Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2237
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: 70754
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Found at i:2650 original size:25 final size:25
Alignment explanation
Indices: 2616--2665 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
2606 ACTCTGTTTT
2616 GTTGAGGAGTTCTAGGAGCAGAGAA
1 GTTGAGGAGTTCTAGGAGCAGAGAA
2641 GTTGAGGAGTTCTAGGAGCAGAGAA
1 GTTGAGGAGTTCTAGGAGCAGAGAA
2666 ATTATGGCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.08, G:0.40, T:0.20
Consensus pattern (25 bp):
GTTGAGGAGTTCTAGGAGCAGAGAA
Found at i:6360 original size:13 final size:13
Alignment explanation
Indices: 6342--6366 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6332 CTTTTAAATG
6342 TGTATCGATACAA
1 TGTATCGATACAA
6355 TGTATCGATACA
1 TGTATCGATACA
6367 TACTTTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:6393 original size:137 final size:138
Alignment explanation
Indices: 6214--6473 Score: 443
Period size: 137 Copynumber: 1.9 Consensus size: 138
6204 CGTTGCAAGC
* *
6214 CAATGTATCGATACATTTTATGGTGTATCGATACAAGTTTGGCTACTGCCAAGAAATCTCAATGA
1 CAATGTATCGATACATCTTATGGTGTATCGATACAAGTTTGGCTACTGCCAAGAAATCCCAATGA
* *
6279 CATGTATCGATACATTTTTTTCATATATCGATACAATGTAACATATATCGATACTTTTAAATGTG
66 CATGTATCGATACATCTTTTTCATATATCGATACAATGCAACATATATCGATACTTTTAAATGTG
6344 TATCGATA
131 TATCGATA
6352 CAATGTATCGATACATACTT-T-GTGTATCGATACAAGTTTGGCTACTGCCAAGAAATCCCAATG
1 CAATGTATCGATACAT-CTTATGGTGTATCGATACAAGTTTGGCTACTGCCAAGAAATCCCAATG
* *
6415 ACATGTATCGATACATCTTTTTCATGTATCGATACAATGCAACATGTATCGATACTTTT
65 ACATGTATCGATACATCTTTTTCATATATCGATACAATGCAACATATATCGATACTTTT
6474 CAGGGTTTTG
Statistics
Matches: 115, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
137 96 0.83
138 17 0.15
139 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (138 bp):
CAATGTATCGATACATCTTATGGTGTATCGATACAAGTTTGGCTACTGCCAAGAAATCCCAATGA
CATGTATCGATACATCTTTTTCATATATCGATACAATGCAACATATATCGATACTTTTAAATGTG
TATCGATA
Found at i:9044 original size:278 final size:278
Alignment explanation
Indices: 8252--10343 Score: 2366
Period size: 278 Copynumber: 7.6 Consensus size: 278
8242 AAATTTTAAC
** * *
8252 AAACACTTTT-TTAAATAATTTATTTACAATTAGAAAGATTGTGGTTAATTTTTGACTTGTATCA
1 AAACA-TTTTCTTAAATAATTTATTTACAATTAGAAAGATTGTCATTTACTTTTGACTTGTATCA
** * * * * * ** *
8316 TCAAAATCTATTATCTAGCCCTTAAAATCAAATATAATTACTCAAGAATTATATCGTAAGTTATA
65 TCAAAATCTACCATCTAGCCCCTAAAATCAAGTTTAATTACTCAAGACTTGTATCACAAGTTGTA
* * *
8381 GCTTGAAATAAATTTATTTATTCCATTTTCATTTTCTCTTTGGATTCTAAGACATCATTTAAAAA
130 GCTTGAAATAAATTTATTTATTCCTTTTTC-TTTTCTCCTTGGATTCTAAGACATAATTTAAAAA
* * * *
8446 GCAAAGCAAGAAATACGTTTATGAGACCAAGA-TTCAAA--AACA-AAATATA-TA---A-AT-T
194 GCAAAGCAGGAAATACGTTTATGAGACCAAGACTTGAAAGCAAAATAAATAAATTAGCCACATAT
* *
8501 AACTTTAGTA-CAAAAGACA
259 GACTTTAGTATTAAAAGACA
* * * * **
8520 AAACAATTTCCTAAATAATTTATTTACAATTCGAAAGATTGTAATTTGTTTTTGACTT-TATCAT
1 AAACATTTTCTTAAATAATTTATTTACAATTAGAAAGATTGTCATTTACTTTTGACTTGTATCAT
* * * * *
8584 CAAAATCCACCATTTAGCCCCTAACATCAAGTTTAATCACTCAAGACTTGTATCACAAGTTATAG
66 CAAAATCTACCATCTAGCCCCTAAAATCAAGTTTAATTACTCAAGACTTGTATCACAAGTTGTAG
* * *
8649 CTTGAAATAAATTTATTTATTCCCTTTTATTTTTTCTCCTTAGATTCTAAGACATAATTAAAAAA
131 CTTGAAATAAATTTATTTATT-CCTTTT-TCTTTTCTCCTTGGATTCTAAGACATAATTTAAAAA
* * * * * *
8714 GAAAAGCAAGAAATACGTTTATAAGACCAAAACTTGAGAGCAAAATAAATAAATTAGCTACATAT
194 GCAAAGCAGGAAATACGTTTATGAGACCAAGACTTGAAAGCAAAATAAATAAATTAGCCACATAT
*
8779 GACTTTCGTATTAAAAGACA
259 GACTTTAGTATTAAAAGACA
* * *
8799 AAACATTTTCTTGAATAATTTATTTACAATCT-GAAATATTGTCATTTACTTTTGACTTCTATCA
1 AAACATTTTCTTAAATAATTTATTTACAAT-TAGAAAGATTGTCATTTACTTTTGACTTGTATCA
* * * * * * *
8863 TCAAAATCTATCATTTAACCCCTAAAATCAAATATAATTACTCAAGACTTG-ATCATAAGTTGCA
65 TCAAAATCTACCATCTAGCCCCTAAAATCAAGTTTAATTACTCAAGACTTGTATCACAAGTTGTA
* * *
8927 TCTTGGAATAAATTTATTTATTCTTTTTTCCTTTTCTCCTTGGATTCTAAGACATAATTTTAAAA
130 GCTTGAAATAAATTTATTTATTCCTTTTT-CTTTTCTCCTTGGATTCTAAGACATAA-TTTAAAA
* * *
8992 A-TAAAGCAGGAAATACGTTTATGAGACCAAGACTTAAAAGCAAAAGAAATAAATTAG-C-C---
193 AGCAAAGCAGGAAATACGTTTATGAGACCAAGACTTGAAAGCAAAATAAATAAATTAGCCACATA
* *
9051 --ACTTTGGTATTAAAA-ATA
258 TGACTTTAGTATTAAAAGACA
* * * *
9069 AAATATTTT-TCTGAATAATTTATTTACAATTAGAAAGATTGTCGTTTACTTTTGACTTATATCA
1 AAACATTTTCT-TAAATAATTTATTTACAATTAGAAAGATTGTCATTTACTTTTGACTTGTATCA
* * * * * * * *
9133 TCAAAATCTACCATTTAACCTCAAAAAACAAGTTTAATTATTCAAGACTTGTATTACAAGTTATA
65 TCAAAATCTACCATCTAGCCCCTAAAATCAAGTTTAATTACTCAAGACTTGTATCACAAGTTGTA
* * * * *
9198 GCTT-AGAATAAATTTATTTATTCCATTTTCTTTTTCTTCTCGAAATCTAAGACATAATTTAAAA
130 GCTTGA-AATAAATTTATTTATTCCTTTTTC-TTTTCTCCTTGGATTCTAAGACATAATTTAAAA
* * * * *
9262 AGCAAACCAGGAAACAAGTTTATGAGACCAATACTCGAAAGCAAAATAAATAAATTAGCCACATA
193 AGCAAAGCAGGAAATACGTTTATGAGACCAAGACTTGAAAGCAAAATAAATAAATTAGCCACATA
* *
9327 TAACTTTAGTATT-AGAGACA
258 TGACTTTAGTATTAAAAGACA
* * * * * * *
9347 AAATATTTTCCTAAATACTTTATTTGCAATTGGAAAGATTGTAATTTGCTTTTGACTTGTATCAT
1 AAACATTTTCTTAAATAATTTATTTACAATTAGAAAGATTGTCATTTACTTTTGACTTGTATCAT
*** * * *
9412 CAAAATCTACCATCTAGCTTTTAAAATCAAGTTTAATCATTCAAGACTTGTATCACAAGTTGTAA
66 CAAAATCTACCATCTAGCCCCTAAAATCAAGTTTAATTACTCAAGACTTGTATCACAAGTTGTAG
** * * *
9477 CTTGAAATAAATTTATTTATTCCCTTTTAATTTTCTCCTTAGATTTTAAGACATAATTTAAAAAA
131 CTTGAAATAAATTTATTTATT-CCTTTTTCTTTTCTCCTTGGATTCTAAGACATAATTTAAAAAG
* * * *
9542 CAAAGCAAGAAATGCGTTTATGAGACCAAGACTTGAAAGTAAAATAAATAAATTAGCCACATGTG
195 CAAAGCAGGAAATACGTTTATGAGACCAAGACTTGAAAGCAAAATAAATAAATTAGCCACATATG
* * *
9607 CCTTTAGTATTTAGAGACA
260 ACTTTAGTATTAAAAGACA
* ** * ** *
9626 AAACACTTTCTTAAATAATTTATTTACAATCGGAGAGATTGTTGTTTACTTTTGACTTATATCAT
1 AAACATTTTCTTAAATAATTTATTTACAATTAGAAAGATTGTCATTTACTTTTGACTTGTATCAT
* * * * * *
9691 CAAAATTTACTATCTAGCCCTTAAAATCAAGTATAATTACTCAAGACTTG-ATCACAAGTTGCAT
66 CAAAATCTACCATCTAGCCCCTAAAATCAAGTTTAATTACTCAAGACTTGTATCACAAGTTGTAG
* * *
9755 CTTGAAATAAATTTATTTATTCCCTTTT-TTTTCTCCTTGGATTCCAAGACATAATTTAAAAAAC
131 CTTGAAATAAATTTATTTATTCCTTTTTCTTTTCTCCTTGGATTCTAAGACATAATTTAAAAAGC
* * *
9819 AAAGCAGGAAACACGTTTATG-GACCAAGACTTAAAAGCAAAATAAATAAATTAGCCATATATGA
196 AAAGCAGGAAATACGTTTATGAGACCAAGACTTGAAAGCAAAATAAATAAATTAGCCACATATGA
9883 CTTTAGTATTAAAAG-CA
261 CTTTAGTATTAAAAGACA
*
9900 AAACATTTT-TCTAAATAATTTATTTACAATTAGAAAGATTGTCGTTTACTTTTGACTTGTATCA
1 AAACATTTTCT-TAAATAATTTATTTACAATTAGAAAGATTGTCATTTACTTTTGACTTGTATCA
* * * * *
9964 TCAAAATCTGCTATCTAGCCTCGAAAAGCAAGTTTAATTACTCAAGACTTGTATCACAAGTTGTA
65 TCAAAATCTACCATCTAGCCCCTAAAATCAAGTTTAATTACTCAAGACTTGTATCACAAGTTGTA
* * * *
10029 GCTTAAAATAAATTTATTTATTCCTTTTTCTTTTTCTTCTCGAATTCTAAGACATAATTTAAAAA
130 GCTTGAAATAAATTTATTTATTCCTTTTTC-TTTTCTCCTTGGATTCTAAGACATAATTTAAAAA
* * *
10094 GCAAAGCAGGAAACACGTTTATGAGACCAAGACTCGAAAGCAAAATAAATAAATTAACCACATAT
194 GCAAAGCAGGAAATACGTTTATGAGACCAAGACTTGAAAGCAAAATAAATAAATTAGCCACATAT
10159 GACTTTAGTATT-AAAGACA
259 GACTTTAGTATTAAAAGACA
* * * * * *
10178 AAATAGTTTCCTGAATAATTTATTTACAATTAG-AAGTACTGTCATTTACTTTTGACTTGTATTA
1 AAACATTTTCTTAAATAATTTATTTACAATTAGAAAG-ATTGTCATTTACTTTTGACTTGTATCA
* ** * * * * *
10242 TCGAAATCTACTGTTTAGCCCCAAAAAGCAAATTTAATTACTCAAAACTTGTATCACAAGTTGTA
65 TCAAAATCTACCATCTAGCCCCTAAAATCAAGTTTAATTACTCAAGACTTGTATCACAAGTTGTA
* * *
10307 ACTTGGAATAAATTTATTTACT-CTTTTT-TTTTCTCCT
130 GCTTGAAATAAATTTATTTATTCCTTTTTCTTTTCTCCT
10344 CAACTTTCAT
Statistics
Matches: 1556, Mismatches: 224, Indels: 81
0.84 0.12 0.04
Matches are distributed among these distances:
267 82 0.05
268 111 0.07
269 7 0.00
270 111 0.07
271 120 0.08
272 7 0.00
273 4 0.00
274 102 0.07
275 97 0.06
276 53 0.03
277 75 0.05
278 533 0.34
279 204 0.13
280 50 0.03
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (278 bp):
AAACATTTTCTTAAATAATTTATTTACAATTAGAAAGATTGTCATTTACTTTTGACTTGTATCAT
CAAAATCTACCATCTAGCCCCTAAAATCAAGTTTAATTACTCAAGACTTGTATCACAAGTTGTAG
CTTGAAATAAATTTATTTATTCCTTTTTCTTTTCTCCTTGGATTCTAAGACATAATTTAAAAAGC
AAAGCAGGAAATACGTTTATGAGACCAAGACTTGAAAGCAAAATAAATAAATTAGCCACATATGA
CTTTAGTATTAAAAGACA
Found at i:9963 original size:553 final size:551
Alignment explanation
Indices: 8252--10343 Score: 2400
Period size: 553 Copynumber: 3.8 Consensus size: 551
8242 AAATTTTAAC
** * *
8252 AAACACTTTTT-TAAATAATTTATTTACAATTAGAAAGATTGTGGTTAATTTTTGACTTGTATCA
1 AAACA-TTTTTCTAAATAATTTATTTACAATTAGAAAGATTGTCATTTACTTTTGACTTGTATCA
** * * * ** *
8316 TCAAAATCTATTATCTAGCCCTTAAAATCAAATATAATTACTCAAGAATTATATCGTAAGTTATA
65 TCAAAATCTACCATCTAGCCCCTAAAATCAAATATAATTACTCAAGACTTGTATCACAAGTTGTA
* * *
8381 GCTTGAAATAAATTTATTTATTCCATTTTCATTTTCTCTTTGGATTCTAAGACATCATTTAAAAA
130 GCTTGAAATAAATTTATTTATTCCTTTTTCATTTTCTCCTTGGATTCTAAGACATAATTTAAAAA
* * * * *
8446 GCAAAGCAAGAAATACGTTTATGAGACCAAGA-TTCAAA--AACA-AAATATA-TA--A-ATTAA
195 ACAAAGCAAGAAATACGTTTATGAGACCAAGACTTGAAAGCAAAATAAATAAATTAGCACATTGA
** *
8503 CTTTAGTACAAAAGACAAAACAATTTCCTAAATAATTTATTTACAATTC-GAAAGATTGTAATTT
260 CTTTAGTATTAAAGACAAAAC-ATTTCCTAAATAATTTATTTACAA-TCAGAAAGATTGTCATTT
** * * * *
8567 GTTTTTGACTT-TATCATCAAAATCCACCATTTAGCCCCTAACATCAAGTTTAATCACTCAAGAC
323 ACTTTTGACTTATATCATCAAAATCTACCATTTAGCCCCAAAAATCAAGTTTAATTACTCAAGAC
*
8631 TTGTATCACAAGTTATAGCTTGAAATAAATTTATTTATTCCCTTTTATTTTTTCTCCTTAGATTC
388 TTGTATCACAAGTTATAGCTTGAAATAAATTTATTTATTCCC--TT-TTTTTTCTCCTTGGATTC
* * * * *
8696 TAAGACATAA-TTAAAAAAGAAAAGCAAGAAATACGTTTATAAGACCAAAACTTGAGAGCAAAAT
450 TAAGACATAATTTAAAAAA-CAAAGCAGGAAACACGTTTAT-GGACCAAAACTTGAAAGCAAAAT
* *
8760 AAATAAATTAGCTACATATGACTTTCGTATTAAAAGACA
513 AAATAAATTAGCCACATATGACTTTAGTATTAAAAGACA
* * *
8799 AAACA-TTTTCTTGAATAATTTATTTACAATCT-GAAATATTGTCATTTACTTTTGACTTCTATC
1 AAACATTTTTC-TAAATAATTTATTTACAAT-TAGAAAGATTGTCATTTACTTTTGACTTGTATC
* * * * *
8862 ATCAAAATCTATCATTTAACCCCTAAAATCAAATATAATTACTCAAGACTTG-ATCATAAGTTGC
64 ATCAAAATCTACCATCTAGCCCCTAAAATCAAATATAATTACTCAAGACTTGTATCACAAGTTGT
* * * * *
8926 ATCTTGGAATAAATTTATTTATTCTTTTTTCCTTTTCTCCTTGGATTCTAAGACATAATTTTAAA
129 AGCTTGAAATAAATTTATTTATTCCTTTTTCATTTTCTCCTTGGATTCTAAGACATAATTTAAAA
* * * *
8991 AATAAAGCAGGAAATACGTTTATGAGACCAAGACTTAAAAGCAAAAGAAATAAATTAGC-C----
194 AACAAAGCAAGAAATACGTTTATGAGACCAAGACTTGAAAGCAAAATAAATAAATTAGCACATTG
* * * * * * * *
9051 ACTTTGGTATTAAAAATAAAATATTTTTCTGAATAATTTATTTACAATTAGAAAGATTGTCGTTT
259 ACTTTAGTATTAAAGACAAAACA-TTTCCTAAATAATTTATTTACAATCAGAAAGATTGTCATTT
* * * *
9116 ACTTTTGACTTATATCATCAAAATCTACCATTTAACCTCAAAAAACAAGTTTAATTATTCAAGAC
323 ACTTTTGACTTATATCATCAAAATCTACCATTTAGCCCCAAAAATCAAGTTTAATTACTCAAGAC
* * * * * *
9181 TTGTATTACAAGTTATAGCTT-AGAATAAATTTATTTATTCCATTTTCTTTTTCTTCTCGAAATC
388 TTGTATCACAAGTTATAGCTTGA-AATAAATTTATTTATTCC-CTTT-TTTTTCTCCTTGGATTC
* * * * *
9245 TAAGACATAATTTAAAAAGCAAACCAGGAAACAAGTTTATGAGACCAATACTCGAAAGCAAAATA
450 TAAGACATAATTTAAAAAACAAAGCAGGAAACACGTTTATG-GACCAAAACTTGAAAGCAAAATA
* *
9310 AATAAATTAGCCACATATAACTTTAGTATT-AGAGACA
514 AATAAATTAGCCACATATGACTTTAGTATTAAAAGACA
* * * * * * *
9347 AAATATTTTCCTAAATACTTTATTTGCAATTGGAAAGATTGTAATTTGCTTTTGACTTGTATCAT
1 AAACATTTTTCTAAATAATTTATTTACAATTAGAAAGATTGTCATTTACTTTTGACTTGTATCAT
*** * * * * *
9412 CAAAATCTACCATCTAGCTTTTAAAATCAAGTTTAATCATTCAAGACTTGTATCACAAGTTGTAA
66 CAAAATCTACCATCTAGCCCCTAAAATCAAATATAATTACTCAAGACTTGTATCACAAGTTGTAG
* * * *
9477 CTTGAAATAAATTTATTTATTCCCTTTTAATTTTCTCCTTAGATTTTAAGACATAATTTAAAAAA
131 CTTGAAATAAATTTATTTATTCCTTTTTCATTTTCTCCTTGGATTCTAAGACATAATTTAAAAAA
* *
9542 CAAAGCAAGAAATGCGTTTATGAGACCAAGACTTGAAAGTAAAATAAATAAATTAGCCACATGTG
196 CAAAGCAAGAAATACGTTTATGAGACCAAGACTTGAAAGCAAAATAAATAAATTAG-CACAT-TG
* * * * * **
9607 CCTTTAGTATTTAGAGACAAAACACTTTCTTAAATAATTTATTTACAATCGGAGAGATTGTTGTT
259 ACTTTAGTA-TTAAAGACAAAACA-TTTCCTAAATAATTTATTTACAATCAGAAAGATTGTCATT
* * * ** *
9672 TACTTTTGACTTATATCATCAAAATTTACTATCTAGCCCTTAAAATCAAGTATAATTACTCAAGA
322 TACTTTTGACTTATATCATCAAAATCTACCATTTAGCCCCAAAAATCAAGTTTAATTACTCAAGA
** * *
9737 CTTG-ATCACAAGTTGCATCTTGAAATAAATTTATTTATTCCCTTTTTTTTCTCCTTGGATTCCA
387 CTTGTATCACAAGTTATAGCTTGAAATAAATTTATTTATTCCCTTTTTTTTCTCCTTGGATTCTA
* *
9801 AGACATAATTTAAAAAACAAAGCAGGAAACACGTTTATGGACCAAGACTTAAAAGCAAAATAAAT
452 AGACATAATTTAAAAAACAAAGCAGGAAACACGTTTATGGACCAAAACTTGAAAGCAAAATAAAT
*
9866 AAATTAGCCATATATGACTTTAGTATTAAAAG-CA
517 AAATTAGCCACATATGACTTTAGTATTAAAAGACA
*
9900 AAACATTTTTCTAAATAATTTATTTACAATTAGAAAGATTGTCGTTTACTTTTGACTTGTATCAT
1 AAACATTTTTCTAAATAATTTATTTACAATTAGAAAGATTGTCATTTACTTTTGACTTGTATCAT
* * * * * * *
9965 CAAAATCTGCTATCTAGCCTCGAAAAGCAAGTTTAATTACTCAAGACTTGTATCACAAGTTGTAG
66 CAAAATCTACCATCTAGCCCCTAAAATCAAATATAATTACTCAAGACTTGTATCACAAGTTGTAG
* * * * * *
10030 CTTAAAATAAATTTATTTATTCCTTTTTCTTTTTCTTCTCGAATTCTAAGACATAATTTAAAAAG
131 CTTGAAATAAATTTATTTATTCCTTTTTCATTTTCTCCTTGGATTCTAAGACATAATTTAAAAAA
* * * *
10095 CAAAGCAGGAAACACGTTTATGAGACCAAGACTCGAAAGCAAAATAAATAAATTAACCACATATG
196 CAAAGCAAGAAATACGTTTATGAGACCAAGACTTGAAAGCAAAATAAATAAATT-AGCACAT-TG
* * * *
10160 ACTTTAGTATTAAAGACAAAATAGTTTCCTGAATAATTTATTTACAATTAG-AAGTACTGTCATT
259 ACTTTAGTATTAAAGACAAAACA-TTTCCTAAATAATTTATTTACAATCAGAAAG-ATTGTCATT
* * * ** * * *
10224 TACTTTTGACTTGTATTATCGAAATCTACTGTTTAGCCCCAAAAAGCAAATTTAATTACTCAAAA
322 TACTTTTGACTTATATCATCAAAATCTACCATTTAGCCCCAAAAATCAAGTTTAATTACTCAAGA
* * * * *
10289 CTTGTATCACAAGTTGTAACTTGGAATAAATTTATTTACT-CTTTTTTTTTCTCCT
387 CTTGTATCACAAGTTATAGCTTGAAATAAATTTATTTATTCCCTTTTTTTTCTCCT
10344 CAACTTTCAT
Statistics
Matches: 1296, Mismatches: 214, Indels: 65
0.82 0.14 0.04
Matches are distributed among these distances:
545 4 0.00
546 96 0.07
547 100 0.08
548 99 0.08
549 272 0.21
550 97 0.07
551 5 0.00
552 112 0.09
553 313 0.24
554 54 0.04
555 3 0.00
556 38 0.03
557 103 0.08
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (551 bp):
AAACATTTTTCTAAATAATTTATTTACAATTAGAAAGATTGTCATTTACTTTTGACTTGTATCAT
CAAAATCTACCATCTAGCCCCTAAAATCAAATATAATTACTCAAGACTTGTATCACAAGTTGTAG
CTTGAAATAAATTTATTTATTCCTTTTTCATTTTCTCCTTGGATTCTAAGACATAATTTAAAAAA
CAAAGCAAGAAATACGTTTATGAGACCAAGACTTGAAAGCAAAATAAATAAATTAGCACATTGAC
TTTAGTATTAAAGACAAAACATTTCCTAAATAATTTATTTACAATCAGAAAGATTGTCATTTACT
TTTGACTTATATCATCAAAATCTACCATTTAGCCCCAAAAATCAAGTTTAATTACTCAAGACTTG
TATCACAAGTTATAGCTTGAAATAAATTTATTTATTCCCTTTTTTTTCTCCTTGGATTCTAAGAC
ATAATTTAAAAAACAAAGCAGGAAACACGTTTATGGACCAAAACTTGAAAGCAAAATAAATAAAT
TAGCCACATATGACTTTAGTATTAAAAGACA
Found at i:10166 original size:831 final size:827
Alignment explanation
Indices: 8252--10326 Score: 2851
Period size: 831 Copynumber: 2.5 Consensus size: 827
8242 AAATTTTAAC
* * *
8252 AAACACTTTTT-TAAATAATTTATTTACAATTAGAAAGATTGTGGTTAATTTTTGACTTGTATCA
1 AAACA-TTTTTCTAAATAATTTATTTACAATTAGAAAGATTGTCGTTTACTTTTGACTTGTATCA
* * * * * * * **
8316 TCAAAATCTATTATCTAGCC-CTTAAAATCAAATATAATTACTCAAGAATTATATCGTAAGTTAT
65 TCAAAATCTACTATCTAGCCTC-AAAAAACAAGTTTAATTACTCAAGACTTGTATCACAAGTTAT
* * *
8380 AGCTTGAAATAAATTTATTTATTCCATTTTCATTTTCTCTT-T-GGATTCTAAGACATCATTTAA
129 AGCTTAAAATAAATTTATTTATTCCATTTTC-TTTT-TCTTCTCGAATTCTAAGACATAATTTAA
* * * * *
8443 AAAGCAAAGCAAGAAATACGTTTATGAGACCAAGATTC-AAA--AACA-AAATATA-T-A--A-A
192 AAAGCAAAGCAGGAAACACGTTTATGAGACCAAGACTCGAAAGCAAAATAAATAAATTAACCACA
** * *
8499 T-TAACTTTAGTACAAAAGACAAAACAATTTCCTAAATAATTTATTTACAATTCGAAAGATTGTA
257 TATAACTTTAGTATTAAAGACAAAATAATTTCCTAAATAATTTATTTACAATTAGAAAGATTGTA
* * *
8563 ATTTGTTTTTGACTT-TATCATCAAAATCCACCATTTAGCCCCTAACATCAAGTTTAATCACTCA
322 ATTTGCTTTTGACTTGTATCATCAAAATCTACCATTTAGCCCCTAAAATCAAGTTTAATCACTCA
* * *
8627 AGACTTGTATCACAAGTTATAGCTTGAAATAAATTTATTTATTCCCTTTTATTTTTTCTCCTTAG
387 AGACTTGTATCACAAGTTGTAACTTGAAATAAATTTATTTATTCCCTTTTATATTTTCTCCTTAG
*
8692 ATTCTAAGACATAATTAAAAAAGAAAAGCAAGAAATACGTTTATAAGACCAAAACTTGAGAGCAA
452 ATTCTAAGACATAATTAAAAAAGAAAAGCAAGAAATACGTTTATAAGACCAAAACTTGAAAGCAA
* * * *
8757 AATAAATAAATTAGCTACATATGACTTTCGTATTAAAAGACAAAACATTTTCTTGAATAATTTAT
517 AATAAATAAATTAGCCACATATGACTTTAGTATTAAAAGACAAAACACTTTCTTAAATAATTTAT
* * * *
8822 TTACAATCTGAAATATTGTCATTTACTTTTGACTTCTATCATCAAAATCTATCATTTAACCCCTA
582 TTACAATCGGAAAGATTGTCATTTACTTTTGACTTATATCATCAAAATCTATCATCTAACCCCTA
* * **
8887 AAATCAAATATAATTACTCAAGACTTGATCATAAGTTGCATCTTGGAATAAATTTATTTATTCTT
647 AAATCAAATATAATTACTCAAGACTTGATCACAAGTTGCATCTTGAAATAAATTTATTTATTCCC
* * * *
8952 TTTTCCTTTTCTCCTTGGATTCTAAGACATAATTTTAAAAATAAAGCAGGAAATACGTTTATGAG
712 TTTT-CTTTTCTCCTTGGATTCCAAGACATAATTTAAAAAACAAAGCAGGAAACACGTTTATGAG
* *
9017 ACCAAGACTTAAAAGCAAAAGAAATAAATTAGCCACTTTGGTATTAAAAATA
776 ACCAAGACTTAAAAGCAAAAGAAATAAATTAGCCACTTTAGTATTAAAAACA
* * *
9069 AAATATTTTTCTGAATAATTTATTTACAATTAGAAAGATTGTCGTTTACTTTTGACTTATATCAT
1 AAACATTTTTCTAAATAATTTATTTACAATTAGAAAGATTGTCGTTTACTTTTGACTTGTATCAT
* * * * *
9134 CAAAATCTACCATTTAACCTCAAAAAACAAGTTTAATTATTCAAGACTTGTATTACAAGTTATAG
66 CAAAATCTACTATCTAGCCTCAAAAAACAAGTTTAATTACTCAAGACTTGTATCACAAGTTATAG
* *
9199 CTTAGAATAAATTTATTTATTCCATTTTCTTTTTCTTCTCGAAATCTAAGACATAATTTAAAAAG
131 CTTAAAATAAATTTATTTATTCCATTTTCTTTTTCTTCTCGAATTCTAAGACATAATTTAAAAAG
* * * *
9264 CAAACCAGGAAACAAGTTTATGAGACCAATACTCGAAAGCAAAATAAATAAATTAGCCACATATA
196 CAAAGCAGGAAACACGTTTATGAGACCAAGACTCGAAAGCAAAATAAATAAATTAACCACATATA
* * * * *
9329 ACTTTAGTATTAGAGACAAAATATTTTCCTAAATACTTTATTTGCAATTGGAAAGATTGTAATTT
261 ACTTTAGTATTAAAGACAAAATAATTTCCTAAATAATTTATTTACAATTAGAAAGATTGTAATTT
* *** *
9394 GCTTTTGACTTGTATCATCAAAATCTACCATCTAGCTTTTAAAATCAAGTTTAATCATTCAAGAC
326 GCTTTTGACTTGTATCATCAAAATCTACCATTTAGCCCCTAAAATCAAGTTTAATCACTCAAGAC
*
9459 TTGTATCACAAGTTGTAACTTGAAATAAATTTATTTATTCCCTTTTA-ATTTTCTCCTTAGATTT
391 TTGTATCACAAGTTGTAACTTGAAATAAATTTATTTATTCCCTTTTATATTTTCTCCTTAGATTC
* * * * *
9523 TAAGACATAATTTAAAAAA-CAAAGCAAGAAATGCGTTTATGAGACCAAGACTTGAAAGTAAAAT
456 TAAGACATAA-TTAAAAAAGAAAAGCAAGAAATACGTTTATAAGACCAAAACTTGAAAGCAAAAT
* * * *
9587 AAATAAATTAGCCACATGTGCCTTTAGTATTTAGAGACAAAACACTTTCTTAAATAATTTATTTA
520 AAATAAATTAGCCACATATGACTTTAGTATTAAAAGACAAAACACTTTCTTAAATAATTTATTTA
* ** * * *
9652 CAATCGGAGAGATTGTTGTTTACTTTTGACTTATATCATCAAAATTTA-CTATCTAGCCCTTAAA
585 CAATCGGAAAGATTGTCATTTACTTTTGACTTATATCATCAAAATCTATC-ATCTAACCCCTAAA
*
9716 ATCAAGTATAATTACTCAAGACTTGATCACAAGTTGCATCTTGAAATAAATTTATTTATTCCCTT
649 ATCAAATATAATTACTCAAGACTTGATCACAAGTTGCATCTTGAAATAAATTTATTTATTCCCTT
9781 TT-TTTTCTCCTTGGATTCCAAGACATAATTTAAAAAACAAAGCAGGAAACACGTTTATG-GACC
714 TTCTTTTCTCCTTGGATTCCAAGACATAATTTAAAAAACAAAGCAGGAAACACGTTTATGAGACC
* *
9844 AAGACTTAAAAGCAAAATAAATAAATTAGCCATATATGACTTTAGTATTAAAAGCA
779 AAGACTTAAAAGCAAAAGAAATAAATTAGCC-------ACTTTAGTATTAAAAACA
9900 AAACATTTTTCTAAATAATTTATTTACAATTAGAAAGATTGTCGTTTACTTTTGACTTGTATCAT
1 AAACATTTTTCTAAATAATTTATTTACAATTAGAAAGATTGTCGTTTACTTTTGACTTGTATCAT
* * * *
9965 CAAAATCTGCTATCTAGCCTCGAAAAGCAAGTTTAATTACTCAAGACTTGTATCACAAGTTGTAG
66 CAAAATCTACTATCTAGCCTCAAAAAACAAGTTTAATTACTCAAGACTTGTATCACAAGTTATAG
*
10030 CTTAAAATAAATTTATTTATTCCTTTTTCTTTTTCTTCTCGAATTCTAAGACATAATTTAAAAAG
131 CTTAAAATAAATTTATTTATTCCATTTTCTTTTTCTTCTCGAATTCTAAGACATAATTTAAAAAG
*
10095 CAAAGCAGGAAACACGTTTATGAGACCAAGACTCGAAAGCAAAATAAATAAATTAACCACATATG
196 CAAAGCAGGAAACACGTTTATGAGACCAAGACTCGAAAGCAAAATAAATAAATTAACCACATATA
* * * *
10160 ACTTTAGTATTAAAGACAAAATAGTTTCCTGAATAATTTATTTACAATTAG-AAGTACTGTCATT
261 ACTTTAGTATTAAAGACAAAATAATTTCCTAAATAATTTATTTACAATTAGAAAG-ATTGTAATT
* * * ** * * * * *
10224 TACTTTTGACTTGTATTATCGAAATCTACTGTTTAGCCCCAAAAAGCAAATTTAATTACTCAAAA
325 TGCTTTTGACTTGTATCATCAAAATCTACCATTTAGCCCCTAAAATCAAGTTTAATCACTCAAGA
*
10289 CTTGTATCACAAGTTGTAACTTGGAATAAATTTATTTA
390 CTTGTATCACAAGTTGTAACTTGAAATAAATTTATTTA
10327 CTCTTTTTTT
Statistics
Matches: 1098, Mismatches: 135, Indels: 36
0.87 0.11 0.03
Matches are distributed among these distances:
815 4 0.00
816 10 0.01
817 179 0.16
818 4 0.00
820 3 0.00
821 6 0.01
822 1 0.00
824 34 0.03
825 54 0.05
826 3 0.00
827 304 0.28
828 99 0.09
830 3 0.00
831 394 0.36
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (827 bp):
AAACATTTTTCTAAATAATTTATTTACAATTAGAAAGATTGTCGTTTACTTTTGACTTGTATCAT
CAAAATCTACTATCTAGCCTCAAAAAACAAGTTTAATTACTCAAGACTTGTATCACAAGTTATAG
CTTAAAATAAATTTATTTATTCCATTTTCTTTTTCTTCTCGAATTCTAAGACATAATTTAAAAAG
CAAAGCAGGAAACACGTTTATGAGACCAAGACTCGAAAGCAAAATAAATAAATTAACCACATATA
ACTTTAGTATTAAAGACAAAATAATTTCCTAAATAATTTATTTACAATTAGAAAGATTGTAATTT
GCTTTTGACTTGTATCATCAAAATCTACCATTTAGCCCCTAAAATCAAGTTTAATCACTCAAGAC
TTGTATCACAAGTTGTAACTTGAAATAAATTTATTTATTCCCTTTTATATTTTCTCCTTAGATTC
TAAGACATAATTAAAAAAGAAAAGCAAGAAATACGTTTATAAGACCAAAACTTGAAAGCAAAATA
AATAAATTAGCCACATATGACTTTAGTATTAAAAGACAAAACACTTTCTTAAATAATTTATTTAC
AATCGGAAAGATTGTCATTTACTTTTGACTTATATCATCAAAATCTATCATCTAACCCCTAAAAT
CAAATATAATTACTCAAGACTTGATCACAAGTTGCATCTTGAAATAAATTTATTTATTCCCTTTT
CTTTTCTCCTTGGATTCCAAGACATAATTTAAAAAACAAAGCAGGAAACACGTTTATGAGACCAA
GACTTAAAAGCAAAAGAAATAAATTAGCCACTTTAGTATTAAAAACA
Found at i:11516 original size:2 final size:2
Alignment explanation
Indices: 11509--11535 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11499 TGTAAAAGTT
11509 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
11536 TAAAGATCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11921 original size:2 final size:2
Alignment explanation
Indices: 11914--11948 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
11904 TTACTATAAC
* *
11914 AT AT AT AT GT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11949 ACACATGAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12824 original size:16 final size:15
Alignment explanation
Indices: 12801--12886 Score: 67
Period size: 13 Copynumber: 6.1 Consensus size: 15
12791 TTATAAAATT
12801 TTTAATTAAATAAAA
1 TTTAATTAAATAAAA
*
12816 TTATAATT-AACAAAA
1 TT-TAATTAAATAAAA
* *
12831 TTTATTTAAA-AATA
1 TTTAATTAAATAAAA
12845 TTTAA-TAAAT-AAA
1 TTTAATTAAATAAAA
**
12858 TTTAA--AGTTAAAA
1 TTTAATTAAATAAAA
*
12871 TTTAATTATATAAAA
1 TTTAATTAAATAAAA
12886 T
1 T
12887 ATAAGATAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
12 2 0.04
13 19 0.34
14 11 0.20
15 19 0.34
16 5 0.09
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (15 bp):
TTTAATTAAATAAAA
Found at i:12886 original size:43 final size:44
Alignment explanation
Indices: 12789--12888 Score: 111
Period size: 43 Copynumber: 2.3 Consensus size: 44
12779 AGATTTTAAT
*
12789 ATTTATAAAATTTTTAATTAAATAAAATTATAATTAACAAAATTT-
1 ATTTATAAAATATTTAATTAAATAAAATTATAATT-A-AAAATTTA
*
12834 ATTTA-AAAATATTTAA-TAAATAAATTTA-AAGTT-AAAATTTA
1 ATTTATAAAATATTTAATTAAATAAAATTATAA-TTAAAAATTTA
12875 ATTATATAAAATAT
1 ATT-TATAAAATAT
12889 AAGATAAATT
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
40 7 0.14
41 3 0.06
42 4 0.08
43 20 0.41
44 10 0.20
45 5 0.10
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (44 bp):
ATTTATAAAATATTTAATTAAATAAAATTATAATTAAAAATTTA
Found at i:12916 original size:11 final size:11
Alignment explanation
Indices: 12884--12961 Score: 51
Period size: 11 Copynumber: 7.5 Consensus size: 11
12874 AATTATATAA
12884 AATATAAGATA-
1 AATATAA-ATAT
12895 AAT-TAAGATAT
1 AATATAA-ATAT
12906 AATATAAATAT
1 AATATAAATAT
*
12917 AATATTAA-A-
1 AATATAAATAT
* *
12926 AA-ATAATTAA
1 AATATAAATAT
12936 AATA-AAATAT
1 AATATAAATAT
* *
12946 GATATAAAAAT
1 AATATAAATAT
12957 AATAT
1 AATAT
12962 GAACATGACA
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
8 3 0.06
9 3 0.06
10 17 0.32
11 27 0.51
12 3 0.06
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (11 bp):
AATATAAATAT
Found at i:12923 original size:24 final size:22
Alignment explanation
Indices: 12884--12941 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
12874 AATTATATAA
* *
12884 AATATAAGATAAATTAAGATAT
1 AATATAAAATAAATTAAAATAT
*
12906 AATATAAATATAATATTAAAAAAT
1 AATATAAA-ATAA-ATTAAAATAT
12930 AAT-TAAAATAAA
1 AATATAAAATAAA
12942 ATATGATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 1 0.03
22 11 0.35
23 8 0.26
24 11 0.35
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (22 bp):
AATATAAAATAAATTAAAATAT
Found at i:13949 original size:20 final size:19
Alignment explanation
Indices: 13924--13986 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 19
13914 TACATAATTT
13924 TTTTTCTTTTTTTTCTTTCC
1 TTTTTCTTTTTTTTCTTT-C
13944 TTTTTCTTTTTTTCTCCTTTC
1 TTTTTCTTTTTTT-T-CTTTC
*
13965 TTTCTT-TTTTTTTTCTCTC
1 TTT-TTCTTTTTTTTCTTTC
13984 TTT
1 TTT
13987 CTTGACAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
19 7 0.18
20 14 0.36
21 12 0.31
22 6 0.15
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTCTTTTTTTTCTTTC
Found at i:13953 original size:19 final size:19
Alignment explanation
Indices: 13924--13989 Score: 66
Period size: 19 Copynumber: 3.4 Consensus size: 19
13914 TACATAATTT
13924 TTTTTCTTTTTTTTCTTTCC
1 TTTTTC-TTTTTTTCTTTCC
13944 TTTTTCTTTTTTTC--TCC
1 TTTTTCTTTTTTTCTTTCC
13961 TTTCTTTCTTTTTTT-TTTCTC
1 -TT-TTTCTTTTTTTCTTTC-C
*
13982 TCTTTCTT
1 TTTTTCTT
13990 GACAAAAATA
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
17 3 0.08
18 2 0.05
19 25 0.62
20 9 0.22
21 1 0.03
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTCTTTTTTTCTTTCC
Found at i:13969 original size:30 final size:29
Alignment explanation
Indices: 13921--13980 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
13911 AAATACATAA
* *
13921 TTTTTTTTCTTTTTTTTCTTTCCTTTTTC
1 TTTTTTTTCCTTTCTTTCTTTCCTTTTTC
**
13950 TTTTTTTCTCCTTTCTTTCTTTTTTTTTTC
1 TTTTTTT-TCCTTTCTTTCTTTCCTTTTTC
13980 T
1 T
13981 CTCTTTCTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (29 bp):
TTTTTTTTCCTTTCTTTCTTTCCTTTTTC
Found at i:14995 original size:18 final size:18
Alignment explanation
Indices: 14965--15043 Score: 81
Period size: 18 Copynumber: 4.3 Consensus size: 18
14955 ATACATAAAT
14965 TTTTTTCTCTTTTTCTTTC
1 TTTTTTCT-TTTTTCTTTC
*
14984 TTTTTTCTTTTTTC-CTC
1 TTTTTTCTTTTTTCTTTC
* *
15001 CTTTCTCTTTTTTTCTTT-
1 TTTTTTC-TTTTTTCTTTC
*
15019 TTATTTCTTTATTTCTTTC
1 TTTTTTCTTT-TTTCTTTC
15038 TTTTTT
1 TTTTTT
15044 TCCTACACAA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
17 10 0.21
18 24 0.50
19 14 0.29
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTTCTTTTTTCTTTC
Found at i:15037 original size:32 final size:34
Alignment explanation
Indices: 14974--15044 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 34
14964 TTTTTTTCTC
* *
14974 TTTTTCTTTCTTTTTTCTTTTTTCCTCCTTTCTCTT
1 TTTTTCTTTCTTATTTCTTTATT-CTCCTTTCT-TT
15010 TTTTTCTTT-TTATTTCTTTATT-T-CTTTCTTT
1 TTTTTCTTTCTTATTTCTTTATTCTCCTTTCTTT
15041 TTTT
1 TTTT
15045 CCTACACAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
31 6 0.18
32 6 0.18
33 1 0.03
35 11 0.33
36 9 0.27
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (34 bp):
TTTTTCTTTCTTATTTCTTTATTCTCCTTTCTTT
Found at i:15463 original size:15 final size:15
Alignment explanation
Indices: 15423--15463 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
15413 TGAAGTCACC
15423 TAGGAAGAAGCCATT
1 TAGGAAGAAGCCATT
* * *
15438 CAAGAAAAAGCCATT
1 TAGGAAGAAGCCATT
15453 TAGGAAGAAGC
1 TAGGAAGAAGC
15464 ACCAGCGATG
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.46, C:0.15, G:0.24, T:0.15
Consensus pattern (15 bp):
TAGGAAGAAGCCATT
Found at i:17727 original size:49 final size:51
Alignment explanation
Indices: 17674--17792 Score: 181
Period size: 51 Copynumber: 2.4 Consensus size: 51
17664 TGAACATTAC
* * *
17674 ATGTATCGATACATTCT-GT-TTTTACCCAGATGTATTGATACATTTTTTA
1 ATGTATCGATACATTCTAGTCTTTTACCCAAATGTATCGATACATTTTTCA
*
17723 ATGTATCGATACATTCTATTCTTTTACCCAAATGTATCGATACATTTTTCA
1 ATGTATCGATACATTCTAGTCTTTTACCCAAATGTATCGATACATTTTTCA
17774 ATGTATCGATACA-TCTAGT
1 ATGTATCGATACATTCTAGT
17793 TAATTTTGAG
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
49 17 0.27
50 6 0.10
51 40 0.63
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.44
Consensus pattern (51 bp):
ATGTATCGATACATTCTAGTCTTTTACCCAAATGTATCGATACATTTTTCA
Found at i:18193 original size:12 final size:12
Alignment explanation
Indices: 18176--18215 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
18166 AAAGGATCCT
*
18176 ATTTTCAACCAC
1 ATTTTCAGCCAC
*
18188 ATTTTCAGCCAT
1 ATTTTCAGCCAC
18200 ATTTTCCAGCCAC
1 ATTTT-CAGCCAC
18213 ATT
1 ATT
18216 ACCACTCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 15 0.62
13 9 0.38
ACGTcount: A:0.28, C:0.30, G:0.05, T:0.38
Consensus pattern (12 bp):
ATTTTCAGCCAC
Found at i:22541 original size:20 final size:20
Alignment explanation
Indices: 22516--22576 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
22506 TTTTTACCCA
*
22516 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTTATC
* *
22536 AATGTATCGATACATATATG
1 AATGTATCGATACATTTATC
22556 AATGTATCGATACATTATATC
1 AATGTATCGATACATT-TATC
22577 TTTTTACCCA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
20 32 0.91
21 3 0.09
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTTATC
Found at i:24869 original size:97 final size:98
Alignment explanation
Indices: 24743--24981 Score: 338
Period size: 97 Copynumber: 2.4 Consensus size: 98
24733 TATCGAGGAT
* * * ***
24743 ACTCTAACCTCATTCCTCCGA-GAGGATACTCCAATCTTGTTTTTAAAACTTGTCAAGATTTGAA
1 ACTCCAACCTTATTCCTCCGAGGA-GATACTCCAACCCCATTTTTAAAACTTGTCAAGATTTGAA
*
24807 ACTTATTCTTGCCTAAATTATCATTGTC-GAGAC
65 ACTTATTCGTGCCTAAATTATCATTGTCAGAGAC
* *
24840 ACTCCAACCTTATTCCTCCGAGGAAATACTCCTACCCCATTTTTAAAACTTGTCAAGATTTGAAA
1 ACTCCAACCTTATTCCTCCGAGGAGATACTCCAACCCCATTTTTAAAACTTGTCAAGATTTGAAA
*
24905 CTTATTCGTGCCTAAATTATCATTGTCAGGGAC
66 CTTATTCGTGCCTAAATTATCATTGTCAGAGAC
* * *
24938 ACTCCAACCCTATTCCTCCGAGGGGATACTCCAACCCCGTTTTT
1 ACTCCAACCTTATTCCTCCGAGGAGATACTCCAACCCCATTTTT
24982 CAATCAAAAA
Statistics
Matches: 125, Mismatches: 15, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
97 80 0.64
98 45 0.36
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.33
Consensus pattern (98 bp):
ACTCCAACCTTATTCCTCCGAGGAGATACTCCAACCCCATTTTTAAAACTTGTCAAGATTTGAAA
CTTATTCGTGCCTAAATTATCATTGTCAGAGAC
Found at i:35828 original size:16 final size:15
Alignment explanation
Indices: 35799--35847 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
35789 AAAAAAACTC
*
35799 AAAAAAATAAA-AAA
1 AAAAAAACAAACAAA
* *
35813 AAACAACCAAACAAA
1 AAAAAAACAAACAAA
*
35828 AAAAAAACAAATAAA
1 AAAAAAACAAACAAA
35843 AAAAA
1 AAAAA
35848 GAAGGGTCCA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 8 0.29
15 20 0.71
ACGTcount: A:0.86, C:0.10, G:0.00, T:0.04
Consensus pattern (15 bp):
AAAAAAACAAACAAA
Found at i:35847 original size:19 final size:19
Alignment explanation
Indices: 35801--35847 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
35791 AAAAACTCAA
*
35801 AAAAATAAAAAAAAACAACC
1 AAAAA-AAAAAAAAACAAAC
* *
35821 AAACAAAAAAAAAACAAAT
1 AAAAAAAAAAAAAACAAAC
35840 AAAAAAAA
1 AAAAAAAA
35848 GAAGGGTCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.85, C:0.11, G:0.00, T:0.04
Consensus pattern (19 bp):
AAAAAAAAAAAAAACAAAC
Found at i:37192 original size:28 final size:28
Alignment explanation
Indices: 37122--37447 Score: 323
Period size: 28 Copynumber: 11.2 Consensus size: 28
37112 CCTTTTTAAT
*
37122 GCCCATAAGTCAGTGGCATCCTTCTCAAA
1 GCCCACAAGTCAGTGGCATCCTT-TCAAA
* *
37151 GCCCACAATTTAGTGGCATCCTTTCAAA
1 GCCCACAAGTCAGTGGCATCCTTTCAAA
* * *
37179 GCCGAAAAG-CTAGTGGCA-CTTTTTCAAA
1 GCCCACAAGTC-AGTGGCATC-CTTTCAAA
* *
37207 GCCCACAAGTCAGTGGCATCTTTTCAAT
1 GCCCACAAGTCAGTGGCATCCTTTCAAA
* *
37235 GCCTACAATTCAGTGGCATCCTTTCAAA
1 GCCCACAAGTCAGTGGCATCCTTTCAAA
*
37263 GCCCACAAGTGAGTGGCATCCTTTCAAA
1 GCCCACAAGTCAGTGGCATCCTTTCAAA
* * *
37291 ACCCATAACTCAGTGGCATCCTTTCAAA
1 GCCCACAAGTCAGTGGCATCCTTTCAAA
*
37319 ACCCACAAGTCAGTGGCATCCTTTCAAA
1 GCCCACAAGTCAGTGGCATCCTTTCAAA
* * *
37347 ACCCACAAGTTAGTGGCATACCCTTCCAAA
1 GCCCACAAGTCAGTGGCAT--CCTTTCAAA
* *
37377 GCCCACACAAGTCGGTGGCATACCCTTTTAAA
1 G-CC-CACAAGTCAGTGGCAT--CCTTTCAAA
* *
37409 GCCCACACAAGTTAGTGGCAACTCTTTTCAAA
1 G-CC-CACAAGTCAGTGGC-A-TCCTTTCAAA
37441 GCCCACA
1 GCCCACA
37448 TAGGTTAGTG
Statistics
Matches: 252, Mismatches: 35, Indels: 19
0.82 0.11 0.06
Matches are distributed among these distances:
27 1 0.00
28 163 0.65
29 22 0.09
30 12 0.05
31 4 0.02
32 48 0.19
33 1 0.00
34 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (28 bp):
GCCCACAAGTCAGTGGCATCCTTTCAAA
Found at i:37254 original size:84 final size:83
Alignment explanation
Indices: 37113--37491 Score: 316
Period size: 84 Copynumber: 4.3 Consensus size: 83
37103 CAATACGACC
* * *
37113 CTTTTT-AATGCCCATAAGTCAGTGGCATCCTTCTCAAAGCCCACAATTTAGTGGCATCCTTTCA
1 CTTTTTCAAAGCCCATAAGTCAGTGGCAT-CTTTTCAAAGCCCACAATTCAGTGGCATCCTTTCA
* *
37177 AAGCCGAAAAGCTAGTGGCA
65 AAGCCCACAAG-TAGTGGCA
* * *
37197 CTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAATGCCTACAATTCAGTGGCATCCTTTCAA
1 CTTTTTCAAAGCCCATAAGTCAGTGGCATCTTTTCAAAGCCCACAATTCAGTGGCATCCTTTCAA
37262 AGCCCACAAGTGAGTGGCA
66 AGCCCACAAGT-AGTGGCA
* * * * * *
37281 -TCCTTTCAAAACCCATAACTCAGTGGCATCCTTTCAAAACCCACAAGTCAGTGGCATCCTTTCA
1 CT-TTTTCAAAGCCCATAAGTCAGTGGCATCTTTTCAAAGCCCACAATTCAGTGGCATCCTTTCA
*
37345 AAACCCACAAGTTAGTGGCATA
65 AAGCCCACAAG-TAGTGGC--A
** * * *
37367 CCCTTCCAAAGCCCACACAAGTCGGTGGCATACCCTTTT-AAAGCCCACACAAGTT-AGTGGCAA
1 CTTTTTCAAAG-CC-CATAAGTCAGTGGCAT---CTTTTCAAAG-CC-CACAA-TTCAGTGGC-A
*
37430 CTCTTTTCAAAGCCCACATAGGTTAGTGGCA
57 -TCCTTTCAAAGCCCACA-A-G-TAGTGGCA
**
37461 CATTTTTTTAAGCCCATGCAAGTCAGTGGCA
1 C-TTTTTCAAAGCCCAT--AAGTCAGTGGCA
37492 ACCCTTTTCA
Statistics
Matches: 237, Mismatches: 36, Indels: 33
0.77 0.12 0.11
Matches are distributed among these distances:
83 2 0.01
84 122 0.51
85 21 0.09
86 8 0.03
87 2 0.01
88 13 0.05
90 3 0.01
91 6 0.03
92 11 0.05
93 4 0.02
94 19 0.08
95 17 0.07
96 9 0.04
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (83 bp):
CTTTTTCAAAGCCCATAAGTCAGTGGCATCTTTTCAAAGCCCACAATTCAGTGGCATCCTTTCAA
AGCCCACAAGTAGTGGCA
Found at i:37459 original size:64 final size:62
Alignment explanation
Indices: 37128--37503 Score: 172
Period size: 56 Copynumber: 6.4 Consensus size: 62
37118 TAATGCCCAT
* * * * * * * *
37128 AAGTCAGTGGCATCCTTCTCAAAG-CC-CACAATTTAGTGGCA-TCCTTTCAAAGCCGA-A-
1 AAGTTAGTGGCAACCTTTTCAAAGCCCACACAAGTCAGTGGCACACCTTTTAAAGCCCACAC
* * * * *
37185 AAGCTAGTGGC-ACTTTTTCAAAG-CC-CACAAGTCAGTGG--CATCTTTTCAATG-CC-TAC
1 AAGTTAGTGGCAACCTTTTCAAAGCCCACACAAGTCAGTGGCACACCTTTT-AAAGCCCACAC
* * * * * *
37241 AA-TTCAGTGGCATCC-TTTCAAAG-CC-CACAAGTGAGTGGCA-TCCTTTCAAA-ACC-CAT
1 AAGTT-AGTGGCAACCTTTTCAAAGCCCACACAAGTCAGTGGCACACCTTTTAAAGCCCACAC
* * * * * * *
37297 AACTCAGTGGCATCC-TTTCAAA-ACC-CACAAGTCAGTGGCA-TCCTTTCAAA-ACC-CAC
1 AAGTTAGTGGCAACCTTTTCAAAGCCCACACAAGTCAGTGGCACACCTTTTAAAGCCCACAC
* * * *
37353 AAGTTAGTGGCATACCCTTCCAAAGCCCACACAAGTCGGTGGCATACCCTTTTAAAGCCCACAC
1 AAGTTAGTGGCA-ACCTTTTCAAAGCCCACACAAGTCAGTGGCACA-CCTTTTAAAGCCCACAC
* * * ** * **
37417 AAGTTAGTGGCAACTCTTTTCAAAGCCCACATAGGTTAGTGGCACATTTTTTTAAGCCCATGC
1 AAGTTAGTGGCAAC-CTTTTCAAAGCCCACACAAGTCAGTGGCACACCTTTTAAAGCCCACAC
*
37480 AAGTCAGTGGCAACCCTTTTCAAA
1 AAGTTAGTGGCAA-CCTTTTCAAA
37504 TCACCACTTT
Statistics
Matches: 251, Mismatches: 47, Indels: 36
0.75 0.14 0.11
Matches are distributed among these distances:
55 7 0.03
56 120 0.48
57 17 0.07
58 6 0.02
59 2 0.01
60 14 0.06
62 8 0.03
63 37 0.15
64 40 0.16
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (62 bp):
AAGTTAGTGGCAACCTTTTCAAAGCCCACACAAGTCAGTGGCACACCTTTTAAAGCCCACAC
Found at i:38664 original size:20 final size:20
Alignment explanation
Indices: 38639--38714 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
38629 TTTTTACCCA
38639 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTTTTC
* * *
38659 AATGTATCGATACATGTATG
1 AATGTATCGATACATTTTTC
* *
38679 AATGTATCGATGCATTCTTC
1 AATGTATCGATACATTTTTC
38699 AATGTATCGATACATT
1 AATGTATCGATACATT
38715 ATGCCTTTTT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTTTTC
Found at i:38700 original size:40 final size:39
Alignment explanation
Indices: 38639--38717 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 39
38629 TTTTTACCCA
*
38639 AATGTATCGATACATTTTTCAATGTATCGATACATGTATG
1 AATGTATCGATACATTCTTCAATGTATCGATACAT-TATG
*
38679 AATGTATCGATGCATTCTTCAATGTATCGATACATTATG
1 AATGTATCGATACATTCTTCAATGTATCGATACATTATG
38718 CCTTTTTACC
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
39 4 0.11
40 33 0.89
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (39 bp):
AATGTATCGATACATTCTTCAATGTATCGATACATTATG
Found at i:41073 original size:98 final size:98
Alignment explanation
Indices: 40899--41142 Score: 366
Period size: 98 Copynumber: 2.5 Consensus size: 98
40889 TTATTCATCG
* *
40899 AGGATACTCCAACCTCATTCCTCCG-AGGAGATTCTCCAACCCCATTTTTAAAACTTGTCAAGAT
1 AGGACACTCCAACCTCATTCCTCCGAAGG-GATACTCCAACCCCATTTTTAAAACTTGTCAAGAT
*
40963 TTGAAACTTATTCTTACCTAAATTATCATTGTCA
65 TTGAAACTTATTCTTACCTAAATTATCAATGTCA
** *
40997 AGGACACTCCAACCTCATTCCTCCGAAGGGATACTCTTACCCCGTTTTTAAAACTTGTCAAGATT
1 AGGACACTCCAACCTCATTCCTCCGAAGGGATACTCCAACCCCATTTTTAAAACTTGTCAAGATT
* *
41062 TGAAACTTATTCTTGCCTAAATTATCAATGTCC
66 TGAAACTTATTCTTACCTAAATTATCAATGTCA
* * *
41095 GGGACACTCCAACC-CATTCCTCCGAAGGGATACTCCAACTCCGTTTTT
1 AGGACACTCCAACCTCATTCCTCCGAAGGGATACTCCAACCCCATTTTT
41143 CAATCAAAAA
Statistics
Matches: 133, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
97 31 0.23
98 99 0.74
99 3 0.02
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.32
Consensus pattern (98 bp):
AGGACACTCCAACCTCATTCCTCCGAAGGGATACTCCAACCCCATTTTTAAAACTTGTCAAGATT
TGAAACTTATTCTTACCTAAATTATCAATGTCA
Found at i:42846 original size:18 final size:18
Alignment explanation
Indices: 42825--42871 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
42815 AAAAACCCCC
42825 CAAAAGAAAAAC-AACAAA
1 CAAAA-AAAAACAAACAAA
*
42843 CAAAAAAAAAACAAATAAA
1 C-AAAAAAAAACAAACAAA
42862 CAAAAAAAAA
1 CAAAAAAAAA
42872 GGGTCTAGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.83, C:0.13, G:0.02, T:0.02
Consensus pattern (18 bp):
CAAAAAAAAACAAACAAA
Found at i:42848 original size:19 final size:19
Alignment explanation
Indices: 42825--42871 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
42815 AAAAACCCCC
*
42825 CAAAAGAAAAAC-AACAAA
1 CAAAAAAAAAACAAACAAA
*
42843 CAAAAAAAAAACAAATAAA
1 CAAAAAAAAAACAAACAAA
42862 CAAAAAAAAA
1 CAAAAAAAAA
42872 GGGTCTAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.83, C:0.13, G:0.02, T:0.02
Consensus pattern (19 bp):
CAAAAAAAAAACAAACAAA
Found at i:42866 original size:15 final size:15
Alignment explanation
Indices: 42831--42869 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
42821 CCCCCAAAAG
*
42831 AAAAACAACAAACAA
1 AAAAAAAACAAACAA
*
42846 AAAAAAAACAAATAA
1 AAAAAAAACAAACAA
42861 ACAAAAAAA
1 A-AAAAAAA
42870 AAGGGTCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.03
Consensus pattern (15 bp):
AAAAAAAACAAACAA
Found at i:44221 original size:28 final size:28
Alignment explanation
Indices: 44177--44815 Score: 638
Period size: 28 Copynumber: 22.7 Consensus size: 28
44167 TCAAAGAGTG
*
44177 CAAGTTAGTGGCA-CTTTCTCAAAG-CCA
1 CAAGTTAGTGGCATCCTT-TCAAAGCCCA
44204 CAAGTTAGTGGCAT-CTTTCCAAAGCCCA
1 CAAGTTAGTGGCATCCTTT-CAAAGCCCA
* * *
44232 CAAGTCACTGGCAACCCTTCTCAAAGCCCA
1 CAAGTTAGTGGC-ATCCTT-TCAAAGCCCA
*
44262 CAAGTCAGTGGCA-CCTTCTCAAAGCCCA
1 CAAGTTAGTGGCATCCTT-TCAAAGCCCA
* *
44290 CAAGTCAGTGGCACCCTTTCAAAGCCCA
1 CAAGTTAGTGGCATCCTTTCAAAGCCCA
*
44318 CAAGTTAGTAGCA-CCTTCTCAAAGCCCA
1 CAAGTTAGTGGCATCCTT-TCAAAGCCCA
* *
44346 CAAGTCAGTGGTATCCTTTCAAAGCCCA
1 CAAGTTAGTGGCATCCTTTCAAAGCCCA
* * *
44374 CAAGCTAGTGGCA-CATTTTCAATGCCCA
1 CAAGTTAGTGGCATC-CTTTCAAAGCCCA
*
44402 CAAGTTAGTGGCATCTTTTCAAAGCCCA
1 CAAGTTAGTGGCATCCTTTCAAAGCCCA
* *
44430 CAAGTCAGTGACATCCTTTCAAAGCCCA
1 CAAGTTAGTGGCATCCTTTCAAAGCCCA
* * *
44458 TAAGTCAGTGGCA-CGATTTCAAAGCCCA
1 CAAGTTAGTGGCATC-CTTTCAAAGCCCA
* *
44486 CAAGTCAGTGGCATCCTTTCAAATCCCA
1 CAAGTTAGTGGCATCCTTTCAAAGCCCA
* *
44514 CAAGCTAGTGGCATCTTTTCAAAGCCCA
1 CAAGTTAGTGGCATCCTTTCAAAGCCCA
* **
44542 CAAGTTAGTGACATTTTTTCAAA-CCCA
1 CAAGTTAGTGGCATCCTTTCAAAGCCCA
* * *
44569 CAAGTTGGTGCCATCCTTTCAAA--AC-
1 CAAGTTAGTGGCATCCTTTCAAAGCCCA
* *
44594 CAAGCTAGTGGCACCCTTTCAAAGCCCA
1 CAAGTTAGTGGCATCCTTTCAAAGCCCA
* * * *
44622 CAAGTTAGTAGCATCATTTCAAAACCTA
1 CAAGTTAGTGGCATCCTTTCAAAGCCCA
* *
44650 CAAGTTAGTGGCACCCTTTCAAAGCTCA
1 CAAGTTAGTGGCATCCTTTCAAAGCCCA
* * *
44678 CAAGTTAGTGACATCCTATCAAAACCCA
1 CAAGTTAGTGGCATCCTTTCAAAGCCCA
* *
44706 CAAGTCAGTGGCACCCTTTCAAAGCCCA
1 CAAGTTAGTGGCATCCTTTCAAAGCCCA
*
44734 CAAGTCAGTGGCATACCCTTTCAAAGCTCACA
1 CAAGTTAGTGGCAT--CCTTTCAAAGC-C-CA
*
44766 CAAGTCT-GTGGCAACTCTTTTCAAAGCCCA
1 CAAGT-TAGTGGC-A-TCCTTTCAAAGCCCA
44796 CATAAGTTAGTGGCA-CCTTT
1 C--AAGTTAGTGGCATCCTTT
44816 TTTTAAGCCC
Statistics
Matches: 517, Mismatches: 69, Indels: 50
0.81 0.11 0.08
Matches are distributed among these distances:
25 19 0.04
26 2 0.00
27 50 0.10
28 355 0.69
29 16 0.03
30 37 0.07
31 5 0.01
32 31 0.06
33 1 0.00
34 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (28 bp):
CAAGTTAGTGGCATCCTTTCAAAGCCCA
Found at i:48376 original size:98 final size:98
Alignment explanation
Indices: 48229--48446 Score: 330
Period size: 98 Copynumber: 2.2 Consensus size: 98
48219 TTTTTCTGAA
**
48229 GGGATACTCCATCCCTATTTTTAAAATTTGTCAAGATTTGAAACTTATTCTTGCCTAAATTATCA
1 GGGATACTCCATCCCTATTTTTAAAACGTGTCAAGATTTGAAACTTATTCTTGCCTAAATTATCA
**
48294 TTGTCAGAGACACTCCAACTTCATTCCTCCGAG
66 TTGTCAGAGACACTCCAACCCCATTCCTCCGAG
*
48327 GGGATACTCTTATCCC-ATTTTTAAAACGTGTCAAGATTTGAAACTTATTCTTGCCTAAATTATC
1 GGGATACTC-CATCCCTATTTTTAAAACGTGTCAAGATTTGAAACTTATTCTTGCCTAAATTATC
* *
48391 ATTGTCGGGGACACTCCAACCCCATTCCTCCGAG
65 ATTGTCAGAGACACTCCAACCCCATTCCTCCGAG
* * *
48425 AGGATACTCCAACCCCATTTTT
1 GGGATACTCCATCCCTATTTTT
48447 CAATCAAAAA
Statistics
Matches: 108, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
97 4 0.04
98 99 0.92
99 5 0.05
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (98 bp):
GGGATACTCCATCCCTATTTTTAAAACGTGTCAAGATTTGAAACTTATTCTTGCCTAAATTATCA
TTGTCAGAGACACTCCAACCCCATTCCTCCGAG
Found at i:50204 original size:208 final size:208
Alignment explanation
Indices: 49846--50255 Score: 741
Period size: 208 Copynumber: 2.0 Consensus size: 208
49836 GCGAGAATTG
* *
49846 AAGCACATTTAGGATGGTTGAGATATTCATGCAAAAGAGTCGTTCACCAAGAGATAAGAAAATGT
1 AAGCACATTTAGGATGGTTGAGACATTCATGCAAAAGAGTCATTCACCAAGAGATAAGAAAATGT
*
49911 AGCGCTCTTGCTCCAAGTTCAATTGGATGAAGGCCTATTACGAACGGTGGCACAATTCTGGAATC
66 AGCGCTCTTACTCCAAGTTCAATTGGATGAAGGCCTATTACGAACGGTGGCACAATTCTGGAATC
* *
49976 TTGCGTACTGATGTTTCACCTTCCATCGAGTAGACCTAGTTCTTACCATCGACGAGTACATGGTG
131 TTGCATACTGATGTTTCACCTTCCATCGAGTAGACCTAGTTCTTACCATCGACGAGTACACGGTG
50041 TTGCTCATTTAGA
196 TTGCTCATTTAGA
50054 AAGCACATTTAGGATGGTTGAGACATTCATGCAAAAGAGTCATTCACCAAGAGATAAGAAAATGT
1 AAGCACATTTAGGATGGTTGAGACATTCATGCAAAAGAGTCATTCACCAAGAGATAAGAAAATGT
*
50119 AGCGCTGC-TACTCCAAGTTCAATTGGATGAAGGCCTATTACGAACGGTGGCACAGTTCTGGAAT
66 AGCGCT-CTTACTCCAAGTTCAATTGGATGAAGGCCTATTACGAACGGTGGCACAATTCTGGAAT
*
50183 CTTGCATACTGATGTTTCACCTTCCATCGAGTAGACCTAGTTCTTACCATCGATGAGTACACGGT
130 CTTGCATACTGATGTTTCACCTTCCATCGAGTAGACCTAGTTCTTACCATCGACGAGTACACGGT
50248 GTTGCTCA
195 GTTGCTCA
50256 AAGTTGAAGG
Statistics
Matches: 194, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
208 193 0.99
209 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (208 bp):
AAGCACATTTAGGATGGTTGAGACATTCATGCAAAAGAGTCATTCACCAAGAGATAAGAAAATGT
AGCGCTCTTACTCCAAGTTCAATTGGATGAAGGCCTATTACGAACGGTGGCACAATTCTGGAATC
TTGCATACTGATGTTTCACCTTCCATCGAGTAGACCTAGTTCTTACCATCGACGAGTACACGGTG
TTGCTCATTTAGA
Found at i:60389 original size:28 final size:28
Alignment explanation
Indices: 59764--60458 Score: 611
Period size: 28 Copynumber: 24.4 Consensus size: 28
59754 CGACCCTCTT
59764 AAAGCCCACAAGTCAGTGGCACCTTCTT-
1 AAAGCCCACAAGTCAGTGGCACCTT-TTC
* *
59792 AAAGCCCATATGTCAGTGGCATCC-TTTC
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTC
* * * * *
59820 AAAG-TCACATGTTAATGTCACCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCTTTTC
*
59847 AAAGCCCACAAGTTAGTGGCATCC-TTTC
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTC
59875 AAAGCCCACAAGTCAGTGGCATCC-TTTC
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTC
*
59903 AAAGCCCACATGTCAGTGGCATCC-TTTC
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTC
* *
59931 AAAGCCCACATGTTAGTGGCACCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCTTTTC
* * * *
59959 AAAGTCCACAAGTTAGTGACAACCCTTCTC
1 AAAGCCCACAAGTCAGTGGC-A-CCTTTTC
*
59989 AAAGCCCACATGTCAGTGGCATCC-TTTC
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTC
*
60017 AAAGCCCACATGTCAGTGGCAACCCTTTTC
1 AAAGCCCACAAGTCAGTGGC-A-CCTTTTC
* *
60047 AAAGCCCATATA-TCAGCGGCACCATTTTC
1 AAAGCCCACA-AGTCAGTGGCACC-TTTTC
* *
60076 AAAGCCCACATGTTAGTGGCACCCTTTTC
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTC
* *
60105 AAAGCCCATAAGTCAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCACCTTTTC
*
60133 AAAGCCCACAAGTCAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCACCTTTTC
* * *
60161 ACAA-CCCACATGTCAGTAGTACCCTTTTC
1 A-AAGCCCACAAGTCAGTGGCA-CCTTTTC
* * *
60190 AAAGTCCACAAGTCAGTAGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCACCTTTTC
* * * *
60218 AAAGCCCACAAGACAATGGCTCCCTTTC
1 AAAGCCCACAAGTCAGTGGCACCTTTTC
* * *
60246 AAAGCCCACAAATCAATGGCACATTTTC
1 AAAGCCCACAAGTCAGTGGCACCTTTTC
*
60274 AAAGCCCACAAGTCGGTGGCACCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCTTTTC
* *
60302 AAAGCTCACAAGTCGGTGGCACGC-TTTC
1 AAAGCCCACAAGTCAGTGGCAC-CTTTTC
* * ** * *
60330 AAAGCCCATAAGCCAGTAACGCC-ATTC
1 AAAGCCCACAAGTCAGTGGCACCTTTTC
* *
60357 AAAAGCCCATAAGTCAATGGCACCTTTTC
1 -AAAGCCCACAAGTCAGTGGCACCTTTTC
* * *
60386 AAAGCTCACAAGTCAATAGCTACCATTTTC
1 AAAGCCCACAAGTCAGTGGC-ACC-TTTTC
** **
60416 AAAGGCCACACAAGTTGGTGGCACCCTAGTC
1 AAA-GCC-CACAAGTCAGTGGCA-CCTTTTC
*
60447 AAAGCTCACAAG
1 AAAGCCCACAAG
60459 AGTTGGCGAC
Statistics
Matches: 557, Mismatches: 85, Indels: 49
0.81 0.12 0.07
Matches are distributed among these distances:
26 2 0.00
27 27 0.05
28 361 0.65
29 92 0.17
30 54 0.10
31 9 0.02
32 12 0.02
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCACCTTTTC
Found at i:62343 original size:20 final size:22
Alignment explanation
Indices: 62303--62343 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
62293 TAGCCTTTGA
*
62303 TCATGCATTTTTTTACTATGTT
1 TCATGCATTTTTTAACTATGTT
62325 TCATGCA-TTTTTAAC-ATGT
1 TCATGCATTTTTTAACTATGT
62344 CCAGCATCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 7 0.39
22 7 0.39
ACGTcount: A:0.22, C:0.15, G:0.10, T:0.54
Consensus pattern (22 bp):
TCATGCATTTTTTAACTATGTT
Found at i:69017 original size:52 final size:52
Alignment explanation
Indices: 68939--69088 Score: 214
Period size: 52 Copynumber: 2.9 Consensus size: 52
68929 CGAAATATGA
*
68939 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGC
* * * *
68991 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATTTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGC
*
69043 AAATTTGCCTGCATGTATCGATACA--AAGATCAGTGTATCGATACAT
1 AAATTTGCCTGCATGTATCGATACATTTA-AT-AGTGTATCGATACAT
69089 TTAAGTAATG
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 86 0.98
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGC
Found at i:70172 original size:20 final size:21
Alignment explanation
Indices: 70147--70193 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
70137 GGCTTAATGG
70147 AAAAAATAATA-CAAAACT-AA
1 AAAAAATAA-AGCAAAACTGAA
*
70167 AAAAAATAAAGTAAAACTGAA
1 AAAAAATAAAGCAAAACTGAA
70188 AAAAAA
1 AAAAAA
70194 ATATTATAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 1 0.04
20 15 0.62
21 8 0.33
ACGTcount: A:0.77, C:0.06, G:0.04, T:0.13
Consensus pattern (21 bp):
AAAAAATAAAGCAAAACTGAA
Found at i:70337 original size:18 final size:18
Alignment explanation
Indices: 70306--70349 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
70296 AAAAAAACCT
*
70306 ATAAAAAACAATAAAACA
1 ATAAAAAACAATAAAAAA
**
70324 ATAAAAAATTATAAAAAA
1 ATAAAAAACAATAAAAAA
70342 ACTAAAAA
1 A-TAAAAA
70350 TTTGAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (18 bp):
ATAAAAAACAATAAAAAA
Done.