Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 63 of 193
Found at i:20032580 original size:25 final size:25
Alignment explanation
Indices: 20032547--20032605 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
20032537 ATCTGTTATT
* * *
20032547 TTTCATTTCATTTC-TTTTTTATTCT
1 TTTCTTTTCATTTCATTTCTT-CTCT
20032572 TTTCTTTTCATTTCATTTCTTCTCT
1 TTTCTTTTCATTTCATTTCTTCTCT
20032597 TTTCTTTTC
1 TTTCTTTTC
20032606 TTCTCTTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 25 0.83
26 5 0.17
ACGTcount: A:0.08, C:0.20, G:0.00, T:0.71
Consensus pattern (25 bp):
TTTCTTTTCATTTCATTTCTTCTCT
Found at i:20032582 original size:30 final size:30
Alignment explanation
Indices: 20032546--20032607 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
20032536 AATCTGTTAT
*
20032546 TTTTCATTTCATTTCTT-TTTTATTCTTTTC
1 TTTTCATTTCATTTCTTCTCTT-TTCTTTTC
20032576 TTTTCATTTCATTTCTTCTCTTTTCTTTTC
1 TTTTCATTTCATTTCTTCTCTTTTCTTTTC
20032606 TT
1 TT
20032608 CTCTTCCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 27 0.90
31 3 0.10
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (30 bp):
TTTTCATTTCATTTCTTCTCTTTTCTTTTC
Found at i:20032605 original size:20 final size:20
Alignment explanation
Indices: 20032568--20032605 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
20032558 TTCTTTTTTA
*
20032568 TTCTTTTCTTTTCATTTCAT
1 TTCTTCTCTTTTCATTTCAT
*
20032588 TTCTTCTCTTTTCTTTTC
1 TTCTTCTCTTTTCATTTC
20032606 TTCTCTTCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.71
Consensus pattern (20 bp):
TTCTTCTCTTTTCATTTCAT
Found at i:20032608 original size:15 final size:15
Alignment explanation
Indices: 20032568--20032612 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
20032558 TTCTTTTTTA
* *
20032568 TTCTTTTCTTTTCAT
1 TTCTTTTCTTCTCTT
*
20032583 TTCATTTCTTCTCTT
1 TTCTTTTCTTCTCTT
20032598 TTCTTTTCTTCTCTT
1 TTCTTTTCTTCTCTT
20032613 CCAAACAGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.71
Consensus pattern (15 bp):
TTCTTTTCTTCTCTT
Found at i:20033273 original size:74 final size:73
Alignment explanation
Indices: 20033147--20033291 Score: 227
Period size: 74 Copynumber: 2.0 Consensus size: 73
20033137 CTTTACAAAA
* ***
20033147 TGAAAGTGAACAACCATCATTTATCATTCATAAATGAATGTGTTGATTCATTTAAAAACTCTTGA
1 TGAAAGTGAACAACCATCATTCATCATTCATAAATGAATACATTGATTCATTT-AAAACTCTTGA
20033212 ATGAAACAT
65 ATGAAACAT
* *
20033221 TGAATGTGAACAGCCATCATTCATCATTCATAAATGAATACATTGATTCATTTAAAACTCTTGAA
1 TGAAAGTGAACAACCATCATTCATCATTCATAAATGAATACATTGATTCATTTAAAACTCTTGAA
20033286 TGAAAC
66 TGAAAC
20033292 TTTGTATCCC
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
73 18 0.28
74 47 0.72
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (73 bp):
TGAAAGTGAACAACCATCATTCATCATTCATAAATGAATACATTGATTCATTTAAAACTCTTGAA
TGAAACAT
Found at i:20034764 original size:217 final size:216
Alignment explanation
Indices: 20034080--20036394 Score: 2756
Period size: 217 Copynumber: 10.7 Consensus size: 216
20034070 GAACTTATCA
* * * * * *
20034080 TTCTTGGACGAACTTCCACACTTGTCAAACTTGTATGAGTTATTATATAACTTTGGTTCCTTAAA
1 TTCTTGGACGAACTTCCGCACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAA
* * * *
20034145 TTATTCAAGACGATCCATTCTTTCGAGCAATTTTTCGAAAACTCCATGCT-GGAGAAATCGCATC
66 GTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGG-GAAATCGCATC
* * * * *
20034209 ATTTAGTCTGAATAGTTCGTCATTTTGTAAACAAGTCTTGGTCTTTGAATTAAAAACTTATTTAC
130 ATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTAGTCTTTGAATTAAAAACTTATTTAC
20034274 GTGAGAATTGTTTCTCTCTTGG
195 GTGAGAATTGTTTCTCTCTTGG
* ** * * * **
20034296 TTCTTTGACGAACTTCCAAACTTGTTAAACTTTTACAAGTTCTTTTGTAACTTCAATTCCTTAAA
1 TTCTTGGACGAACTTCCGCACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAA
* * * * * *
20034361 GTATTCAAGATGATCCATTCCTTCGAGCAATTTTTTGAATATTCCAAGCTCGAGAAATTGCATCA
66 GTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCA
* * * *
20034426 TTTGGTTTAAATAGTTTGTCATTTTGT-AACAAAGTTTTGGTCTTTCAATTAAAGAGC-TATTTA
131 TTTGGTCTAAATAGTTTGTCATTTTGTAAAC-AAGTTTTAGTCTTTGAATTAAA-AACTTATTTA
* * *
20034489 CATGAGAATTGTTTATATCTTGG
194 CGTGAGAATTGTTTCTCTCTTGG
* * * * *
20034512 TTCTAGGACGAACTTTCGCACTTGTTAAACTTTTACGAGTTCATTTATAACTTCGCTTCCTTAAA
1 TTCTTGGACGAACTTCCGCACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAA
* * * *
20034577 GTATTCAAGACAATCTATTCCTTCGAACAATTTTTCGAACATTCCATGCTCGGGAAATTCGAATC
66 GTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAA-TCGCATC
* * ** * * *
20034642 TTTTAGTCTAAATAGTTTGTCATAATGTAAACAACTTTTAATCTTTGAATTAAAAACTTATTTAT
130 ATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTAGTCTTTGAATTAAAAACTTATTTAC
* * * *
20034707 GTGAAAAATGTGTCTATCTTGG
195 GTGAGAATTGTTTCTCTCTTGG
** * * * *
20034729 TTCTTGGA-GTAACTTCCAAACTTGTCAAACTTTTACTAGTTCTTTTATAACTACTGTT-ATATA
1 TTCTTGGACG-AACTTCCGCACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCT-TA
* * * * * *
20034792 CAA-TATTCAAGACGATCTA-TCCATCAAGCAATTTTTTGAACATTCCATGCTCGGGAATTCGTA
64 -AAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCA
* * * * * * *
20034855 CCATTTGGTCGAAATAGTTTGTCAATTTGTAAACAGGTTTTGGTCTTTG-ATTAAAATCTTATTA
128 TCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTAGTCTTTGAATTAAAAACTTATTT
*
20034919 ACCTGAGAATTGTTTCTCTCTTGG
193 ACGTGAGAATTGTTTCTCTCTTGG
* * **** * * * ** *
20034943 TTCATGGATGAACTTTAAAACTTGTCAATCTTTTACGAGTTCTCTTATAGCTTTTTAGTCCCTTA
1 TTCTTGGACGAACTTCCGCACTTGTCAAACTTTTACGAGTTCTTTTATAAC--TTCGGTTCCTTA
* *
20035008 ATGTATTCAAGAAGATCCATTCCTTC-ATGCAATTTTTCG-A-A--CCATGCTCGGGAAATCGCA
64 AAGTATTCAAGACGATCCATTCCTTCGA-GCAATTTTTCGAACATTCCATGCTCGGGAAATCGCA
* * * *
20035068 TCCTTCGATCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTT
128 TCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTAGTCTTTGAATTAAAAACTTATTT
* *
20035133 CCGTGACAATTGTTTCTCTCTTGG
193 ACGTGAGAATTGTTTCTCTCTTGG
* * * ** * *
20035157 TTCTTGGACAAACTTCCACACTTGTCAAACTTGTGTGAGTTCTTATATAACTTTGGTTCCTTAAA
1 TTCTTGGACGAACTTCCGCACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAA
* * * * * *
20035222 GTATTAAAGAAGATCCATTCCTTTCGATCAATTTTTCGAAGATTTCATGCTCAGGAAATCGCATC
66 GTATTCAAGACGATCCATTCC-TTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATC
*
20035287 ATTTGGTCTAAATAGTTTGTCATTTTGTAAA-AAGGTTTTAGTCTTTGAATTAAAAACTTACTTA
130 ATTTGGTCTAAATAGTTTGTCATTTTGTAAACAA-GTTTTAGTCTTTGAATTAAAAACTTATTTA
*
20035351 CGTGTGAATTGTTTCTCTCTTGG
194 CGTGAGAATTGTTTCTCTCTTGG
* * * *
20035374 TTCTTGGACGAACTTCCGAACTTGCCAAACTTTTACGAGTTCTGTTATAACTTCGGTTCCTTAAC
1 TTCTTGGACGAACTTCCGCACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAA
* *
20035439 GTATTCAAGACGATCCATTCC-TCTGATCAATTTTTCGAACATTCCATGCTTC-GAAAATCGCAT
66 GTATTCAAGACGATCCATTCCTTC-GAGCAATTTTTCGAACATTCCATGC-TCGGGAAATCGCAT
* * *
20035502 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACTAGTTATGGTCTTTGAATTAAAAACTTATTTA
129 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTAGTCTTTGAATTAAAAACTTATTTA
* *
20035567 CTTGAGAATTGTTTCTCTCTTTG
194 CGTGAGAATTGTTTCTCTCTTGG
* * * * * *
20035590 TTCCTGGACGAACTTCTGAACTAGTCAAACTTTTACGAGTTCTTTTATAACTTCGGATCCTTATA
1 TTCTTGGACGAACTTCCGCACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAA
* * ** * *
20035655 GTATTCAAGACAATCCATTCCTTCGAGCTATTTCCCAAACATTCCATGCTCGAGAAATCGCATCA
66 GTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCA
*
20035720 TTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTAGACTTTGAATTAAAAACTTATTTACG
131 TTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTAGTCTTTGAATTAAAAACTTATTTACG
*
20035785 TGATAATTGTTTCTCTCTTGG
196 TGAGAATTGTTTCTCTCTTGG
* ** * *
20035806 TTCATGGACGAACTTCCGCACTTGTTGAACTTTTACGAGTTCTTTTATAACTTCGCTTCTTTAAA
1 TTCTTGGACGAACTTCCGCACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAA
* * * * *
20035871 GCATTCAAGACGATCCATTCCTTTCGAGCAGTTTTCCAAACATTCAATGCTCGGGAAATCGCATC
66 GTATTCAAGACGATCCATTCC-TTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATC
* * *
20035936 ATTTGGTTTAAATAGTTTGTTATTTTGTAAACAAGTTTTAGACTTTGAATTAAAAACTTATTTAC
130 ATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTAGTCTTTGAATTAAAAACTTATTTAC
*
20036001 CTGAGAATTGTTTCTCTCTTGG
195 GTGAGAATTGTTTCTCTCTTGG
* * * * * * *
20036023 TTCATGGATGAACTTTCGCACTTGTCGAACTTTTACGTGTTCTTTTATAACTTCGTTTCTTTAAA
1 TTCTTGGACGAACTTCCGCACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAA
* * * *
20036088 GCATTCAAGACGATCCATTCCTTTCGAGCAATTTTCCAAACATTCAATGCTCGGGAAATCGCATC
66 GTATTCAAGACGATCCATTCC-TTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATC
* *
20036153 ATTTGGTCTAAATAGTTTGTTATTTTGTAAACAAGTTTTAGACTTTGAATTAAAAACTTATTTAC
130 ATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTAGTCTTTGAATTAAAAACTTATTTAC
20036218 GTGAGAATTGTTTCTCTCTTGG
195 GTGAGAATTGTTTCTCTCTTGG
* * * * * ** *
20036240 TTCATGGATGAACCTCCGCACTTGTCGAACTTTTACGTGTTCTTTTATAACTTCACTTCTTTAAA
1 TTCTTGGACGAACTTCCGCACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAA
* * * * *
20036305 GCATTCAAGACGATCCATTCCTTTCGAGCAATTTTTAGAATATTCCATGTTCGGAAAATCGCATC
66 GTATTCAAGACGATCCATTCC-TTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATC
*
20036370 ATTTGGGT-TAAATAGTTTGTTATTT
130 ATTT-GGTCTAAATAGTTTGTCATTT
20036395 ACGTGAGAAT
Statistics
Matches: 1819, Mismatches: 249, Indels: 61
0.85 0.12 0.03
Matches are distributed among these distances:
212 31 0.02
213 72 0.04
214 147 0.08
215 53 0.03
216 714 0.39
217 794 0.44
218 8 0.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.40
Consensus pattern (216 bp):
TTCTTGGACGAACTTCCGCACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAA
GTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCA
TTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTAGTCTTTGAATTAAAAACTTATTTACG
TGAGAATTGTTTCTCTCTTGG
Found at i:20035016 original size:433 final size:429
Alignment explanation
Indices: 20034084--20036394 Score: 2670
Period size: 433 Copynumber: 5.3 Consensus size: 429
20034074 TTATCATTCT
* * * * * *
20034084 TGGACGAACTTCC-ACACTTGTCAAACTTGTATGAGTTATTATATAACTTTGGTTCCTTAAATTA
1 TGGACGAACTTCCGA-ACTTGTCAAACTTTTACGAGTTCTT-TATAACTTCGCTTCCTTAAAGTA
* * *
20034148 TTCAAGACGATCCATTCTTTCGAGCAATTTTTCGAAAACTCCATGCT-GGAGAAATCGCATCATT
64 TTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGG-GAAATCGCATCATT
* * *
20034212 TAGTCTGAATAGTTCGTCATTTTGTAAACAAGTCTTGGTCTTTGAATTAAAAACTTATTTACGTG
128 TAGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTG
* * *
20034277 AGAATTGTTTCTCTCTTGGTTCTTTGACGAACTTCCAAACTTGTTAAACTTTTACAAGTTCTTTT
193 AGAATTGTTTCTCTCTTGGTTCTTGGA-GAACTTCCAAACTTGTCAAACTTTTACTAGTTCTTTT
* ** * * *
20034342 GTAACTTCAATTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAGCAATTTTTTGAATATTCCA
257 ATAACTTCTGTT-CTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCA
* * * * *
20034407 AGCTCGAGAAATTGCATCATTTGGTTTAAATAGTTTGTCATTTTGT-AACAAAGTTTTGGTCTTT
321 TGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAC-AAGTTTTAGTCTTT
* * * * *
20034471 CAATTAAAGAGC-TATTTACATGAGAATTGTTTATATCTTGGTTC-
385 GAATTAAA-AACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCA
* * *
20034515 TAGGACGAACTTTCGCACTTGTTAAACTTTTACGAGTTCATTTATAACTTCGCTTCCTTAAAGTA
1 T-GGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTC-TTTATAACTTCGCTTCCTTAAAGTA
* * * * *
20034580 TTCAAGACAATCTATTCCTTCGAACAATTTTTCGAACATTCCATGCTCGGGAAATTCGAATCTTT
64 TTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAA-TCGCATCATT
** * ** *
20034645 TAGTCTAAATAGTTTGTCATAATGTAAACAACTTTTAATCTTTGAATTAAAAACTTATTTATGTG
128 TAGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTG
* * * *
20034710 AAAAATGTGTCTATCTTGGTTCTTGGAGTAACTTCCAAACTTGTCAAACTTTTACTAGTTCTTTT
193 AGAATTGTTTCTCTCTTGGTTCTTGGAG-AACTTCCAAACTTGTCAAACTTTTACTAGTTCTTTT
* * * * * *
20034775 ATAACTACTGTTATATACAA-TATTCAAGACGATCTA-TCCATCAAGCAATTTTTTGAACATTCC
257 ATAACTTCTGTTCT-TA-AAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCC
* * * * * * *
20034838 ATGCTCGGGAATTCGTACCATTTGGTCGAAATAGTTTGTCAATTTGTAAACAGGTTTTGGTCTTT
320 ATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTAGTCTTT
* * *
20034903 G-ATTAAAATCTTATTAACCTGAGAATTGTTTCTCTCTTGGTTCA
385 GAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCA
* *** * * * * *
20034947 TGGATGAACTTTAAAACTTGTCAATCTTTTACGAGTTCTCTTATAGCTTTTTAG-TCCCTTAATG
1 TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCT-TTATAAC---TTCGCTTCCTTAAAG
*
20035011 TATTCAAGAAGATCCATTCCTTC-ATGCAATTTTTCG-A-A--CCATGCTCGGGAAATCGCATC-
62 TATTCAAGACGATCCATTCCTTCGA-GCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCA
* * *
20035070 CTTCGATCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTCC
126 TTTAG-TCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTAC
* * * * *
20035135 GTGACAATTGTTTCTCTCTTGGTTCTTGGACAAACTTCCACACTTGTCAAACTTGT-GTGAGTTC
190 GTGAGAATTGTTTCTCTCTTGGTTCTTGGA-GAACTTCCAAACTTGTCAAACTTTTACT-AGTTC
* * * * *
20035199 TTATATAACTT-TGGTTCCTTAAAGTATTAAAGAAGATCCATTCCTTTCGATCAATTTTTCGAAG
253 TTTTATAACTTCT-GTT-CTTAAAGTATTCAAGACGATCCATTCC-TTCGAGCAATTTTTCGAAC
* *
20035263 ATTTCATGCTCAGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAA-AAGGTTTTA
315 ATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAA-GTTTTA
* * *
20035327 GTCTTTGAATTAAAAACTTACTTACGTGTGAATTGTTTCTCTCTTGGTTCT
379 GTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCA
* * *
20035378 TGGACGAACTTCCGAACTTGCCAAACTTTTACGAGTTCTGTTATAACTTCGGTTCCTTAACGTAT
1 TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCT-TTATAACTTCGCTTCCTTAAAGTAT
* *
20035443 TCAAGACGATCCATTCC-TCTGATCAATTTTTCGAACATTCCATGCTTC-GAAAATCGCATCATT
65 TCAAGACGATCCATTCCTTC-GAGCAATTTTTCGAACATTCCATGC-TCGGGAAATCGCATCATT
* * * *
20035506 TGGTCTAAATAGTTTGTCATTTTGTAAACTAGTTATGGTCTTTGAATTAAAAACTTATTTACTTG
128 TAGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTG
* * ** * *
20035571 AGAATTGTTTCTCTCTTTGTTCCTGGACGAACTTCTGAACTAGTCAAACTTTTACGAGTTCTTTT
193 AGAATTGTTTCTCTCTTGGTTCTTGGA-GAACTTCCAAACTTGTCAAACTTTTACTAGTTCTTTT
* * * * * ** *
20035636 ATAACTTCGGATCCTTATAGTATTCAAGACAATCCATTCCTTCGAGCTATTTCCCAAACATTCCA
257 ATAACTTCTG-TTCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCA
* *
20035701 TGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTAGACTTTG
321 TGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTAGTCTTTG
*
20035766 AATTAAAAACTTATTTACGTGATAATTGTTTCTCTCTTGGTTCA
386 AATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCA
* ** * *
20035810 TGGACGAACTTCCGCACTTGTTGAACTTTTACGAGTTCTTTTATAACTTCGCTTCTTTAAAGCAT
1 TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTC-TTTATAACTTCGCTTCCTTAAAGTAT
* * * *
20035875 TCAAGACGATCCATTCCTTTCGAGCAGTTTTCCAAACATTCAATGCTCGGGAAATCGCATCATTT
65 TCAAGACGATCCATTCC-TTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTT
* * * * * *
20035940 GGTTTAAATAGTTTGTTATTTTGTAAACAAGTTTTAGACTTTGAATTAAAAACTTATTTACCTGA
129 AGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGA
* * ** *
20036005 GAATTGTTTCTCTCTTGGTTCATGGATGAACTTTCGCACTTGTCGAACTTTTACGT-GTTCTTTT
194 GAATTGTTTCTCTCTTGGTTCTTGGA-GAACTTCCAAACTTGTCAAACTTTTAC-TAGTTCTTTT
* * *
20036069 ATAACTTC-GTTTCTTTAAAGCATTCAAGACGATCCATTCCTTTCGAGCAATTTTCCAAACATTC
257 ATAACTTCTG-TTC-TTAAAGTATTCAAGACGATCCATTCC-TTCGAGCAATTTTTCGAACATTC
* * *
20036133 AATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTTATTTTGTAAACAAGTTTTAGACTT
319 CATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTAGTCTT
20036198 TGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCA
384 TGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCA
* * * * * * * *
20036244 TGGATGAACCTCCGCACTTGTCGAACTTTTACGTGTTCTTTTATAACTTCACTTCTTTAAAGCAT
1 TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTC-TTTATAACTTCGCTTCCTTAAAGTAT
* * * *
20036309 TCAAGACGATCCATTCCTTTCGAGCAATTTTTAGAATATTCCATGTTCGGAAAATCGCATCATTT
65 TCAAGACGATCCATTCC-TTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTT
* *
20036374 GGGT-TAAATAGTTTGTTATTT
129 -AGTCTAAATAGTTTGTCATTT
20036395 ACGTGAGAAT
Statistics
Matches: 1610, Mismatches: 223, Indels: 91
0.84 0.12 0.05
Matches are distributed among these distances:
427 7 0.00
428 143 0.09
429 56 0.03
430 79 0.05
431 150 0.09
432 369 0.23
433 528 0.33
434 275 0.17
435 3 0.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.40
Consensus pattern (429 bp):
TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTATAACTTCGCTTCCTTAAAGTATT
CAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTAG
TCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGA
ATTGTTTCTCTCTTGGTTCTTGGAGAACTTCCAAACTTGTCAAACTTTTACTAGTTCTTTTATAA
CTTCTGTTCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTC
GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTAGTCTTTGAATTA
AAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCA
Found at i:20037287 original size:216 final size:216
Alignment explanation
Indices: 20036389--20041308 Score: 5397
Period size: 216 Copynumber: 23.1 Consensus size: 216
20036379 AAATAGTTTG
* * ** *
20036389 TTATTTACGTGAGAATTATTTTTCTCTTGGTTCTTGGGTGAACTTTCGAACTTGTTAAACTTTTA
1 TTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTA
* *
20036454 CGAGTTCTTTTATAACTTC-GCTTCCTTAAAG---T------G-TTCATTCCTTCGAGCAAATTT
66 CGAGTTCTTTTATAACTTCAG-TTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTT
* * * * *
20036508 CTGAACATTCCATGGTCGAGAAATCGCATCATTTGGTCTAAATAGTTCGTCATTTTGTAAAGAAG
130 CCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAG
* * *
20036573 TTTTGGTTTTTGAATTAAAATC
195 TTTTAGTCTTTGAATTAAAAAC
* * * * *
20036595 TTATTTATGTGAGAATTGTTTCTCTCTTTGTTCTTGGACAAACTTT-AAACTTGTGAAACTTTTA
1 TTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTA
** * *
20036659 CGAGTTACTTTT-TAACTTGGGTTCCTTAAAGTATTCAAGAAGATCCATTCCTACGAG-AACTTT
66 CGAGTT-CTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAA-TTT
** * ** * *
20036722 TTTGAACATTACACACTCGAGAAATTGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAA
129 TCCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAA
*
20036787 GTTTTAGTTTTTGAATTAAAAAC
194 GTTTTAGTCTTTGAATTAAAAAC
* * *
20036810 TTTTTTACGTTAGAATTGTTTCTCTCTTGGTTCTTGGACG-A------AA--T-TCAAAGTTTTA
1 TTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTA
* * * * * * * *
20036865 CGAGTTCTTTTATAACTTCTGTTGCTTTAAGTATTCAAGATGATCTATTCCATCAAGCAATTTTT
66 CGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTC
* * *
20036930 CGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAACAG-TTGTCACTTTGTAAAAAAGT
131 CGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGT
* *
20036994 TTTGGTCTTTGAATTAAAATC
196 TTTAGTCTTTGAATTAAAAAC
* * *
20037015 TTATTTACGTGAGAATTGTTTCTCTCTTGGTTCATGGATGAACTTTCAAACTTGTCAAACTTTTA
1 TTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTA
*
20037080 TGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTC
66 CGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTC
* * * * *
20037145 CAAACATTCCATGCTCGGGAAATTGCATCATTTGATCTAAGTAATTTGTCATTTTGTAAACAAGT
131 CGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGT
* *
20037210 TTCAGTCTTTGAATTAAAATC
196 TTTAGTCTTTGAATTAAAAAC
* * * * *
20037231 TAATTTACGTTATAATTGTTTCTCTCTTTGGTT-TTGGATGAACTTTTGAACTTGTCAAACTTTT
1 TTATTTACGTGAGAATTGTTTCTCTC-TTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTT
* * * * * * *
20037295 ACAAGTTATTTT-TAACTTCGGTTCCTTAAAGTATTCAACAAGATCCATTCCTTTGAGCAATTTC
65 ACGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTT
* **
20037359 CCGAATATTCCATGCTCAAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAG
130 CCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAG
20037424 TTTTAGTCTTTGAATTAAGAAAC
195 TTTTAGTCTTTGAATTAA-AAAC
* * * **
20037447 TTTTTTACGTGAGAATTGTTTCTCTCTTGGTTCATGGATGAACTTTCGAACTTGTGGAACTTTTA
1 TTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTA
** * * * *
20037512 CGAGTTCTTTTATAACTTC-GCTTCCACAAAGTATTCAAGATGATCCATTCTTTCAAGTAATTTT
66 CGAGTTCTTTTATAACTTCAG-TTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTT
* ** * *
20037576 TCGAACATTTAACGCACGGGAAATCG---CA-----TC-AAATAGTTTGTCATTTTGTAAACAAG
130 CCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAG
*
20037632 TTTTGGTCTTTGAATTAAAAAC
195 TTTTAGTCTTTGAATTAAAAAC
* * * *
20037654 TTATTTACATGAGAATTATTTCTGTCTTAGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTA
1 TTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTA
* * * * * **
20037719 CGAGTTCTATTATAGCTTCAGATCTTTAAAGTATTCAAAATTATCCATTCCTTCGAGCAATTTTC
66 CGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTC
** * * * *
20037784 TAAACATTCTATGCTCGAGAAATCACATCGTTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGT
131 CGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGT
20037849 TTTAGTCTTTGAATTAAAAAC
196 TTTAGTCTTTGAATTAAAAAC
* * * * *
20037870 TTAGTTACGTGAGAATTGTTTCTATCTTGGTTTTTGGA-GTAAC-TTCTAAACTTGTCAAACATT
1 TTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACG-AACTTTC-GAACTTGTCAAACTTT
* * * * * *
20037933 TACGAGTTCATTTATAACTTCTGTTGCATAAAATATTCAAGACAATCCATTCCTTCGAGCAATTT
64 TACGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTT
** * * *
20037998 TCTAAACATTCCATGCTCCGAAAATCGCATCATTTGGCCTAAATA-TTTAGTCATTTTGTAAACA
129 TCCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTT-GTCATTTTGTAAACA
* *
20038062 AATTTTAGTCTTTAAATTAAAAAC
193 AGTTTTAGTCTTTGAATTAAAAAC
* *
20038086 TTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTAGGACGAACTTTCGAACTTGACAAACTTTTA
1 TTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTA
* *
20038151 TGAGTTCTTTTATAACTT-AGCTTCCTTGAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTT
66 CGAGTTCTTTTATAACTTCAG-TTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTT
* * ** * * * * * * * *
20038215 ACGAACATTTCATGCTCGATAAATCGCATTACTTGGTCTAAATATTTTTTCATTATATAAAAAAC
130 CCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAG
*
20038280 TTTTAGTCATTGAATTAAAAAC
195 TTTTAGTCTTTGAATTAAAAAC
* * * * * * *
20038302 TTAGTTACATGAGAATT-TTTCCCATCTTGGTTCTTCGA-GTAACTTCCAAACTAGTCAAACTTT
1 TTATTTACGTGAGAATTGTTTCTC-TCTTGGTTCTTGGACG-AACTTTCGAACTTGTCAAACTTT
* * * * ** *
20038365 TACGAGTTCTTTTATAACTT-ATGTTGCATAAAGTATTGAAGATGATTTATTCCATCGAGCAATT
64 TACGAGTTCTTTTATAACTTCA-GTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATT
* ** * * * *
20038429 TTTCGAACATTCCATGCTCGGGAAATCTTACCATTTGGTCAAAACAGTTTGTCAATTTGTAAACA
128 TTCCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACA
* *
20038494 AGTTTTGGTCTTTGAATTAAAATC
193 AGTTTTAGTCTTTGAATTAAAAAC
* * * *
20038518 TT-TTTAAAGTGAGAATTGTTTCTCTCTTGATTCTTGGATGAAC-TTCTGAACTTGTTAAACTTT
1 TTATTT-ACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTC-GAACTTGTCAAACTTT
* ** * * * *
20038581 TATGAGTTCTTTTATAA-TTTTGCTTCCTTAAATTACTCAAGACTATCTATTCCTTCGAGCAATT
64 TACGAGTTCTTTTATAACTTCAG-TTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATT
* * *
20038645 TTTCGAACATTCCATGCTCAGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTGAACA
128 TTCCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACA
* *
20038710 AGTTTCAGTTTTTGAATTAAAAAC
193 AGTTTTAGTCTTTGAATTAAAAAC
** * * ** *
20038734 TTGGTTACGTGAAAATTGTTTCTCTCTTGGTTCATGGACGAACTTTCGCGCTTGTCAAACTCTTA
1 TTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTA
* * * *
20038799 CGAGTTCTTTTATAACTTC-GCTTCCTTAAAGTAATCAAGACAATCCATTTCTTCGACCAA--TT
66 CGAGTTCTTTTATAACTTCAG-TTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTT
* *
20038861 -------TTCCATGCTCGGGAAATCGCATCATTTGATCTAAATAGTTTGTCATTTTCTAAACAAG
130 CCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAG
20038919 TTTTAGTCTTTGAATTAAAAAC
195 TTTTAGTCTTTGAATTAAAAAC
* * * * * ** *
20038941 TTATTTACGTGAGAATTGTTTCTTTCTTGGTTCTAGGATGAACTTCCAAACTTGTGGATCTTTTA
1 TTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTA
** * *
20039006 CTTGTTCTTTTATAACTTC-GTTTCCTTAAAGCATTCAAGACGATCCATTCCTTCGAGTAATTTT
66 CGAGTTCTTTTATAACTTCAG-TTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTT
* * * *
20039070 --GAACATTCCGTGCTCGGGAAATCACATTATTTGGTTTAAATAGTTTGTCATTTTGTAAACAAG
130 CCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAG
*
20039133 TTTT-GATGTTTGAATTAAAAAC
195 TTTTAG-TCTTTGAATTAAAAAC
* * * *
20039155 TTATTTACGTGAGAATTTTTTCTCTATTTGTTCTTGGACGAACTTTCGAACTTGTTAAACTTTTA
1 TTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTA
* * * * *
20039220 CGAGTTATTTTTTAACTTCGGTTCCTTAAAGTATTCAAGAAGATCCATTCCTTCGAGCAAGTTTC
66 CGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTC
* * * * *
20039285 CGAACATTCCATG-TCGGGAAATCACATTATTTGGTCTAAATAGTTTGTCATTATGTAAAAAACT
131 CGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGT
*
20039349 TTTAGTTTTTGAATTAAAAAC
196 TTTAGTCTTTGAATTAAAAAC
* * * * * *
20039370 TTAATTACTTGAGAATTGTTTCTATCTTGGTTCTTTGA-GTAACTTCCAAACTTGTCAAACTTTT
1 TTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACG-AACTTTCGAACTTGTCAAACTTTT
* * ** * * **
20039434 ACGAGTTCTTTTATAACTTC-TTTCGCATAAAGTATTCAAGACGATTTATTCCATCGAGTAACAT
65 ACGAGTTCTTTTATAACTTCAGTTC-CTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTT
** *** * *
20039498 TCTAAACATTCCATGCTCAGGG-AATCGTGCCATTTGGTCGAAA-AGTTTGTCAATTTGTAAACA
129 TCCGAACATTCCATGCTC-GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACA
* *
20039561 AGTTTTGGTCTTTGAATTAAAATC
193 AGTTTTAGTCTTTGAATTAAAAAC
* * * * *
20039585 TTATTAAAGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTTCGAACTTTTTAAACTTTTA
1 TTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTA
* ** * * *
20039650 CGAGTTCTTTTATAATTTTGGTCCCTTAAAGTATTCAAGACTATCCATTCCTTCGAGCAATTTTT
66 CGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTC
* * *
20039715 CGAACATTCCATGCTCGGGAAATCGCATCATTTAGTCTAAATAGTTTGTCATTTTGTGAATAAGT
131 CGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGT
*
20039780 TTCAGTCTTTGAATTAAAAAC
196 TTTAGTCTTTGAATTAAAAAC
* * * * *
20039801 TTATTTACGTGAGAATTGTTTCTCTCTTGGTTCATGGACGAAC-CTCTGCACTTATCAAACTCTT
1 TTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTC-GAACTTGTCAAACTTTT
*
20039865 ACGAGTTCTTTTATAACTT-TGCTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAAATT
65 ACGAGTTCTTTTATAACTTCAG-TTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGC-AATT
*
20039929 TT-CGAACATTCCATGCTCGGGAAATCTCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACA
128 TTCCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACA
20039993 AGTTTTAGTCTTTGAATTAAATAAC
193 AGTTTTAGTCTTTGAATTAAA-AAC
* * * * **
20040018 TTTTTTATGTGAGAATTGTTTCTCTCTTGGTT-TTGGGACG-ACTTCCGAACTAGTGGAACTTTT
1 TTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTT-GGACGAACTTTCGAACTTGTCAAACTTTT
* * * *
20040081 ACGAGTTCTTTTATAACTT-TGCTTCCTTAAAGCATTCAAGACGATCTATTCCTTCAAGCAATTT
65 ACGAGTTCTTTTATAACTTCAG-TTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTT
* * * *
20040145 TTCGAACATTCCATGCCCGGGAAATTGCATCTTTTGGTCTAAATAGTTTGTCATTTTGTAAACAA
129 TCCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAA
* *
20040210 GTTTTGGTGTTTGAATTAAAAAC
194 GTTTTAGTCTTTGAATTAAAAAC
* *
20040233 TTATTTACGTGAGAATTGTTTCTCTATCT-GTTCTTGGACGAACTTTCGAACTTGTCAAACTATT
1 TTATTTACGTGAGAATTGTTTCTCTCT-TGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTT
* * * * * ** *
20040297 ACGGGTTATTTTTTAACTTCGGTTCCTTACAGTATTCAAGAAAATACATTCCTTCGAGCAATTTT
65 ACGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTT
** * * *
20040362 CTAAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTATGTAAAAAAC
130 CCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAG
20040427 TTTTAGTCTTTGAATTAAAAAC
195 TTTTAGTCTTTGAATTAAAAAC
* * * * * *
20040449 TTAATTACTTGAGAATTGTTTCTATCTTGGTTCTTTGA-GTAACTTCCAAACTTGTCAAACTTTT
1 TTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACG-AACTTTCGAACTTGTCAAACTTTT
* * * * * * *
20040513 ACGAGTTCATTTATAACTGCTA-TTGCATAAAGTATTTAAGACGATCTATTCCATCGAGCAAATT
65 ACGAGTTCTTTTATAACTTC-AGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGC-AATT
* * * * * * * * * *
20040577 TT-TGAGCATTCCATTCTCGGAAAATCGTACCATTTGGTCGAAACAGTTTGTCAATTTATAAACA
128 TTCCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACA
* *
20040641 AGTTTTGGTCTTTGAATTAAAATC
193 AGTTTTAGTCTTTGAATTAAAAAC
* * * * * * *
20040665 TTATTAAAGTGAGAATTGTTTCTCACTTGTTTCATGGATGAACTTTCGAACTTGTCCAACTTTTA
1 TTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTA
* ** * *
20040730 CGAGTTGTTTTATAACTTTGGTTCCTTAACGTATTCAAGACGATCCATTCCTTCGTGCAATTTT-
66 CGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTC
* * * *
20040794 CGAA-A--CAATGCTCGAGAAATCACATCTTTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGT
131 CGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGT
* * *
20040856 TTTGGCCTTTAAATTAAAAA-
196 TTTAGTCTTTGAATTAAAAAC
* * * * * * * * * *
20040876 TTAATTTCCATGAGAATTGTTTATCTCTTGGTTCGTGGATGAACTTTTGCACTTTTCGAACTCTT
1 TT-ATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTT
* * * ** *
20040941 GC-ATGATCTTTTATAACTTCACTGGCTTAAAGTATTCAAGACGATCTA-TCCTTTCGAGCAATT
65 ACGA-GTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATCCATTCC-TTCGAGCAATT
* * * * *
20041004 TTTCGACCATTCCATGCTCGGGAAATAGCATCATTTAGTCTAAATAGTTTATCATTTTGTAAACA
128 TTCCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACA
* *
20041069 AGTTTTAGTCTTTAAATTAAAAAT
193 AGTTTTAGTCTTTGAATTAAAAAC
* ** *
20041093 TTATTTAC----G---TG----TCTCTTGGTTATTGGACGATGTTCCGAACTTGTCAAACTTTTA
1 TTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTA
* *
20041147 CGAGTTCTTTTATAACTT-TGCTTCCTTAAA-TATTCAAGATGATCCATTCCTTCGAGCAATTTT
66 CGAGTTCTTTTATAACTTCAG-TTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTT
* * * * * *
20041210 CCAAACATTCCATGCTCAGGAAATCGCATCATTTGGTCTAAATAATTTGTCATTATGTAAAAAAC
130 CCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAG
20041275 TTTTAGTCTTTGAATTAAAAAC
195 TTTTAGTCTTTGAATTAAAAAC
*
20041297 TTAGTTACGTGA
1 TTATTTACGTGA
20041309 TGCCATGAAG
Statistics
Matches: 3944, Mismatches: 658, Indels: 222
0.82 0.14 0.05
Matches are distributed among these distances:
204 108 0.03
205 171 0.04
206 140 0.04
207 306 0.08
208 45 0.01
209 8 0.00
210 1 0.00
211 6 0.00
212 162 0.04
213 4 0.00
214 197 0.05
215 784 0.20
216 1868 0.47
217 144 0.04
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (216 bp):
TTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTA
CGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTC
CGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGT
TTTAGTCTTTGAATTAAAAAC
Found at i:20043145 original size:36 final size:36
Alignment explanation
Indices: 20043087--20043267 Score: 292
Period size: 36 Copynumber: 5.0 Consensus size: 36
20043077 TTGTTGTAAA
* *
20043087 AGTAAATATGTTGGTATGTTATTCATGCCATGTGAT
1 AGTAAATATGTGGGTATGTTATTCATGCCATGTGAC
* * *
20043123 AGTAAATATGTGAGTATTTTATTCATGCCATGAGAC
1 AGTAAATATGTGGGTATGTTATTCATGCCATGTGAC
20043159 AGTAAATATGTGGGTATGTTATTCATGCCATGTGAC
1 AGTAAATATGTGGGTATGTTATTCATGCCATGTGAC
20043195 AGTAAATATGTGGGTGA-GTTATTCATGCCATGTGAC
1 AGTAAATATGTGGGT-ATGTTATTCATGCCATGTGAC
*
20043231 AGTAAATATGTGGGTATGTTTTTCATGCCATGTGAC
1 AGTAAATATGTGGGTATGTTATTCATGCCATGTGAC
20043267 A
1 A
20043268 ATGATTATAT
Statistics
Matches: 134, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
35 1 0.01
36 132 0.99
37 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (36 bp):
AGTAAATATGTGGGTATGTTATTCATGCCATGTGAC
Found at i:20043636 original size:66 final size:66
Alignment explanation
Indices: 20043521--20043657 Score: 177
Period size: 66 Copynumber: 2.1 Consensus size: 66
20043511 GGGGAAATAA
* * * * *
20043521 GGAGAGTGTTAGCTTTAGGCTTCACTTTTGAGACATGTTTGACTTTATGAGTCTTTTGGTGTGTT
1 GGAGAGTGTTAGCTTTAGGCTTCACTTATGAGACATGTTCGACTCTATGAGTCATTTGATGTGTT
20043586 T
66 T
* * *
20043587 GGAGAGTGTTAG-TTATATGCTTCACTTATGGGATATGTTCGACTCTATGAGTCATTTGATGTGT
1 GGAGAGTGTTAGCTT-TAGGCTTCACTTATGAGACATGTTCGACTCTATGAGTCATTTGATGTGT
20043651 TT
65 TT
*
20043653 AGAGA
1 GGAGA
20043658 TCCGTGTATC
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
65 2 0.03
66 59 0.97
ACGTcount: A:0.20, C:0.10, G:0.27, T:0.42
Consensus pattern (66 bp):
GGAGAGTGTTAGCTTTAGGCTTCACTTATGAGACATGTTCGACTCTATGAGTCATTTGATGTGTT
T
Found at i:20043779 original size:23 final size:23
Alignment explanation
Indices: 20043746--20043878 Score: 176
Period size: 23 Copynumber: 5.8 Consensus size: 23
20043736 ATTAAATGTG
*
20043746 TTAAATATTAATGTGATTTAAGC
1 TTAAATATTAATGTGATTTATGC
* *
20043769 TTAAATGTTAATATGATTTATGC
1 TTAAATATTAATGTGATTTATGC
20043792 TTAAATATTAATGTGATTTATGC
1 TTAAATATTAATGTGATTTATGC
* *
20043815 TTAAATGTTAATGTGATTTATCC
1 TTAAATATTAATGTGATTTATGC
* *
20043838 TTAAATATTTATGTGATTTGTGC
1 TTAAATATTAATGTGATTTATGC
* * *
20043861 TGAAATATTCATTTGATT
1 TTAAATATTAATGTGATT
20043879 AAATGTGGCT
Statistics
Matches: 96, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 96 1.00
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (23 bp):
TTAAATATTAATGTGATTTATGC
Found at i:20043954 original size:19 final size:21
Alignment explanation
Indices: 20043930--20044042 Score: 74
Period size: 20 Copynumber: 5.2 Consensus size: 21
20043920 TGAAATATTC
*
20043930 ATGTGACT-AATGTGGTTAA-
1 ATGTGACTAAATGTGATTAAT
20043949 ATGTGACTAAATGTGATTAAT
1 ATGTGACTAAATGTGATTAAT
* * *
20043970 ATGTGATGTGATAAATGTTGAAATATT
1 ATGTGA----CTAAATG-TG-ATTAAT
*
20043997 CATGTGACT-AATGCGATT-AT
1 -ATGTGACTAAATGTGATTAAT
20044017 ATGTGA-TCAAATGTGATTAAT
1 ATGTGACT-AAATGTGATTAAT
20044038 ATGTG
1 ATGTG
20044043 TTGTGTTAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
18 1 0.01
19 14 0.19
20 19 0.26
21 15 0.21
22 1 0.01
23 4 0.05
24 1 0.01
25 6 0.08
26 2 0.03
27 4 0.05
28 6 0.08
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.38
Consensus pattern (21 bp):
ATGTGACTAAATGTGATTAAT
Found at i:20043959 original size:68 final size:68
Alignment explanation
Indices: 20043875--20044088 Score: 243
Period size: 68 Copynumber: 3.2 Consensus size: 68
20043865 ATATTCATTT
*
20043875 GATTAAATGTGGCTAAATGTGATTAACATATGATATGATAAATGCTGAAATATTCATGTGACTAA
1 GATTAAATGTGACTAAATGTGATTAACATATGATATGATAAATGCTGAAATATTCATGTGACTAA
*
20043940 TGT
66 TGC
* * * * *
20043943 GGTTAAATGTGACTAAATGTGATTAATATGTGATGTGATAAATGTTGAAATATTCATGTGACTAA
1 GATTAAATGTGACTAAATGTGATTAACATATGATATGATAAATGCTGAAATATTCATGTGACTAA
20044008 TGC
66 TGC
* * * * * * * ** * *
20044011 GATTATATGTGA-TCAAATGTGATTAATATGTGTTGTGTTAAATGCTTATGTACTCATGTGATTA
1 GATTAAATGTGACT-AAATGTGATTAACATATGATATGATAAATGCTGAAATATTCATGTGACTA
20044075 ATGC
65 ATGC
20044079 GATT-AATGTG
1 GATTAAATGTG
20044089 TAAAAGAATG
Statistics
Matches: 127, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
67 6 0.05
68 121 0.95
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (68 bp):
GATTAAATGTGACTAAATGTGATTAACATATGATATGATAAATGCTGAAATATTCATGTGACTAA
TGC
Found at i:20043975 original size:11 final size:10
Alignment explanation
Indices: 20043938--20043976 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
20043928 TCATGTGACT
*
20043938 AATGTGGTTA
1 AATGTGATTA
*
20043948 AATGTGACTA
1 AATGTGATTA
20043958 AATGTGATTA
1 AATGTGATTA
20043968 ATATGTGAT
1 A-ATGTGAT
20043977 GTGATAAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 18 0.72
11 7 0.28
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (10 bp):
AATGTGATTA
Found at i:20044009 original size:23 final size:23
Alignment explanation
Indices: 20043913--20044007 Score: 74
Period size: 23 Copynumber: 4.1 Consensus size: 23
20043903 TATGATATGA
20043913 TAAATGCTGAAATATTCATGTGAC
1 TAAATG-TGAAATATTCATGTGAC
* **
20043937 T-AATGTG--GT-TAAATGTGAC
1 TAAATGTGAAATATTCATGTGAC
*
20043956 TAAATGTGATTAATATGTGATGTGA-
1 TAAATGTGA--AATAT-TCATGTGAC
20043981 TAAATGTTGAAATATTCATGTGAC
1 TAAATG-TGAAATATTCATGTGAC
20044005 TAA
1 TAA
20044008 TGCGATTATA
Statistics
Matches: 55, Mismatches: 7, Indels: 18
0.69 0.09 0.22
Matches are distributed among these distances:
19 9 0.16
20 7 0.13
22 2 0.04
23 11 0.20
24 10 0.18
25 7 0.13
26 9 0.16
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.37
Consensus pattern (23 bp):
TAAATGTGAAATATTCATGTGAC
Found at i:20058535 original size:14 final size:14
Alignment explanation
Indices: 20058516--20058542 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20058506 CCTCAAACCA
20058516 AAACCTTAAACTTT
1 AAACCTTAAACTTT
20058530 AAACCTTAAACTT
1 AAACCTTAAACTT
20058543 GAACTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (14 bp):
AAACCTTAAACTTT
Found at i:20058552 original size:40 final size:40
Alignment explanation
Indices: 20058508--20058586 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 40
20058498 ATCCTAAACC
*
20058508 TCAAACCAAAACCTTAAACT-TTAAACCTTAAACTTGAACT
1 TCAAACCAAAACCTTAAA-TGTTAAACCTCAAACTTGAACT
* * * *
20058548 TCAAATCTAAATCTTAAATGTTAAACCTCGAACTTGAAC
1 TCAAACCAAAACCTTAAATGTTAAACCTCAAACTTGAAC
20058587 CTCGAACCCA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
39 1 0.03
40 32 0.97
ACGTcount: A:0.43, C:0.23, G:0.05, T:0.29
Consensus pattern (40 bp):
TCAAACCAAAACCTTAAATGTTAAACCTCAAACTTGAACT
Found at i:20060010 original size:27 final size:27
Alignment explanation
Indices: 20059980--20060035 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
20059970 ACAGAGAATG
20059980 AAAAATAGATTCCCATTACTACCATCA
1 AAAAATAGATTCCCATTACTACCATCA
*
20060007 AAAAATAGATTCCCATTATTACCATCA
1 AAAAATAGATTCCCATTACTACCATCA
20060034 AA
1 AA
20060036 TCTTATCACC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.46, C:0.23, G:0.04, T:0.27
Consensus pattern (27 bp):
AAAAATAGATTCCCATTACTACCATCA
Found at i:20062480 original size:192 final size:192
Alignment explanation
Indices: 20062116--20062492 Score: 447
Period size: 194 Copynumber: 2.0 Consensus size: 192
20062106 TACCAGTACT
* * * * *
20062116 CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACGTATGTGGTACCCCAACCATTGGTACGAT
1 CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGATACCCCAACCATCGATACGA-
* *
20062181 GCCTATCTATACTATAAACTGTTCCTAACGATGCTGCTCACACGAGCCGTCGAGAGTATGCAATA
65 G-CTATCTATACTATAAACTGTCCCTAACGATGCTGCTCACACGAGCCGTCGAGAATATGCAATA
* *
20062246 AGCATAGTCCCAACCATCGTAGGGCCTGTAATCCATTTAGGATCCATATCTCTTTCCCGAGTCA
129 AGCATAATCCCAACCATCGTAGGGCCAGTAATCCATTTAGGATCCATATCTCTTTCCCGAGTCA
* * * *
20062310 CGATGCTGCTCACACGAGTTGTCGAGGACTTGCAACATATGCGATACCTCAGCCATCGATACG-G
1 CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGATACCCCAACCATCGATACGAG
* * * * * * *
20062374 -TATTTGTGC-ATATAACTGTCCCTAACGATGTTGCTCATAC-ATGCTGTCGAGAATATGCACTT
66 CTATCTATACTATA-AACTGTCCCTAACGATGCTGCTCACACGA-GCCGTCGAGAATATGCA-AT
* * * * *
20062436 ATGCATAAATCTCAGCCATCGTAGGGCCAGTAATCCATTTAGGATCTATATTTCTTT
128 AAGCAT-AATCCCAACCATCGTAGGGCCAGTAATCCATTTAGGATCCATATCTCTTT
20062493 TCTCATTTCC
Statistics
Matches: 154, Mismatches: 25, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
189 4 0.03
190 45 0.29
191 6 0.04
192 45 0.29
194 54 0.35
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (192 bp):
CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGATACCCCAACCATCGATACGAG
CTATCTATACTATAAACTGTCCCTAACGATGCTGCTCACACGAGCCGTCGAGAATATGCAATAAG
CATAATCCCAACCATCGTAGGGCCAGTAATCCATTTAGGATCCATATCTCTTTCCCGAGTCA
Found at i:20062592 original size:111 final size:111
Alignment explanation
Indices: 20062420--20062640 Score: 363
Period size: 111 Copynumber: 2.0 Consensus size: 111
20062410 ATACATGCTG
*
20062420 TCGAGAATATGCACTTATGCATAAATCTCAGCCATCGTAGGGCCAGTAATCCATTTAGGATCTAT
1 TCGAGAATATGCACTTATGCATAAATCTCAGCCATCGTAGGGCCAGTAATCCATTTAGGATCCAT
*
20062485 ATTTCTTTTCTCATTTCCCGACTCACGATGCTGCTTGCACGAGCTA
66 ATTTCTTTTCTCATTTCCCGACTCACGATGCTGCTCGCACGAGCTA
* *
20062531 TCGAGAATATGCACTTATGTATAAATCTCAGCCATTGTAGGGCCTA-TAATCCATTTAGGATCCA
1 TCGAGAATATGCACTTATGCATAAATCTCAGCCATCGTAGGGCC-AGTAATCCATTTAGGATCCA
* * *
20062595 TATTTCTTTTCTCATTTTCTGACTCACGATGCTGCTCGTACGAGCT
65 TATTTCTTTTCTCATTTCCCGACTCACGATGCTGCTCGCACGAGCT
20062641 GTTGAAGACT
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
111 101 0.99
112 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (111 bp):
TCGAGAATATGCACTTATGCATAAATCTCAGCCATCGTAGGGCCAGTAATCCATTTAGGATCCAT
ATTTCTTTTCTCATTTCCCGACTCACGATGCTGCTCGCACGAGCTA
Found at i:20070677 original size:69 final size:69
Alignment explanation
Indices: 20070588--20070728 Score: 196
Period size: 69 Copynumber: 2.0 Consensus size: 69
20070578 GTTAATCTTT
20070588 TGTGGTACCAAGATCCAAAAGAGCTGATACATTGTTATTC-GAAGAAACAAAGTGATAATGAATG
1 TGTGGTACCAAGATCCAAAAGAGCTGATACATTGTTATTCAG-AGAAACAAAGTGATAATGAATG
20070652 GATTA
65 GATTA
* * * ** *
20070657 TGTGGTA-CAAGTATCTAAAAGAGTTGATACATTGTTATTCAGATAAATGAAGTGATAATTAATG
1 TGTGGTACCAAG-ATCCAAAAGAGCTGATACATTGTTATTCAGAGAAACAAAGTGATAATGAATG
20070721 GATTA
65 GATTA
20070726 TGT
1 TGT
20070729 TTTAGTTAGT
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
68 4 0.06
69 59 0.92
70 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.31
Consensus pattern (69 bp):
TGTGGTACCAAGATCCAAAAGAGCTGATACATTGTTATTCAGAGAAACAAAGTGATAATGAATGG
ATTA
Found at i:20072269 original size:12 final size:12
Alignment explanation
Indices: 20072252--20072276 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20072242 GATCTATCTC
20072252 TTATCTTCGAAA
1 TTATCTTCGAAA
20072264 TTATCTTCGAAA
1 TTATCTTCGAAA
20072276 T
1 T
20072277 GCACTTTGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (12 bp):
TTATCTTCGAAA
Found at i:20084464 original size:24 final size:24
Alignment explanation
Indices: 20084431--20084484 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
20084421 TGCTCATTCA
20084431 ATGAG-CAAATGTGGAAGAAGATG
1 ATGAGACAAATGTGGAAGAAGATG
20084454 ATGAGACAAATGTGGAAGAAGATG
1 ATGAGACAAATGTGGAAGAAGATG
20084478 ATGAGAC
1 ATGAGAC
20084485 CACTATGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 5 0.17
24 25 0.83
ACGTcount: A:0.44, C:0.06, G:0.33, T:0.17
Consensus pattern (24 bp):
ATGAGACAAATGTGGAAGAAGATG
Found at i:20091658 original size:9 final size:9
Alignment explanation
Indices: 20091644--20091673 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
20091634 AAAAGATTGA
*
20091644 TGGGAAGGT
1 TGGGAAGTT
20091653 TGGGAAGTT
1 TGGGAAGTT
20091662 TGGGAAGTT
1 TGGGAAGTT
20091671 TGG
1 TGG
20091674 TAATGGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.50, T:0.30
Consensus pattern (9 bp):
TGGGAAGTT
Found at i:20103014 original size:154 final size:154
Alignment explanation
Indices: 20102734--20103046 Score: 626
Period size: 154 Copynumber: 2.0 Consensus size: 154
20102724 TTTCTTTTCT
20102734 TTAATTTGATTTTAATATGCTTGCTATGTGTTCTTTGTTCTTAATTACATCAATGTTAGCTTAAT
1 TTAATTTGATTTTAATATGCTTGCTATGTGTTCTTTGTTCTTAATTACATCAATGTTAGCTTAAT
20102799 TTTTTTAAGCTAGGATAATTGCTTTGATTAAATAATATTCATTTGATTCATGCTTATGATGTTTG
66 TTTTTTAAGCTAGGATAATTGCTTTGATTAAATAATATTCATTTGATTCATGCTTATGATGTTTG
20102864 TGCCTCAATTGATCATGTTTTCAA
131 TGCCTCAATTGATCATGTTTTCAA
20102888 TTAATTTGATTTTAATATGCTTGCTATGTGTTCTTTGTTCTTAATTACATCAATGTTAGCTTAAT
1 TTAATTTGATTTTAATATGCTTGCTATGTGTTCTTTGTTCTTAATTACATCAATGTTAGCTTAAT
20102953 TTTTTTAAGCTAGGATAATTGCTTTGATTAAATAATATTCATTTGATTCATGCTTATGATGTTTG
66 TTTTTTAAGCTAGGATAATTGCTTTGATTAAATAATATTCATTTGATTCATGCTTATGATGTTTG
20103018 TGCCTCAATTGATCATGTTTTCAA
131 TGCCTCAATTGATCATGTTTTCAA
20103042 TTAAT
1 TTAAT
20103047 ATCAAGTTTA
Statistics
Matches: 159, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
154 159 1.00
ACGTcount: A:0.26, C:0.11, G:0.13, T:0.50
Consensus pattern (154 bp):
TTAATTTGATTTTAATATGCTTGCTATGTGTTCTTTGTTCTTAATTACATCAATGTTAGCTTAAT
TTTTTTAAGCTAGGATAATTGCTTTGATTAAATAATATTCATTTGATTCATGCTTATGATGTTTG
TGCCTCAATTGATCATGTTTTCAA
Found at i:20106610 original size:18 final size:18
Alignment explanation
Indices: 20106584--20106618 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20106574 GGAAAACACT
20106584 TCATACATTCCATGCATC
1 TCATACATTCCATGCATC
* *
20106602 TCATGCATTTCATGCAT
1 TCATACATTCCATGCAT
20106619 TCCATACAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.29, G:0.09, T:0.37
Consensus pattern (18 bp):
TCATACATTCCATGCATC
Found at i:20118968 original size:17 final size:16
Alignment explanation
Indices: 20118948--20119004 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
20118938 GCTGTCATAA
20118948 CATTTCGTTTGTCATTG
1 CATTTC-TTTGTCATTG
* *
20118965 CATTTTTCTTGTCACTG
1 CATTTCT-TTGTCATTG
*
20118982 CATCTTCATTGTCATTG
1 CAT-TTCTTTGTCATTG
*
20118999 TATTTC
1 CATTTC
20119005 CATATATATT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
16 4 0.12
17 26 0.81
18 2 0.06
ACGTcount: A:0.14, C:0.21, G:0.12, T:0.53
Consensus pattern (16 bp):
CATTTCTTTGTCATTG
Found at i:20125444 original size:17 final size:17
Alignment explanation
Indices: 20125424--20125480 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
20125414 GCTGTCATCA
20125424 CATTTCATTTGTCATTG
1 CATTTCATTTGTCATTG
* *
20125441 CATTT-TTCTTGTCACTG
1 CATTTCAT-TTGTCATTG
20125458 CATCTTCA-TTGTCATTG
1 CAT-TTCATTTGTCATTG
20125475 CATTTC
1 CATTTC
20125481 CATATATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
16 4 0.12
17 27 0.82
18 2 0.06
ACGTcount: A:0.16, C:0.23, G:0.11, T:0.51
Consensus pattern (17 bp):
CATTTCATTTGTCATTG
Found at i:20132355 original size:12 final size:12
Alignment explanation
Indices: 20132340--20132379 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
20132330 AACCAAAAGT
20132340 TGAGCCAGAAGA
1 TGAGCCAGAAGA
*
20132352 TGAGCC--AA-T
1 TGAGCCAGAAGA
20132361 TGAGCCAGAAGA
1 TGAGCCAGAAGA
20132373 TGAGCCA
1 TGAGCCA
20132380 ATTGAGCCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
9 6 0.26
10 2 0.09
11 2 0.09
12 13 0.57
ACGTcount: A:0.38, C:0.20, G:0.30, T:0.12
Consensus pattern (12 bp):
TGAGCCAGAAGA
Found at i:20132363 original size:21 final size:21
Alignment explanation
Indices: 20132339--20132388 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
20132329 GAACCAAAAG
20132339 TTGAGCCAGAAGATGAGCCAA
1 TTGAGCCAGAAGATGAGCCAA
20132360 TTGAGCCAGAAGATGAGCCAA
1 TTGAGCCAGAAGATGAGCCAA
20132381 TTGAGCCA
1 TTGAGCCA
20132389 AGTGTTGAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.36, C:0.20, G:0.28, T:0.16
Consensus pattern (21 bp):
TTGAGCCAGAAGATGAGCCAA
Found at i:20132775 original size:22 final size:23
Alignment explanation
Indices: 20132732--20132775 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
20132722 GTTTTTAGGT
*
20132732 TTAGGAATTTATTTCTTTCATAG
1 TTAGGAATTTATTTCTTGCATAG
*
20132755 TTAGGATTTTATTTC-TGCATA
1 TTAGGAATTTATTTCTTGCATA
20132776 ATAATACATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.25, C:0.09, G:0.14, T:0.52
Consensus pattern (23 bp):
TTAGGAATTTATTTCTTGCATAG
Found at i:20136252 original size:75 final size:74
Alignment explanation
Indices: 20136142--20136290 Score: 246
Period size: 75 Copynumber: 2.0 Consensus size: 74
20136132 TGAAGAGGGA
* * *
20136142 CTTAGCCCAATTTCGCTACACATGGTGTCCTAAATAAACTATTTTTGGTTTAATTTCAGGAAGTC
1 CTTAGCCCAATTTCGCTACACATGGTGTCCCAAATAAACCATTTTTGGTTTAATTTCAAGAAGTC
20136207 CATGCATTT
66 CATGCATTT
20136216 CTTAGCCCAATTTCAGCTACACATGGCT-TCCCAAATAAACCATTTTTGGTTTAATTTCAAGAAG
1 CTTAGCCCAATTTC-GCTACACATGG-TGTCCCAAATAAACCATTTTTGGTTTAATTTCAAGAAG
20136280 TCCATGCATTT
64 TCCATGCATTT
20136291 TAGAAGAAAT
Statistics
Matches: 70, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
74 14 0.20
75 55 0.79
76 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.36
Consensus pattern (74 bp):
CTTAGCCCAATTTCGCTACACATGGTGTCCCAAATAAACCATTTTTGGTTTAATTTCAAGAAGTC
CATGCATTT
Found at i:20137878 original size:16 final size:17
Alignment explanation
Indices: 20137857--20137891 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
20137847 ATATAATCCC
*
20137857 AAAATTACAAGTCT-AA
1 AAAATTAAAAGTCTCAA
20137873 AAAATTAAAAGTCTCAA
1 AAAATTAAAAGTCTCAA
20137890 AA
1 AA
20137892 CACTTTATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.60, C:0.11, G:0.06, T:0.23
Consensus pattern (17 bp):
AAAATTAAAAGTCTCAA
Found at i:20139750 original size:21 final size:21
Alignment explanation
Indices: 20139726--20139779 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
20139716 TAGTGCAGAC
* *
20139726 TTCTACTGATACAAGTGACAA
1 TTCTACCGATACAAATGACAA
* **
20139747 TTCTACCGATGCAAATGACTC
1 TTCTACCGATACAAATGACAA
20139768 TTCTACCGATAC
1 TTCTACCGATAC
20139780 TAAAAACTCC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (21 bp):
TTCTACCGATACAAATGACAA
Found at i:20139788 original size:21 final size:21
Alignment explanation
Indices: 20139747--20139788 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
20139737 CAAGTGACAA
* *
20139747 TTCTACCGATGCAAATGACTC
1 TTCTACCGATACAAATAACTC
20139768 TTCTACCGATACTAAA-AACTC
1 TTCTACCGATAC-AAATAACTC
20139789 CAGGGAGCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.33, C:0.29, G:0.10, T:0.29
Consensus pattern (21 bp):
TTCTACCGATACAAATAACTC
Found at i:20141415 original size:19 final size:19
Alignment explanation
Indices: 20141378--20141415 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
20141368 CACAATTAAG
*
20141378 TTTAATTAACCTCTTTTAT
1 TTTAATTAACCTCTATTAT
20141397 TTTAATTAATCCT-TATTAT
1 TTTAATTAA-CCTCTATTAT
20141416 AAACAACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.29, C:0.13, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTAATTAACCTCTATTAT
Found at i:20158508 original size:17 final size:17
Alignment explanation
Indices: 20158482--20158519 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
20158472 TTTCATATAG
20158482 TTGTCATTGCATTTTAC
1 TTGTCATTGCATTTTAC
* *
20158499 TTGTCTTTGCATTTTAG
1 TTGTCATTGCATTTTAC
20158516 TTGT
1 TTGT
20158520 TAACGCATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.13, C:0.13, G:0.16, T:0.58
Consensus pattern (17 bp):
TTGTCATTGCATTTTAC
Found at i:20170541 original size:19 final size:19
Alignment explanation
Indices: 20170517--20170563 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
20170507 ATAATTTTCA
20170517 TGCATTTTTATTTTGTCAT
1 TGCATTTTTATTTTGTCAT
*
20170536 TGCATTTTTATTTTTTCAT
1 TGCATTTTTATTTTGTCAT
20170555 TGCATTTTT
1 TGCATTTTT
20170564 GTTAAGTTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.15, C:0.11, G:0.09, T:0.66
Consensus pattern (19 bp):
TGCATTTTTATTTTGTCAT
Found at i:20171177 original size:15 final size:15
Alignment explanation
Indices: 20171139--20171184 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
20171129 TCAGTCACTT
*
20171139 GAAAAAGAA-AAATGA
1 GAAAAAGAAGAAA-AA
20171154 GAGAAAAGAAGAAAAA
1 GA-AAAAGAAGAAAAA
20171170 GAAAAAGAAGAAAAA
1 GAAAAAGAAGAAAAA
20171185 AAATTATGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 15 0.54
16 10 0.36
17 3 0.11
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (15 bp):
GAAAAAGAAGAAAAA
Found at i:20182054 original size:60 final size:61
Alignment explanation
Indices: 20181981--20182196 Score: 317
Period size: 61 Copynumber: 3.6 Consensus size: 61
20181971 TTCGCAAATG
* * * * *
20181981 ATACTCACAATGACACAGAGTCATCGGA-CATATAATCCATAATAGGATTCATTTCATTTA
1 ATACTCACGATGACACAAAGTCATCGGACCTTTTAATCCGTAATAGGATTCATTTCATTTA
* *
20182041 ATACTCACGATGACACAAAGTCATCGAACCTTTTAATCCGTAATGGGATTCATTTCATTTA
1 ATACTCACGATGACACAAAGTCATCGGACCTTTTAATCCGTAATAGGATTCATTTCATTTA
** * *
20182102 ATACTCACGATGACACAAAGTCATTAGACCTTTTAATCTGTAATAGGATCCATTTCATTTA
1 ATACTCACGATGACACAAAGTCATCGGACCTTTTAATCCGTAATAGGATTCATTTCATTTA
*
20182163 ATACTCACGATGACACAAAGTCATCAGACCTTTT
1 ATACTCACGATGACACAAAGTCATCGGACCTTTT
20182197 TGCTTTTACG
Statistics
Matches: 141, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
60 25 0.18
61 116 0.82
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.31
Consensus pattern (61 bp):
ATACTCACGATGACACAAAGTCATCGGACCTTTTAATCCGTAATAGGATTCATTTCATTTA
Found at i:20188887 original size:38 final size:38
Alignment explanation
Indices: 20188836--20188908 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
20188826 TTATATTGTT
20188836 ATTTTATACCTTGAATAGGTATGGTTCATTCCAGTGTC
1 ATTTTATACCTTGAATAGGTATGGTTCATTCCAGTGTC
20188874 ATTTTATACCTTGAATAGGTATGGTTCATTCCAGT
1 ATTTTATACCTTGAATAGGTATGGTTCATTCCAGT
20188909 CATATTTCTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (38 bp):
ATTTTATACCTTGAATAGGTATGGTTCATTCCAGTGTC
Found at i:20200113 original size:30 final size:31
Alignment explanation
Indices: 20200058--20200132 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 31
20200048 TCACATGTTT
* * *
20200058 ATACCCTATAATTATTCATAATTACA-TATC
1 ATACCCTATAATCAATCACAATTACATTATC
* *
20200088 ATACCCTATAATCAATCACATTTACATTTTC
1 ATACCCTATAATCAATCACAATTACATTATC
*
20200119 ATACCCTGTAATCA
1 ATACCCTATAATCA
20200133 TTTATGTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
30 22 0.58
31 16 0.42
ACGTcount: A:0.37, C:0.24, G:0.01, T:0.37
Consensus pattern (31 bp):
ATACCCTATAATCAATCACAATTACATTATC
Found at i:20208855 original size:199 final size:199
Alignment explanation
Indices: 20208508--20208907 Score: 622
Period size: 199 Copynumber: 2.0 Consensus size: 199
20208498 GTTAGAGAGG
* *
20208508 AGCTACTCGAGTTTAGACAGGAGGTCTAGCTAGGGTATATGCAGTTAGAGAGCCCCAGACTAGAC
1 AGCTACTCGAGTTTAGACAGGAGGTCTAGCTAGGGTATATACAGTTAGAGAGCCCCAAACTAGAC
* * * *
20208573 AGGCCACAGACGTCATCGCAGGTACATTCACACTACAGTCTTTTCCTCTTCTAGCTTTAGTAGAT
66 AAGCCACAGACGCCATCGCAAGTACATTCACACTACAGTCTTTTCCTCTTCTAGCTGTAGTAGAT
* * *
20208638 TCTGGTGCTACGAGATCATTTATTTTGAGTGGTGTAGCTACAGAGTTGGGGATTTTTGTAGAGTC
131 TCTGGTGCTACAAGATCATTTATTTTGAGCGATGTAGCTACAGAGTTGGGGATTTTTGTAGAGTC
20208703 ATCT
196 ATCT
** *
20208707 AGCTACTCGAGTTTAGATTGGAGGTCTAGCTAGGGTATATACAGTTAGAGAGCCCCAAACTAGAG
1 AGCTACTCGAGTTTAGACAGGAGGTCTAGCTAGGGTATATACAGTTAGAGAGCCCCAAACTAGAC
* * * * *
20208772 AAGCCA-TGAATGCCATCGTAAGTACATTCACACTATAGTCTTTTCCTCTTCTAGCTGTAGTAGC
66 AAGCCACAG-ACGCCATCGCAAGTACATTCACACTACAGTCTTTTCCTCTTCTAGCTGTAGTAGA
*
20208836 TTCTGGTGCTACAAGATCATTTATTTTGAGCGATGTAGCTATAGAGTTGGGGATTTTTGTAGAGT
130 TTCTGGTGCTACAAGATCATTTATTTTGAGCGATGTAGCTACAGAGTTGGGGATTTTTGTAGAGT
20208901 CATCT
195 CATCT
20208906 AG
1 AG
20208908 GTTGGGTGTT
Statistics
Matches: 182, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
198 1 0.01
199 181 0.99
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (199 bp):
AGCTACTCGAGTTTAGACAGGAGGTCTAGCTAGGGTATATACAGTTAGAGAGCCCCAAACTAGAC
AAGCCACAGACGCCATCGCAAGTACATTCACACTACAGTCTTTTCCTCTTCTAGCTGTAGTAGAT
TCTGGTGCTACAAGATCATTTATTTTGAGCGATGTAGCTACAGAGTTGGGGATTTTTGTAGAGTC
ATCT
Found at i:20214576 original size:530 final size:530
Alignment explanation
Indices: 20213575--20216756 Score: 6051
Period size: 530 Copynumber: 6.0 Consensus size: 530
20213565 AGATTTGGCT
20213575 TGCAACATTTATTCTAGGCTTTATGTATCTTTTGACAATCTTAACATGATGATTGTGTAACTTTA
1 TGCAACATTTATTCTAGGCTTTATGTATCTTTTGACAATCTTAACATGATGATTGTGTAACTTTA
20213640 TTATTTCAAAGTAGAAACAATCTAAGTTTCGTGGGTTACAAAAGATACAAATATCAAAATTCTAT
66 TTATTTCAAAGTAGAAACAATCTAAGTTTCGTGGGTTACAAAAGATACAAATATCAAAATTCTAT
*
20213705 CAATATGACTCTATCAATGCTTAACATGAGTACTTTTATTATCCTAGTACAATACAAACAATTAT
131 CAATATGACTCTATCAATGCTTAACATGAGTACTTTGATTATCCTAGTACAATACAAACAATTAT
*
20213770 AATGAGATTATGCAATGTCTATATATATTTATGCATAGAGTCGATTAGGTCACATAGAGCTTTTT
196 AATGAGATTATGCAATGTCTATATATATTTATGCATAGAGTCGGTTAGGTCACATAGAGCTTTTT
*
20213835 GGCTTGTAACATGTTGAGGCTTAGGACAGGTATAATTTTCAAAGAATAGTTAAGCAGGTTAAAAC
261 GGCTTGTAACGTGTTGAGGCTTAGGACAGGTATAATTTTCAAAGAATAGTTAAGCAGGTTAAAAC
20213900 AATTTGGCACATTGTATTGTTACCTATTCTGCCCCTTTACATCTCACTCCATCTCACCTCTATAT
326 AATTTGGCACATTGTATTGTTACCTATTCTGCCCCTTTACATCTCACTCCATCTCACCTCTATAT
*
20213965 TTCTCCTTCTCTCACCTTCCTTATTTCTCCATTTTTTTTGGAAATCAATCTAAAGTACTCCTTCT
391 TTCTCCTTCTCTCGCCTTCCTTATTTCTCCATTTTTTTTGGAAATCAATCTAAAGTACTCCTTCT
20214030 AGCTAGCCTATGTATGAATAAGCTATTTTCTTTGTTCTTCGAGTAAGCATTTTATTTTTCTATTG
456 AGCTAGCCTATGTATGAATAAGCTATTTTCTTTGTTCTTCGAGTAAGCATTTTATTTTTCTATTG
20214095 GTGACTTTGA
521 GTGACTTTGA
*
20214105 TGCAACATTTATTCTAGGCTTTATGTATCTTTTGACAATCTTAACATGATGATTGTGTAACTTTT
1 TGCAACATTTATTCTAGGCTTTATGTATCTTTTGACAATCTTAACATGATGATTGTGTAACTTTA
*
20214170 TTATTTCAAAGTAGAAACAATCTAAGTTTCGTGGGTTACAAAAGATACTAATATCAAAATTCTAT
66 TTATTTCAAAGTAGAAACAATCTAAGTTTCGTGGGTTACAAAAGATACAAATATCAAAATTCTAT
*
20214235 CAATATGACTATATCAATGCTTAACATGAGTACTTTGATTATCCTAGTACAATACAAACAATTAT
131 CAATATGACTCTATCAATGCTTAACATGAGTACTTTGATTATCCTAGTACAATACAAACAATTAT
*
20214300 AATGAGATTATGCAATGTCTATATATATTTATGCATAGAGTCGGTTAGGTCACATAAAGCTTTTT
196 AATGAGATTATGCAATGTCTATATATATTTATGCATAGAGTCGGTTAGGTCACATAGAGCTTTTT
*
20214365 GGCTTGTAACGTGTTGAGGCTTAGGACAAGTATAATTTTCAAAGAATAGTTAAGCAGGTTAAAAC
261 GGCTTGTAACGTGTTGAGGCTTAGGACAGGTATAATTTTCAAAGAATAGTTAAGCAGGTTAAAAC
20214430 AATTTGGCACATTGTATTGTTACCTATTCTGCCCCTTTACATCTCACTCCATCTCACCTCTATAT
326 AATTTGGCACATTGTATTGTTACCTATTCTGCCCCTTTACATCTCACTCCATCTCACCTCTATAT
20214495 TTCTCCTTCTCTCGCCTTCCTTATTTCTCCATTTTTTTTGGAAATCAATCTAAAGTACTCCTTCT
391 TTCTCCTTCTCTCGCCTTCCTTATTTCTCCATTTTTTTTGGAAATCAATCTAAAGTACTCCTTCT
*
20214560 AGCTTGCCTATGTATGAATAAGCTATTTTCTTTGTTCTTCGAGTAAGCATTTTATTTTTCTATTG
456 AGCTAGCCTATGTATGAATAAGCTATTTTCTTTGTTCTTCGAGTAAGCATTTTATTTTTCTATTG
20214625 GTGACTTTGA
521 GTGACTTTGA
20214635 TGCAACATTTATTCTAGGCTTTATGTATCTTTTGACAATCTTAACATGATGATTGTGTAACTTTA
1 TGCAACATTTATTCTAGGCTTTATGTATCTTTTGACAATCTTAACATGATGATTGTGTAACTTTA
20214700 TTATTTCAAAGTAGAAACAATCTAAGTTTCGTGGGTTACAAAAGATACAAATATCAAAATTCTAT
66 TTATTTCAAAGTAGAAACAATCTAAGTTTCGTGGGTTACAAAAGATACAAATATCAAAATTCTAT
20214765 CAATATGACTCTATCAATGCTTAACATGAGTACTTTGATTATCCTAGTACAATACAAACAATTAT
131 CAATATGACTCTATCAATGCTTAACATGAGTACTTTGATTATCCTAGTACAATACAAACAATTAT
20214830 AATGAGATTATGCAATGTCTATATATATTTATGCATAGAGTCGGTTAGGTCACATAGAGCTTTTT
196 AATGAGATTATGCAATGTCTATATATATTTATGCATAGAGTCGGTTAGGTCACATAGAGCTTTTT
20214895 GGCTTGTAACGTGTTGAGGCTTAGGACAGGTATAATTTTCAAAGAATAGTTAAGCAGGTTAAAAC
261 GGCTTGTAACGTGTTGAGGCTTAGGACAGGTATAATTTTCAAAGAATAGTTAAGCAGGTTAAAAC
*
20214960 AATTTGGCACATTGTATTGTTACCTATTCTGCCCCTTTACATCTCACTCCATCTCGCCTCTATAT
326 AATTTGGCACATTGTATTGTTACCTATTCTGCCCCTTTACATCTCACTCCATCTCACCTCTATAT
20215025 TTCTCCTTCTCTCGCCTTCCTTATTTCTCCATTTTTTTTGGAAATCAATCTAAAGTACTCCTTCT
391 TTCTCCTTCTCTCGCCTTCCTTATTTCTCCATTTTTTTTGGAAATCAATCTAAAGTACTCCTTCT
*
20215090 AGCTTGCCTATGTATGAATAAGCTATTTTCTTTGTTCTTCGAGTAAGCATTTTATTTTTCTATTG
456 AGCTAGCCTATGTATGAATAAGCTATTTTCTTTGTTCTTCGAGTAAGCATTTTATTTTTCTATTG
20215155 GTGACTTTGA
521 GTGACTTTGA
20215165 TGCAACATTTATTCTAGGCTTTATGTATCTTTTGACAATCTTAACATGATGATTGTGTAACTTTA
1 TGCAACATTTATTCTAGGCTTTATGTATCTTTTGACAATCTTAACATGATGATTGTGTAACTTTA
20215230 TTATTTCAAAGTAGAAACAATCTAAGTTTCGTGGGTTACAAAAGATACAAATATCAAAATTCTAT
66 TTATTTCAAAGTAGAAACAATCTAAGTTTCGTGGGTTACAAAAGATACAAATATCAAAATTCTAT
20215295 CAATATGACTCTATCAATGCTTAACATGAGTACTTTGATTATCCTAGTACAATACAAACAATTAT
131 CAATATGACTCTATCAATGCTTAACATGAGTACTTTGATTATCCTAGTACAATACAAACAATTAT
* *
20215360 AATGAGATTATGCAATGTCTATATATTTTTATGCATAGAGTCGATTAGGTCACATAGAGCTTTTT
196 AATGAGATTATGCAATGTCTATATATATTTATGCATAGAGTCGGTTAGGTCACATAGAGCTTTTT
*
20215425 GGCTTGTAACGTGTTGAGGCTTAGGACAGGTATAATTTTCAAAGAATAGTTAAGCAGGTTAAAAT
261 GGCTTGTAACGTGTTGAGGCTTAGGACAGGTATAATTTTCAAAGAATAGTTAAGCAGGTTAAAAC
* *
20215490 AGTTTGGCACATTGTATTGTTACCTATTCTGCCCCTTTACATCTCACTCCATCTCACCACTATAT
326 AATTTGGCACATTGTATTGTTACCTATTCTGCCCCTTTACATCTCACTCCATCTCACCTCTATAT
20215555 TTCTCCTTCTCTCGCCTTCCTTATTTCTCCATTTTTTTTGGAAATCAATCTAAAGTACTCCTTCT
391 TTCTCCTTCTCTCGCCTTCCTTATTTCTCCATTTTTTTTGGAAATCAATCTAAAGTACTCCTTCT
*
20215620 AACTAGCCTATGTATGAATAAGCTATTTTCTTTGTTCATT-GAGTAAGCATTTTATTTTTCTATT
456 AGCTAGCCTATGTATGAATAAGCTATTTTCTTTGTTC-TTCGAGTAAGCATTTTATTTTTCTATT
20215684 GGTGACTTTGA
520 GGTGACTTTGA
20215695 TGCAACATTTATTCTAGGCTTTATGTATCTTTTGACAATCTTAACATGATGATTGTGTAACTTTA
1 TGCAACATTTATTCTAGGCTTTATGTATCTTTTGACAATCTTAACATGATGATTGTGTAACTTTA
* *
20215760 TTATTTCAAAGTAGAAACGATCTAAGTTTTGTGGGTTACAAAAGATACAAATATCAAAATTCTAT
66 TTATTTCAAAGTAGAAACAATCTAAGTTTCGTGGGTTACAAAAGATACAAATATCAAAATTCTAT
** *
20215825 CAATATGACTCTATCAATGCTTAACATGAGCCCTTTGATTATCCTAGTACAATACAAGCAATTAT
131 CAATATGACTCTATCAATGCTTAACATGAGTACTTTGATTATCCTAGTACAATACAAACAATTAT
20215890 AATGAGATTATGCAATGTCTATATATATTTATGCATAGAGTCGGTTAGGTCACATAGAGCTTTTT
196 AATGAGATTATGCAATGTCTATATATATTTATGCATAGAGTCGGTTAGGTCACATAGAGCTTTTT
*
20215955 GACTTGTAACGTGTTGAGGCTTAGGACAGGTATAATTTTCAAAGAATAGTTAAGCAGGTTAAAAC
261 GGCTTGTAACGTGTTGAGGCTTAGGACAGGTATAATTTTCAAAGAATAGTTAAGCAGGTTAAAAC
*
20216020 AGTTTGGCACATTGTATTGTTACCTATTCTGCCCCTTTACATCTCACTCCATCTCACCTCTATAT
326 AATTTGGCACATTGTATTGTTACCTATTCTGCCCCTTTACATCTCACTCCATCTCACCTCTATAT
20216085 TTCTCCTTCTCTCGCCTTCCTTATTTCTCCATTTTTTTTGGAAATCAATCTAAAGTACTCCTTCT
391 TTCTCCTTCTCTCGCCTTCCTTATTTCTCCATTTTTTTTGGAAATCAATCTAAAGTACTCCTTCT
20216150 AGCTAGCCTATGTATGAATAAGCTATTTTCTTTGTTCTTCGAGTAAGCATTTTATTTTTCTATTG
456 AGCTAGCCTATGTATGAATAAGCTATTTTCTTTGTTCTTCGAGTAAGCATTTTATTTTTCTATTG
20216215 GTGACTTTGA
521 GTGACTTTGA
* *
20216225 TGCAACATTTATTCTAGGCTTTATCTATCTTTTGACACTCTTAACATGATGATTGTGTAACTTTA
1 TGCAACATTTATTCTAGGCTTTATGTATCTTTTGACAATCTTAACATGATGATTGTGTAACTTTA
20216290 TTATTTCAAAGTAGAAACAATCTAAGTTTCGTGGGTTACAAAAGATACAAATATCAAAATTCTAT
66 TTATTTCAAAGTAGAAACAATCTAAGTTTCGTGGGTTACAAAAGATACAAATATCAAAATTCTAT
*
20216355 CAATATGACTCTATCAATGCTTAACATGAGTCCTTTGATTATCCTAGTACAATACAAACAATTAT
131 CAATATGACTCTATCAATGCTTAACATGAGTACTTTGATTATCCTAGTACAATACAAACAATTAT
20216420 AATGAGATTATGCAATGTCTATATATATTTATGCATAGAGTCGGTTAGGTCACATAGAGCTTTTT
196 AATGAGATTATGCAATGTCTATATATATTTATGCATAGAGTCGGTTAGGTCACATAGAGCTTTTT
*
20216485 GACTTGTAACGTGTTGAGGCTTAGGACAGGTATAATTTTCAAAGAATAGTTAAGCAGGTTAAAAC
261 GGCTTGTAACGTGTTGAGGCTTAGGACAGGTATAATTTTCAAAGAATAGTTAAGCAGGTTAAAAC
*
20216550 AGTTTGGCACATTGTATTGTTACCTATTCTGCCCCTTTACATCTCACTCCATCTCACCTCTATAT
326 AATTTGGCACATTGTATTGTTACCTATTCTGCCCCTTTACATCTCACTCCATCTCACCTCTATAT
* * *
20216615 TTCTCCTTCTCTCCCCTTCCTTATTTTTCAATTTTTTTTGGAAATCAATCTAAAGTACTCCTTCT
391 TTCTCCTTCTCTCGCCTTCCTTATTTCTCCATTTTTTTTGGAAATCAATCTAAAGTACTCCTTCT
20216680 AGCTAGCCTATGTATGAATAAGCTATTTTCTTTGTTCTTCGAGTAAGCATTTTATTTTTCTATTG
456 AGCTAGCCTATGTATGAATAAGCTATTTTCTTTGTTCTTCGAGTAAGCATTTTATTTTTCTATTG
20216745 GTGACTTTGA
521 GTGACTTTGA
20216755 TG
1 TG
20216757 ATTTTGTCAC
Statistics
Matches: 2606, Mismatches: 44, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
529 2 0.00
530 2602 1.00
531 2 0.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.39
Consensus pattern (530 bp):
TGCAACATTTATTCTAGGCTTTATGTATCTTTTGACAATCTTAACATGATGATTGTGTAACTTTA
TTATTTCAAAGTAGAAACAATCTAAGTTTCGTGGGTTACAAAAGATACAAATATCAAAATTCTAT
CAATATGACTCTATCAATGCTTAACATGAGTACTTTGATTATCCTAGTACAATACAAACAATTAT
AATGAGATTATGCAATGTCTATATATATTTATGCATAGAGTCGGTTAGGTCACATAGAGCTTTTT
GGCTTGTAACGTGTTGAGGCTTAGGACAGGTATAATTTTCAAAGAATAGTTAAGCAGGTTAAAAC
AATTTGGCACATTGTATTGTTACCTATTCTGCCCCTTTACATCTCACTCCATCTCACCTCTATAT
TTCTCCTTCTCTCGCCTTCCTTATTTCTCCATTTTTTTTGGAAATCAATCTAAAGTACTCCTTCT
AGCTAGCCTATGTATGAATAAGCTATTTTCTTTGTTCTTCGAGTAAGCATTTTATTTTTCTATTG
GTGACTTTGA
Found at i:20215684 original size:24 final size:25
Alignment explanation
Indices: 20215638--20215684 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
20215628 TATGTATGAA
*
20215638 TAAGCTATTTTCTTTGTTCATTGAG
1 TAAGCTATTTTATTTGTTCATTGAG
20215663 TAAGC-ATTTTATTT-TTCTATTG
1 TAAGCTATTTTATTTGTTC-ATTG
20215685 GTGACTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 3 0.15
24 12 0.60
25 5 0.25
ACGTcount: A:0.21, C:0.11, G:0.13, T:0.55
Consensus pattern (25 bp):
TAAGCTATTTTATTTGTTCATTGAG
Found at i:20216822 original size:20 final size:19
Alignment explanation
Indices: 20216776--20216832 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
20216766 CTCTTCACAC
*
20216776 TTTTTGTTACTC-TTTTTT
1 TTTTTTTTACTCATTTTTT
20216794 TTGTGTTTTTACTCATTTTCTT
1 TT-T-TTTTTACTCATTTT-TT
*
20216816 TTTTTTTCACT-ATTTTT
1 TTTTTTTTACTCATTTTT
20216833 CTCTTCTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
18 3 0.09
19 6 0.18
20 15 0.45
21 5 0.15
22 4 0.12
ACGTcount: A:0.09, C:0.12, G:0.05, T:0.74
Consensus pattern (19 bp):
TTTTTTTTACTCATTTTTT
Found at i:20218819 original size:18 final size:19
Alignment explanation
Indices: 20218782--20218823 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
20218772 GCCTAAAAGG
* *
20218782 AATTTTAATTTTTGTTTTC
1 AATTTTAATGTTTATTTTC
20218801 AATTTTAA-GTTTATTTTC
1 AATTTTAATGTTTATTTTC
20218819 -ATTTT
1 AATTTT
20218824 TTTAGTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 5 0.24
18 8 0.38
19 8 0.38
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.67
Consensus pattern (19 bp):
AATTTTAATGTTTATTTTC
Found at i:20221030 original size:42 final size:41
Alignment explanation
Indices: 20220926--20221088 Score: 209
Period size: 42 Copynumber: 3.9 Consensus size: 41
20220916 CCTGAATTAC
* * * * *
20220926 TTCACCGGCTTAAAGCTTGCTAGACTTGAAGCCCGATTCAT
1 TTCACCGGCTAAAAGCCTGCTAGGCTCGAGGCCCGATTCAT
* *
20220967 CTCACCAGCTAAAAGCCTGCTAGGCTCGAGGCCCGATTCATT
1 TTCACCGGCTAAAAGCCTGCTAGGCTCGAGGCCCGATTCA-T
* * *
20221009 TTCACCGGCTAAAAGCTTGCTAGGTTCGAGACCCGATTCACT
1 TTCACCGGCTAAAAGCCTGCTAGGCTCGAGGCCCGATTCA-T
*
20221051 TTCACCGGCTAAAAGCCTGTTAGGCTCGAGGCCCGATT
1 TTCACCGGCTAAAAGCCTGCTAGGCTCGAGGCCCGATT
20221089 TAACTACTAT
Statistics
Matches: 104, Mismatches: 17, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
41 33 0.32
42 71 0.68
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.25
Consensus pattern (41 bp):
TTCACCGGCTAAAAGCCTGCTAGGCTCGAGGCCCGATTCAT
Found at i:20221084 original size:84 final size:83
Alignment explanation
Indices: 20220926--20221088 Score: 240
Period size: 84 Copynumber: 2.0 Consensus size: 83
20220916 CCTGAATTAC
*
20220926 TTCACCGGCTTAAAGCTTGCTAGACTTGAAGCCCGATTCATCTCACCAGCTAAAAGCCTGCTAGG
1 TTCACCGGCTAAAAGCTTGCTAGACTTGAAGCCCGATTCATCTCACCAGCTAAAAGCCTGCTAGG
20220991 CTCGAGGCCCGATTCATT
66 CTCGAGGCCCGATTCATT
* * * *
20221009 TTCACCGGCTAAAAGCTTGCTAG-GTTCG-AGACCCGATTCACTTTCACCGGCTAAAAGCCTGTT
1 TTCACCGGCTAAAAGCTTGCTAGACTT-GAAG-CCCGATTCA-TCTCACCAGCTAAAAGCCTGCT
20221072 AGGCTCGAGGCCCGATT
63 AGGCTCGAGGCCCGATT
20221089 TAACTACTAT
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
82 4 0.06
83 32 0.44
84 36 0.50
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.25
Consensus pattern (83 bp):
TTCACCGGCTAAAAGCTTGCTAGACTTGAAGCCCGATTCATCTCACCAGCTAAAAGCCTGCTAGG
CTCGAGGCCCGATTCATT
Found at i:20226100 original size:3 final size:3
Alignment explanation
Indices: 20226092--20226117 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
20226082 CAAACGCTTG
20226092 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
20226118 AATAATAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:20228443 original size:18 final size:18
Alignment explanation
Indices: 20228416--20228471 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
20228406 TGCAGTTTGT
*
20228416 TGTGGCTGCATAC-GATCA
1 TGTGACTGCAT-CTGATCA
* *
20228434 TGTGATTGCATCTGAGCA
1 TGTGACTGCATCTGATCA
20228452 TGTGACTGCATCTGATCA
1 TGTGACTGCATCTGATCA
20228470 TG
1 TG
20228472 ATGTGCCTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
17 1 0.03
18 31 0.97
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (18 bp):
TGTGACTGCATCTGATCA
Found at i:20233133 original size:27 final size:28
Alignment explanation
Indices: 20233078--20233152 Score: 75
Period size: 27 Copynumber: 2.7 Consensus size: 28
20233068 AAGAATATAA
*
20233078 CTCATTCGAGCTCAGA-ACA-GATTATTG
1 CTCATTCGAGCT-AGATACAGGATTAGTG
20233105 CTCATTCGAGCTAGATACAGGA-TAGTG
1 CTCATTCGAGCTAGATACAGGATTAGTG
* * *
20233132 CTCCTTTGAGCCAGAATACAG
1 CTCATTCGAGCTAG-ATACAG
20233153 AGTAATGTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
26 3 0.07
27 30 0.73
28 8 0.20
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (28 bp):
CTCATTCGAGCTAGATACAGGATTAGTG
Found at i:20233164 original size:28 final size:28
Alignment explanation
Indices: 20233119--20233283 Score: 188
Period size: 28 Copynumber: 5.9 Consensus size: 28
20233109 TTCGAGCTAG
* *
20233119 ATACAGGATAGTGCTCCTTTGAGCCAGA
1 ATACAGAATAATGCTCCTTTGAGCCAGA
* * *
20233147 ATACAGAGTAATGTTCCTTTGAGCTAGA
1 ATACAGAATAATGCTCCTTTGAGCCAGA
* * *
20233175 ATTCAGAATTATGCTCTTTTGAGCCAGA
1 ATACAGAATAATGCTCCTTTGAGCCAGA
* * *
20233203 ATATAGAATAATGCTCTTTTGAGCCAAA
1 ATACAGAATAATGCTCCTTTGAGCCAGA
*
20233231 ATACAAAATAATGCT-CTTTCGAGCCAGA
1 ATACAGAATAATGCTCCTTT-GAGCCAGA
* *
20233259 ATACAAAATAATGCTCTTTTGAGCC
1 ATACAGAATAATGCTCCTTTGAGCC
20233284 TTCAACATTA
Statistics
Matches: 115, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
27 3 0.03
28 109 0.95
29 3 0.03
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (28 bp):
ATACAGAATAATGCTCCTTTGAGCCAGA
Found at i:20233224 original size:84 final size:84
Alignment explanation
Indices: 20233130--20233283 Score: 211
Period size: 84 Copynumber: 1.8 Consensus size: 84
20233120 TACAGGATAG
* * * * * * * *
20233130 TGCTCCTTTGAGCCAGAATACAGAGTAATGTTCCTTT-GAGCTAGAATTCAGAATTATGCTCTTT
1 TGCTCCTTTGAGCCAAAATACAAAATAATGCT-CTTTCGAGCCAGAATACAAAATAATGCTCTTT
20233194 TGAGCCAGAATATAGAATAA
65 TGAGCCAGAATATAGAATAA
*
20233214 TGCTCTTTTGAGCCAAAATACAAAATAATGCTCTTTCGAGCCAGAATACAAAATAATGCTCTTTT
1 TGCTCCTTTGAGCCAAAATACAAAATAATGCTCTTTCGAGCCAGAATACAAAATAATGCTCTTTT
20233279 GAGCC
66 GAGCC
20233284 TTCAACATTA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
83 4 0.07
84 56 0.93
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (84 bp):
TGCTCCTTTGAGCCAAAATACAAAATAATGCTCTTTCGAGCCAGAATACAAAATAATGCTCTTTT
GAGCCAGAATATAGAATAA
Found at i:20233816 original size:200 final size:200
Alignment explanation
Indices: 20233456--20233817 Score: 512
Period size: 200 Copynumber: 1.8 Consensus size: 200
20233446 ATTTCTCCTA
* * * *
20233456 TTTTGGTACTGTTGTCGCTGCATAAGTAATTTCATATTGCGTCCAGGATTATTGCTGCATCAGAC
1 TTTTGGTACTGATGTCGCTGCATAAGTAATTTCAGATTGCGTCCAAGATTATCGCTGCATCAGAC
* * * * * *
20233521 AGCTGTCTGGATAAGAACATAAATGTGTGAGCTGTCTAGTCTGGTATAACCAACTTGTACGATCA
66 AGCTGTCCGGATAAGAACAGAAATGTGTGAGCTGTCCAATCTGATATAACCAACTTGTACGACCA
* * *
20233586 GCGACAACTTGATTCTGATGAAAGGACACCTGCATAAGGACAACTTGTACTTACACTTAATTTTG
131 GAGACAACTTGATTCTGATAAAAAGACACCTGCATAAGGACAACTTGTACTTACACTTAATTTTG
20233651 TCATG
196 TCATG
* *
20233656 TTTTGGTACTGATGTCGCTGCATAAGTAATTTCAGATTGTGTCCAAGATTATCGAC-GCATCTGA
1 TTTTGGTACTGATGTCGCTGCATAAGTAATTTCAGATTGCGTCCAAGATTATCG-CTGCATCAGA
* *
20233720 CAGCTGTCCGGATAAGAACAGAAATGTGTGAGGTGTCCAATCTGATATAACTAACTTGTACGACC
65 CAGCTGTCCGGATAAGAACAGAAATGTGTGAGCTGTCCAATCTGATATAACCAACTTGTACGACC
* * *
20233785 AGAGATAGCTTGATTTTG-TAAAAAAGACACCTG
130 AGAGACAACTTGATTCTGAT-AAAAAGACACCTG
20233818 TACAATTGGG
Statistics
Matches: 140, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
199 1 0.01
200 138 0.99
201 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (200 bp):
TTTTGGTACTGATGTCGCTGCATAAGTAATTTCAGATTGCGTCCAAGATTATCGCTGCATCAGAC
AGCTGTCCGGATAAGAACAGAAATGTGTGAGCTGTCCAATCTGATATAACCAACTTGTACGACCA
GAGACAACTTGATTCTGATAAAAAGACACCTGCATAAGGACAACTTGTACTTACACTTAATTTTG
TCATG
Found at i:20242812 original size:16 final size:17
Alignment explanation
Indices: 20242786--20242824 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
20242776 TTAAATGATG
20242786 TTTTTATTATTTTA-ACA
1 TTTTTATTATTTTAGA-A
20242803 TTTTTA-TATTTTAGAA
1 TTTTTATTATTTTAGAA
20242819 TTTTTA
1 TTTTTA
20242825 AGATTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTTTATTATTTTAGAA
Found at i:20252310 original size:22 final size:22
Alignment explanation
Indices: 20252285--20252327 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
20252275 GCAAAGTCAT
20252285 AGCAGATAGTTTACTCCCTGCA
1 AGCAGATAGTTTACTCCCTGCA
20252307 AGCAGATAGTTTACTCCCTGC
1 AGCAGATAGTTTACTCCCTGC
20252328 GAATTCCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (22 bp):
AGCAGATAGTTTACTCCCTGCA
Found at i:20253133 original size:16 final size:17
Alignment explanation
Indices: 20253112--20253145 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
20253102 TATCTTTTTT
*
20253112 TTAAAAATTTATT-TAA
1 TTAAAAATATATTCTAA
20253128 TTAAAAATATATTCTAA
1 TTAAAAATATATTCTAA
20253145 T
1 T
20253146 CCTATTTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAAAAATATATTCTAA
Found at i:20263798 original size:17 final size:17
Alignment explanation
Indices: 20263776--20263812 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
20263766 GTAAAAGTCC
20263776 AATCACTATTAAGTTTT
1 AATCACTATTAAGTTTT
20263793 AATCACTATTAAGTTTT
1 AATCACTATTAAGTTTT
20263810 AAT
1 AAT
20263813 ACAGAAAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (17 bp):
AATCACTATTAAGTTTT
Found at i:20269035 original size:12 final size:12
Alignment explanation
Indices: 20269013--20269047 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
20269003 ACTAAACTCT
20269013 AATGACAAATGAA
1 AATG-CAAATGAA
*
20269026 AATGCAAATGAC
1 AATGCAAATGAA
20269038 AATGCAAATG
1 AATGCAAATG
20269048 CAATGACAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (12 bp):
AATGCAAATGAA
Found at i:20269054 original size:17 final size:17
Alignment explanation
Indices: 20269013--20269073 Score: 77
Period size: 17 Copynumber: 3.5 Consensus size: 17
20269003 ACTAAACTCT
20269013 AATGACAAATGAAAATGC
1 AATGAC-AATGAAAATGC
*
20269031 AAATGACAATGCAAATGC
1 -AATGACAATGAAAATGC
* *
20269049 AATGACAATTAAAATGT
1 AATGACAATGAAAATGC
20269066 AATGACAA
1 AATGACAA
20269074 CGGGAATGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
17 22 0.58
18 10 0.26
19 6 0.16
ACGTcount: A:0.54, C:0.11, G:0.15, T:0.20
Consensus pattern (17 bp):
AATGACAATGAAAATGC
Found at i:20285030 original size:21 final size:21
Alignment explanation
Indices: 20285004--20285066 Score: 117
Period size: 21 Copynumber: 3.0 Consensus size: 21
20284994 ATCTGACATT
*
20285004 CTTGATGCAGACTCGGAGATG
1 CTTGATGTAGACTCGGAGATG
20285025 CTTGATGTAGACTCGGAGATG
1 CTTGATGTAGACTCGGAGATG
20285046 CTTGATGTAGACTCGGAGATG
1 CTTGATGTAGACTCGGAGATG
20285067 GTTCTAGCCC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.24, C:0.16, G:0.33, T:0.27
Consensus pattern (21 bp):
CTTGATGTAGACTCGGAGATG
Found at i:20287590 original size:42 final size:42
Alignment explanation
Indices: 20287532--20287721 Score: 184
Period size: 42 Copynumber: 4.4 Consensus size: 42
20287522 CCAAGGCATA
* *
20287532 AGTCTTCCTTTCAAACATAATCTCACGCTCATTCCGAGACATG
1 AGTCTTCCTTT-AAACATAATCTCATGCTCATCCCGAGACATG
* * *
20287575 AGTCTTCCTTTAAACATAGTCTCATTCTCATCCCAAGACATG
1 AGTCTTCCTTTAAACATAATCTCATGCTCATCCCGAGACATG
* *
20287617 AGTCTTCCTTTTTAAA-ATATAGTCTCGTGCTCATTCCGAGACATG
1 AGTCTTCC--TTTAAACATA-A-TCTCATGCTCATCCCGAGACATG
* * * * * **
20287662 AGTTTTCCTTTAAGCATACTCTCGTGCTCATCCCGAGTCACA
1 AGTCTTCCTTTAAACATAATCTCATGCTCATCCCGAGACATG
*
20287704 AGTCTTCCATTTATACAT
1 AGTCTTCC-TTTAAACAT
20287722 CAAGTGCTTC
Statistics
Matches: 121, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
42 60 0.50
43 26 0.21
44 9 0.07
45 26 0.21
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.35
Consensus pattern (42 bp):
AGTCTTCCTTTAAACATAATCTCATGCTCATCCCGAGACATG
Found at i:20287659 original size:45 final size:44
Alignment explanation
Indices: 20287491--20287698 Score: 173
Period size: 42 Copynumber: 4.9 Consensus size: 44
20287481 CAGGTTCTTA
* * * * *
20287491 AGTCTTCCTTTTT-AA-ATAATCTTATGCTCCA--CCAAGGCATA
1 AGTCTTCCTTTTTAAACATAGTCTCATGCT-CATTCCGAGACATG
* * *
20287532 AGTCTTCC-TTTCAAACATAATCTCACGCTCATTCCGAGACATG
1 AGTCTTCCTTTTTAAACATAGTCTCATGCTCATTCCGAGACATG
* * *
20287575 AGTCTTCC--TTTAAACATAGTCTCATTCTCATCCCAAGACATG
1 AGTCTTCCTTTTTAAACATAGTCTCATGCTCATTCCGAGACATG
* *
20287617 AGTCTTCCTTTTTAAAATATAGTCTCGTGCTCATTCCGAGACATG
1 AGTCTTCCTTTTT-AAACATAGTCTCATGCTCATTCCGAGACATG
* * * * *
20287662 AGTTTTCC--TTTAAGCATACTCTCGTGCTCATCCCGAG
1 AGTCTTCCTTTTTAAACATAGTCTCATGCTCATTCCGAG
20287699 TCACAAGTCT
Statistics
Matches: 138, Mismatches: 22, Indels: 13
0.80 0.13 0.08
Matches are distributed among these distances:
40 3 0.02
41 12 0.09
42 69 0.50
43 18 0.13
44 3 0.02
45 33 0.24
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.35
Consensus pattern (44 bp):
AGTCTTCCTTTTTAAACATAGTCTCATGCTCATTCCGAGACATG
Found at i:20290025 original size:20 final size:20
Alignment explanation
Indices: 20289987--20290025 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
20289977 TTTATTAAAG
*
20289987 GAAATAAAATAAAATAAAAT
1 GAAATAAAATAAAAAAAAAT
20290007 GAAATAAACA-AAAAAAAAA
1 GAAATAAA-ATAAAAAAAAA
20290026 AGCAAAAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.13
Consensus pattern (20 bp):
GAAATAAAATAAAAAAAAAT
Found at i:20300860 original size:25 final size:25
Alignment explanation
Indices: 20300808--20301044 Score: 120
Period size: 25 Copynumber: 9.4 Consensus size: 25
20300798 CAGAATTTAG
* * *
20300808 CTCTAACGAGCCCAAACAGATTAACA
1 CTCTTACGAG-CCAAACAGAATATCA
*
20300834 CTCTTACAAGCCAAACAGAATATCA
1 CTCTTACGAGCCAAACAGAATATCA
* * * * *
20300859 CTCTTACGAGACAGATAGGATATCG
1 CTCTTACGAGCCAAACAGAATATCA
* * * *
20300884 CTTTTACGAGCCAGATAGAATATCG
1 CTCTTACGAGCCAAACAGAATATCA
* * * *
20300909 CTCTTACGAGCTAGACA-AAGTTTTGA
1 CTCTTACGAGCCAAACAGAA--TATCA
* *
20300935 -TCTTACGAGCCAAATAGAATATCG
1 CTCTTACGAGCCAAACAGAATATCA
* * *
20300959 CTCTTTCGAGCCAGACA-AAGTATCT
1 CTCTTACGAGCCAAACAGAA-TATCA
* * * * *
20300984 CTCTTACGATCCAGATAGAGTATCG
1 CTCTTACGAGCCAAACAGAATATCA
* * * * **
20301009 CTCTTATGAGCCAGATAGAGTATTG
1 CTCTTACGAGCCAAACAGAATATCA
20301034 CTCTTACGAGC
1 CTCTTACGAGC
20301045 TAGATTTTAA
Statistics
Matches: 167, Mismatches: 38, Indels: 13
0.77 0.17 0.06
Matches are distributed among these distances:
24 6 0.04
25 148 0.89
26 13 0.08
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.26
Consensus pattern (25 bp):
CTCTTACGAGCCAAACAGAATATCA
Found at i:20301049 original size:25 final size:25
Alignment explanation
Indices: 20300834--20301049 Score: 200
Period size: 25 Copynumber: 8.6 Consensus size: 25
20300824 CAGATTAACA
* * * * *
20300834 CTCTTACAAGCCAAACAGAATATCA
1 CTCTTACGAGCCAGATAGAGTATCG
*
20300859 CTCTTACGAGACAGATAG-GATATCG
1 CTCTTACGAGCCAGATAGAG-TATCG
* *
20300884 CTTTTACGAGCCAGATAGAATATCG
1 CTCTTACGAGCCAGATAGAGTATCG
* * * * *
20300909 CTCTTACGAGCTAGACAAAGTTTTG
1 CTCTTACGAGCCAGATAGAGTATCG
* * *
20300934 ATCTTACGAGCCAAATAGAATATCG
1 CTCTTACGAGCCAGATAGAGTATCG
* * * *
20300959 CTCTTTCGAGCCAGACAAAGTATCT
1 CTCTTACGAGCCAGATAGAGTATCG
*
20300984 CTCTTACGATCCAGATAGAGTATCG
1 CTCTTACGAGCCAGATAGAGTATCG
* *
20301009 CTCTTATGAGCCAGATAGAGTATTG
1 CTCTTACGAGCCAGATAGAGTATCG
*
20301034 CTCTTACGAGCTAGAT
1 CTCTTACGAGCCAGAT
20301050 TTTAAAGCAT
Statistics
Matches: 148, Mismatches: 41, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
25 148 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (25 bp):
CTCTTACGAGCCAGATAGAGTATCG
Found at i:20302887 original size:37 final size:37
Alignment explanation
Indices: 20302846--20302929 Score: 116
Period size: 37 Copynumber: 2.3 Consensus size: 37
20302836 TTACTACTAA
* * *
20302846 TGTCGCTGCATGAGCACTTTTATATTGCGCCCAAAAC
1 TGTCGCTGCATGAGCACTTTCAAATTGCACCCAAAAC
20302883 TGTCG-TCGCATGAGCACTTTCAAATTGCACCCAAAAC
1 TGTCGCT-GCATGAGCACTTTCAAATTGCACCCAAAAC
*
20302920 TGTCACTGCA
1 TGTCGCTGCA
20302930 ATAATATTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
36 1 0.02
37 39 0.95
38 1 0.02
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (37 bp):
TGTCGCTGCATGAGCACTTTCAAATTGCACCCAAAAC
Found at i:20303063 original size:26 final size:26
Alignment explanation
Indices: 20303028--20303086 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
20303018 ATTACACCCA
20303028 AGAA-TGTCGCTGCATGAACATGTAC
1 AGAATTGTCGCTGCATGAACATGTAC
* *
20303053 AGAATTGTCGCTGCATGAACGTGTCC
1 AGAATTGTCGCTGCATGAACATGTAC
*
20303079 AAAATTGT
1 AGAATTGT
20303087 GCCTAGAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 4 0.13
26 26 0.87
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (26 bp):
AGAATTGTCGCTGCATGAACATGTAC
Found at i:20310425 original size:25 final size:25
Alignment explanation
Indices: 20310396--20310493 Score: 88
Period size: 25 Copynumber: 3.9 Consensus size: 25
20310386 TACCGAGCCC
* *
20310396 AAACAGATTAACGCTCTTATGAGAA
1 AAACAGAATATCGCTCTTATGAGAA
* * **
20310421 AAACAAAATATCGCTCTTACGAGCT
1 AAACAGAATATCGCTCTTATGAGAA
* **
20310446 AGACAGAATATCGCTCTTATGAGCC
1 AAACAGAATATCGCTCTTATGAGAA
* * *
20310471 AGACAAAATGTCGCTCTTATGAG
1 AAACAGAATATCGCTCTTATGAG
20310494 CCAAATAGAG
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 61 1.00
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.24
Consensus pattern (25 bp):
AAACAGAATATCGCTCTTATGAGAA
Found at i:20310467 original size:50 final size:50
Alignment explanation
Indices: 20310398--20310494 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 50
20310388 CCGAGCCCAA
*
20310398 ACAGATTAACGCTCTTATGAGAAAAACAAAATATCGCTCTTACGAGCTAG
1 ACAGAATAACGCTCTTATGAGAAAAACAAAATATCGCTCTTACGAGCTAG
* ** * * *
20310448 ACAGAATATCGCTCTTATGAGCCAGACAAAATGTCGCTCTTATGAGC
1 ACAGAATAACGCTCTTATGAGAAAAACAAAATATCGCTCTTACGAGC
20310495 CAAATAGAGT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.25
Consensus pattern (50 bp):
ACAGAATAACGCTCTTATGAGAAAAACAAAATATCGCTCTTACGAGCTAG
Found at i:20310494 original size:25 final size:25
Alignment explanation
Indices: 20310407--20310496 Score: 117
Period size: 25 Copynumber: 3.6 Consensus size: 25
20310397 AACAGATTAA
** *
20310407 CGCTCTTATGAGAAAAACAAAATAT
1 CGCTCTTATGAGCCAGACAAAATAT
* * *
20310432 CGCTCTTACGAGCTAGACAGAATAT
1 CGCTCTTATGAGCCAGACAAAATAT
*
20310457 CGCTCTTATGAGCCAGACAAAATGT
1 CGCTCTTATGAGCCAGACAAAATAT
20310482 CGCTCTTATGAGCCA
1 CGCTCTTATGAGCCA
20310497 AATAGAGTAT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.24
Consensus pattern (25 bp):
CGCTCTTATGAGCCAGACAAAATAT
Found at i:20320172 original size:22 final size:23
Alignment explanation
Indices: 20320133--20320177 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
20320123 ACTTCAACAA
*
20320133 AACTTTGATTTACTTTGACAATT
1 AACTTTGATTTACATTGACAATT
20320156 AACTTTGA-TTACATTGACAATT
1 AACTTTGATTTACATTGACAATT
20320178 TTAACTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.44
Consensus pattern (23 bp):
AACTTTGATTTACATTGACAATT
Found at i:20326379 original size:24 final size:24
Alignment explanation
Indices: 20326346--20326942 Score: 629
Period size: 24 Copynumber: 24.9 Consensus size: 24
20326336 CAATTTTTCT
* *
20326346 TATATTAGCTAGCTAGCGTAAACG
1 TATATTAGCTGGCGAGCGTAAACG
* * *
20326370 CATATTAGCTGACGAGTGTAAACG
1 TATATTAGCTGGCGAGCGTAAACG
*
20326394 TATATTAGCTGGCAAGCGTAAACG
1 TATATTAGCTGGCGAGCGTAAACG
* * *
20326418 CATATTAGCTGACGAGTGTAAACG
1 TATATTAGCTGGCGAGCGTAAACG
* * * *
20326442 TATATAAGCTGACAAGCGTAAATG
1 TATATTAGCTGGCGAGCGTAAACG
*
20326466 TATATTAGCTGACGAGCGTAAACG
1 TATATTAGCTGGCGAGCGTAAACG
* *
20326490 TACATTAGCTGGCAAGCGTAAACG
1 TATATTAGCTGGCGAGCGTAAACG
* * *
20326514 CATATTAGCTGACGAGCGTAAATG
1 TATATTAGCTGGCGAGCGTAAACG
* *
20326538 TATATTAGCTGACGAGCGTAAATG
1 TATATTAGCTGGCGAGCGTAAACG
* * * *
20326562 TACATTAGCTGGCAAGTGTAAACA
1 TATATTAGCTGGCGAGCGTAAACG
* *
20326586 CATTTTAGCTGGCGAGCGTAAACG
1 TATATTAGCTGGCGAGCGTAAACG
* * * *
20326610 CATATTAGCTAGCGAGAGTAAATG
1 TATATTAGCTGGCGAGCGTAAACG
20326634 TATATTAGCTGGCGAGCGTAAACG
1 TATATTAGCTGGCGAGCGTAAACG
* *
20326658 CATATCAGCTGGCGAGCGTAAACG
1 TATATTAGCTGGCGAGCGTAAACG
* * *
20326682 CATATTAGCTGACGAGTGTAAACG
1 TATATTAGCTGGCGAGCGTAAACG
* *
20326706 TATATAAGCTGGCAAGCGTAAACG
1 TATATTAGCTGGCGAGCGTAAACG
* *
20326730 TATATTAGTTGACGAGCGTAAACG
1 TATATTAGCTGGCGAGCGTAAACG
* * * *
20326754 TACATTAGCTAGCGAGTGTAAACA
1 TATATTAGCTGGCGAGCGTAAACG
* *
20326778 CATTTTAGCTGGCGAGCGTAAACG
1 TATATTAGCTGGCGAGCGTAAACG
* * * *
20326802 CATATTAGCTAGCGAGAGTAAATG
1 TATATTAGCTGGCGAGCGTAAACG
20326826 TATATTAGCTGGCGAGCGTAAACG
1 TATATTAGCTGGCGAGCGTAAACG
* * *
20326850 CATATTAGCTGACGAGCGTAAATG
1 TATATTAGCTGGCGAGCGTAAACG
* *
20326874 TATATTAGTTGGAGAGCGTAAACG
1 TATATTAGCTGGCGAGCGTAAACG
* * * *
20326898 CACATTAGCT-GTGAGCGTAAATG
1 TATATTAGCTGGCGAGCGTAAACG
* **
20326921 TATCTTAGCTGATGAGCGTAAA
1 TATATTAGCTGGCGAGCGTAAA
20326943 TGTACTGAAC
Statistics
Matches: 471, Mismatches: 101, Indels: 2
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 0.04
24 453 0.96
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.25
Consensus pattern (24 bp):
TATATTAGCTGGCGAGCGTAAACG
Found at i:20333561 original size:56 final size:56
Alignment explanation
Indices: 20333475--20333673 Score: 283
Period size: 56 Copynumber: 3.6 Consensus size: 56
20333465 TCGAACCAAA
* * ** *
20333475 ATAGCTTTACGCTCTAACCGAGATGTAAGCAAACCAAAGCTCTACCCGAGCTATAC
1 ATAGCATTACGCTCTAACCGAGACGTAAGCATTCCAAAGCTCTACCTGAGCTATAC
* * *
20333531 ATAGCATTATGCTCTAACCGATACGTAAGCATTCCAAAGCTCTACCTAAGCTATAC
1 ATAGCATTACGCTCTAACCGAGACGTAAGCATTCCAAAGCTCTACCTGAGCTATAC
*
20333587 ATAGGATTACGCTCTAACCGAGACGTAAGCATTCCAAAGCTCTACCTGAGCTATAC
1 ATAGCATTACGCTCTAACCGAGACGTAAGCATTCCAAAGCTCTACCTGAGCTATAC
* *
20333643 ATGGCATTACACTCTAACC-ATGACGTAAGCA
1 ATAGCATTACGCTCTAACCGA-GACGTAAGCA
20333674 GATCGGAGCT
Statistics
Matches: 127, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
55 1 0.01
56 126 0.99
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.24
Consensus pattern (56 bp):
ATAGCATTACGCTCTAACCGAGACGTAAGCATTCCAAAGCTCTACCTGAGCTATAC
Found at i:20336549 original size:25 final size:25
Alignment explanation
Indices: 20336520--20336571 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
20336510 AGAAATAATC
*
20336520 TTTCAGTTAAACTCTGTTTATTTGT
1 TTTCAATTAAACTCTGTTTATTTGT
20336545 TTTCAATTAAACTCTGTTTATTTGT
1 TTTCAATTAAACTCTGTTTATTTGT
20336570 TT
1 TT
20336572 GAGTCAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.21, C:0.12, G:0.10, T:0.58
Consensus pattern (25 bp):
TTTCAATTAAACTCTGTTTATTTGT
Found at i:20338580 original size:25 final size:26
Alignment explanation
Indices: 20338522--20338581 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
20338512 TCTTCCAGTT
*
20338522 AAACTC-TGTTTATTTGTTTTCAATT
1 AAACTCTTGTTTATTTGTTTTCAATC
* *
20338547 AAACT-TTGTTTATTTG-TTTGAGTC
1 AAACTCTTGTTTATTTGTTTTCAATC
20338571 AAACTCTTGTT
1 AAACTCTTGTT
20338582 ACTCTAGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 10 0.33
25 20 0.67
ACGTcount: A:0.23, C:0.12, G:0.12, T:0.53
Consensus pattern (26 bp):
AAACTCTTGTTTATTTGTTTTCAATC
Found at i:20341311 original size:45 final size:45
Alignment explanation
Indices: 20341247--20341339 Score: 177
Period size: 45 Copynumber: 2.1 Consensus size: 45
20341237 ATGAAGGGGA
*
20341247 CGAGTGATGTTGCCCCTATTCAAGTAGCCCAGCAAATGGATGTCC
1 CGAGTGATGTTGCCCCTATTCAAGTAGCCCAACAAATGGATGTCC
20341292 CGAGTGATGTTGCCCCTATTCAAGTAGCCCAACAAATGGATGTCC
1 CGAGTGATGTTGCCCCTATTCAAGTAGCCCAACAAATGGATGTCC
20341337 CGA
1 CGA
20341340 CATTTTGTTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (45 bp):
CGAGTGATGTTGCCCCTATTCAAGTAGCCCAACAAATGGATGTCC
Found at i:20349143 original size:15 final size:15
Alignment explanation
Indices: 20349123--20349167 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
20349113 ATCATAAATT
20349123 TTTTTCTTCTTTTTC
1 TTTTTCTTCTTTTTC
20349138 TTTTTCTTCCTTTTTC
1 TTTTTCTT-CTTTTTC
*
20349154 TCATTT-TTCTTTTT
1 T-TTTTCTTCTTTTT
20349168 AAAGTGACTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 14 0.52
16 10 0.37
17 3 0.11
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTCTTCTTTTTC
Found at i:20359426 original size:12 final size:12
Alignment explanation
Indices: 20359398--20359444 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
20359388 GAAGAGGAGG
20359398 AAGAAG-AGAAGA
1 AAGAAGAAGAA-A
*
20359410 AAGAAGAAGCAA
1 AAGAAGAAGAAA
* *
20359422 GAGAAAAAGAAA
1 AAGAAGAAGAAA
20359434 AAGAAGAAGAA
1 AAGAAGAAGAA
20359445 TTTGTAGCGA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
12 25 0.89
13 3 0.11
ACGTcount: A:0.70, C:0.02, G:0.28, T:0.00
Consensus pattern (12 bp):
AAGAAGAAGAAA
Found at i:20371642 original size:27 final size:27
Alignment explanation
Indices: 20371611--20371662 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
20371601 TGTCACTTGG
*
20371611 CATGAATATTATACCCACATCTTTACA
1 CATGAATATCATACCCACATCTTTACA
20371638 CATGAATATCATACCCACATCTTTA
1 CATGAATATCATACCCACATCTTTA
20371663 TAGTCTCATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.37, C:0.27, G:0.04, T:0.33
Consensus pattern (27 bp):
CATGAATATCATACCCACATCTTTACA
Found at i:20375309 original size:15 final size:16
Alignment explanation
Indices: 20375291--20375332 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
20375281 CGATGACGAC
*
20375291 ATCTATGATGAT-GAT
1 ATCTATGAAGATGGAT
*
20375306 ATCTACGAAGATGGAT
1 ATCTATGAAGATGGAT
20375322 A-CTATGAAGAT
1 ATCTATGAAGAT
20375333 TGGGAGATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (16 bp):
ATCTATGAAGATGGAT
Found at i:20377129 original size:26 final size:26
Alignment explanation
Indices: 20377099--20377178 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 26
20377089 CAAGGTTGAA
20377099 CCATCATTCAAGAACGAGGTTTCGTT
1 CCATCATTCAAGAACGAGGTTTCGTT
* * ** * **
20377125 CCATCAAT--GGTCCTAGG-TT-GAA
1 CCATCATTCAAGAACGAGGTTTCGTT
20377147 CCATCATTCAAGAACGAGGTTTCGTT
1 CCATCATTCAAGAACGAGGTTTCGTT
20377173 CCATCA
1 CCATCA
20377179 ATGGTCCTCT
Statistics
Matches: 36, Mismatches: 14, Indels: 8
0.62 0.24 0.14
Matches are distributed among these distances:
22 8 0.22
23 2 0.06
24 10 0.28
25 2 0.06
26 14 0.39
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (26 bp):
CCATCATTCAAGAACGAGGTTTCGTT
Found at i:20377162 original size:48 final size:48
Alignment explanation
Indices: 20377091--20377186 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
20377081 TGGCTTCACA
20377091 AGGTTGAACCATCATTCAAGAACGAGGTTTCGTTCCATCAATGGTCCT
1 AGGTTGAACCATCATTCAAGAACGAGGTTTCGTTCCATCAATGGTCCT
20377139 AGGTTGAACCATCATTCAAGAACGAGGTTTCGTTCCATCAATGGTCCT
1 AGGTTGAACCATCATTCAAGAACGAGGTTTCGTTCCATCAATGGTCCT
20377187 CTGTAAGGAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (48 bp):
AGGTTGAACCATCATTCAAGAACGAGGTTTCGTTCCATCAATGGTCCT
Found at i:20377166 original size:24 final size:24
Alignment explanation
Indices: 20377091--20377167 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
20377081 TGGCTTCACA
20377091 AGGTTGAACCATCATTCAAGAACG
1 AGGTTGAACCATCATTCAAGAACG
** * * ** *
20377115 AGGTTTCGTTCCATCAAT--GGTCCT
1 AGG-TT-GAACCATCATTCAAGAACG
20377139 AGGTTGAACCATCATTCAAGAACG
1 AGGTTGAACCATCATTCAAGAACG
20377163 AGGTT
1 AGGTT
20377168 TCGTTCCATC
Statistics
Matches: 35, Mismatches: 14, Indels: 8
0.61 0.25 0.14
Matches are distributed among these distances:
22 8 0.23
23 2 0.06
24 15 0.43
25 2 0.06
26 8 0.23
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (24 bp):
AGGTTGAACCATCATTCAAGAACG
Found at i:20378677 original size:7 final size:7
Alignment explanation
Indices: 20378657--20378744 Score: 119
Period size: 7 Copynumber: 13.0 Consensus size: 7
20378647 TTTTTGCATA
20378657 TAGTTTT
1 TAGTTTT
* *
20378664 AAATTTT
1 TAGTTTT
20378671 TAG-TTT
1 TAGTTTT
20378677 TAGTTTT
1 TAGTTTT
*
20378684 TACTTTT
1 TAGTTTT
20378691 TAGTTTT
1 TAGTTTT
20378698 TAGTTTT
1 TAGTTTT
20378705 TAG-TTT
1 TAGTTTT
20378711 TAGTTTT
1 TAGTTTT
*
20378718 TACTTTT
1 TAGTTTT
20378725 TAGTTTT
1 TAGTTTT
20378732 TAGTTTT
1 TAGTTTT
20378739 TA-TTTT
1 TAGTTTT
20378745 GATGTATGAT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
6 16 0.23
7 55 0.77
ACGTcount: A:0.17, C:0.02, G:0.10, T:0.70
Consensus pattern (7 bp):
TAGTTTT
Found at i:20378695 original size:34 final size:34
Alignment explanation
Indices: 20378657--20378744 Score: 151
Period size: 34 Copynumber: 2.6 Consensus size: 34
20378647 TTTTTGCATA
* *
20378657 TAGTTTTAAATTTTTAGTTTTAGTTTTTACTTTT
1 TAGTTTTTAGTTTTTAGTTTTAGTTTTTACTTTT
20378691 TAGTTTTTAGTTTTTAGTTTTAGTTTTTACTTTT
1 TAGTTTTTAGTTTTTAGTTTTAGTTTTTACTTTT
20378725 TAGTTTTTAGTTTTTA-TTTT
1 TAGTTTTTAGTTTTTAGTTTT
20378745 GATGTATGAT
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
33 4 0.08
34 48 0.92
ACGTcount: A:0.17, C:0.02, G:0.10, T:0.70
Consensus pattern (34 bp):
TAGTTTTTAGTTTTTAGTTTTAGTTTTTACTTTT
Found at i:20379369 original size:21 final size:22
Alignment explanation
Indices: 20379343--20379384 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
20379333 GTGAAAACAA
20379343 AAAAGAAAAATGAGT-AGAAAC
1 AAAAGAAAAATGAGTAAGAAAC
**
20379364 AAAAGAATCATGAGTAAGAAA
1 AAAAGAAAAATGAGTAAGAAA
20379385 GCATATGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.64, C:0.05, G:0.19, T:0.12
Consensus pattern (22 bp):
AAAAGAAAAATGAGTAAGAAAC
Found at i:20388754 original size:26 final size:26
Alignment explanation
Indices: 20388725--20388777 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
20388715 TAGTGATTTG
*
20388725 TTTTATATTCTAATTTTAATTTCTTA
1 TTTTATATTCTAATGTTAATTTCTTA
*
20388751 TTTTATATTCTGATGTTAATTTCTTA
1 TTTTATATTCTAATGTTAATTTCTTA
20388777 T
1 T
20388778 GTCTCATGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.64
Consensus pattern (26 bp):
TTTTATATTCTAATGTTAATTTCTTA
Found at i:20391175 original size:7 final size:7
Alignment explanation
Indices: 20391163--20391187 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
20391153 AATTAAACCC
20391163 AATTTTA
1 AATTTTA
20391170 AATTTTA
1 AATTTTA
20391177 AATTTTA
1 AATTTTA
20391184 AATT
1 AATT
20391188 ATTTTAAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTTTA
Found at i:20391191 original size:17 final size:18
Alignment explanation
Indices: 20391171--20391249 Score: 76
Period size: 17 Copynumber: 4.6 Consensus size: 18
20391161 CCAATTTTAA
20391171 ATTTTAAATTTTAAA-TT
1 ATTTTAAATTTTAAATTT
*
20391188 ATTTT-AAGTTTAAATTT
1 ATTTTAAATTTTAAATTT
*
20391205 ATTTTAAA-TTTAAACTT
1 ATTTTAAATTTTAAATTT
* * *
20391222 ATGTT-GAGTTTAAATTT
1 ATTTTAAATTTTAAATTT
20391239 ATTTTGAAATT
1 ATTTT-AAATT
20391250 AAATTTAAAG
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
16 9 0.18
17 36 0.73
18 2 0.04
19 2 0.04
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.56
Consensus pattern (18 bp):
ATTTTAAATTTTAAATTT
Found at i:20391213 original size:34 final size:35
Alignment explanation
Indices: 20391171--20391249 Score: 117
Period size: 34 Copynumber: 2.3 Consensus size: 35
20391161 CCAATTTTAA
*
20391171 ATTTTAAATTTTAAA-TTATTTTAAGTTTAAATTT
1 ATTTTAAATTTTAAACTTATGTTAAGTTTAAATTT
*
20391205 ATTTTAAA-TTTAAACTTATGTTGAGTTTAAATTT
1 ATTTTAAATTTTAAACTTATGTTAAGTTTAAATTT
20391239 ATTTTGAAATT
1 ATTTT-AAATT
20391250 AAATTTAAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
33 6 0.15
34 30 0.75
35 3 0.08
36 1 0.03
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.56
Consensus pattern (35 bp):
ATTTTAAATTTTAAACTTATGTTAAGTTTAAATTT
Found at i:20391251 original size:17 final size:17
Alignment explanation
Indices: 20391197--20391256 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
20391187 TATTTTAAGT
20391197 TTAAATTTATTTT-AAA
1 TTAAATTTATTTTGAAA
* * **
20391213 TTTAAACTTATGTTGAGT
1 -TTAAATTTATTTTGAAA
20391231 TTAAATTTATTTTGAAA
1 TTAAATTTATTTTGAAA
20391248 TTAAATTTA
1 TTAAATTTA
20391257 AAGTTTAATT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 33 0.97
18 1 0.03
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (17 bp):
TTAAATTTATTTTGAAA
Found at i:20391293 original size:14 final size:15
Alignment explanation
Indices: 20391263--20391292 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
20391253 TTTAAAGTTT
20391263 AATTA-AAAGTCCAA
1 AATTACAAAGTCCAA
20391277 AATTACAAAGTCCAA
1 AATTACAAAGTCCAA
20391292 A
1 A
20391293 TCACAAACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.57, C:0.17, G:0.07, T:0.20
Consensus pattern (15 bp):
AATTACAAAGTCCAA
Found at i:20392968 original size:30 final size:30
Alignment explanation
Indices: 20392928--20393208 Score: 186
Period size: 30 Copynumber: 9.6 Consensus size: 30
20392918 CAGAAATCAT
*
20392928 ATTTTGACCCCTAAACTTTTCTAAAATTAC
1 ATTTTTACCCCTAAACTTTTCTAAAATTAC
* *
20392958 ATTTTCACCCCTAAACTTTTCTAAAATCAC
1 ATTTTTACCCCTAAACTTTTCTAAAATTAC
* * * * *
20392988 ATTTTGA-CCCTCGAACTTCTCAAAAAATAC
1 ATTTTTACCCCT-AAACTTTTCTAAAATTAC
* *
20393018 ATTTTTACCCCCAAAC--TTCTAAAAATCAC
1 ATTTTTACCCCTAAACTTTTCT-AAAATTAC
** * *
20393047 ATTTTTACCCCCGAACTTCTCCAAAATTAC
1 ATTTTTACCCCTAAACTTTTCTAAAATTAC
** * * *
20393077 ATTTTTACCGTTGAACTTCTCAAAAATTAC
1 ATTTTTACCCCTAAACTTTTCTAAAATTAC
**
20393107 A-TTTTACCCC-AAAC--TTCTAAAAATCGC
1 ATTTTTACCCCTAAACTTTTCT-AAAATTAC
* * * * *
20393134 ATTTTTACCTC-GAACTTTCCCAAAATGAC
1 ATTTTTACCCCTAAACTTTTCTAAAATTAC
* *
20393163 ATTTTTATCCCTAAAAC-TTTCCAAAATTAC
1 ATTTTTACCCCT-AAACTTTTCTAAAATTAC
* *
20393193 ACTTTAACCCC-AAACT
1 ATTTTTACCCCTAAACT
20393209 CTCCGAAACT
Statistics
Matches: 195, Mismatches: 44, Indels: 25
0.74 0.17 0.09
Matches are distributed among these distances:
26 2 0.01
27 7 0.04
28 20 0.10
29 47 0.24
30 111 0.57
31 8 0.04
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.35
Consensus pattern (30 bp):
ATTTTTACCCCTAAACTTTTCTAAAATTAC
Found at i:20393065 original size:59 final size:58
Alignment explanation
Indices: 20392921--20393142 Score: 209
Period size: 60 Copynumber: 3.8 Consensus size: 58
20392911 AACTGTCCAG
* * * * *
20392921 AAATCATATTTTGACCCCTAAACTTTTCTAAAATTACATTTTCACCCCTAAACTTTTCT-A
1 AAATCACATTTTGACCCCCAAACTTCTC-AAAAATACATTTTTACCCCTAAAC--TTCTAA
* * *
20392981 AAATCACATTTTGACCCTCGAACTTCTCAAAAAATACATTTTTACCCCCAAACTTCTAA
1 AAATCACATTTTGACCCCCAAACTTCTC-AAAAATACATTTTTACCCCTAAACTTCTAA
* * * ** *
20393040 AAATCACATTTTTACCCCCGAACTTCTCCAAAATTACATTTTTACCGTTGAACTTCTCAA
1 AAATCACATTTTGACCCCCAAACTTCT-CAAAAATACATTTTTACCCCTAAACTTCT-AA
* *
20393100 AAATTACATTTT-A-CCCCAAACTTCT-AAAAATCGCATTTTTACC
1 AAATCACATTTTGACCCCCAAACTTCTCAAAAAT-ACATTTTTACC
20393143 TCGAACTTTC
Statistics
Matches: 138, Mismatches: 20, Indels: 11
0.82 0.12 0.07
Matches are distributed among these distances:
56 5 0.04
57 10 0.07
58 15 0.11
59 50 0.36
60 58 0.42
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.35
Consensus pattern (58 bp):
AAATCACATTTTGACCCCCAAACTTCTCAAAAATACATTTTTACCCCTAAACTTCTAA
Found at i:20393181 original size:87 final size:88
Alignment explanation
Indices: 20392946--20393208 Score: 284
Period size: 89 Copynumber: 3.0 Consensus size: 88
20392936 CCCTAAACTT
* * ** * * * * **
20392946 TTCT-AAAATTACATTTTCACCCCTAAACTTTTCTAAAATCACATTTTGACCCTCGAACTTCTCA
1 TTCTAAAAATCACATTTTTACCCCCGAACTTCTCCAAAATGACATTTTTACCCTAAAACTTCTCA
* *
20393010 AAAAATACATTTTTACCCCCAAAC
66 AAAATTACACTTTTA-CCCCAAAC
* * **
20393034 TTCTAAAAATCACATTTTTACCCCCGAACTTCTCCAAAATTACATTTTTACCGTTGAACTTCTCA
1 TTCTAAAAATCACATTTTTACCCCCGAACTTCTCCAAAATGACATTTTTACCCTAAAACTTCTCA
20393099 AAAATTACA-TTTTACCCCAAAC
66 AAAATTACACTTTTACCCCAAAC
* *
20393121 TTCTAAAAATCGCATTTTTA-CCTCGAACTT-TCCCAAAATGACATTTTTATCCCTAAAACTT-T
1 TTCTAAAAATCACATTTTTACCCCCGAACTTCT-CCAAAATGACATTTTTA-CCCTAAAACTTCT
* *
20393183 CCAAAATTACACTTTAACCCCAAAC
64 CAAAAATTACACTTTTACCCCAAAC
20393208 T
1 T
20393209 CTCCGAAACT
Statistics
Matches: 152, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
85 1 0.01
86 36 0.24
87 48 0.32
88 9 0.06
89 58 0.38
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.34
Consensus pattern (88 bp):
TTCTAAAAATCACATTTTTACCCCCGAACTTCTCCAAAATGACATTTTTACCCTAAAACTTCTCA
AAAATTACACTTTTACCCCAAAC
Found at i:20393594 original size:97 final size:97
Alignment explanation
Indices: 20393486--20393673 Score: 313
Period size: 97 Copynumber: 1.9 Consensus size: 97
20393476 TTTAAAATCA
* **
20393486 AGGCAATATTCCTTTATTTCGAGTCTTGAAAATTTGTGCCTTAACTTACTAGGTGCGATTTTTCT
1 AGGCAATATTCCTTTATCTCGAGTCTTGAAAATTTGTGCCTTAACTTACTAGGCACGATTTTTCT
20393551 TCAAACCGGGATAATCAAATACCCTTAAATTG
66 TCAAACCGGGATAATCAAATACCCTTAAATTG
* * *
20393583 AGGCAATATTCCTTTATCTCGGGTTTTGAAAATTTGTGCTTTAACTTACTAGGCACGATTTTTCT
1 AGGCAATATTCCTTTATCTCGAGTCTTGAAAATTTGTGCCTTAACTTACTAGGCACGATTTTTCT
*
20393648 TCAAACCGGGATAATCGAATACCCTT
66 TCAAACCGGGATAATCAAATACCCTT
20393674 TTTCAAGGTT
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
97 84 1.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (97 bp):
AGGCAATATTCCTTTATCTCGAGTCTTGAAAATTTGTGCCTTAACTTACTAGGCACGATTTTTCT
TCAAACCGGGATAATCAAATACCCTTAAATTG
Found at i:20402706 original size:43 final size:43
Alignment explanation
Indices: 20402659--20402847 Score: 238
Period size: 43 Copynumber: 4.4 Consensus size: 43
20402649 ACGCCATTAT
** *
20402659 AGAACATGGTCTTTAGCGACGCTTTTATCACAAACGTCGCTAA
1 AGAACATGGTCTTTAGCGACGCTTTTCCCACAAACGCCGCTAA
* * *
20402702 AGAACATGATCTTTAGCGGCGCTTTTCCCACAAACACCGCTAA
1 AGAACATGGTCTTTAGCGACGCTTTTCCCACAAACGCCGCTAA
*
20402745 AGAACATGGTCTTTAGCGACGC-TTTCCCACAAATGCCGCTAA
1 AGAACATGGTCTTTAGCGACGCTTTTCCCACAAACGCCGCTAA
* * * ** *
20402787 AGACCATGATCTTTAGCGGCG-TTTTCCCCACAAATTCCACTAA
1 AGAACATGGTCTTTAGCGACGCTTTT-CCCACAAACGCCGCTAA
20402830 AGAACATGGTCTTTAGCG
1 AGAACATGGTCTTTAGCG
20402848 GTATTTTTCT
Statistics
Matches: 127, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
42 39 0.31
43 88 0.69
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (43 bp):
AGAACATGGTCTTTAGCGACGCTTTTCCCACAAACGCCGCTAA
Found at i:20402803 original size:85 final size:86
Alignment explanation
Indices: 20402659--20402847 Score: 283
Period size: 85 Copynumber: 2.2 Consensus size: 86
20402649 ACGCCATTAT
* *
20402659 AGAACATGGTCTTTAGCGACGCTTTTATCACAAACGTCGCTAAAGAACATGATCTTTAGCGGCGC
1 AGAACATGGTCTTTAGCGACGCTTTTACCACAAACGCCGCTAAAGAACATGATCTTTAGCGGCG-
*
20402724 TTTT-CCCACAAACACCGCTAA
65 TTTTCCCCACAAACACCACTAA
* * *
20402745 AGAACATGGTCTTTAGCGACGC-TTTCCCACAAATGCCGCTAAAGACCATGATCTTTAGCGGCGT
1 AGAACATGGTCTTTAGCGACGCTTTTACCACAAACGCCGCTAAAGAACATGATCTTTAGCGGCGT
**
20402809 TTTCCCCACAAATTCCACTAA
66 TTTCCCCACAAACACCACTAA
20402830 AGAACATGGTCTTTAGCG
1 AGAACATGGTCTTTAGCG
20402848 GTATTTTTCT
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
84 4 0.04
85 68 0.72
86 22 0.23
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (86 bp):
AGAACATGGTCTTTAGCGACGCTTTTACCACAAACGCCGCTAAAGAACATGATCTTTAGCGGCGT
TTTCCCCACAAACACCACTAA
Found at i:20402863 original size:43 final size:43
Alignment explanation
Indices: 20402647--20402872 Score: 184
Period size: 43 Copynumber: 5.3 Consensus size: 43
20402637 TTTTGCGGAA
* * * * ** **
20402647 AAACGCCATTATAGAACATGGTCTTTAGCGACGCTTTTATCAC
1 AAACGCCACTAAAGAACATGATCTTTAGCGGCATTTTTCCCAC
* * **
20402690 AAACGTCGCTAAAGAACATGATCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCACTAAAGAACATGATCTTTAGCGGCATTTTTCCCAC
* * * * **
20402733 AAACACCGCTAAAGAACATGGTCTTTAGCGAC-GCTTTCCCAC
1 AAACGCCACTAAAGAACATGATCTTTAGCGGCATTTTTCCCAC
* * * * *
20402775 AAATGCCGCTAAAGACCATGATCTTTAGCGGCGTTTTCCCCAC
1 AAACGCCACTAAAGAACATGATCTTTAGCGGCATTTTTCCCAC
** * * **
20402818 AAATTCCACTAAAGAACATGGTCTTTAGCGGTATTTTTCTTAC
1 AAACGCCACTAAAGAACATGATCTTTAGCGGCATTTTTCCCAC
20402861 AAACGCCACTAA
1 AAACGCCACTAA
20402873 CATTAATAGA
Statistics
Matches: 149, Mismatches: 33, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
42 35 0.23
43 114 0.77
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (43 bp):
AAACGCCACTAAAGAACATGATCTTTAGCGGCATTTTTCCCAC
Found at i:20417273 original size:17 final size:18
Alignment explanation
Indices: 20417230--20417283 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
20417220 ATGCATAGCA
*
20417230 TTTAGTTGTCATTACATT
1 TTTAGTTGTCACTACATT
* *
20417248 TTTAATTGTCACTGCA-T
1 TTTAGTTGTCACTACATT
* *
20417265 TTTAGTTGTTAGTACATT
1 TTTAGTTGTCACTACATT
20417283 T
1 T
20417284 GCATTGTAGT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
17 13 0.46
18 15 0.54
ACGTcount: A:0.22, C:0.11, G:0.13, T:0.54
Consensus pattern (18 bp):
TTTAGTTGTCACTACATT
Found at i:20420355 original size:12 final size:12
Alignment explanation
Indices: 20420338--20420368 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
20420328 CAGAATGTAG
20420338 CAGCATTTTGTC
1 CAGCATTTTGTC
20420350 CAGCATTTTGTC
1 CAGCATTTTGTC
*
20420362 TAGCATT
1 CAGCATT
20420369 CTGAGTTCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (12 bp):
CAGCATTTTGTC
Found at i:20446246 original size:25 final size:25
Alignment explanation
Indices: 20446218--20446265 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
20446208 AGCAGATATT
*
20446218 TCTTTTTTC-TTCTTATCTTTTTTCC
1 TCTTCTTTCTTTCTT-TCTTTTTTCC
20446243 TCTTCTTTCTTTCTTTCTTTTTT
1 TCTTCTTTCTTTCTTTCTTTTTT
20446266 TTATAAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (25 bp):
TCTTCTTTCTTTCTTTCTTTTTTCC
Found at i:20446248 original size:18 final size:18
Alignment explanation
Indices: 20446225--20446259 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
20446215 ATTTCTTTTT
20446225 TCTTCTTATCTTT-TTTCC
1 TCTTCTT-TCTTTCTTTCC
20446243 TCTTCTTTCTTTCTTTC
1 TCTTCTTTCTTTCTTTC
20446260 TTTTTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.69
Consensus pattern (18 bp):
TCTTCTTTCTTTCTTTCC
Found at i:20446261 original size:15 final size:14
Alignment explanation
Indices: 20446216--20446267 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
20446206 ACAGCAGATA
20446216 TTTCTTTTTTCTTC
1 TTTCTTTTTTCTTC
*
20446230 TTATCTTTTTTCCTC
1 TT-TCTTTTTTCTTC
20446245 -TTCTTTCTTTCTTTC
1 TTTCTTT-TTTC-TTC
20446260 TTT-TTTTT
1 TTTCTTTTT
20446268 ATAAATGACT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
13 5 0.16
14 9 0.28
15 16 0.50
16 2 0.06
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTCTTTTTTCTTC
Found at i:20463093 original size:14 final size:13
Alignment explanation
Indices: 20463082--20463111 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
20463072 TTAAAAATTC
20463082 AGAATAAAAAATA
1 AGAATAAAAAATA
20463095 AGAATAAAATAATA
1 AGAATAAAA-AATA
20463109 AGA
1 AGA
20463112 GTTGATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (13 bp):
AGAATAAAAAATA
Found at i:20474806 original size:15 final size:16
Alignment explanation
Indices: 20474780--20474809 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
20474770 GCCTGACCAT
20474780 CTGGAGTGCAATTTTC
1 CTGGAGTGCAATTTTC
20474796 CTGGA-TGCAATTTT
1 CTGGAGTGCAATTTT
20474810 AAACGTGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (16 bp):
CTGGAGTGCAATTTTC
Found at i:20496515 original size:26 final size:25
Alignment explanation
Indices: 20496479--20496547 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
20496469 TTAATTTGTA
*
20496479 TAAAATATTAACAATTTAAAATATAT
1 TAAAA-ATTAACAATTTAAAATAAAT
* *
20496505 TAAAAAGTTAATAAATT-AAATAAAT
1 TAAAAA-TTAACAATTTAAAATAAAT
*
20496530 TAAAAATT-AGAATTTAAA
1 TAAAAATTAACAATTTAAA
20496548 TTCTTACCAC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
23 5 0.14
24 4 0.11
25 14 0.39
26 13 0.36
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (25 bp):
TAAAAATTAACAATTTAAAATAAAT
Found at i:20503270 original size:21 final size:21
Alignment explanation
Indices: 20503246--20503290 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
20503236 GCTGAACTGA
* *
20503246 AAGCCCAAATAGCTGAGTTAG
1 AAGCCCAAATAGCCGAGCTAG
*
20503267 AAGCCCGAATAGCCGAGCTAG
1 AAGCCCAAATAGCCGAGCTAG
20503288 AAG
1 AAG
20503291 AATCTCTACG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.22, G:0.27, T:0.13
Consensus pattern (21 bp):
AAGCCCAAATAGCCGAGCTAG
Found at i:20505142 original size:51 final size:51
Alignment explanation
Indices: 20505065--20505241 Score: 248
Period size: 51 Copynumber: 3.5 Consensus size: 51
20505055 GAAAATGTTT
* * *
20505065 GATGACTAAGTGTCATCGTGATTAAATGATTCCTTTATAGATTAAAGGTCC
1 GATGACTAAGTGTCATCATGAGTAAATGAATCCTTTATAGATTAAAGGTCC
*
20505116 GATGACTAAGTGTCATCATGAGTAAATGAATCCTTTACAGATTAAAGGTCC
1 GATGACTAAGTGTCATCATGAGTAAATGAATCCTTTATAGATTAAAGGTCC
* * * * *
20505167 AATGACTAAGTGTCATCATGAGTAAATGAATCCATGATGGATTAAGGGTCC
1 GATGACTAAGTGTCATCATGAGTAAATGAATCCTTTATAGATTAAAGGTCC
*
20505218 GATGACTATA-TGTCATCGTGAGTA
1 GATGACTA-AGTGTCATCATGAGTA
20505242 TTAAATGAAA
Statistics
Matches: 113, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
51 112 0.99
52 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.31
Consensus pattern (51 bp):
GATGACTAAGTGTCATCATGAGTAAATGAATCCTTTATAGATTAAAGGTCC
Found at i:20525738 original size:22 final size:22
Alignment explanation
Indices: 20525713--20525757 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
20525703 AATGCAAATG
20525713 TGTTTGAAAATTTTTGTTACAT
1 TGTTTGAAAATTTTTGTTACAT
20525735 TGTTTGAAAATTTTTGTTACAT
1 TGTTTGAAAATTTTTGTTACAT
20525757 T
1 T
20525758 CAATGCTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.04, G:0.13, T:0.56
Consensus pattern (22 bp):
TGTTTGAAAATTTTTGTTACAT
Found at i:20536602 original size:118 final size:118
Alignment explanation
Indices: 20536465--20536700 Score: 436
Period size: 118 Copynumber: 2.0 Consensus size: 118
20536455 TATATGAGTT
* *
20536465 AGCTTCTTTGCTTGCTTAGTTGCTTCAATTATTTTCTGATACTTGTCATTATGTATTTAGAAATT
1 AGCTTCTTTGCTTGCTTAGTTGCTTCAATTATTTTCTGATACTTATCACTATGTATTTAGAAATT
*
20536530 AAAAAATATATTAAATGTAAAAATATGATTTTTTTAATAAATGTTATTTTAAA
66 AAAAAATATATTAAATGTAAAAATAAGATTTTTTTAATAAATGTTATTTTAAA
*
20536583 AGCTTCTTTGCTTGCTTAGTTGCTTCAATTATTTTCTGATACTTATCACTATGTATTTTGAAATT
1 AGCTTCTTTGCTTGCTTAGTTGCTTCAATTATTTTCTGATACTTATCACTATGTATTTAGAAATT
20536648 AAAAAATATATTAAATGTAAAAATAAGATTTTTTTAATAAATGTTATTTTAAA
66 AAAAAATATATTAAATGTAAAAATAAGATTTTTTTAATAAATGTTATTTTAAA
20536701 GAAAAAATGT
Statistics
Matches: 114, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 114 1.00
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.47
Consensus pattern (118 bp):
AGCTTCTTTGCTTGCTTAGTTGCTTCAATTATTTTCTGATACTTATCACTATGTATTTAGAAATT
AAAAAATATATTAAATGTAAAAATAAGATTTTTTTAATAAATGTTATTTTAAA
Found at i:20536735 original size:118 final size:116
Alignment explanation
Indices: 20536490--20536725 Score: 298
Period size: 118 Copynumber: 2.0 Consensus size: 116
20536480 TTAGTTGCTT
* *
20536490 CAATTATTTTCTGATACTTGTCATTATGTATTTAGAAATTAAAAAATATATTAAATGTAAAAATA
1 CAATTATTTTCTGATACTTATCACTATGTATTTAGAAATTAAAAAATATATTAAATGTAAAAATA
* ****** * * **
20536555 TGATTTTTTTAATAAATGTTATTTTAAAAGCTTCTTTGCTTGCTTAGTTGCTT
66 AGATTTTTTTAATAAATGTTATTTTAAAAGAAAAAATGC-TGC-AAATTGCAC
*
20536608 CAATTATTTTCTGATACTTATCACTATGTATTTTGAAATTAAAAAATATATTAAATGTAAAAATA
1 CAATTATTTTCTGATACTTATCACTATGTATTTAGAAATTAAAAAATATATTAAATGTAAAAATA
20536673 AGATTTTTTTAATAAATGTTATTTT-AAAGAAAAAATG-TG-AAATTGGCAC
66 AGATTTTTTTAATAAATGTTATTTTAAAAGAAAAAATGCTGCAAATT-GCAC
20536722 CAAT
1 CAAT
20536726 ATAAAATTTT
Statistics
Matches: 103, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
113 3 0.03
114 6 0.06
115 2 0.02
117 6 0.06
118 86 0.83
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (116 bp):
CAATTATTTTCTGATACTTATCACTATGTATTTAGAAATTAAAAAATATATTAAATGTAAAAATA
AGATTTTTTTAATAAATGTTATTTTAAAAGAAAAAATGCTGCAAATTGCAC
Found at i:20537996 original size:47 final size:48
Alignment explanation
Indices: 20537922--20538015 Score: 118
Period size: 47 Copynumber: 2.0 Consensus size: 48
20537912 TGTGTTCTGC
*
20537922 ATTTAATTATATCATGCATTACATAAC-TCATGTTAATAAAGTTTGTG
1 ATTTAATTATATCAAGCATTACATAACTTCATGTTAATAAAGTTTGTG
* ** * *
20537969 ATTTAATTATGTCAAGCATTATGTAACTTTCATGTTAGTTAAGTTTG
1 ATTTAATTATATCAAGCATTACATAAC-TTCATGTTAATAAAGTTTG
20538016 CATCTTAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
47 23 0.59
49 16 0.41
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.45
Consensus pattern (48 bp):
ATTTAATTATATCAAGCATTACATAACTTCATGTTAATAAAGTTTGTG
Found at i:20538112 original size:14 final size:14
Alignment explanation
Indices: 20538093--20538119 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20538083 ATTTCGAATT
20538093 TCGAGTTATTCGAA
1 TCGAGTTATTCGAA
20538107 TCGAGTTATTCGA
1 TCGAGTTATTCGA
20538120 GTTAAACGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (14 bp):
TCGAGTTATTCGAA
Found at i:20538118 original size:23 final size:23
Alignment explanation
Indices: 20538092--20538136 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
20538082 AATTTCGAAT
**
20538092 TTCGAGTTATTCGAATCGAGTTA
1 TTCGAGTTAAACGAATCGAGTTA
20538115 TTCGAGTTAAACGAATCGAGTT
1 TTCGAGTTAAACGAATCGAGTT
20538137 GAATTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (23 bp):
TTCGAGTTAAACGAATCGAGTTA
Found at i:20538425 original size:42 final size:42
Alignment explanation
Indices: 20538366--20538449 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
20538356 CAAATATTTT
*
20538366 TAAACCCAAGTATAATTTCATTCTTCAAA-AACACTCATAAAC
1 TAAACCCAAATATAATTTCATTCTT-AAATAACACTCATAAAC
* *
20538408 TAAACCCAAATATAATTTTATTCTTAAATAATACTCATAAAC
1 TAAACCCAAATATAATTTCATTCTTAAATAACACTCATAAAC
20538450 AACTTCTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 3 0.08
42 35 0.92
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.32
Consensus pattern (42 bp):
TAAACCCAAATATAATTTCATTCTTAAATAACACTCATAAAC
Found at i:20539588 original size:304 final size:304
Alignment explanation
Indices: 20539039--20539646 Score: 1171
Period size: 304 Copynumber: 2.0 Consensus size: 304
20539029 AACTTGATTC
*
20539039 GTAAAAATTTCAAATCGAATTAGGATGATGAAATAGGACTCGAAAACTCGATTAACTTGAAAATT
1 GTAAAAATTTCAAATCGAATTAGGAAGATGAAATAGGACTCGAAAACTCGATTAACTTGAAAATT
* *
20539104 TTTCATTCGATTCGATCGAATGCTCACCCCTACATGTATTATGTAACTCGCATGCTAGTTAAGTT
66 TTTCATTCGATTCGATCGAATACTCACCCCTACATGTATTATGTAACTCCCATGCTAGTTAAGTT
20539169 AGCATCTTAAATTATGTCATGCATTATGTAATTTATTTGTTGATTTAGTTTGCTTCTTAATTAAA
131 AGCATCTTAAATTATGTCATGCATTATGTAATTTATTTGTTGATTTAGTTTGCTTCTTAATTAAA
20539234 CCATGCATTTAAGCATCTTATTTGTTAATTATGTTTAAAGCATGAGTTAGTTTCATAAGTGTGTG
196 CCATGCATTTAAGCATCTTATTTGTTAATTATGTTTAAAGCATGAGTTAGTTTCATAAGTGTGTG
20539299 AAGTGTGTTATTTATTTTGACTGTTACTTTTAATGCATAAATTA
261 AAGTGTGTTATTTATTTTGACTGTTACTTTTAATGCATAAATTA
20539343 GTAAAAATTTCAAATCGAATTAGGAAGATGAAATAGGACTCGAAAACTCGATTAACTTGAAAATT
1 GTAAAAATTTCAAATCGAATTAGGAAGATGAAATAGGACTCGAAAACTCGATTAACTTGAAAATT
*
20539408 TTTCATTCGATTCGATCGAATACTCACCCCTACATGTATTATGTAACTCCCATGTTAGTTAAGTT
66 TTTCATTCGATTCGATCGAATACTCACCCCTACATGTATTATGTAACTCCCATGCTAGTTAAGTT
20539473 AGCATCTTAAATTATGTCATGCATTATGTAATTTATTTGTTGATTTAGTTTGCTTCTTAATTAAA
131 AGCATCTTAAATTATGTCATGCATTATGTAATTTATTTGTTGATTTAGTTTGCTTCTTAATTAAA
*
20539538 TCATGCATTTAAGCATCTTATTTGTTAATTATGTTTAAAGCATGAGTTAGTTTCATAAGTGTGTG
196 CCATGCATTTAAGCATCTTATTTGTTAATTATGTTTAAAGCATGAGTTAGTTTCATAAGTGTGTG
20539603 AAGTGTGTTATTTATTTTGACTGTTACTTTTAATGCATAAATTA
261 AAGTGTGTTATTTATTTTGACTGTTACTTTTAATGCATAAATTA
20539647 TAGTGTGTTT
Statistics
Matches: 299, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
304 299 1.00
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (304 bp):
GTAAAAATTTCAAATCGAATTAGGAAGATGAAATAGGACTCGAAAACTCGATTAACTTGAAAATT
TTTCATTCGATTCGATCGAATACTCACCCCTACATGTATTATGTAACTCCCATGCTAGTTAAGTT
AGCATCTTAAATTATGTCATGCATTATGTAATTTATTTGTTGATTTAGTTTGCTTCTTAATTAAA
CCATGCATTTAAGCATCTTATTTGTTAATTATGTTTAAAGCATGAGTTAGTTTCATAAGTGTGTG
AAGTGTGTTATTTATTTTGACTGTTACTTTTAATGCATAAATTA
Found at i:20552369 original size:6 final size:6
Alignment explanation
Indices: 20552358--20552391 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
20552348 GTTATGGGTG
* *
20552358 GAATAT GAATAT GAAAAT AAATAT GAATAT GAAT
1 GAATAT GAATAT GAATAT GAATAT GAATAT GAAT
20552392 GATATGTGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.29
Consensus pattern (6 bp):
GAATAT
Done.