATCTCCTTAAAGTTTCAGCAGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGG
**
33613 CATTGGAGTGGCTCGAAGCCACAATT-TGTATCTCCTTGAAGTTTCAGCGGAGTAGATCAAAGCT
324 CATTGGAGCAGCTCGAAGCCACAATTCT-TATCTCCTTGAAGTTTCAGCGGAGTAGATCAAAGCT
*
33677 ATAAATCTCTTCTC
388 ACAAATCTCTTCTC
33691 TCTGAAATAA
Statistics
Matches: 358, Mismatches: 40, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
404 3 0.01
405 355 0.99
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (405 bp):
ATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCTTGAAATAGCATTGG
AGCGACTCGAAGACACAATTCATATCTCCTTGAAATTTCAGCGGAGTAGATCGAGGCTACAAATC
ACTTCTCCCTAAAATGGCATTGGAGCGGCTCGAAGCCACAATTCATATATCCTTAAAGTTTCAGC
GAAGTAAATCGAAGATATAAACCTCTGTTCCCTAAAATGGCATTGGAGCGACTCGAAGCCACAAT
TCGTATCTCCTTAAAGTTTCAGCAGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCA
TTGGAGCAGCTCGAAGCCACAATTCTTATCTCCTTGAAGTTTCAGCGGAGTAGATCAAAGCTACA
AATCTCTTCTCCTTG
Found at i:33735 original size:493 final size:493
Alignment explanation
Indices: 32809--33778 Score: 1474
Period size: 493 Copynumber: 2.0 Consensus size: 493
32799 CTTCTTAAAA
*
32809 TTTCAGCGGAGTAGATCGAGGCTATAAATCTCTTCTCCCTGAAATGGCATTGGAGCGACTCGAAG
1 TTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGGAGCGACTCGAAG
* * * * *
32874 CCAGAATTCATATCTCCTTGAAGTTTCAGTGGAGTAGATCGAGGCTACAAATCTCTTTTCCTTGA
66 ACACAATTCATATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCACTTCTCCTTGA
* * *
32939 AATAGCATTGGAGCGACTCGAAGCCACAATTCATATCTCCTTGAAATTTCAGCGGAGTAGATCGA
131 AATAGCATTGGAGCGACTCGAAGCCACAATTCATATATCCTTGAAATTTCAGCGAAGTAAATCGA
* * * * *
33004 TGCTACAAATCCCTTCTCCCTAAAATGGTATTGGAGCGGCTCGAAGTCACAATTCATATCTCTTT
196 TGATACAAATCCCTTCTCCCTAAAATGGCATTGGAGCAGCTCGAAGCCACAATTCATATCTCCTT
33069 GAAGTTTCAGCGGAGTAGATCGAAGCTATAAACCTCTGTTCCCTGAAATGGCATTGGAGCGACTC
261 GAAGTTTCAGCGGAGTAGATCGAAGCTATAAACCTCTGTTCCCTGAAATGGCATTGGAGCGACTC
* *
33134 GAAGCCACAATTCGTATCTCCTTAAAGTTTCAGCAGAGTAGATCGAGGCTACAAATCTCTTCTCC
326 GAAGCCACAATTCGTATCTCCTTAAAGTTTCAGCAGAGTAGATCAAAGCTACAAATCTCTTCTCC
*** * * * *
33199 CTGAAATGGTATTGGAGCAGCTCGAAGCCATAATTCTTATCTCCTTGAAGTTTCAGTGGAGTAGA
391 CTGAAATAACATTGGAGCAGCTCGAAGCCACAATTCGTATCTCCTTAAAGTTTCAGCGGAGTAGA
*
33264 TCGAGGCTACAAATCTCTTCTCCTTGATCTCCTTGAAG
456 TCGAGGCTACAAATATCTTCTCCTTGATCTCCTTGAAG
* * * *
33302 TTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCTTGAAATGGTATTGGAGTGGCTCGAAG
1 TTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGGAGCGACTCGAAG
*
33367 ACACAATTCATATCTCCTTGAAGTTTTAGCGGAGTAGATCGAGGCTACAAATCACTTCTCCTTGA
66 ACACAATTCATATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCACTTCTCCTTGA
* * * *
33432 AATGGCATTGGAGCGGCTCGAAGCCACAATTCGTATATCCTT-AAAGTTTCAGCTAAGTAAATCG
131 AATAGCATTGGAGCGACTCGAAGCCACAATTCATATATCCTTGAAA-TTTCAGCGAAGTAAATCG
* * * *
33496 ATGATATAAATCTCTTCTCCTTAAAATGGCATTGGAGCAGCTCGAAGCCACAATTCGTATCTCCT
195 ATGATACAAATCCCTTCTCCCTAAAATGGCATTGGAGCAGCTCGAAGCCACAATTCATATCTCCT
* * * * * *
33561 TGAAGTTTTAGCGGAGTAGATCGAGGCTATAAATCTCTTTTCCCTGAAATGGCATTGGAGTGGCT
260 TGAAGTTTCAGCGGAGTAGATCGAAGCTATAAACCTCTGTTCCCTGAAATGGCATTGGAGCGACT
* * * *
33626 CGAAGCCACAATTTGTATCTCCTTGAAGTTTCAGCGGAGTAGATCAAAGCTATAAATCTCTTCTC
325 CGAAGCCACAATTCGTATCTCCTTAAAGTTTCAGCAGAGTAGATCAAAGCTACAAATCTCTTCTC
* *
33691 TCTGAAATAACATTGGAGCGGCTCGAAGCCACAATTCGTATCTCCTTAAAGTTTCAGCGGAGTAG
390 CCTGAAATAACATTGGAGCAGCTCGAAGCCACAATTCGTATCTCCTTAAAGTTTCAGCGGAGTAG
*
33756 ATCGATGCTACAAATATCTTCTC
455 ATCGAGGCTACAAATATCTTCTC
33779 TCTGAAATGG
Statistics
Matches: 426, Mismatches: 50, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
492 3 0.01
493 423 0.99
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (493 bp):
TTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGGAGCGACTCGAAG
ACACAATTCATATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCACTTCTCCTTGA
AATAGCATTGGAGCGACTCGAAGCCACAATTCATATATCCTTGAAATTTCAGCGAAGTAAATCGA
TGATACAAATCCCTTCTCCCTAAAATGGCATTGGAGCAGCTCGAAGCCACAATTCATATCTCCTT
GAAGTTTCAGCGGAGTAGATCGAAGCTATAAACCTCTGTTCCCTGAAATGGCATTGGAGCGACTC
GAAGCCACAATTCGTATCTCCTTAAAGTTTCAGCAGAGTAGATCAAAGCTACAAATCTCTTCTCC
CTGAAATAACATTGGAGCAGCTCGAAGCCACAATTCGTATCTCCTTAAAGTTTCAGCGGAGTAGA
TCGAGGCTACAAATATCTTCTCCTTGATCTCCTTGAAG
Found at i:33809 original size:88 final size:88
Alignment explanation
Indices: 33290--33801 Score: 722
Period size: 88 Copynumber: 5.8 Consensus size: 88
33280 CTTCTCCTTG
*
33290 ATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCTTGAAATGGTATTGG
1 ATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCTTGAAATGGCATTGG
* * *
33355 AGTGGCTCGAAGACACAATTCAT
66 AGCGGCTCGAAGCCACAATTCGT
* *
33378 ATCTCCTTGAAGTTTTAGCGGAGTAGATCGAGGCTACAAATCACTTCTCCTTGAAATGGCATTGG
1 ATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCTTGAAATGGCATTGG
33443 AGCGGCTCGAAGCCACAATTCGT
66 AGCGGCTCGAAGCCACAATTCGT
* * ** * * * * *
33466 ATATCCTTAAAGTTTCAGCTAAGTAAATCGATGATATAAATCTCTTCTCCTTAAAATGGCATTGG
1 ATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCTTGAAATGGCATTGG
*
33531 AGCAGCTCGAAGCCACAATTCGT
66 AGCGGCTCGAAGCCACAATTCGT
* * * *
33554 ATCTCCTTGAAGTTTTAGCGGAGTAGATCGAGGCTATAAATCTCTTTTCCCTGAAATGGCATTGG
1 ATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCTTGAAATGGCATTGG
* *
33619 AGTGGCTCGAAGCCACAATTTGT
66 AGCGGCTCGAAGCCACAATTCGT
* * * **
33642 ATCTCCTTGAAGTTTCAGCGGAGTAGATCAAAGCTATAAATCTCTTCT-CTCTGAAATAACATTG
1 ATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCT-TGAAATGGCATTG
33706 GAGCGGCTCGAAGCCACAATTCGT
65 GAGCGGCTCGAAGCCACAATTCGT
* * *
33730 ATCTCCTTAAAGTTTCAGCGGAGTAGATCGATGCTACAAATATCTTCT-CTCTGAAATGGCATTG
1 ATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCT-TGAAATGGCATTG
33794 GAGCGGCT
65 GAGCGGCT
33802 TAAAGCCAGA
Statistics
Matches: 375, Mismatches: 48, Indels: 2
0.88 0.11 0.00
Matches are distributed among these distances:
87 1 0.00
88 374 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (88 bp):
ATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCTTGAAATGGCATTGG
AGCGGCTCGAAGCCACAATTCGT
Found at i:34006 original size:141 final size:136
Alignment explanation
Indices: 33860--34711 Score: 454
Period size: 136 Copynumber: 6.3 Consensus size: 136
33850 TGTAGAAGTT
*
33860 ACAAGTCTTATCTCCCTGAAGTTGTAGTAGAGTAGACTAAAGATAGAAAATCTTATTTCTCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGTAGACTAAAGATAGAAAATCTTATTTCTCTGAA
* * *
33925 GTTGTAGTGGAACAGATTGAAGCTATGAATAAATAGATCTTATCTCTTTGAAGTTGCAGTAGAGC
66 GTTGCAGTGGAACAGATTGAAGCTAT-AAT-AACAGATCTTATCTCTCTGAAGTTGCAGTAGAGC
* *
33990 AGGTTGAAGA
129 A-GATCAA-A
* * * *
34000 CACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCTCTGA
1 -ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGTAGACTAAAGATAGAAAATCTTATTTCTCTGA
* *
34065 AGTTGCAGTGGAACAGATTGAAGTTATAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCA
65 AGTTGCAGTGGAACAGATTGAAGCTATAATAACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCA
34130 GATCAAA
130 GATCAAA
** * ** * ** *
34137 ACAAACCTTATCTCCATGAAGTTGTAGTGGAGTAGGTTGAAG-TCA-CTAATCTTATCTC-CTTG
1 ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGTAGACTAAAGAT-AGAAAATCTTATTTCTC-TG
* * * * * * * * * * *
34199 AAGTTACAGTAGAGCAGACTGAAG--ATAGT-A-A-ATCTTATTTCCCTAAAGTTGTAGTGGAAC
64 AAGTTGCAGTGGAACAGATTGAAGCTATAATAACAGATCTTATCTCTCTGAAGTTGCAGTAGAGC
34259 AGATTGAAGCTATAA
129 AGA-T----C-A-AA
* * ** * * * * *
34274 TTAC-AGATCTTATCTCTCTGAAATTGCCGTAGAGCAGA-TAAA-A-A-CAAA-CATTATCTCCC
1 --ACAAG-TCTTATCTCCCTGAAGTTGTAGTGGAGTAGACTAAAGATAGAAAATC-TTATTTCTC
* * * * * *
34333 TGAAGTTGCAGTCGAGCAGGTTGAAG---T--TAA-AG-TCTTATCTCCCTGAAGTTACAGTGGA
62 TGAAGTTGCAGTGGAACAGATTGAAGCTATAATAACAGATCTTATCTCTCTGAAGTTGCAGTAGA
* *
34391 GCAGGCTGAAGA
127 GCA-GATCAA-A
* ** ** * * ** * * * *
34403 TAGCGAA-TCTTATTTCTTTGAAGTTACAGTAGAGCAGGTTGAAGAT---AAGTCTTATCTCCCT
1 -A-C-AAGTCTTATCTCCCTGAAGTTGTAGTGGAGTAGACTAAAGATAGAAAATCTTATTTCTCT
* * * * *
34464 GAAGTTGCAGTGGAGCAGATTGAAG-----ATAGC-GAATCTTATTTCTCTGAAGTTGTAGTCGA
63 GAAGTTGCAGTGGAACAGATTGAAGCTATAATAACAG-ATCTTATCTCTCTGAAGTTGCAGTAGA
* * *
34523 GCAGGTTGAAG
127 GCA-GATCAAA
* * * * * * ** * *
34534 ACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGGCTGAAGATGGCGAATATTATTT-TCCTAA
1 ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGTAGACTAAAGATAGAAAATCTTATTTCT-CTGA
** *
34598 AGTTGCAGTGGAACAGATTGAAGCTATAATTGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGTA
65 AGTTGCAGTGGAACAGATTGAAGCTATAATAACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCA
34663 GATCAAA
130 GATCAAA
** * * *
34670 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
1 ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGTAGACTAAAG
34712 CGACAAGTCT
Statistics
Matches: 569, Mismatches: 101, Indels: 87
0.75 0.13 0.11
Matches are distributed among these distances:
128 5 0.01
129 63 0.11
130 68 0.12
131 5 0.01
132 63 0.11
133 5 0.01
134 28 0.05
135 38 0.07
136 108 0.19
137 34 0.06
138 9 0.02
139 56 0.10
140 3 0.01
141 84 0.15
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (136 bp):
ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGTAGACTAAAGATAGAAAATCTTATTTCTCTGAA
GTTGCAGTGGAACAGATTGAAGCTATAATAACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAG
ATCAAA
Found at i:34113 original size:50 final size:46
Alignment explanation
Indices: 33865--34707 Score: 392
Period size: 45 Copynumber: 18.7 Consensus size: 46
33855 AAGTTACAAG
* * * * * *
33865 TCTTATCTCCCTGAAGTTGTAGTAGAGTAGACTAAAGATAGAA-A-A
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATA-AACAGA
* * * *
33910 TCTTATTTCTCTGAAGTTGTAGTGGAACAGATTGAAGCTATGAATAAATAGA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTG-A---A-G-ATAAACAGA
* * * * *
33962 TCTTATCTCTTTGAAGTTGCAGTAGAGCAGGTTGAAGACACA-AG-
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAAACAGA
* * * * * *
34006 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGAT-AGCAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAAACAGA
* *
34051 TCTTATTTCTCTGAAGTTGCAGTGGAACAGATTGAAGTTATAATTACAGA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAG--ATAA--ACAGA
* * *
34101 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T---CA-AAACAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAAACAGA
* * * * *
34142 CCTTATCTC-CATGAAGTTGTAGTGGAGTAGGTTGAAG-T-CACTA-A
1 TCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTGAAGATAAAC-AGA
* * * *
34186 TCTTATCTC-CTTGAAGTTACAGTAGAGCAGACTGAAGATAGTA-A-A
1 TCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTGAAGATA-AACAGA
* * * * *
34231 TCTTATTTCCCTAAAGTTGTAGTGGAACAGATTGAAGCTATAATTACAGA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAG--ATAA--ACAGA
* * *
34281 TCTTATCTCTCTGAAATTGCCGTAGAGCAGA-T--A-A-AAACA-A
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAAACAGA
* * * * *
34321 ACATTATCTCCCTGAAGTTGCAGTCGAGCAGGTTGAAG-TTAA-AG-
1 TC-TTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAAACAGA
* * ** *
34365 TCTTATCTCCCTGAAGTTACAGTGGAGCAGGCTGAAGAT-AGC-GAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAAACAG-A
* * * * *
34410 TCTTATTTCTTTGAAGTTACAGTAGAGCAGGTTGAAGAT--A-AG-
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAAACAGA
* *
34452 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-AGC-GAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAAACAG-A
* * * * *
34497 TCTTATTTCTCTGAAGTTGTAGTCGAGCAGGTTGAAG--ACA-AG-
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAAACAGA
** **
34539 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGGCTGAAGAT-GGC-GAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAAACAG-A
* * * * *
34584 TATTAT-TTTCCTAAAGTTGCAGTGGAACAGATTGAAGCTATAATTGCAGA
1 TCTTATCTCT-CTGAAGTTGCAGTGGAGCAGATTGAAG--ATAA--ACAGA
* ** *
34634 TCTTATCTCTCTGAAGTTGCAGT--AG-AG-TAGATCA-AAACAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAAACAGA
* *
34675 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT
34708 AAAGCGACAA
Statistics
Matches: 603, Mismatches: 128, Indels: 134
0.70 0.15 0.15
Matches are distributed among these distances:
40 3 0.00
41 79 0.13
42 68 0.11
43 44 0.07
44 77 0.13
45 189 0.31
46 8 0.01
47 12 0.02
48 4 0.01
49 4 0.01
50 78 0.13
51 8 0.01
52 29 0.05
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (46 bp):
TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAAACAGA
Found at i:34177 original size:180 final size:179
Alignment explanation
Indices: 33963--34724 Score: 909
Period size: 180 Copynumber: 4.3 Consensus size: 179
33953 ATAAATAGAT
** * *
33963 CTTATCTCTTTGAAGTTGCAGTAGAGCAGGTTGAAGACACAAGTCTTATCTCCCTAAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTCGAGCAGGTTGAAG-CACAAGTCTTATCTCCCTGAAGTTGCAG
* * *
34028 TGGAGCAGACTAAAGATAGCAAATCTTATTTCTCTGAAGTTGCAGTGGAACAGATTGAAGTTATA
65 TGGAGCAGACTGAAGATAGCAAATCTTATTTCTCTAAAGTTGCAGTGGAACAGATTGAAGCTATA
34093 ATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAAC
130 ATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAAC
* * * * * *
34143 CTTATCTCCATGAAGTTGTAGTGGAGTAGGTTGAAGTCACTAA-TCTTATCTCCTTGAAGTTACA
1 CTTATCTCCCTGAAGTTGCAGTCGAGCAGGTTGAAG-CAC-AAGTCTTATCTCCCTGAAGTTGCA
* * * *
34207 GTAGAGCAGACTGAAGATAGTAAATCTTATTTCCCTAAAGTTGTAGTGGAACAGATTGAAGCTAT
64 GTGGAGCAGACTGAAGATAGCAAATCTTATTTCTCTAAAGTTGCAGTGGAACAGATTGAAGCTAT
* * *
34272 AATTACAGATCTTATCTCTCTGAAATTGCCGTAGAGCAGATAAAAACAAAC
129 AATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAAC
* * *
34323 ATTATCTCCCTGAAGTTGCAGTCGAGCAGGTTGAAGTTA-AAGTCTTATCTCCCTGAAGTTACAG
1 CTTATCTCCCTGAAGTTGCAGTCGAGCAGGTTGAAG-CACAAGTCTTATCTCCCTGAAGTTGCAG
* * * * * * * *
34387 TGGAGCAGGCTGAAGATAGCGAATCTTATTTCTTTGAAGTTACAGTAGAGCAGGTTGAAG-----
65 TGGAGCAGACTGAAGATAGCAAATCTTATTTCTCTAAAGTTGCAGTGGAACAGATTGAAGCTATA
* * * * *
34447 A-TA-AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAAT
130 ATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCAA-A-A-CAAAC
* * * *
34498 CTTATTTCTCTGAAGTTGTAGTCGAGCAGGTTGAAG-ACAAGTCTTATCTCTCTGAAGTTGCAGT
1 CTTATCTCCCTGAAGTTGCAGTCGAGCAGGTTGAAGCACAAGTCTTATCTCCCTGAAGTTGCAGT
* * * *
34562 GGAGCAGGCTGAAGATGGCGAATATTATTT-TCCTAAAGTTGCAGTGGAACAGATTGAAGCTATA
66 GGAGCAGACTGAAGATAGCAAATCTTATTTCT-CTAAAGTTGCAGTGGAACAGATTGAAGCTATA
* *
34626 ATTGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCAAAACAAAC
130 ATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAAC
* * *
34676 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCGACAAGTCTTAT
1 CTTATCTCCCTGAAGTTGCAGTCGAGCAGGTTGAAGC-ACAAGTCTTAT
34725 ACCTCTAAAG
Statistics
Matches: 492, Mismatches: 72, Indels: 36
0.82 0.12 0.06
Matches are distributed among these distances:
171 27 0.05
172 5 0.01
173 5 0.01
174 75 0.15
175 35 0.07
178 35 0.07
179 71 0.14
180 204 0.41
181 7 0.01
182 28 0.06
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (179 bp):
CTTATCTCCCTGAAGTTGCAGTCGAGCAGGTTGAAGCACAAGTCTTATCTCCCTGAAGTTGCAGT
GGAGCAGACTGAAGATAGCAAATCTTATTTCTCTAAAGTTGCAGTGGAACAGATTGAAGCTATAA
TTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAAC
Found at i:34213 original size:85 final size:84
Alignment explanation
Indices: 34100--34704 Score: 322
Period size: 87 Copynumber: 6.9 Consensus size: 84
34090 ATAATTACAG
* * *
34100 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTCCATGAAGTTGTAGT
1 ATCTTATCTCTCTGAAGTTACAGTAGAGCAGATAAAAACAAACCTTATCTCCCTGAAGTTGTAGT
* *
34165 GGAGTAGGTTGAAGTCACTA
66 GGAGCAGGTTGAAGT-AATA
** * * *
34185 ATCTTATCTC-CTTGAAGTTACAGTAGAGCAGACTGAAGATAGTAAATCTTATTTCCCTAAAGTT
1 ATCTTATCTCTC-TGAAGTTACAGTAGAGCAGA-T-AA-A-AACAAACCTTATCTCCCTGAAGTT
* *
34249 GTAGTGGAACAGATTGAAGCTATAATTACA
61 GTAGTGGAGCAGGTTGAAG---TAA-T--A
* * * * *
34279 GATCTTATCTCTCTGAAATTGCCGTAGAGCAGATAAAAACAAACATTATCTCCCTGAAGTTGCAG
1 -ATCTTATCTCTCTGAAGTTACAGTAGAGCAGATAAAAACAAACCTTATCTCCCTGAAGTTGTAG
*
34344 TCGAGCAGGTTGAAGTTAA-A
65 TGGAGCAGGTTGAAG-TAATA
* * * * * * * * ** *
34364 GTCTTATCTCCCTGAAGTTACAGTGGAGCAGGCTGAAGATAGCGAATCTTATTTCTTTGAAGTTA
1 ATCTTATCTCTCTGAAGTTACAGTAGAGCA-GAT-AA-A-AACAAACCTTATCTCCCTGAAGTTG
* *
34429 CAGTAGAGCAGGTTGAAG--ATA
62 TAGTGGAGCAGGTTGAAGTAATA
* * * * * * * *
34450 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCTCTGAAGTT
1 A-TCTTATCTCTCTGAAGTTACAGTAGAGCAGA-T-AA-A-AACAAACCTTATCTCCCTGAAGTT
*
34515 GTAGTCGAGCAGGTTGAAG-ACA-A
61 GTAGTGGAGCAGGTTGAAGTA-ATA
* * * * ** * ** * * *
34538 GTCTTATCTCTCTGAAGTTGCAGTGGAGCAGGCTGAAGATGGCGAATATTATTTTCCTAAAGTTG
1 ATCTTATCTCTCTGAAGTTACAGTAGAGCA-GAT-AA-A-AACAAACCTTATCTCCCTGAAGTTG
* * *
34603 CAGTGGAACAGATTGAAGCTATAATTGCA
62 TAGTGGAGCAGGTTGAAG---TAA-T--A
* * * *
34632 GATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCAAAACAAACCTTATCTCCCTGAAGTTGCAG
1 -ATCTTATCTCTCTGAAGTTACAGTAGAGCAGATAAAAACAAACCTTATCTCCCTGAAGTTGTAG
34697 TGGAGCAG
65 TGGAGCAG
34705 ATTAAAGCGA
Statistics
Matches: 413, Mismatches: 75, Indels: 58
0.76 0.14 0.11
Matches are distributed among these distances:
84 25 0.06
85 33 0.08
86 5 0.01
87 145 0.35
88 37 0.09
89 38 0.09
90 1 0.00
91 62 0.15
92 4 0.01
93 3 0.01
94 5 0.01
95 54 0.13
96 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (84 bp):
ATCTTATCTCTCTGAAGTTACAGTAGAGCAGATAAAAACAAACCTTATCTCCCTGAAGTTGTAGT
GGAGCAGGTTGAAGTAATA
Found at i:34469 original size:42 final size:42
Alignment explanation
Indices: 34324--34577 Score: 274
Period size: 42 Copynumber: 5.9 Consensus size: 42
34314 AAAACAAACA
* *
34324 TTATCTCCCTGAAGTTGCAGTCGAGCAGGTTGAAGTTAAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGAT-AAGTC
* * *
34367 TTATCTCCCTGAAGTTACAGTGGAGCAGGCTGAAGATAGCGAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATA---AGTC
* ** * *
34412 TTATTTCTTTGAAGTTACAGTAGAGCAGGTTGAAGATAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATAAGTC
* *
34454 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATA---AGTC
* * * * *
34499 TTATTTCTCTGAAGTTGTAGTCGAGCAGGTTGAAGACAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATAAGTC
* *
34541 TTATCTCTCTGAAGTTGCAGTGGAGCAGGCTGAAGAT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGAT
34578 GGCGAATATT
Statistics
Matches: 175, Mismatches: 30, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
42 71 0.41
43 33 0.19
45 71 0.41
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (42 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATAAGTC
Found at i:34480 original size:87 final size:87
Alignment explanation
Indices: 34332--34620 Score: 409
Period size: 87 Copynumber: 3.3 Consensus size: 87
34322 CATTATCTCC
* *
34332 CTGAAGTTGCAGTCGAGCAGGTTGAAGTTAAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGGC
1 CTGAAGTTGCAGTCGAGCAGGTTGAAGAT-AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGC
34397 TGAAGATAGCGAATCTTATTTCT
65 TGAAGATAGCGAATCTTATTTCT
* * * **
34420 TTGAAGTTACAGTAGAGCAGGTTGAAGATAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
1 CTGAAGTTGCAGTCGAGCAGGTTGAAGATAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCT
34485 GAAGATAGCGAATCTTATTTCT
66 GAAGATAGCGAATCTTATTTCT
* * *
34507 CTGAAGTTGTAGTCGAGCAGGTTGAAGACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGGCT
1 CTGAAGTTGCAGTCGAGCAGGTTGAAGATAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCT
* *
34572 GAAGATGGCGAATATTATTT-T
66 GAAGATAGCGAATCTTATTTCT
* * * *
34593 CCTAAAGTTGCAGTGGAACAGATTGAAG
1 -CTGAAGTTGCAGTCGAGCAGGTTGAAG
34621 CTATAATTGC
Statistics
Matches: 178, Mismatches: 22, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
86 1 0.01
87 152 0.85
88 25 0.14
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (87 bp):
CTGAAGTTGCAGTCGAGCAGGTTGAAGATAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCT
GAAGATAGCGAATCTTATTTCT
Found at i:34622 original size:353 final size:355
Alignment explanation
Indices: 33964--34724 Score: 966
Period size: 353 Copynumber: 2.1 Consensus size: 355
33954 TAAATAGATC
** *
33964 TTATCTCTTTGAAGTTGCAGTAGAGCAGGTTGAAGACACAAGTCTTATCTCCCTAAAGTTGCAGT
1 TTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGACACAAGTCTTATCTCCCTAAAGTTACAGT
* *
34029 GGAGCAGACTAAAGATAGCAAATCTTATTTCTCTGAAGTTGCAGTGGAACAGATTGAAGTTATAA
66 GGAGCAGACTAAAGATAGCAAATCTTATTTCTCTGAAGTTACAGTAGAACAGATTGAAG---T-A
*
34094 TTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTCCATGAAGT
127 TTACAGATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTCCATGAAGT
* *
34159 TGTAGTGGAGTAGGTTGAAGTCACTAATCTTATCTCCTTGAAGTTACAGTAGAGCAGACTGAAGA
192 TGTAGTCGAGCAGGTTGAAG-CACTAATCTTATCTCCTTGAAGTTACAGTAGAGCAGACTGAAGA
* * *
34224 TAGTAAATCTTATTTCCCTAAAGTTGTAGTGGAACAGATTGAAGCTATAATTACAGATCTTATCT
256 TAGCAAATATTATTTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTATAATTACAGATCTTATCT
*
34289 CTCTGAAATTGCCGTAGAGCAGATAAAAACAAACA
321 CTCTGAAATTGCAGTAGAGCAGATAAAAACAAACA
* ** *
34324 TTATCTCCCTGAAGTTGCAGTCGAGCAGGTTGAAGTTA-AAGTCTTATCTCCCTGAAGTTACAGT
1 TTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGACACAAGTCTTATCTCCCTAAAGTTACAGT
* * * * * *
34388 GGAGCAGGCTGAAGATAGCGAATCTTATTTCTTTGAAGTTACAGTAGAGCAGGTTGAAG-A-TA-
66 GGAGCAGACTAAAGATAGCAAATCTTATTTCTCTGAAGTTACAGTAGAACAGATTGAAGTATTAC
* * * * *
34450 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCTC-TGAAG
131 AGATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TCAA-A-A-CAAACCTTATCTC-CATGAAG
* * *
34513 TTGTAGTCGAGCAGGTTGAAG-AC-AAGTCTTATCT-CTCTGAAGTTGCAGTGGAGCAGGCTGAA
191 TTGTAGTCGAGCAGGTTGAAGCACTAA-TCTTATCTCCT-TGAAGTTACAGTAGAGCAGACTGAA
* * * *
34575 GATGGCGAATATTATTTTCCTAAAGTTGCAGTGGAACAGATTGAAGCTATAATTGCAGATCTTAT
254 GATAGCAAATATTATTTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTATAATTACAGATCTTAT
* * * *
34640 CTCTCTGAAGTTGCAGTAGAGTAGATCAAAACAAACC
319 CTCTCTGAAATTGCAGTAGAGCAGATAAAAACAAACA
* * *
34677 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CGACAAGTCTTAT
1 TTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGAC-ACAAGTCTTAT
34725 ACCTCTAAAG
Statistics
Matches: 350, Mismatches: 42, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
351 29 0.08
352 9 0.03
353 158 0.45
354 11 0.03
355 34 0.10
356 1 0.00
359 75 0.21
360 33 0.09
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (355 bp):
TTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGACACAAGTCTTATCTCCCTAAAGTTACAGT
GGAGCAGACTAAAGATAGCAAATCTTATTTCTCTGAAGTTACAGTAGAACAGATTGAAGTATTAC
AGATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTCCATGAAGTTGTA
GTCGAGCAGGTTGAAGCACTAATCTTATCTCCTTGAAGTTACAGTAGAGCAGACTGAAGATAGCA
AATATTATTTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTATAATTACAGATCTTATCTCTCTG
AAATTGCAGTAGAGCAGATAAAAACAAACA
Found at i:36358 original size:13 final size:13
Alignment explanation
Indices: 36342--36374 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
36332 TTTAATTAAA
*
36342 TTAGTTAATTAGT
1 TTAGATAATTAGT
36355 TTAGATAATTAGT
1 TTAGATAATTAGT
36368 TTA-ATAA
1 TTAGATAA
36375 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:41795 original size:5 final size:5
Alignment explanation
Indices: 41769--41845 Score: 50
Period size: 6 Copynumber: 14.4 Consensus size: 5
41759 TCCTATCTTG
* *
41769 TTATT CTTATT TTTTAT TTATT TTATT TTATTT TTATTT TTATT ACTATT
1 TTATT -TTATT TTAT-T TTATT TTATT TTA-TT TTA-TT TTATT -TTATT
*
41819 TTCATT TCAATT TTA-- TTATT TTATT TT
1 TT-ATT T-TATT TTATT TTATT TTATT TT
41846 GAAGGACATA
Statistics
Matches: 58, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
3 3 0.05
5 23 0.40
6 32 0.55
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (5 bp):
TTATT
Found at i:44774 original size:13 final size:13
Alignment explanation
Indices: 44758--44790 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
44748 TTTAATTAAA
*
44758 TTAGTTAATTAGT
1 TTAGATAATTAGT
44771 TTAGATAATTAGT
1 TTAGATAATTAGT
44784 TTA-ATAA
1 TTAGATAA
44791 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:45203 original size:86 final size:86
Alignment explanation
Indices: 45113--45284 Score: 335
Period size: 86 Copynumber: 2.0 Consensus size: 86
45103 TGTAATGGGT
45113 CTTCTTCTTCTTCAAAGAATAAATTAAATAAAAAAAAGAGATTCAAATATAAAACTACAAAAATC
1 CTTCTTCTTCTTCAAAGAATAAATTAAATAAAAAAAAGAGATTCAAATATAAAACTACAAAAATC
45178 TACAAAATAGATTCGGAGAAA
66 TACAAAATAGATTCGGAGAAA
*
45199 CTTCTTCTTCTTCAACGAATAAATTAAATAAAAAAAAGAGATTCAAATATAAAACTACAAAAATC
1 CTTCTTCTTCTTCAAAGAATAAATTAAATAAAAAAAAGAGATTCAAATATAAAACTACAAAAATC
45264 TACAAAATAGATTCGGAGAAA
66 TACAAAATAGATTCGGAGAAA
45285 AACCAAGTTA
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 85 1.00
ACGTcount: A:0.53, C:0.13, G:0.08, T:0.26
Consensus pattern (86 bp):
CTTCTTCTTCTTCAAAGAATAAATTAAATAAAAAAAAGAGATTCAAATATAAAACTACAAAAATC
TACAAAATAGATTCGGAGAAA
Found at i:45346 original size:14 final size:15
Alignment explanation
Indices: 45319--45347 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45309 TTTCTTTGTC
45319 TTTCTTTTTATTTAT
1 TTTCTTTTTATTTAT
45334 TTTCTTTTT-TTTAT
1 TTTCTTTTTATTTAT
45348 CTACTTACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTCTTTTTATTTAT
Found at i:46029 original size:3 final size:3
Alignment explanation
Indices: 46021--46277 Score: 238
Period size: 3 Copynumber: 86.3 Consensus size: 3
46011 ATTAGTTTAT
* *
46021 TTA TTA TTA TTA TT- TTA CTA TTA CTTA -TA TTTA TTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA -TTA TTA TTA TTA TTA
** * * * * *
46066 CGA CTA TCA TTA TTA TTA TT- TTA TTTA TTA TCA TTA TTC CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
* * *
46111 TTA TTA TTA TTA TTA TT- TTA TTG TTA ATA TTTA TTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
* * *
46156 TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
46204 TTA CTA TTA GTA TTA TTT TTA TTA CTA TTA CTA CTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
46251 TTG TTA TTA TTA TTA -TA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
46278 AGTTTTTTTT
Statistics
Matches: 204, Mismatches: 40, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
2 12 0.06
3 182 0.89
4 10 0.05
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:47326 original size:20 final size:20
Alignment explanation
Indices: 47289--47326 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
47279 ATAATAATAA
*
47289 TAAAATGAATAAGGAAACTT
1 TAAAATGAATAAGAAAACTT
47309 TAAAATGAAATAA-AAAAC
1 TAAAATG-AATAAGAAAAC
47327 GGAAAATGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.63, C:0.05, G:0.11, T:0.21
Consensus pattern (20 bp):
TAAAATGAATAAGAAAACTT
Done.