Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007806.1 Hibiscus syriacus cultivar Beakdansim tig00110125_pilon, whole genome shotgun sequence
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: 416740
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:18356 original size:20 final size:20
Alignment explanation
Indices: 18333--18378 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
18323 ATGACTCCAT
18333 TGAGCCGGAAGGAACTCCGC
1 TGAGCCGGAAGGAACTCCGC
18353 TGAGCCGGAAGGAACTCCGC
1 TGAGCCGGAAGGAACTCCGC
18373 TGAGCC
1 TGAGCC
18379 AGGCTCTTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.24, C:0.30, G:0.35, T:0.11
Consensus pattern (20 bp):
TGAGCCGGAAGGAACTCCGC
Found at i:19451 original size:22 final size:22
Alignment explanation
Indices: 19408--19461 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 22
19398 AACAACCATA
19408 AGTAAAACATAATTCATTATTC
1 AGTAAAACATAATTCATTATTC
19430 A-TAAAACATAAAATT-ATTATTC
1 AGTAAAACAT--AATTCATTATTC
19452 AGGTAAAACA
1 A-GTAAAACA
19462 AAGTTTAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 8 0.29
22 9 0.32
23 4 0.14
24 7 0.25
ACGTcount: A:0.52, C:0.11, G:0.06, T:0.31
Consensus pattern (22 bp):
AGTAAAACATAATTCATTATTC
Found at i:26243 original size:24 final size:23
Alignment explanation
Indices: 26216--26260 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
26206 CAACCTTACT
26216 TAGATCA-ATTTGTGGTGGTATTTA
1 TAGATCATATTT-TGGT-GTATTTA
*
26240 TAGATGATATTTTGGTGTATT
1 TAGATCATATTTTGGTGTATT
26261 CCAAGTAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 10 0.53
25 4 0.21
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.49
Consensus pattern (23 bp):
TAGATCATATTTTGGTGTATTTA
Found at i:28711 original size:4 final size:4
Alignment explanation
Indices: 28702--28736 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
28692 CTATTAGTAA
*
28702 GAAT GAAT GAAT GAAT GAAT GAAT AAAT GAAT GAA
1 GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAA
28737 AGGGCATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (4 bp):
GAAT
Found at i:30188 original size:54 final size:54
Alignment explanation
Indices: 30124--30241 Score: 132
Period size: 54 Copynumber: 2.2 Consensus size: 54
30114 AATGATGCAT
* *
30124 TTTCAACACTAAATGTACAA-CTCATGGTATTCATAATG-TGTTTATGAATGACCA
1 TTTCAGCACTAAATGTACAATC-CATGGAATTCATAATGAT-TTTATGAATGACCA
** * **
30178 TTTCAGCACTATGTGTACAATCCATGGAATTCATAATGATTTTGTGAATTTCCA
1 TTTCAGCACTAAATGTACAATCCATGGAATTCATAATGATTTTATGAATGACCA
*
30232 TTTCGGCACT
1 TTTCAGCACT
30242 TCAGTGGAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
54 52 0.96
55 2 0.04
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (54 bp):
TTTCAGCACTAAATGTACAATCCATGGAATTCATAATGATTTTATGAATGACCA
Found at i:34567 original size:45 final size:45
Alignment explanation
Indices: 34511--34625 Score: 178
Period size: 45 Copynumber: 2.6 Consensus size: 45
34501 CATTTCTTAT
* *
34511 CAATCTACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTAC
*
34556 CAATATACTTACCATTTGTTCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTAC
* *
34601 CAATACACTTGCCA-TTATTCCATAA
1 CAATATACTTACCATTTATTCCATAA
34626 TCATATACCA
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
44 10 0.16
45 54 0.84
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.37
Consensus pattern (45 bp):
CAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTAC
Found at i:34761 original size:33 final size:33
Alignment explanation
Indices: 34724--34790 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
34714 ACCGTAGTGC
*
34724 TAATCCTTATGACACATAAGGTCGTGTCCACCA
1 TAATCCGTATGACACATAAGGTCGTGTCCACCA
34757 TAATCCGTATGACACATAAGGTCGTGTCCACCA
1 TAATCCGTATGACACATAAGGTCGTGTCCACCA
34790 T
1 T
34791 CTGTACTAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (33 bp):
TAATCCGTATGACACATAAGGTCGTGTCCACCA
Found at i:42466 original size:72 final size:72
Alignment explanation
Indices: 42362--42526 Score: 199
Period size: 72 Copynumber: 2.3 Consensus size: 72
42352 CTTTTACACT
* * * * * *
42362 TTGAGATATTTTTCTTTGAAATTTTTTGTCTCACTCGAGATGGTTTATC-TCGAAACAAA-ATTT
1 TTGAGATATTTTCCCTTAAAATTTTTCGTCTCACTCAAGATAGTTTATCAT-GAAACAAATATTT
42425 CATCTCAC
65 CATCTCAC
* *
42433 TTGAGATATTTTCCCTTAAACATTTTTCGTCTCACTCAAGATAGTTTCTCATGAAACAAATTTTT
1 TTGAGATATTTTCCCTTAAA-ATTTTTCGTCTCACTCAAGATAGTTTATCATGAAACAAATATTT
*
42498 TATCTCAC
65 CATCTCAC
* *
42506 TTGAGATGTTTTCTCTTAAAA
1 TTGAGATATTTTCCCTTAAAA
42527 AAATTTCATC
Statistics
Matches: 80, Mismatches: 11, Indels: 5
0.83 0.11 0.05
Matches are distributed among these distances:
71 17 0.21
72 34 0.43
73 29 0.36
ACGTcount: A:0.28, C:0.18, G:0.11, T:0.44
Consensus pattern (72 bp):
TTGAGATATTTTCCCTTAAAATTTTTCGTCTCACTCAAGATAGTTTATCATGAAACAAATATTTC
ATCTCAC
Found at i:43242 original size:15 final size:15
Alignment explanation
Indices: 43222--43257 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
43212 GCATATTTAA
43222 GCTTAATGCAATTTG
1 GCTTAATGCAATTTG
43237 GCTTAATGCAATTTG
1 GCTTAATGCAATTTG
43252 GCTTAA
1 GCTTAA
43258 CTCAACGGCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (15 bp):
GCTTAATGCAATTTG
Found at i:43805 original size:44 final size:44
Alignment explanation
Indices: 43764--43895 Score: 147
Period size: 44 Copynumber: 3.0 Consensus size: 44
43754 TACTCATCTA
* ** *
43764 AAAAACATTTCACTTATCTTAAACCTGCGAAGGGAAGTCATCCG
1 AAAAACACTTCACTTGCCTTAAACCTGCGAAGGGGAGTCATCCG
* * ** *
43808 AAGAACACTTGACTTGGATTAAACCCGCGAAGGGGAGTCATCCG
1 AAAAACACTTCACTTGCCTTAAACCTGCGAAGGGGAGTCATCCG
* *
43852 AATAACACTTCACCTGCCTTAAACCCTCGCGAAGGGGAGTCATC
1 AAAAACACTTCACTTGCCTTAAA-CCT-GCGAAGGGGAGTCATC
43896 GGAAGAATAT
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
44 54 0.75
45 2 0.03
46 16 0.22
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (44 bp):
AAAAACACTTCACTTGCCTTAAACCTGCGAAGGGGAGTCATCCG
Found at i:49179 original size:25 final size:25
Alignment explanation
Indices: 49125--49179 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
49115 GTTATAATTC
*
49125 ATAA-CATAGTTTGAATCAATCAGT
1 ATAATCATAGTCTGAATCAATCAGT
49149 ATTAATCATAGTCTGAATCAA-CAGT
1 A-TAATCATAGTCTGAATCAATCAGT
49174 GATAAT
1 -ATAAT
49180 TATAAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 1 0.04
25 11 0.41
26 15 0.56
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.33
Consensus pattern (25 bp):
ATAATCATAGTCTGAATCAATCAGT
Found at i:50175 original size:25 final size:25
Alignment explanation
Indices: 50141--50189 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
50131 TAACAACGAC
*
50141 CACATTAATTAAGGCCTTCGGTGAT
1 CACATTAATTAAGGCCGTCGGTGAT
*
50166 CACATTAATTAAGGTCGTCGGTGA
1 CACATTAATTAAGGCCGTCGGTGA
50190 CCAAAGTCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (25 bp):
CACATTAATTAAGGCCGTCGGTGAT
Found at i:52625 original size:18 final size:18
Alignment explanation
Indices: 52602--52649 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
52592 ACTATTGAGC
52602 CTGGAATTGTAAGATAGG
1 CTGGAATTGTAAGATAGG
52620 CTGGAATTGTAAGATAGG
1 CTGGAATTGTAAGATAGG
* *
52638 TTGAAATTGTAA
1 CTGGAATTGTAA
52650 TAGAAATTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.31
Consensus pattern (18 bp):
CTGGAATTGTAAGATAGG
Found at i:53117 original size:44 final size:44
Alignment explanation
Indices: 53009--53533 Score: 719
Period size: 44 Copynumber: 12.0 Consensus size: 44
52999 CTGCTCTAAA
* * *
53009 ATAAATGAAAACGCATAACGGTGCATTATTGGCATAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGTC
* **
53053 AT-AATGAAAATGCATAACGGTGGATTATTGGCAGAAATATGTC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGTC
*
53096 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGAC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGTC
* * *
53140 ATATATTAAAATGCATAACGGTGCATTATTGGCATAAAGGTGTC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGTC
* *
53184 ATAAATGAAAATGCATAACGGTGCATTATTGGCATAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGTC
* *
53228 ATAAATGAAAATGCATAACGGTGCATTATTGGCATAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGTC
* * * *
53272 ATAAATGAAAATGTATAATGGTGCATTATTGGCAGAAATGTTTC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGTC
* * *
53316 ATAAATGAAAATGCATAATGGTGCATTTTTGGCAGAAATGTGTC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGTC
* *
53360 ATAAATGAAAATGCATAATGGTGCATTATTGGTAGAAAGGTGTC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGTC
* ** * * *
53404 ATAAATGAAAATGTATAACAATACATTATTTGCAGAAAGGTATC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGTC
* * * * **
53448 ATAAATGAAAATGCATAAGGGTACATTATTAGTAGAAAGGTACC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGTC
*
53492 ATAAATGAAAATGCATAACGGTACATTATTGGCAGAAAGGTG
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTG
53534 CCACTCATGG
Statistics
Matches: 432, Mismatches: 48, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 0.09
44 395 0.91
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.27
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGTC
Found at i:53199 original size:25 final size:24
Alignment explanation
Indices: 53171--53297 Score: 85
Period size: 25 Copynumber: 5.6 Consensus size: 24
53161 TGCATTATTG
53171 GCATAAAGGTGTCATAAATGAAAAT
1 GCATAAAGGTG-CATAAATGAAAAT
* * *
53196 GCATAACGGTGCATTATTG-----
1 GCATAAAGGTGCATAAATGAAAAT
53215 GCATAAAGGTGCCATAAATGAAAAT
1 GCATAAAGGTG-CATAAATGAAAAT
* * *
53240 GCATAACGGTGCATTATTG-----
1 GCATAAAGGTGCATAAATGAAAAT
53259 GCATAAAGGTGCCATAAATGAAAAT
1 GCATAAAGGTG-CATAAATGAAAAT
* *
53284 GTATAATGGTGCAT
1 GCATAAAGGTGCAT
53298 TATTGGCAGA
Statistics
Matches: 76, Mismatches: 14, Indels: 25
0.66 0.12 0.22
Matches are distributed among these distances:
19 20 0.26
20 12 0.16
24 15 0.20
25 29 0.38
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (24 bp):
GCATAAAGGTGCATAAATGAAAAT
Found at i:56751 original size:3 final size:3
Alignment explanation
Indices: 56743--56774 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
56733 CGATTTTGAT
*
56743 ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
56775 TTTACATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:63294 original size:45 final size:45
Alignment explanation
Indices: 63239--63379 Score: 132
Period size: 45 Copynumber: 3.2 Consensus size: 45
63229 TATCGAACAC
63239 AATTATTAAATTTTATCAAACTAATATCAATTTGGTATTTGAATAT
1 AATT-TTAAATTTTATCAAACTAATATCAATTTGGTATTTGAATAT
*** * * * * * *
63285 AATTTTAAATACAACCAAACTGAAGA--AA---GTTA-TCGAACAC
1 AATTTTAAATTTTATCAAACT-AATATCAATTTGGTATTTGAATAT
*
63325 AATTATAAATTTTATCAAACTAATATCAATTTGGTATTTGAATAT
1 AATTTTAAATTTTATCAAACTAATATCAATTTGGTATTTGAATAT
63370 AATTTTAAAT
1 AATTTTAAAT
63380 ACAACAAACT
Statistics
Matches: 68, Mismatches: 20, Indels: 15
0.66 0.19 0.15
Matches are distributed among these distances:
39 3 0.04
40 21 0.31
41 5 0.07
44 5 0.07
45 27 0.40
46 7 0.10
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (45 bp):
AATTTTAAATTTTATCAAACTAATATCAATTTGGTATTTGAATAT
Found at i:63345 original size:40 final size:40
Alignment explanation
Indices: 63214--63345 Score: 104
Period size: 40 Copynumber: 3.1 Consensus size: 40
63204 TAATAAGTGA
63214 CAAACTGAAGAAAGTTATCGAACACAATTATTAAATTTTAT
1 CAAACTGAAGAAAGTTATCGAACACAATTA-TAAATTTTAT
* * * * * * *** *
63255 CAAACT-AATATCAATTTGGTATTTGAATATAATTTTAAATACAAC
1 CAAACTGAAGA--AA---GTTA-TCGAACACAATTATAAATTTTAT
63300 CAAACTGAAGAAAGTTATCGAACACAATTATAAATTTTAT
1 CAAACTGAAGAAAGTTATCGAACACAATTATAAATTTTAT
63340 CAAACT
1 CAAACT
63346 AATATCAATT
Statistics
Matches: 64, Mismatches: 20, Indels: 15
0.65 0.20 0.15
Matches are distributed among these distances:
40 24 0.38
41 9 0.14
42 2 0.03
44 2 0.03
45 15 0.23
46 12 0.19
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (40 bp):
CAAACTGAAGAAAGTTATCGAACACAATTATAAATTTTAT
Found at i:63360 original size:85 final size:85
Alignment explanation
Indices: 63213--63389 Score: 338
Period size: 85 Copynumber: 2.1 Consensus size: 85
63203 ATAATAAGTG
63213 ACAAACTGAAGAAAGTTATCGAACACAATTATTAAATTTTATCAAACTAATATCAATTTGGTATT
1 ACAAACTGAAGAAAGTTATCGAACACAATTATTAAATTTTATCAAACTAATATCAATTTGGTATT
63278 TGAATATAATTTTAAATACA
66 TGAATATAATTTTAAATACA
63298 ACCAAACTGAAGAAAGTTATCGAACACAATTA-TAAATTTTATCAAACTAATATCAATTTGGTAT
1 A-CAAACTGAAGAAAGTTATCGAACACAATTATTAAATTTTATCAAACTAATATCAATTTGGTAT
63362 TTGAATATAATTTTAAATACA
65 TTGAATATAATTTTAAATACA
63383 ACAAACT
1 ACAAACT
63390 TACAATAAGT
Statistics
Matches: 91, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
84 6 0.07
85 55 0.60
86 30 0.33
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.34
Consensus pattern (85 bp):
ACAAACTGAAGAAAGTTATCGAACACAATTATTAAATTTTATCAAACTAATATCAATTTGGTATT
TGAATATAATTTTAAATACA
Found at i:63460 original size:35 final size:34
Alignment explanation
Indices: 63375--63461 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
63365 AATATAATTT
*
63375 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGG
* *
63409 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--G-TATTAAATGG
63447 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
63462 ACCAAAATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 4 0.09
38 11 0.24
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGG
Found at i:63537 original size:33 final size:33
Alignment explanation
Indices: 63456--63539 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 33
63446 GTAATAAACA
*
63456 AAATTAACCAAAATACATTAACAAAAAGTCCAAC
1 AAATTAA-CAAAATAAATTAACAAAAAGTCCAAC
*
63490 AAATTTAATAAAATAAATTAA-AATAAA-TCCAACC
1 AAA-TTAACAAAATAAATTAACAA-AAAGTCCAA-C
*
63524 AAATTAACGAAATAAA
1 AAATTAACAAAATAAA
63540 GTAAGTATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
33 18 0.42
34 21 0.49
35 4 0.09
ACGTcount: A:0.62, C:0.14, G:0.02, T:0.21
Consensus pattern (33 bp):
AAATTAACAAAATAAATTAACAAAAAGTCCAAC
Found at i:65727 original size:17 final size:18
Alignment explanation
Indices: 65709--65741 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
65699 TAATTAAATA
65709 AAATA-TTAAA-AAATTT
1 AAATACTTAAATAAATTT
65725 AAATACTTAAATAAATT
1 AAATACTTAAATAAATT
65742 ACAAACAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
AAATACTTAAATAAATTT
Found at i:80516 original size:15 final size:15
Alignment explanation
Indices: 80498--80527 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
80488 AAAACCATGT
80498 TAGATAAAAAAGTAA
1 TAGATAAAAAAGTAA
*
80513 TAGATAAAAAGGTAA
1 TAGATAAAAAAGTAA
80528 GAAATAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.17, T:0.20
Consensus pattern (15 bp):
TAGATAAAAAAGTAA
Found at i:80648 original size:17 final size:17
Alignment explanation
Indices: 80626--80675 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
80616 AAATAAATAT
80626 AAAAAATAAAGAAAAAGA
1 AAAAAATAAAGAAAAA-A
* *
80644 AAAAAATATAGAAATAA
1 AAAAAATAAAGAAAAAA
* *
80661 AACAAATAAATAAAA
1 AAAAAATAAAGAAAA
80676 TAATAATAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.80, C:0.02, G:0.06, T:0.12
Consensus pattern (17 bp):
AAAAAATAAAGAAAAAA
Found at i:80710 original size:40 final size:39
Alignment explanation
Indices: 80666--80751 Score: 129
Period size: 39 Copynumber: 2.2 Consensus size: 39
80656 AATAAAACAA
80666 ATAAATAAAATAATAATAAAAAAGTAAAAATA-ATATATAT
1 ATAAATAAAA-AATAA-AAAAAAGTAAAAATATATATATAT
*
80706 ATAAAATAAAAAATAAAAAAAAGTAAATATATATATATAT
1 AT-AAATAAAAAATAAAAAAAAGTAAAAATATATATATAT
80746 ATAAAT
1 ATAAAT
80752 TAATAAAACT
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
39 18 0.42
40 17 0.40
41 8 0.19
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (39 bp):
ATAAATAAAAAATAAAAAAAAGTAAAAATATATATATAT
Found at i:80716 original size:30 final size:31
Alignment explanation
Indices: 80611--80738 Score: 100
Period size: 30 Copynumber: 4.4 Consensus size: 31
80601 ATAAAATAGT
80611 AAGTAAA-ATA-AAT-ATAAAAAATAAAGAAA
1 AAGTAAATATATAATAATAAAAAATAAA-AAA
* *
80640 AAG-AAA-A-A-AAT-AT-AGAAATAAAACA
1 AAGTAAATATATAATAATAAAAAATAAAAAA
* *
80665 AA-TAAATAAAATAATAATAAAAAAGTAAAAAT
1 AAGTAAAT-ATATAATAATAAAAAA-TAAAAAA
*
80697 AA-TATATATATAA-AATAAAAAATAAAAAA
1 AAGTAAATATATAATAATAAAAAATAAAAAA
80726 AAGTAAATATATA
1 AAGTAAATATATA
80739 TATATATATA
Statistics
Matches: 81, Mismatches: 9, Indels: 17
0.76 0.08 0.16
Matches are distributed among these distances:
25 7 0.09
26 8 0.10
27 7 0.09
28 5 0.06
29 14 0.17
30 20 0.25
31 9 0.11
32 11 0.14
ACGTcount: A:0.74, C:0.01, G:0.05, T:0.20
Consensus pattern (31 bp):
AAGTAAATATATAATAATAAAAAATAAAAAA
Found at i:80718 original size:24 final size:22
Alignment explanation
Indices: 80637--80721 Score: 64
Period size: 25 Copynumber: 3.6 Consensus size: 22
80627 AAAAATAAAG
* *
80637 AAAAAGAAAAA-AATATAGAAAT
1 AAAAAAAAAAATAATATA-ATAT
* *
80659 AAAACAAATAAATAAAATAATAAT
1 AAAA-AAAAAAATAATATAAT-AT
80683 AAAAAAGTAAAAATAATATATATAT
1 AAAAAA--AAAAATAATATA-ATAT
*
80708 AAAATAAAAAATAA
1 AAAAAAAAAAATAA
80722 AAAAAAGTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
22 4 0.08
23 16 0.32
24 11 0.22
25 17 0.34
26 2 0.04
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.20
Consensus pattern (22 bp):
AAAAAAAAAAATAATATAATAT
Found at i:80724 original size:36 final size:37
Alignment explanation
Indices: 80670--80759 Score: 110
Period size: 40 Copynumber: 2.4 Consensus size: 37
80660 AAACAAATAA
*
80670 ATAAAAT-AATAATAAAAAAGTAAAAATAATATATAT
1 ATAAAATAAAAAATAAAAAAGTAAAAATAATATATAT
*
80706 ATAAAATAAAAAATAAAAAAAAGTAAATATATATATATAT
1 ATAAAATAAAAAAT--AAAAAAGTAAAAATA-ATATATAT
*
80746 ATAAATTAATAAAA
1 ATAAAATAA-AAAA
80760 CTGATAATAA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
36 7 0.15
37 5 0.11
39 14 0.30
40 16 0.35
41 4 0.09
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (37 bp):
ATAAAATAAAAAATAAAAAAGTAAAAATAATATATAT
Found at i:80780 original size:40 final size:36
Alignment explanation
Indices: 80680--80793 Score: 104
Period size: 40 Copynumber: 2.9 Consensus size: 36
80670 ATAAAATAAT
80680 AATAAAAAAGTAAAAATAATATATATATA-AAATAAAA
1 AATAAAAAA--AAAAATAATATATATATATAAATAAAA
80717 AATAAAAAAAAGTAAATATATATATATATATAAATTAATAA
1 AATAAAAAAAA--AAATA-ATATATATATATAAA-TAA-AA
* * * *
80758 AACTGATAATAAAAAATAATATATTTATATATATAA
1 AA-T-AAAAAAAAAAATAATATATATATATAAATAA
80794 TCTAAAAAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
35 2 0.03
37 14 0.22
38 11 0.17
39 6 0.09
40 16 0.25
41 9 0.14
42 1 0.02
43 6 0.09
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.31
Consensus pattern (36 bp):
AATAAAAAAAAAAATAATATATATATATAAATAAAA
Found at i:80835 original size:25 final size:25
Alignment explanation
Indices: 80798--80854 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
80788 ATATAATCTA
*
80798 AAAAAAATAAAAATATATACTAAA-GT
1 AAAAAAATAAAAATACATA--AAATGT
*
80824 AAAAAAA-GAAAATACATAAAATGT
1 AAAAAAATAAAAATACATAAAATGT
80848 AAAAAAA
1 AAAAAAA
80855 ATATTACATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 3 0.11
24 9 0.32
25 9 0.32
26 7 0.25
ACGTcount: A:0.74, C:0.04, G:0.05, T:0.18
Consensus pattern (25 bp):
AAAAAAATAAAAATACATAAAATGT
Found at i:80868 original size:24 final size:22
Alignment explanation
Indices: 80806--80882 Score: 68
Period size: 24 Copynumber: 3.4 Consensus size: 22
80796 TAAAAAAAAT
80806 AAAAATATATAC-T-AAAGTAAA
1 AAAAATA-ATACATAAAAGTAAA
*
80827 AAAAGAAAATACATAAAATGTAAA
1 AAAA-ATAATACATAAAA-GTAAA
* *
80851 AAAAATATTACATGAAAAGAAAA
1 AAAAATAATACAT-AAAAGTAAA
80874 GAAAAATAA
1 -AAAAATAA
80883 CAAAACAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
21 8 0.18
22 3 0.07
23 14 0.31
24 20 0.44
ACGTcount: A:0.70, C:0.04, G:0.08, T:0.18
Consensus pattern (22 bp):
AAAAATAATACATAAAAGTAAA
Found at i:81233 original size:34 final size:34
Alignment explanation
Indices: 81190--81258 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
81180 GAATCCTAGC
81190 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
* *
81224 AAAATTCTATCCTATTTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
81258 A
1 A
81259 GTAGGACGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (34 bp):
AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
Found at i:82105 original size:105 final size:105
Alignment explanation
Indices: 81807--82428 Score: 891
Period size: 105 Copynumber: 6.0 Consensus size: 105
81797 CATTGTTCCA
* * * ** *
81807 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCT-GGAACCGGGAAATTGTTTGTTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAG-ATTGGGAAGTTG-TTGTTGACAA
* * * * * *
81871 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTATCG
64 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
** * *
81913 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGAATCT--GAAT--GAAATT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAGATTGGGAAGTTGTTGTTGACAAGC
*
81973 AGCGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
82013 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAGATTGGGAAGTTGTTGTTGACAAGC
*
82078 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
82118 AGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAGATTGGGAAGTTGTTGTTGACAAGC
*
82183 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
82223 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAA-ATTGAGAAGTTGTTGTTGACAGG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-AAGATTGGGAAGTTGTTGTTGACAAG
82287 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
82328 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAA-ATTGAGAAGTTGTTTGTTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-AAGATTGGGAAGTTG-TTGTTGACAA
* * * *
82392 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
64 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
82429 CCTCGAGTGC
Statistics
Matches: 476, Mismatches: 33, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
100 81 0.17
102 9 0.02
104 6 0.01
105 303 0.64
106 77 0.16
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAGATTGGGAAGTTGTTGTTGACAAGC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:83202 original size:67 final size:68
Alignment explanation
Indices: 83058--83228 Score: 204
Period size: 68 Copynumber: 2.5 Consensus size: 68
83048 GGAAACGATC
* * *
83058 TCAAAGATATCTGTTGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAA
1 TCAAAGAT-TTTG-TGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAA
83123 TAAAT
64 TAAAT
** * * * *
83128 TTGAAGATTTTGTGTTTCAAGAGTAACTGTCTCAAGGGAGATAAAATT-TGTTTTAGGGGAAATA
1 TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATA
83192 AAT
66 AAT
* *
83195 TCAAAGATTTTGT-TTT-AAGGGAAACTATCTCAAG
1 TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAG
83229 ATAGACGAAA
Statistics
Matches: 87, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
65 15 0.17
66 3 0.03
67 29 0.33
68 31 0.36
69 3 0.03
70 6 0.07
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (68 bp):
TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATA
AAT
Found at i:83255 original size:36 final size:35
Alignment explanation
Indices: 83204--83484 Score: 245
Period size: 36 Copynumber: 8.0 Consensus size: 35
83194 TTCAAAGATT
* * * *
83204 TTGTTTTAAGGGAAACTATCTCAAGATAGACGAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAA
83240 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * * * *
83275 CTTAGTTCCAAAAGAAACGGTCTCAAGGGAGACAGTAT
1 -TT-GTTTCAAGAGAAACTGTCTCAAGAGAGACA-AAA
* * **
83313 TTGTTTCAA-AGAAAACATAT-TC---A-A-A-TATT
1 TTGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAA
*
83342 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * *
83377 TTTATTTCAAGGGAAACTGTCTCAAGATAGACGAAAT
1 -TTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAA
83414 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
*
83449 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 -TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
83485 CTCTTCTAGT
Statistics
Matches: 199, Mismatches: 30, Indels: 32
0.76 0.11 0.12
Matches are distributed among these distances:
28 2 0.01
29 16 0.08
30 1 0.01
31 1 0.01
32 2 0.01
33 1 0.01
34 1 0.01
35 10 0.05
36 132 0.66
37 32 0.16
38 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.26
Consensus pattern (35 bp):
TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
Found at i:83315 original size:138 final size:137
Alignment explanation
Indices: 83156--83465 Score: 397
Period size: 138 Copynumber: 2.3 Consensus size: 137
83146 AAGAGTAACT
* * * * *
83156 GTCTCAAGGGAGATAAAATTTGTTTTAGGGGAAATAAATTCAAAGATTTTGTTTTAAGGGAAACT
1 GTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAAATTCAAAGATTTTGTTTCAAGGGAAACT
* *
83221 ATCTCAAGATAGACGAAAA-TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCA
66 ATCTCAAGAGAGAC-AAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTAGTTCCA
83285 AAAGAAACG
129 AAAGAAACG
** * * * *
83294 GTCTCAAGGGAGACAGTATTTGTTTCAAAGAAAACATATTCAAATATTTTGTTTCAAGGGAAACT
1 GTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAAATTCAAAGATTTTGTTTCAAGGGAAACT
* * * * * * *
83359 GTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGATAGACGAAATTTGTTTCAAG
66 ATCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTAGTTCCAAA
*
83424 AGAAACT
131 AGAAACG
*
83431 GTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAAC
1 GTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAAC
83466 TGTCTCAAGA
Statistics
Matches: 145, Mismatches: 26, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
137 48 0.33
138 97 0.67
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (137 bp):
GTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAAATTCAAAGATTTTGTTTCAAGGGAAACT
ATCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTAGTTCCAAA
AGAAACG
Found at i:83428 original size:102 final size:102
Alignment explanation
Indices: 83240--83428 Score: 265
Period size: 102 Copynumber: 1.9 Consensus size: 102
83230 TAGACGAAAA
*
83240 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACGGTCTCAAGGGA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACGGTCTCAAGAGA
*
83305 GACAGTATTTGTTTCAAAGAAAACATATTCAAATATT
66 GACAGAATTTGTTTCAAAGAAAACATATTCAAATATT
* * * ** * *
83342 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTA-TTTCAAGGGAAACTGTCTCAAGATA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACGGTCTCAAGAGA
83406 GAC-GAAATTTGTTTCAAGAGAAA
66 GACAG-AATTTGTTTCAA-AGAAA
83429 CTGTCTCAAG
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
100 1 0.01
101 33 0.43
102 42 0.55
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (102 bp):
TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACGGTCTCAAGAGA
GACAGAATTTGTTTCAAAGAAAACATATTCAAATATT
Found at i:83506 original size:35 final size:36
Alignment explanation
Indices: 83346--83518 Score: 172
Period size: 36 Copynumber: 4.8 Consensus size: 36
83336 AATATTTTGT
* * **
83346 TTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTAT
1 TTCAAGGAAAACTGTCTCAAGAGAGACAAAATCTGC
* * * * *
83382 TTCAAGGGAAACTGTCTCAAGATAGACGAAATTTGT
1 TTCAAGGAAAACTGTCTCAAGAGAGACAAAATCTGC
* *
83418 TTCAA-GAGAAACTGTCTCAAGAGAGACAAAATTTGT
1 TTCAAGGA-AAACTGTCTCAAGAGAGACAAAATCTGC
*
83454 TTCAAGGGAAACTGTCTCAAGAGAGACAAAA-CT-C
1 TTCAAGGAAAACTGTCTCAAGAGAGACAAAATCTGC
* * *
83488 TTCTAGTGAAAACGGTCTCAAGCGAGACAAA
1 TTCAAG-GAAAACTGTCTCAAGAGAGACAAA
83519 TCTTGTTTTA
Statistics
Matches: 121, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
34 5 0.04
35 23 0.19
36 92 0.76
37 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (36 bp):
TTCAAGGAAAACTGTCTCAAGAGAGACAAAATCTGC
Found at i:83992 original size:18 final size:18
Alignment explanation
Indices: 83965--84000 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
83955 TGTTGAATCC
* *
83965 CCAAAGATGCCTCAATAT
1 CCAAAAATGCCCCAATAT
83983 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
84001 TTGATGTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.31, G:0.08, T:0.19
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:85068 original size:23 final size:23
Alignment explanation
Indices: 85042--85086 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
85032 TTGCATGTGC
*
85042 TTTTTGCCCCTTTTTCTTTTTGA
1 TTTTTGCCCCTTTTTCCTTTTGA
* *
85065 TTTTTGCTCTTTTTTCCTTTTG
1 TTTTTGCCCCTTTTTCCTTTTG
85087 TTCTTGTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.02, C:0.20, G:0.09, T:0.69
Consensus pattern (23 bp):
TTTTTGCCCCTTTTTCCTTTTGA
Found at i:85084 original size:8 final size:7
Alignment explanation
Indices: 85072--85145 Score: 64
Period size: 8 Copynumber: 10.1 Consensus size: 7
85062 TGATTTTTGC
85072 TCTTTTT
1 TCTTTTT
85079 TCCTTTTGT
1 T-CTTTT-T
85088 TCTTGTTT
1 TCTT-TTT
85096 CTCTTTTT
1 -TCTTTTT
85104 T-TTTTT
1 TCTTTTT
85110 T-TTTTT
1 TCTTTTT
85116 T-TTTTT
1 TCTTTTT
*
85122 GCTTTTT
1 TCTTTTT
85129 TGCTTCTTT
1 T-CTT-TTT
85138 TCTTTTT
1 TCTTTTT
85145 T
1 T
85146 GTTCTTGATT
Statistics
Matches: 58, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
6 17 0.29
7 11 0.19
8 18 0.31
9 12 0.21
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.81
Consensus pattern (7 bp):
TCTTTTT
Found at i:88173 original size:15 final size:15
Alignment explanation
Indices: 88155--88184 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
88145 AAAACCATGT
88155 TAGATAAAAAGGTAA
1 TAGATAAAAAGGTAA
88170 TAGATAAAAAGGTAA
1 TAGATAAAAAGGTAA
88185 GAAATAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (15 bp):
TAGATAAAAAGGTAA
Found at i:88191 original size:15 final size:15
Alignment explanation
Indices: 88158--88192 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
88148 ACCATGTTAG
* *
88158 ATAAAAAGGTAATAG
1 ATAAAAAGGTAAGAA
88173 ATAAAAAGGTAAGAA
1 ATAAAAAGGTAAGAA
88188 ATAAA
1 ATAAA
88193 TAAATTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAAAAGGTAAGAA
Found at i:88305 original size:17 final size:16
Alignment explanation
Indices: 88283--88331 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
88273 AAATAAATAT
88283 AAAAAATAAAGAAAAA
1 AAAAAATAAAGAAAAA
*
88299 GAAAAAATATAGAAATAA
1 -AAAAAATAAAGAAA-AA
* *
88317 AACAAATAAATAAAA
1 AAAAAATAAAGAAAA
88332 TAATAATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 1 0.04
17 24 0.89
18 2 0.07
ACGTcount: A:0.80, C:0.02, G:0.06, T:0.12
Consensus pattern (16 bp):
AAAAAATAAAGAAAAA
Found at i:88353 original size:29 final size:28
Alignment explanation
Indices: 88320--88393 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 28
88310 GAAATAAAAC
88320 AAATAAATAAA-ATA-ATAATAAAAAAGTAA
1 AAAT-AATAAATATATA-AATAAAAAA-TAA
*
88349 AAATAATATATATATAAATAAAAAATAA
1 AAATAATAAATATATAAATAAAAAATAA
88377 AAA-AAGTAATATATATA
1 AAATAA-TAA-ATATATA
88394 TATATATATA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
27 2 0.05
28 13 0.33
29 23 0.59
30 1 0.03
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (28 bp):
AAATAATAAATATATAAATAAAAAATAA
Found at i:88378 original size:47 final size:45
Alignment explanation
Indices: 88271--88380 Score: 118
Period size: 46 Copynumber: 2.4 Consensus size: 45
88261 AAATAGTAAG
*
88271 TAAAAT-AAATATAAAAAATAA-AGAAAAAGAAAAAATATAGAAA
1 TAAAATAAAAAATAAAAAATAATAGAAAAAGAAAAAATATAGAAA
* * * *
88314 TAAAACAAATAAATAAAATAATAATA-AAAAAGTAAAAATAATATATA
1 TAAAATAAA-AAATAAAA-AATAATAGAAAAAGAAAAAAT-ATAGAAA
88361 TATAAATAAAAAATAAAAAA
1 TA-AAATAAAAAATAAAAAA
88381 AGTAATATAT
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
43 5 0.09
44 2 0.04
45 7 0.13
46 19 0.35
47 16 0.29
48 6 0.11
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.20
Consensus pattern (45 bp):
TAAAATAAAAAATAAAAAATAATAGAAAAAGAAAAAATATAGAAA
Found at i:88518 original size:24 final size:22
Alignment explanation
Indices: 88448--88532 Score: 70
Period size: 23 Copynumber: 3.8 Consensus size: 22
88438 ATATATAATC
*
88448 TAAAA-TAAAATAAATATATAC-
1 TAAAAGTAAAAAAAATA-ATACA
88469 T-AAAGTAAAAAAGAA-AATACA
1 TAAAAGTAAAAAA-AATAATACA
*
88490 TAAAATGTAAAAAAAATATTACA
1 TAAAA-GTAAAAAAAATAATACA
*
88513 TGAAAAGAAAAGAAAAATAA
1 T-AAAAGTAAA-AAAAATAA
88533 CAAAACAATT
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
20 7 0.13
21 9 0.17
22 7 0.13
23 18 0.35
24 11 0.21
ACGTcount: A:0.69, C:0.04, G:0.07, T:0.20
Consensus pattern (22 bp):
TAAAAGTAAAAAAAATAATACA
Found at i:88883 original size:34 final size:34
Alignment explanation
Indices: 88840--88905 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
88830 GAATCCTAGC
88840 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
*
88874 AAAATTCTATCATATTTTTAGGAGTTTGAATC
1 AAAATTCTATCATATCTTTAGGAGTTTGAATC
88906 TTAGTAGGAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (34 bp):
AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
Found at i:89092 original size:25 final size:25
Alignment explanation
Indices: 89036--89085 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
89026 TTTTTTCCAT
89036 ATTTTATATTTTAATATTTTTAAAA
1 ATTTTATATTTTAATATTTTTAAAA
* *
89061 ATTTTATCATTTTATTTTTTTTAAA
1 ATTTTAT-ATTTTAATATTTTTAAA
89086 TTTTTATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (25 bp):
ATTTTATATTTTAATATTTTTAAAA
Found at i:90325 original size:33 final size:33
Alignment explanation
Indices: 90283--90400 Score: 94
Period size: 33 Copynumber: 3.3 Consensus size: 33
90273 ATGCTAGTGG
90283 TTGGTGATGGTCTCTCATTACATGTTAATATGA
1 TTGGTGATGGTCTCTCATTACATGTTAATATGA
* * * *
90316 TTGGTGATGGTCTTTTAGAAACATCAACCA-GGTAAGCTAGTGG
1 TTGGTGATGGTC-TCT-----CAT-TA-CATGTTAA--TA-TGA
90359 TTGGTGATGGTCTCTCATTACATGTTAATATGA
1 TTGGTGATGGTCTCTCATTACATGTTAATATGA
90392 TTGGTGATG
1 TTGGTGATG
90401 CTACTTTAGA
Statistics
Matches: 65, Mismatches: 8, Indels: 24
0.67 0.08 0.25
Matches are distributed among these distances:
33 23 0.35
34 4 0.06
35 2 0.03
36 5 0.08
37 3 0.05
39 3 0.05
40 5 0.08
41 2 0.03
42 4 0.06
43 14 0.22
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (33 bp):
TTGGTGATGGTCTCTCATTACATGTTAATATGA
Found at i:90367 original size:76 final size:76
Alignment explanation
Indices: 90275--90424 Score: 275
Period size: 76 Copynumber: 2.0 Consensus size: 76
90265 TCCTGGTGAT
*
90275 GCTAGTGGTTGGTGATGGTCTCTCATTACATGTTAATATGATTGGTGATGGT-CTTTTAGAAACA
1 GCTAGTGGTTGGTGATGGTCTCTCATTACATGTTAATATGATTGGTGATGCTAC-TTTAGAAACA
90339 TCAACCAGGTAA
65 TCAACCAGGTAA
90351 GCTAGTGGTTGGTGATGGTCTCTCATTACATGTTAATATGATTGGTGATGCTACTTTAGAAACAT
1 GCTAGTGGTTGGTGATGGTCTCTCATTACATGTTAATATGATTGGTGATGCTACTTTAGAAACAT
90416 CAACCAGGT
66 CAACCAGGT
90425 CATTGTTGTT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
76 71 0.99
77 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (76 bp):
GCTAGTGGTTGGTGATGGTCTCTCATTACATGTTAATATGATTGGTGATGCTACTTTAGAAACAT
CAACCAGGTAA
Found at i:93255 original size:2 final size:2
Alignment explanation
Indices: 93250--93295 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
93240 ATATGAATAA
93250 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93292 AT AT
1 AT AT
93296 TGTATAATGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:98337 original size:13 final size:13
Alignment explanation
Indices: 98319--98345 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
98309 TATTCCATGT
98319 TTCCTTTCAACTC
1 TTCCTTTCAACTC
98332 TTCCTTTCAACTC
1 TTCCTTTCAACTC
98345 T
1 T
98346 CATATTTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.00, T:0.48
Consensus pattern (13 bp):
TTCCTTTCAACTC
Found at i:99961 original size:85 final size:85
Alignment explanation
Indices: 99798--99965 Score: 189
Period size: 85 Copynumber: 2.0 Consensus size: 85
99788 AAATACAATC
* * * * *
99798 ATGACACACGAATATGTGTCATCTTTTTTAATGACGTGTGCTTCAATGACAGGCAATGTAAGTCA
1 ATGACACACAAATATGTGTCATCTTATTTAATGACGGGGGCTTCAATGACAGGCAATGCAAGTCA
* *
99863 TACATGCATGTCATAAATTT
66 TAAATGCACGTCATAAATTT
* * *
99883 ATGACACACAAATGTGTGTCATCTTCATTT-ATGACGGGGGCTTCAATGAC-GCTCAATGCACGT
1 ATGACACACAAATATGTGTCATCTT-ATTTAATGACGGGGGCTTCAATGACAG-GCAATGCAAGT
*
99946 TATAAATG-AGCGTCATAAAT
64 CATAAATGCA-CGTCATAAAT
99966 GTGTGTAATA
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
84 2 0.03
85 64 0.93
86 3 0.04
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Consensus pattern (85 bp):
ATGACACACAAATATGTGTCATCTTATTTAATGACGGGGGCTTCAATGACAGGCAATGCAAGTCA
TAAATGCACGTCATAAATTT
Found at i:107739 original size:19 final size:19
Alignment explanation
Indices: 107717--107757 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
107707 TTTAAAATGA
107717 TTTTATTTTAAAT-TGTTGT
1 TTTTA-TTTAAATATGTTGT
*
107736 TTTTATTTAATTATGTTGT
1 TTTTATTTAAATATGTTGT
107755 TTT
1 TTT
107758 CATGAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.71
Consensus pattern (19 bp):
TTTTATTTAAATATGTTGT
Found at i:109575 original size:13 final size:13
Alignment explanation
Indices: 109553--109586 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
109543 AGGGGGAGTA
*
109553 ATTTTCAAAATTG
1 ATTTTCAAAAATG
109566 A-TTTCAAAAATG
1 ATTTTCAAAAATG
109578 ATTTTCAAA
1 ATTTTCAAA
109587 GAAAATCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (13 bp):
ATTTTCAAAAATG
Found at i:117992 original size:230 final size:230
Alignment explanation
Indices: 117512--117981 Score: 762
Period size: 230 Copynumber: 2.0 Consensus size: 230
117502 ATTTATACTT
* * *
117512 AGTTGAAATTTGATTTGAAGACCTTAGTTTGTCACTGAGTTGAATTATGTTGTATATGACTCCTT
1 AGTTGAAATTTGATTTGAAGACCTTAGCTTGTCACTGAGTTGAATTATGTTGTAGATGAATCCTT
* *
117577 CGTTGTGAAGTTGAGTCAATTTTAGATGGCTTGAGCATAATATCCTTCATCGTTAAGTTGAAATT
66 CGCTGTGAAGTTGAGTCAATTTTAGATGGCTTGAGCATAATATCCTTCATCGTTAAGTTAAAATT
* * * * * *
117642 AAGCTTAAATTATGCACTAGAATGTGGCTCCTCGTTGTCAAGTTGAACCACTTCATAATTGATTT
131 AAGCTCAAAATATACACTAGAATATGGCTCCTCGTTGTCAAGTTCAACCACTTCACAATTGATTT
117707 TGGATCTTCTTCTTGTTCAATATCCTTCGTTATGA
196 TGGATCTTCTTCTTGTTCAATATCCTTCGTTATGA
*
117742 AGTTGAAATTTGATTTGAAGACCTTAGCTTGTCACTGAGTTTAATTATGTTGTAGATGAATCCTT
1 AGTTGAAATTTGATTTGAAGACCTTAGCTTGTCACTGAGTTGAATTATGTTGTAGATGAATCCTT
*
117807 CGCCT-TGAAGTTGAGTCGATTTTAGATGGCTTGAGCATAATATCCTTCATCGTTAAGTTAAAAT
66 CG-CTGTGAAGTTGAGTCAATTTTAGATGGCTTGAGCATAATATCCTTCATCGTTAAGTTAAAAT
* * *
117871 TAAGCTCAAAATGTACACTAGAATATGGCTCCTCGTTGTCGAGTTCAACCACTTCGCAATTGATT
130 TAAGCTCAAAATATACACTAGAATATGGCTCCTCGTTGTCAAGTTCAACCACTTCACAATTGATT
* *
117936 TTGGATCTTCTTCTTGTTCAATATCCTTTGTTGTGA
195 TTGGATCTTCTTCTTGTTCAATATCCTTCGTTATGA
117972 AGTTGAAATT
1 AGTTGAAATT
117982 CAACTTGAAG
Statistics
Matches: 221, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
230 220 1.00
231 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (230 bp):
AGTTGAAATTTGATTTGAAGACCTTAGCTTGTCACTGAGTTGAATTATGTTGTAGATGAATCCTT
CGCTGTGAAGTTGAGTCAATTTTAGATGGCTTGAGCATAATATCCTTCATCGTTAAGTTAAAATT
AAGCTCAAAATATACACTAGAATATGGCTCCTCGTTGTCAAGTTCAACCACTTCACAATTGATTT
TGGATCTTCTTCTTGTTCAATATCCTTCGTTATGA
Found at i:121794 original size:24 final size:24
Alignment explanation
Indices: 121767--121814 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
121757 TGTGCCTGAA
121767 CTGGATTCTGATCTGATACATGAC
1 CTGGATTCTGATCTGATACATGAC
*
121791 CTGGATTCTGATCTGATACTTGAC
1 CTGGATTCTGATCTGATACATGAC
121815 TTGAATTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (24 bp):
CTGGATTCTGATCTGATACATGAC
Found at i:121939 original size:35 final size:35
Alignment explanation
Indices: 121893--121966 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 35
121883 GGAGGAAGAA
*
121893 TACTTGGAGGCTCCTCGGCTTTGTGCTTAGGGCCT
1 TACTTGCAGGCTCCTCGGCTTTGTGCTTAGGGCCT
121928 TACTTGCAGGCTCCTCGGCTTTGTGCTTAGGGCCT
1 TACTTGCAGGCTCCTCGGCTTTGTGCTTAGGGCCT
121963 TACT
1 TACT
121967 GTTCGTGACA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.09, C:0.27, G:0.28, T:0.35
Consensus pattern (35 bp):
TACTTGCAGGCTCCTCGGCTTTGTGCTTAGGGCCT
Found at i:134180 original size:7 final size:7
Alignment explanation
Indices: 134170--134444 Score: 157
Period size: 7 Copynumber: 38.6 Consensus size: 7
134160 ATAAATAAAA
134170 AATATAT
1 AATATAT
134177 AATAT-T
1 AATATAT
134183 -ATAATAT
1 AAT-ATAT
134190 AA-ATAT
1 AATATAT
*
134196 ACTATAT
1 AATATAT
*
134203 AATAAAT
1 AATATAT
134210 AATATA-
1 AATATAT
134216 AATACTAT
1 AATA-TAT
134224 AATATAT
1 AATATAT
134231 AATATAT
1 AATATAT
* *
134238 ATTGTAT
1 AATATAT
*
134245 AATTTACT
1 AATATA-T
134253 -ATATAT
1 AATATAT
134259 AATATAT
1 AATATAT
134266 AATATACT
1 AATATA-T
134274 -ATA-AT
1 AATATAT
134279 -ATATAT
1 AATATAT
*
134285 ACTATAT
1 AATATAT
*
134292 AATATACC
1 AATATA-T
134300 ATATAATAT
1 A-AT-ATAT
134309 AATA-A-
1 AATATAT
134314 AATACTAT
1 AATA-TAT
*
134322 ACTATAT
1 AATATAT
*
134329 AATAAAAT
1 AAT-ATAT
134337 AATATAT
1 AATATAT
134344 -ATAATAT
1 AAT-ATAT
134351 AATATA-
1 AATATAT
134357 ATATAATAT
1 A-AT-ATAT
134366 AATATAT
1 AATATAT
134373 AAATATTAT
1 -AATA-TAT
134382 AATATAT
1 AATATAT
*
134389 -ATACCAT
1 AATA-TAT
*
134396 ACTATAT
1 AATATAT
134403 ACATGATAT
1 A-AT-ATAT
134412 ATACTATAT
1 A-A-TATAT
134421 AA-A-AT
1 AATATAT
134426 AATATTAT
1 AATA-TAT
*
134434 AATATAA
1 AATATAT
134441 AATA
1 AATA
134445 AAAGATCCAG
Statistics
Matches: 212, Mismatches: 23, Indels: 66
0.70 0.08 0.22
Matches are distributed among these distances:
5 14 0.07
6 25 0.12
7 107 0.50
8 44 0.21
9 18 0.08
10 4 0.02
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.40
Consensus pattern (7 bp):
AATATAT
Found at i:134182 original size:25 final size:26
Alignment explanation
Indices: 134134--134188 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
134124 TGGACATGAA
*
134134 AATAAATAAAAGAAAATTATTATT-T
1 AATAAATAAAAGAAAATTAATATTAT
*
134159 AATAAATAAAA-AATATATAATATTAT
1 AATAAATAAAAGAAAAT-TAATATTAT
134185 AATA
1 AATA
134189 TAAATATACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 4 0.15
25 17 0.65
26 5 0.19
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (26 bp):
AATAAATAAAAGAAAATTAATATTAT
Found at i:134190 original size:5 final size:5
Alignment explanation
Indices: 134173--134391 Score: 133
Period size: 5 Copynumber: 44.0 Consensus size: 5
134163 AATAAAAAAT
*
134173 ATATA ATAT- -TATA ATATAA ATATA CTAT- ATAATA A-ATA ATATA A-ATA
1 ATATA ATATA ATATA ATAT-A ATATA ATATA AT-ATA ATATA ATATA ATATA
* * * * *
134220 CTATA ATAT- ATAATA TATATT GTATA ATTTA CTAT- ATATAA TATATA
1 ATATA ATATA AT-ATA -ATATA ATATA ATATA ATATA ATAT-A -ATATA
*
134267 ATATA CTATA ATAT- ATATA CTATATA ATATA CCATATA ATATA ATA-A
1 ATATA ATATA ATATA ATATA --ATATA ATATA --ATATA ATATA ATATA
*
134314 A-ATA CTATA CTATATA ATA-A A-ATA ATAT- ATATA ATATA ATATA ATATA
1 ATATA ATATA --ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
* *
134362 ATATA ATATA TAAATA TTATA ATAT- ATATA
1 ATATA ATATA -ATATA ATATA ATATA ATATA
134392 CCATACTATA
Statistics
Matches: 167, Mismatches: 20, Indels: 54
0.69 0.08 0.22
Matches are distributed among these distances:
3 5 0.03
4 32 0.19
5 97 0.58
6 13 0.08
7 20 0.12
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:134257 original size:61 final size:61
Alignment explanation
Indices: 134182--134389 Score: 171
Period size: 60 Copynumber: 3.4 Consensus size: 61
134172 TATATAATAT
* **
134182 TATAATATAA-ATATACTATATAATAAATAATATAAATACTATAATATATAATAT-ATATTG
1 TATAATAAAATATATACTATATAATAAATAATATAAATA-TATAATATATAATATCATATAA
** * * *
134242 TATAATTTACTATATA-TA-ATATATAATATACTATAATATATATACTATATAATATACCATATA
1 TATAATAAAATATATACTATATA-ATAA-ATAATATAA-ATATATAATATATAATAT--CATATA
134305 A
61 A
* *
134306 TATAATAAAATACTATACTATATAATAAAATAATATATATA-AT-ATAATATAATATAATATAA
1 TATAATAAAATA-TATACTATATAAT-AAATAATATAAATATATAAT-ATATAATATCATATAA
*
134368 TAT-AT-AAATATTATAATATATA
1 TATAATAAAATA-TATACTATATA
134390 TACCATACTA
Statistics
Matches: 121, Mismatches: 15, Indels: 24
0.76 0.09 0.15
Matches are distributed among these distances:
59 3 0.02
60 29 0.24
61 29 0.24
62 12 0.10
63 1 0.01
64 24 0.20
65 7 0.06
66 11 0.09
67 5 0.04
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (61 bp):
TATAATAAAATATATACTATATAATAAATAATATAAATATATAATATATAATATCATATAA
Found at i:134403 original size:52 final size:50
Alignment explanation
Indices: 134170--134439 Score: 228
Period size: 52 Copynumber: 5.4 Consensus size: 50
134160 ATAAATAAAA
134170 AATATATAATATTATAATATAAATATACTATATAATAAATAATATAA-ATACTAT
1 AATATATAATATTATAATAT--ATATACTATAT-AT--ATAATATAATATACTAT
** *
134224 AATATATAATATATATTGTATAATTTACTATATATA-ATATATAATATACTAT
1 AATATATAATAT-TATAATAT-ATATACTATATATATA-ATATAATATACTAT
* *
134276 AATATAT-ATACTAT-ATA-ATATACCATATAATATAATA-AA-ATACTAT
1 AATATATAATATTATAATATATATACTATAT-ATATAATATAATATACTAT
* *
134322 ACTATATAATA--A-AATA-ATATA-TATA-ATATAATATAATATAATAT
1 AATATATAATATTATAATATATATACTATATATATAATATAATATACTAT
*
134366 AATATATAAATATTATAATATATATACCATACTATATACATGAT-ATATACTAT
1 AATATAT-AATATTATAATATATATACTATA-TATATA-AT-ATAATATACTAT
*
134419 -ATAAAATAATATTATAATATA
1 AAT-ATATAATATTATAATATA
134440 AAATAAAAGA
Statistics
Matches: 182, Mismatches: 14, Indels: 42
0.76 0.06 0.18
Matches are distributed among these distances:
42 8 0.04
43 2 0.01
44 15 0.08
45 13 0.07
46 13 0.07
47 15 0.08
48 10 0.05
49 8 0.04
50 7 0.04
51 10 0.05
52 35 0.19
53 15 0.08
54 25 0.14
55 6 0.03
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (50 bp):
AATATATAATATTATAATATATATACTATATATATAATATAATATACTAT
Found at i:134414 original size:11 final size:10
Alignment explanation
Indices: 134260--134421 Score: 93
Period size: 10 Copynumber: 16.5 Consensus size: 10
134250 ACTATATATA
134260 ATATATA-AT
1 ATATATACAT
134269 ATACTATA-AT
1 ATA-TATACAT
134279 ATATATACTAT
1 ATATATAC-AT
134290 ATAATATACCAT
1 AT-ATATA-CAT
134302 ATAATATA-AT
1 AT-ATATACAT
*
134312 A-AAATACTAT
1 ATATATAC-AT
134322 ACTATATA-AT
1 A-TATATACAT
*
134332 A-AAATA-AT
1 ATATATACAT
134340 ATATATA-AT
1 ATATATACAT
134349 ATAATATA-AT
1 AT-ATATACAT
134359 ATAATATA-AT
1 AT-ATATACAT
134369 ATATA-A-AT
1 ATATATACAT
134377 AT-TATA-AT
1 ATATATACAT
134385 ATATATACCAT
1 ATATATA-CAT
134396 ACTATATACAT
1 A-TATATACAT
134407 GATATATAC-T
1 -ATATATACAT
134417 ATATA
1 ATATA
134422 AAATAATATT
Statistics
Matches: 132, Mismatches: 4, Indels: 34
0.78 0.02 0.20
Matches are distributed among these distances:
7 2 0.02
8 21 0.16
9 27 0.20
10 38 0.29
11 17 0.13
12 26 0.20
13 1 0.01
ACGTcount: A:0.54, C:0.07, G:0.01, T:0.39
Consensus pattern (10 bp):
ATATATACAT
Found at i:137915 original size:14 final size:15
Alignment explanation
Indices: 137884--137917 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
137874 TATCCTTTAA
137884 AATAATTTTAAGAAG
1 AATAATTTTAAGAAG
137899 AATAATTTTAA-AAG
1 AATAATTTTAAGAAG
137913 AATAA
1 AATAA
137918 AAAGTGGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (15 bp):
AATAATTTTAAGAAG
Found at i:143747 original size:25 final size:22
Alignment explanation
Indices: 143718--143763 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
143708 TTTTTAACCT
143718 AATCTTAATTCCTAATAAAATAATA
1 AATC-TAA-TCCTAA-AAAATAATA
*
143743 AATCTAATCCTAAAAGATAAT
1 AATCTAATCCTAAAAAATAAT
143764 GCATCATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 6 0.30
24 3 0.15
25 4 0.20
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (22 bp):
AATCTAATCCTAAAAAATAATA
Found at i:148307 original size:25 final size:22
Alignment explanation
Indices: 148278--148324 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
148268 TTTTTAACCC
148278 AATCTTAATTCCTAATAAAATAATA
1 AATC-TAA-TCCTAA-AAAATAATA
*
148303 AATCTAATCCTAAAAGATAATA
1 AATCTAATCCTAAAAAATAATA
148325 CATCATCCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 8 0.38
23 6 0.29
24 3 0.14
25 4 0.19
ACGTcount: A:0.53, C:0.13, G:0.02, T:0.32
Consensus pattern (22 bp):
AATCTAATCCTAAAAAATAATA
Found at i:157624 original size:15 final size:15
Alignment explanation
Indices: 157604--157636 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
157594 ACAACGCCGC
157604 ATACTTATCCATTGA
1 ATACTTATCCATTGA
157619 ATACTTATCCATTGA
1 ATACTTATCCATTGA
157634 ATA
1 ATA
157637 ATATGTTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.39
Consensus pattern (15 bp):
ATACTTATCCATTGA
Found at i:160956 original size:543 final size:543
Alignment explanation
Indices: 159923--161005 Score: 1846
Period size: 543 Copynumber: 2.0 Consensus size: 543
159913 CACATCATTG
*
159923 CTTATAGTTTCTAATGGATGTTTCAGTTCTTTTACCAATCCACTACAGATATAAGAATAAGTTGA
1 CTTATAGTTTCTAATGGATGTTTCAGTTCTTTTACCAATCCACTACAAATATAAGAATAAGTTGA
* *
159988 TCTTGGGTCAATCAAAACCAAAACAGGTTTATCACATAATTGAAAAGTACTTGAAATGATCTCAG
66 TCCTGGGTCAATCAAAACCAAAACAGGTTTATCACATAATTGAAAAGTACCTGAAATGATCTCAG
* *
160053 GATCATCACGATCTTCACTAGTCTTGAGGTTGTATATTCTAGCAGTGGAATGAATTTCAGGTTGA
131 GATCATCACGATCTTCACTAGTCTTGAGGTTGTATATTATAGCAGTGGAACGAATTTCAGGTTGA
*
160118 CTAGTTGATTCAGACTGATTCTTCCCTCTGCCTCAACCTTTTCCTCTCTGAGATACAGCAGTAGA
196 CTAGTCGATTCAGACTGATTCTTCCCTCTGCCTCAACCTTTTCCTCTCTGAGATACAGCAGTAGA
*
160183 TCTCTCAGATGATGTATCTTCTCTAGTCATTAATGGGTAGTCCCGGATAAAATATCAAGTATCTT
261 TCTCTCAGATGATGTATCTTCTCTAGTCATTAATGGGTAGTCCCAGATAAAATATCAAGTATCTT
** *
160248 CACACCTGAAACATGCTTTAGAAGCCACTCTACAGATGCCACTATGTTTTTTACCTCAATGCTGA
326 CACACCTGAAACATGCTCCAGAAGCCACTCTACAGATGCCACTATGTTTTTTACCACAATGCTGA
* * *
160313 CATTAGTTTGCTCCACCTGTTCCAGATTCCACCAATTAATTCTTTCTAGCTCTTCCCGGATTAGA
391 CATTAGTTTGCTCCACCTGCTCCAGATTCCACCAATTAATTCTTTCTAGATCTTCCCAGATTAGA
* * * *
160378 TCCTCTACCCGATGATGTAGCTAACTCAGATCTTACTTGAGATCTAAAGTTCGAACCTCGACTCT
456 TCCTCTACCCGAGGATGTAACTAACTCAGATCTTACTTAAGATCTAAAGTTCGAACCTCAACTCT
160443 TCTTTGCTTGGGAAGCACTAAAC
521 TCTTTGCTTGGGAAGCACTAAAC
160466 CTTATAGTTTCTAATGGATGTTTCAGTTCTTTTACCAATCCACTACAAATATAAGAATAAGTTGA
1 CTTATAGTTTCTAATGGATGTTTCAGTTCTTTTACCAATCCACTACAAATATAAGAATAAGTTGA
*
160531 TCCTGGGTCAATCAAAACCAAAA-ACGGTTTATCACATAATTGAAAAGTACCTGAAATGATCTTA
66 TCCTGGGTCAATCAAAACCAAAACA-GGTTTATCACATAATTGAAAAGTACCTGAAATGATCTCA
*
160595 GGATCATCACGATCTTCACTAGTCTTGAGGTTGTATATTATAGCATTGGAACGAATTTCAGGTTG
130 GGATCATCACGATCTTCACTAGTCTTGAGGTTGTATATTATAGCAGTGGAACGAATTTCAGGTTG
* * *
160660 ACTAGTCGATTCAGACTGATTCTTCCCTCTGTCTCGACCTTTGT-CTCTCTGAGATACAGTAGTA
195 ACTAGTCGATTCAGACTGATTCTTCCCTCTGCCTCAACCTTT-TCCTCTCTGAGATACAGCAGTA
* * * * * *
160724 GATCTCTTAGATGATGTATCTTCTCTAGTTATTAATGGGTATTCCTAGATAAAATATCCATTATC
259 GATCTCTCAGATGATGTATCTTCTCTAGTCATTAATGGGTAGTCCCAGATAAAATATCAAGTATC
160789 TTCACACCTGAAACATGCTCCAGAAGCCACTCTACAGATGCCACTATGTTTTTTACCACAATGCT
324 TTCACACCTGAAACATGCTCCAGAAGCCACTCTACAGATGCCACTATGTTTTTTACCACAATGCT
*
160854 GACATTAGTTTGCTCCACCTGCTCCAGATTCCACCAATTGATTCTTTCTAGATCTTCCCAGATTA
389 GACATTAGTTTGCTCCACCTGCTCCAGATTCCACCAATTAATTCTTTCTAGATCTTCCCAGATTA
* *
160919 GATCCTCTACCCGAGGATGTAACTAACTCATATCTTACTTAAGGTCTAAAGTTCGAACCTCAACT
454 GATCCTCTACCCGAGGATGTAACTAACTCAGATCTTACTTAAGATCTAAAGTTCGAACCTCAACT
*
160984 CTTCTTTGCTTGTGAAGCACTA
519 CTTCTTTGCTTGGGAAGCACTA
161006 GACGAGGCAT
Statistics
Matches: 506, Mismatches: 32, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
542 1 0.00
543 504 1.00
544 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (543 bp):
CTTATAGTTTCTAATGGATGTTTCAGTTCTTTTACCAATCCACTACAAATATAAGAATAAGTTGA
TCCTGGGTCAATCAAAACCAAAACAGGTTTATCACATAATTGAAAAGTACCTGAAATGATCTCAG
GATCATCACGATCTTCACTAGTCTTGAGGTTGTATATTATAGCAGTGGAACGAATTTCAGGTTGA
CTAGTCGATTCAGACTGATTCTTCCCTCTGCCTCAACCTTTTCCTCTCTGAGATACAGCAGTAGA
TCTCTCAGATGATGTATCTTCTCTAGTCATTAATGGGTAGTCCCAGATAAAATATCAAGTATCTT
CACACCTGAAACATGCTCCAGAAGCCACTCTACAGATGCCACTATGTTTTTTACCACAATGCTGA
CATTAGTTTGCTCCACCTGCTCCAGATTCCACCAATTAATTCTTTCTAGATCTTCCCAGATTAGA
TCCTCTACCCGAGGATGTAACTAACTCAGATCTTACTTAAGATCTAAAGTTCGAACCTCAACTCT
TCTTTGCTTGGGAAGCACTAAAC
Found at i:162545 original size:24 final size:24
Alignment explanation
Indices: 162513--162567 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
162503 CACTGAAGTG
*
162513 CCACATATAATTTGT-CCTAAAGGA
1 CCACGTATAATTTGTCCCT-AAGGA
*
162537 CCGCGTATAATTTGTCCCTAAGGA
1 CCACGTATAATTTGTCCCTAAGGA
162561 CCACGTA
1 CCACGTA
162568 GAAGTATTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 24 0.89
25 3 0.11
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (24 bp):
CCACGTATAATTTGTCCCTAAGGA
Found at i:165398 original size:17 final size:16
Alignment explanation
Indices: 165378--165418 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
165368 GGTTAAGTTA
165378 TAAAATATGTAAATTAC
1 TAAAATATGTAAA-TAC
165395 TAAAATA--TAAATAC
1 TAAAATATGTAAATAC
165409 TAATAATATG
1 TAA-AATATG
165419 ATTAATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
14 6 0.29
15 8 0.38
17 7 0.33
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (16 bp):
TAAAATATGTAAATAC
Found at i:177163 original size:35 final size:35
Alignment explanation
Indices: 177124--177198 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
177114 TTCATGTTCA
*
177124 AAATTCCAAAACACTTCAATTACATTCTAAACCCC
1 AAATTCCAAAACACTTCAATTACATTATAAACCCC
* * * *
177159 AAATTCCAAAATACTTTAATTACATTATTAACCCT
1 AAATTCCAAAACACTTCAATTACATTATAAACCCC
177194 AAATT
1 AAATT
177199 GAAATATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (35 bp):
AAATTCCAAAACACTTCAATTACATTATAAACCCC
Found at i:177242 original size:35 final size:35
Alignment explanation
Indices: 177194--177270 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
177184 TATTAACCCT
177194 AAATTGAAATATTTTA-AAGTTTAGAGTTTAAAATG
1 AAATTGAAATATTTTAGAA-TTTAGAGTTTAAAATG
* * * * *
177229 TAATTGAATTATTTTAGAATTTGGGGTTTAGAATG
1 AAATTGAAATATTTTAGAATTTAGAGTTTAAAATG
177264 AAATTGA
1 AAATTGA
177271 GGATTATATT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
35 33 0.94
36 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.18, T:0.42
Consensus pattern (35 bp):
AAATTGAAATATTTTAGAATTTAGAGTTTAAAATG
Found at i:178189 original size:92 final size:89
Alignment explanation
Indices: 178078--178263 Score: 300
Period size: 92 Copynumber: 2.1 Consensus size: 89
178068 AGTGATGTCA
* * *
178078 AAATATATAAGCATTTATTATTAAATAATTAAGAGATTTTAAACATGATGTCTTATATTCCCTCT
1 AAATATATAAACATTTATTATTAAATAATTAAGAGATTTTAAACATAATGTCTCATATTCCCTCT
178143 AAATTTATTAAAAAAATTAAGATATTT
66 AAATTTATT-AAAAAA--AAGATATTT
* *
178170 AAATATATAAACATTTATTATTAAATAATTAAGAGATTTTAAACATAATGTCTCGTGTTCCCTCT
1 AAATATATAAACATTTATTATTAAATAATTAAGAGATTTTAAACATAATGTCTCATATTCCCTCT
178235 AAATTTATTAAAAAAAAGATATTT
66 AAATTTATTAAAAAAAAGATATTT
178259 AAATA
1 AAATA
178264 GAGATTTTTT
Statistics
Matches: 89, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
89 14 0.16
91 6 0.07
92 69 0.78
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.40
Consensus pattern (89 bp):
AAATATATAAACATTTATTATTAAATAATTAAGAGATTTTAAACATAATGTCTCATATTCCCTCT
AAATTTATTAAAAAAAAGATATTT
Found at i:178733 original size:17 final size:18
Alignment explanation
Indices: 178711--178744 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
178701 ACTAAAGTTA
*
178711 AATCAAA-ATGATAATTT
1 AATCAAATATGAAAATTT
178728 AATCAAATATGAAAATT
1 AATCAAATATGAAAATT
178745 ATTTTTTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.32
Consensus pattern (18 bp):
AATCAAATATGAAAATTT
Found at i:181344 original size:26 final size:25
Alignment explanation
Indices: 181295--181351 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
181285 CATTAACCAA
*
181295 ATTAATCAAACTTTTTTTCCTTAACC
1 ATTAATCAAACTTTTTTT-CTTAAAC
181321 ATTAATCAAACTGATTTTTT-TTAAAC
1 ATTAATCAAACT--TTTTTTCTTAAAC
181347 ATTAA
1 ATTAA
181352 CCGAACCGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 22 0.79
28 6 0.21
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.46
Consensus pattern (25 bp):
ATTAATCAAACTTTTTTTCTTAAAC
Found at i:181468 original size:16 final size:17
Alignment explanation
Indices: 181444--181493 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 17
181434 AAAGGTATTT
*
181444 TTTATTTAGGTTAA-AA
1 TTTAATTAGGTTAATAA
181460 TTTAATTAGGTATTAATAA
1 TTTAATTAGG--TTAATAA
181479 TTTAA-TAGGTCTAAT
1 TTTAATTAGGT-TAAT
181494 GTTGTTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 10 0.34
17 4 0.14
18 8 0.28
19 7 0.24
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (17 bp):
TTTAATTAGGTTAATAA
Found at i:181487 original size:18 final size:18
Alignment explanation
Indices: 181454--181488 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
181444 TTTATTTAGG
181454 TTAAAATTTAATTAGGTA
1 TTAAAATTTAATTAGGTA
181472 TTAATAATTTAA-TAGGT
1 TTAA-AATTTAATTAGGT
181489 CTAATGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (18 bp):
TTAAAATTTAATTAGGTA
Found at i:187349 original size:186 final size:186
Alignment explanation
Indices: 187022--187413 Score: 689
Period size: 186 Copynumber: 2.1 Consensus size: 186
187012 TTTTATAATT
* * **
187022 TATATAA-AAATTAAATATTTTTTAATTCAAAAACACAATTTTTAATTAATTTAAATAATATATA
1 TATATAATATATTAAATATTTTTTAATTCAAAAAAACAATTTACAATTAATTTAAATAATATATA
187086 ATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
66 ATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
*
187151 TTGGATCTTAAATTATTAAATGGGTTTTAAATGGTTTGGGTTGAGCCCATATGTTA
131 TTGGATCTTAAATTATTAAATGGGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
* *
187207 TATATAATATATTCAATATTTTTTAATTCAAAAAAATAATTTACAATTAATTTAAATAATATATA
1 TATATAATATATTAAATATTTTTTAATTCAAAAAAACAATTTACAATTAATTTAAATAATATATA
187272 ATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
66 ATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
*
187337 TTGGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
131 TTGGATCTTAAATTATTAAATGGGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
187393 TATATAATATATTTAAA-ATTT
1 TATATAATATA-TTAAATATTT
187414 AATTTCGGTT
Statistics
Matches: 196, Mismatches: 9, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
185 7 0.04
186 185 0.94
187 4 0.02
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (186 bp):
TATATAATATATTAAATATTTTTTAATTCAAAAAAACAATTTACAATTAATTTAAATAATATATA
ATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
TTGGATCTTAAATTATTAAATGGGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
Found at i:191352 original size:14 final size:16
Alignment explanation
Indices: 191333--191365 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
191323 AGAATATAAG
191333 CTATGT-GAT-TATGA
1 CTATGTGGATGTATGA
191347 CTATGTGGATGTATGA
1 CTATGTGGATGTATGA
191363 CTA
1 CTA
191366 GATAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 3 0.18
16 8 0.47
ACGTcount: A:0.27, C:0.09, G:0.24, T:0.39
Consensus pattern (16 bp):
CTATGTGGATGTATGA
Found at i:192337 original size:23 final size:23
Alignment explanation
Indices: 192305--192398 Score: 89
Period size: 23 Copynumber: 4.1 Consensus size: 23
192295 CTTATGAACA
* *
192305 TTTTATATGGCACTTTGGTGCAT
1 TTTTACATGGCACTTCGGTGCAT
* *
192328 TTTTACATGGCACTTCAGTGTAT
1 TTTTACATGGCACTTCGGTGCAT
* ** *
192351 TTCTACGCGGCACTTCGGTGCAA
1 TTTTACATGGCACTTCGGTGCAT
** *
192374 TCATACGTGGCACTTCGGTGCAT
1 TTTTACATGGCACTTCGGTGCAT
192397 TT
1 TT
192399 ATATGAGCTG
Statistics
Matches: 56, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.18, C:0.21, G:0.22, T:0.38
Consensus pattern (23 bp):
TTTTACATGGCACTTCGGTGCAT
Found at i:195049 original size:45 final size:46
Alignment explanation
Indices: 194955--195051 Score: 126
Period size: 47 Copynumber: 2.1 Consensus size: 46
194945 CACATATATG
*
194955 CATTTCATTTATGACATCTTTTCATGCCATTTTTAGATACTATTATA
1 CATTTCATTTATGACATCTTTTCATGCCA-TTTTAGACACTATTATA
* * *
195002 CATTTCATTTATGGCATCCTTTT-ATGCC-TTTTATACACTGTTATA
1 CATTTCATTTATGACAT-CTTTTCATGCCATTTTAGACACTATTATA
195047 CATTT
1 CATTT
195052 AATCTTTTAC
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
45 19 0.42
47 21 0.47
48 5 0.11
ACGTcount: A:0.25, C:0.19, G:0.07, T:0.49
Consensus pattern (46 bp):
CATTTCATTTATGACATCTTTTCATGCCATTTTAGACACTATTATA
Found at i:195169 original size:67 final size:67
Alignment explanation
Indices: 195083--195262 Score: 315
Period size: 67 Copynumber: 2.7 Consensus size: 67
195073 TAACCGTTCG
*
195083 TCTAACTGGCATAATTGACACATTTCTGTCAATGCACAGTTAGGCCTCAAAGGCATTTAGCTTTT
1 TCTAACTGGCATAATTGACACATTTCTGTCAATGCACAGTTAGGCCTCAAAGGCATTTAGCCTTT
195148 CA
66 CA
* *
195150 TCTAACTGACATAATTGACATATTTCTGTCAATGCACAGTTAGGCCTCAAAGGCATTTAGCCTTT
1 TCTAACTGGCATAATTGACACATTTCTGTCAATGCACAGTTAGGCCTCAAAGGCATTTAGCCTTT
195215 CA
66 CA
* *
195217 TCTAACTGGCATAATTGACACATTTTTGTCAATGCACAATTAGGCC
1 TCTAACTGGCATAATTGACACATTTCTGTCAATGCACAGTTAGGCC
195263 ATTATCTTTT
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 106 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (67 bp):
TCTAACTGGCATAATTGACACATTTCTGTCAATGCACAGTTAGGCCTCAAAGGCATTTAGCCTTT
CA
Found at i:195670 original size:79 final size:79
Alignment explanation
Indices: 195538--195696 Score: 273
Period size: 79 Copynumber: 2.0 Consensus size: 79
195528 CGGCTAAACC
*
195538 GGGATGGGTTAGTCCCGATTTAGCCGGGATGTTGTTGCTAAAAGAGGGGGTTGTTTCCCTTTGTA
1 GGGATGGGTTAGTCCCGATTTAGCCGGGATGTTGTTGCTAAAAGAGGGAGTTGTTTCCCTTTGTA
195603 ATCCTATGTTTGGT
66 ATCCTATGTTTGGT
* *
195617 GGGATGGGTTAGTCTCGATTTAGCCGGGATGTTGTTGCTAAAAGCGGGAGTTGTTTCCCTTTGTA
1 GGGATGGGTTAGTCCCGATTTAGCCGGGATGTTGTTGCTAAAAGAGGGAGTTGTTTCCCTTTGTA
* *
195682 TTCCTCTGTTTGGT
66 ATCCTATGTTTGGT
195696 G
1 G
195697 CTGAAATGGT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 75 1.00
ACGTcount: A:0.15, C:0.14, G:0.33, T:0.38
Consensus pattern (79 bp):
GGGATGGGTTAGTCCCGATTTAGCCGGGATGTTGTTGCTAAAAGAGGGAGTTGTTTCCCTTTGTA
ATCCTATGTTTGGT
Found at i:195899 original size:14 final size:16
Alignment explanation
Indices: 195866--195913 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 16
195856 GACCTGGACC
*
195866 AAATTAAATTAAACTA
1 AAATAAAATTAAACTA
195882 AAATAAAATT-AA-TA
1 AAATAAAATTAAACTA
*
195896 AAATAAAA-TAAAATA
1 AAATAAAATTAAACTA
195911 AAA
1 AAA
195914 CATATAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 1 0.03
14 12 0.41
15 7 0.24
16 9 0.31
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (16 bp):
AAATAAAATTAAACTA
Found at i:195900 original size:5 final size:5
Alignment explanation
Indices: 195870--195913 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
195860 TGGACCAAAT
* * *
195870 TAAAT TAAAC TAAAA TAAAA T-TAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
195914 CATATAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
4 3 0.09
5 31 0.91
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (5 bp):
TAAAA
Found at i:195999 original size:38 final size:37
Alignment explanation
Indices: 195943--196281 Score: 305
Period size: 36 Copynumber: 9.7 Consensus size: 37
195933 TGTAATAATA
* * *
195943 ATATATTATATATTTTTTCAAAAATGTTTCCCAAAACT
1 ATATAATATATATATTTTCAAAAATGTTT-TCAAAACT
* *
195981 ATGTAATATATATATTTTCAAAAATATTTT-AAAACT
1 ATATAATATATATATTTTCAAAAATGTTTTCAAAACT
* *
196017 ATATATTATATATGTTTTCAAAAATGTTTT-----C-
1 ATATAATATATATATTTTCAAAAATGTTTTCAAAACT
196048 --A-AATATATATA-TTTCAAAAATGTTTTCAAATA-T
1 ATATAATATATATATTTTCAAAAATGTTTTCAAA-ACT
*
196081 ATATA-T-TATATAGTTTTCAAAAATGTTTTAAAAACT
1 ATATAATATATATA-TTTTCAAAAATGTTTTCAAAACT
* *
196117 ATATATTATATATATTTTTTAAAAATGTTTTCAAAACT
1 ATATAATATATATA-TTTTCAAAAATGTTTTCAAAACT
196155 ATAT-AT-TATATAGTTTTCAAAAATGTTTTCAAAACT
1 ATATAATATATATA-TTTTCAAAAATGTTTTCAAAACT
* * * * *
196191 ATATATTATATATGTTTTC-AAAA------CTATATT
1 ATATAATATATATATTTTCAAAAATGTTTTCAAAACT
196221 ATAT-ATATATATA-TTTCAAAAATGTTTTCAAAACT
1 ATATAATATATATATTTTCAAAAATGTTTTCAAAACT
*
196256 ATATATTATATATATATTTCAAAAAT
1 ATATAATATATATAT-TTTCAAAAAT
196282 CGGTTTTTTA
Statistics
Matches: 245, Mismatches: 29, Indels: 54
0.75 0.09 0.16
Matches are distributed among these distances:
27 15 0.06
28 12 0.05
29 12 0.05
30 8 0.03
32 1 0.00
34 6 0.02
35 11 0.04
36 101 0.41
37 8 0.03
38 71 0.29
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (37 bp):
ATATAATATATATATTTTCAAAAATGTTTTCAAAACT
Found at i:196009 original size:12 final size:12
Alignment explanation
Indices: 195992--196082 Score: 60
Period size: 12 Copynumber: 7.3 Consensus size: 12
195982 TGTAATATAT
195992 ATATTTTCAAAA
1 ATATTTTCAAAA
196004 ATATTTT-AAAA
1 ATATTTTCAAAA
* * *
196015 CTATATATT-ATAT
1 --ATATTTTCAAAA
*
196028 ATGTTTTCAAAA
1 ATATTTTCAAAA
*
196040 ATGTTTTCAAATA
1 ATATTTTCAAA-A
196053 TATATATTTCAAAA
1 -ATAT-TTTCAAAA
* *
196067 ATGTTTTCAAAT
1 ATATTTTCAAAA
196079 ATAT
1 ATAT
196083 ATATTATATA
Statistics
Matches: 62, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
11 9 0.15
12 30 0.48
13 12 0.19
14 4 0.06
15 7 0.11
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (12 bp):
ATATTTTCAAAA
Found at i:196022 original size:74 final size:72
Alignment explanation
Indices: 195943--196281 Score: 381
Period size: 74 Copynumber: 4.8 Consensus size: 72
195933 TGTAATAATA
* * * *
195943 ATATATTATATATTTTTTCAAAAATGTTTCCCAAAACTATGTAATATATATATTTTCAAAAATAT
1 ATATATTATATA-GTTTTCAAAAATGTTT-TCAAAACTATATATTATATATATTTTCAAAAATAT
196008 TTT-AAAACT
64 TTTCAAAA-T
*
196017 ATATATTATATATGTTTTCAAAAATGTTTT-----C-A-A-A-TATATATA-TTTCAAAAATGTT
1 ATATATTATATA-GTTTTCAAAAATGTTTTCAAAACTATATATTATATATATTTTCAAAAATATT
196072 TTCAAATAT
65 TTCAAA-AT
* * *
196081 ATATATTATATAGTTTTCAAAAATGTTTTAAAAACTATATATTATATATATTTTTTAAAAATGTT
1 ATATATTATATAGTTTTCAAAAATGTTTTCAAAACTATATATTATATATA-TTTTCAAAAATATT
196146 TTCAAAACT
65 TTCAAAA-T
* * *
196155 ATATATTATATAGTTTTCAAAAATGTTTTCAAAACTATATATTATATATGTTTTCAAAACTATAT
1 ATATATTATATAGTTTTCAAAAATGTTTTCAAAACTATATATTATATATATTTTCAAAAATATTT
196220 T----AT
66 TCAAAAT
196223 ATATA-TATATA--TTTCAAAAATGTTTTCAAAACTATATATTATATATATATTTCAAAAAT
1 ATATATTATATAGTTTTCAAAAATGTTTTCAAAACTATATATTATATATAT-TTTCAAAAAT
196282 CGGTTTTTTA
Statistics
Matches: 237, Mismatches: 13, Indels: 38
0.82 0.05 0.13
Matches are distributed among these distances:
63 31 0.13
64 24 0.10
65 38 0.16
66 9 0.04
67 7 0.03
68 8 0.03
69 2 0.01
70 1 0.00
71 1 0.00
72 8 0.03
73 13 0.05
74 95 0.40
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (72 bp):
ATATATTATATAGTTTTCAAAAATGTTTTCAAAACTATATATTATATATATTTTCAAAAATATTT
TCAAAAT
Found at i:196069 original size:27 final size:27
Alignment explanation
Indices: 196023--196087 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
196013 AACTATATAT
*
196023 TATATATGTTTTCAAAAATGTTTTCAAA
1 TATATAT-ATTTCAAAAATGTTTTCAAA
196051 TATATATATTTCAAAAATGTTTTCAAA
1 TATATATATTTCAAAAATGTTTTCAAA
196078 TATATATATT
1 TATATATATT
196088 ATATAGTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 29 0.81
28 7 0.19
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.48
Consensus pattern (27 bp):
TATATATATTTCAAAAATGTTTTCAAA
Found at i:196205 original size:25 final size:27
Alignment explanation
Indices: 196177--196241 Score: 98
Period size: 25 Copynumber: 2.4 Consensus size: 27
196167 GTTTTCAAAA
196177 ATGTTTTCAAAACTATA-TAT-TATAT
1 ATGTTTTCAAAACTATATTATATATAT
196202 ATGTTTTCAAAACTATATTATATATAT
1 ATGTTTTCAAAACTATATTATATATAT
*
196229 ATATATTTCAAAA
1 ATGT-TTTCAAAA
196242 ATGTTTTCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
25 17 0.47
26 3 0.08
27 8 0.22
28 8 0.22
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (27 bp):
ATGTTTTCAAAACTATATTATATATAT
Found at i:196241 original size:65 final size:61
Alignment explanation
Indices: 196141--196279 Score: 215
Period size: 65 Copynumber: 2.2 Consensus size: 61
196131 TTTTTTAAAA
*
196141 ATGTTTTCAAAACTATATATTATATAGTTTTCAAAAATGTTTTCAAAACTATATATTATAT
1 ATGTTTTCAAAACTATATATTATATAATTTTCAAAAATGTTTTCAAAACTATATATTATAT
196202 ATGTTTTCAAAACTATATTATATATATATATATTTCAAAAATGTTTTCAAAACTATATATTATAT
1 ATGTTTTCAAAACTATA-TAT-TATATA-AT-TTTCAAAAATGTTTTCAAAACTATATATTATAT
*
196267 ATATATTTCAAAA
1 ATGT-TTTCAAAA
196280 ATCGGTTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
61 17 0.24
62 3 0.04
63 6 0.08
64 1 0.01
65 36 0.51
66 8 0.11
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (61 bp):
ATGTTTTCAAAACTATATATTATATAATTTTCAAAAATGTTTTCAAAACTATATATTATAT
Found at i:196288 original size:40 final size:40
Alignment explanation
Indices: 196202--196281 Score: 146
Period size: 38 Copynumber: 2.0 Consensus size: 40
196192 TATATTATAT
196202 ATGTTTTCAAAACTATATTATATATATATATATTTCAAAA
1 ATGTTTTCAAAACTATATTATATATATATATATTTCAAAA
196242 ATGTTTTCAAAACTATA-TAT-TATATATATATTTCAAAA
1 ATGTTTTCAAAACTATATTATATATATATATATTTCAAAA
196280 AT
1 AT
196282 CGGTTTTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 20 0.50
39 3 0.08
40 17 0.43
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (40 bp):
ATGTTTTCAAAACTATATTATATATATATATATTTCAAAA
Found at i:196303 original size:42 final size:39
Alignment explanation
Indices: 196202--196303 Score: 109
Period size: 38 Copynumber: 2.5 Consensus size: 39
196192 TATATTATAT
*
196202 ATGTTTTCAAAACTATATTATA-TATATATATATTTCAAAA
1 ATGTTTTCAAAA--AAATTATATTATATATATATTTCAAAA
**
196242 ATGTTTTCAAAACTA-TATATTATATATATATTTCAAAA
1 ATGTTTTCAAAAAAATTATATTATATATATATTTCAAAA
*
196280 ATCGGTTTTTTAAAAAAATTATAT
1 AT--G-TTTTCAAAAAAATTATAT
196304 GTTTCAAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
37 4 0.08
38 22 0.42
40 13 0.25
41 9 0.17
42 5 0.09
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (39 bp):
ATGTTTTCAAAAAAATTATATTATATATATATTTCAAAA
Found at i:201126 original size:20 final size:20
Alignment explanation
Indices: 201097--201152 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
201087 TTTCAAAGTG
*
201097 ATGCACCGATGCACCAATCC
1 ATGCATCGATGCACCAATCC
*
201117 ATGCATCGATGCACTAATCC
1 ATGCATCGATGCACCAATCC
201137 ATGCATCGATGCACCA
1 ATGCATCGATGCACCA
201153 TGGAATAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.30, C:0.34, G:0.16, T:0.20
Consensus pattern (20 bp):
ATGCATCGATGCACCAATCC
Found at i:201233 original size:65 final size:63
Alignment explanation
Indices: 201116--201324 Score: 192
Period size: 65 Copynumber: 3.2 Consensus size: 63
201106 TGCACCAATC
* * ** *
201116 CATGCATCGATGCACTAATCCATGCATCGATGCAC-CATGGAATAAATT-AAACATCGAATGCAT
1 CATGCATCGATGCAC-AA-CCATGCATCAATGCACTCA-GG-CTATTTTGAAACATCGAATACAT
201179 TT
62 TT
* * *
201181 CATGCATCGATGCACATACTATGCATCGATGCACTCAGAG-T-TTTATGAAAACATCGGATACAT
1 CATGCATCGATGCACA-ACCATGCATCAATGCACTCAG-GCTATTT-TG-AAACATCGAATACAT
201244 TT
62 TT
* * * * *
201246 GATGCATCGATGCACCAGCCATGCATCAATGCACTCTGGCTATTTTGAAACATCAAATTCATTT
1 CATGCATCGATGCA-CAACCATGCATCAATGCACTCAGGCTATTTTGAAACATCGAATACATTT
201310 CATGCATCGATGCAC
1 CATGCATCGATGCAC
201325 TCTTAGTGCA
Statistics
Matches: 121, Mismatches: 14, Indels: 20
0.78 0.09 0.13
Matches are distributed among these distances:
62 1 0.01
63 3 0.02
64 45 0.37
65 67 0.55
66 5 0.04
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (63 bp):
CATGCATCGATGCACAACCATGCATCAATGCACTCAGGCTATTTTGAAACATCGAATACATTT
Found at i:214975 original size:10 final size:11
Alignment explanation
Indices: 214914--214977 Score: 69
Period size: 11 Copynumber: 5.8 Consensus size: 11
214904 GAAATTTTGG
214914 TTTTTTTTG-C
1 TTTTTTTTGCC
214924 TTTTTTTGTGCC
1 TTTTTTT-TGCC
*
214936 -TTTTTTTACC
1 TTTTTTTTGCC
214946 TATTTTTTTGCC
1 T-TTTTTTTGCC
**
214958 TTTTTTTTGTT
1 TTTTTTTTGCC
214969 TTTTTTTTG
1 TTTTTTTTG
214978 AAAAAATAGC
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
10 10 0.22
11 25 0.54
12 11 0.24
ACGTcount: A:0.03, C:0.11, G:0.09, T:0.77
Consensus pattern (11 bp):
TTTTTTTTGCC
Found at i:214976 original size:22 final size:22
Alignment explanation
Indices: 214914--214977 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
214904 GAAATTTTGG
*
214914 TTTTTTTTGCTTTTTTTGTGCC
1 TTTTTTTTGCTTTTTTTTTGCC
** *
214936 TTTTTTTACCTATTTTTTTGCC
1 TTTTTTTTGCTTTTTTTTTGCC
*
214958 TTTTTTTTGTTTTTTTTTTG
1 TTTTTTTTGCTTTTTTTTTG
214978 AAAAAATAGC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.03, C:0.11, G:0.09, T:0.77
Consensus pattern (22 bp):
TTTTTTTTGCTTTTTTTTTGCC
Found at i:216899 original size:13 final size:14
Alignment explanation
Indices: 216868--216901 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
216858 GGGGGAGTAA
216868 TTTCAAAATTAATT
1 TTTCAAAATTAATT
216882 TTTCAAAATTAA-T
1 TTTCAAAATTAATT
216895 TTTCAAA
1 TTTCAAA
216902 GAAAATCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (14 bp):
TTTCAAAATTAATT
Found at i:217316 original size:65 final size:63
Alignment explanation
Indices: 217199--217406 Score: 199
Period size: 65 Copynumber: 3.2 Consensus size: 63
217189 TTTCAAAGTG
* * * **
217199 ATGCACCGATGCACCAATCCATGCATCGATGCAC-CATGGAATAAATTG-AACATCGAATGCATT
1 ATGCATCGATGCA-CAA-CCATACATCGATGCACTCA-GG-CTATTTTGAAACATCGAATGCATT
217262 TC
62 TC
* *
217264 ATGCATCGATGCACATACTATACATCGATGCACTCAGAG-T-TTTATGAAAACATTGAATGCATT
1 ATGCATCGATGCACA-ACCATACATCGATGCACTCAG-GCTATTT-TG-AAACATCGAATGCATT
*
217327 TG
62 TC
* * * *
217329 ATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATTCATTTC
1 ATGCATCGATGCA-CAACCATACATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTC
217393 ATGCATCGATGCAC
1 ATGCATCGATGCAC
217407 TCTTAGTGCA
Statistics
Matches: 120, Mismatches: 14, Indels: 20
0.78 0.09 0.13
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 46 0.38
65 64 0.53
66 5 0.04
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27
Consensus pattern (63 bp):
ATGCATCGATGCACAACCATACATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTC
Found at i:220811 original size:27 final size:27
Alignment explanation
Indices: 220726--220816 Score: 78
Period size: 30 Copynumber: 3.3 Consensus size: 27
220716 ATAAGATAAG
* *
220726 AATAAAATATATTTA-AAAATTTAAAAT
1 AATAATATATACTTAGAAAA-TTAAAAT
* *
220753 AATGATATAATATACTTAGTAAATTAAGAT
1 AAT-A-AT-ATATACTTAGAAAATTAAAAT
*
220783 AA-AATATATACTTTGAAAAGTTAAAAT
1 AATAATATATACTTAGAAAA-TTAAAAT
220810 AATAATA
1 AATAATA
220817 AAATATATAT
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
26 12 0.24
27 13 0.25
28 6 0.12
29 1 0.02
30 16 0.31
31 3 0.06
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.35
Consensus pattern (27 bp):
AATAATATATACTTAGAAAATTAAAAT
Found at i:222244 original size:20 final size:19
Alignment explanation
Indices: 222221--222274 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
222211 AACGCGATTT
*
222221 AGAAGATCGCAACGTTAAAA
1 AGAA-ATCGCAACGGTAAAA
*
222241 AGAAAATCGCAACGGTCAAA
1 AG-AAATCGCAACGGTAAAA
222261 AGATAATCGCAACG
1 AGA-AATCGCAACG
222275 CGAGCTTCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 1 0.03
20 27 0.90
21 2 0.07
ACGTcount: A:0.48, C:0.19, G:0.20, T:0.13
Consensus pattern (19 bp):
AGAAATCGCAACGGTAAAA
Found at i:222380 original size:23 final size:20
Alignment explanation
Indices: 222288--222381 Score: 71
Period size: 20 Copynumber: 4.4 Consensus size: 20
222278 GCTTCCAAGT
*
222288 TCGCAACGCGATTTAGAAGAAAA
1 TCGCAACGCGA-TT-G-AGAGAA
* *
222311 TCGCAATGCGATTGATAGAA
1 TCGCAACGCGATTGAGAGAA
* * * *
222331 TCGCAATGTGATTGGGAGAG
1 TCGCAACGCGATTGAGAGAA
222351 TCGCAACGCGATTTAGAAGAGAA
1 TCGCAACGCGA-TT-G-AGAGAA
222374 TCGCAACG
1 TCGCAACG
222382 GTCAAAAGAA
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
20 29 0.51
21 3 0.05
22 3 0.05
23 22 0.39
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (20 bp):
TCGCAACGCGATTGAGAGAA
Found at i:222480 original size:6 final size:6
Alignment explanation
Indices: 222469--222511 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
222459 GACACGTATT
222469 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
222512 GACGGCGGCG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.35, C:0.49, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:248988 original size:118 final size:118
Alignment explanation
Indices: 248771--249026 Score: 388
Period size: 118 Copynumber: 2.2 Consensus size: 118
248761 AAATATAGAT
* * *
248771 GATAACATAACCAGTTAATTATTGAAAACATTATCAAGCACAATAACATATTAGATAGCGCTTAT
1 GATAACATAATCGGTTAATTAGTGAAAACATTATCAAGCACAATAACATATTAGATAGCGCTTAT
* *
248836 ATAACGTAATAGGTAGCGCCTTTTTAAAGTTGATGTGGATTTGGAAATCCGAC
66 ATAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGATTTGGAAATCCGAC
* * * *
248889 GATAACATAATCGGTTTATTAGTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCTTAT
1 GATAACATAATCGGTTAATTAGTGAAAACATTATCAAGCACAATAACATATTAGATAGCGCTTAT
* * * *
248954 ATAATGTAATAGGTAGCGCCTTTTTTAAGCTGATGGGGCTTTGGAAATCTGAC
66 ATAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGATTTGGAAATCCGAC
249007 GATAACAT-ATCGGTTAATTA
1 GATAACATAATCGGTTAATTA
249027 CTTATATTGT
Statistics
Matches: 124, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
117 11 0.09
118 113 0.91
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (118 bp):
GATAACATAATCGGTTAATTAGTGAAAACATTATCAAGCACAATAACATATTAGATAGCGCTTAT
ATAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGATTTGGAAATCCGAC
Found at i:249348 original size:226 final size:225
Alignment explanation
Indices: 248879--249466 Score: 826
Period size: 226 Copynumber: 2.6 Consensus size: 225
248869 TGTGGATTTG
* * *
248879 GAAATCCGACGATAACATAATCGGTTTATTAGTGGAAACATTATCAAGCATAATAACATATTAGG
1 GAAATCCGACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGG
* * * *
248944 TAGCGCTTATATAATGTAATAGGTAGCGCCTTTTTTAAGCTGATGGGGCTTTGGAAATCTGACGA
66 TAGCGCTTATGTAACGTAATAGGTTGCGCCTTTTTAAAGCTGATGGGGCTTTGGAAATCTGACGA
* * * * *
249009 TAACATATCGGTTAATTACTTATATTGTTATTAATATTATCAACATATTAGGTAACGCCTAAAAT
131 TAACAAATAGGTTAATTACTAATATTCTTATTAATATTATCAACATATTAGGTAACACCTAAAAT
249074 GTTACAAAAGTTTAAGCTGATAGAGCCTTA
196 GTTACAAAAGTTTAAGCTGATAGAGCCTTA
*
249104 GAAATACGACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGG
1 GAAATCCGACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGG
* * * *
249169 TAGCGCTAATGTAACGTAATAGGTTGTGCCTTTTTAAAGC-GTTTGGGGCTTTGGAAAT-TCGAT
66 TAGCGCTTATGTAACGTAATAGGTTGCGCCTTTTTAAAGCTG-ATGGGGCTTTGGAAATCT-GAC
**
249232 GATAACAAAATAGGTTAATTACTAA-ATTTCTTATTTGTATTATCAACATATTAGGTAACACCTA
129 GATAAC-AAATAGGTTAATTACTAATA-TTCTTATTAATATTATCAACATATTAGGTAACACCTA
*
249296 AAATGTTACAACAA-TTTAAGCTGATAGAGGCTTA
192 AAATGTTACAA-AAGTTTAAGCTGATAGAGCCTTA
* * *
249330 GAAATCCGATGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAATAACATGTTAGG
1 GAAATCCGACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGG
* * * * * *
249395 TAGCGCTTATGTAACTTAATAGGTTGC-ACTTTATTAAAGTTGATGGGGCCTTAGAAATCGGACG
66 TAGCGCTTATGTAACGTAATAGGTTGCGCCTTT-TTAAAGCTGATGGGGCTTTGGAAATCTGACG
249459 ATAACAAA
130 ATAACAAA
249467 ATATGTTATG
Statistics
Matches: 321, Mismatches: 34, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
224 2 0.01
225 126 0.39
226 190 0.59
227 3 0.01
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (225 bp):
GAAATCCGACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGG
TAGCGCTTATGTAACGTAATAGGTTGCGCCTTTTTAAAGCTGATGGGGCTTTGGAAATCTGACGA
TAACAAATAGGTTAATTACTAATATTCTTATTAATATTATCAACATATTAGGTAACACCTAAAAT
GTTACAAAAGTTTAAGCTGATAGAGCCTTA
Found at i:249707 original size:2 final size:2
Alignment explanation
Indices: 249702--249751 Score: 66
Period size: 2 Copynumber: 25.5 Consensus size: 2
249692 AATATATATA
* * *
249702 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TC TT TG AG TG -G
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
249743 TG TG TG TG T
1 TG TG TG TG T
249752 TAGAGAGTGA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.02, C:0.02, G:0.46, T:0.50
Consensus pattern (2 bp):
TG
Found at i:254025 original size:18 final size:18
Alignment explanation
Indices: 254002--254040 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
253992 GCCAAAATTT
254002 AAATTGAAATTCAAACTC
1 AAATTGAAATTCAAACTC
* *
254020 AAATTGAAATTTAAATTC
1 AAATTGAAATTCAAACTC
254038 AAA
1 AAA
254041 CTCCAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.31
Consensus pattern (18 bp):
AAATTGAAATTCAAACTC
Found at i:254029 original size:24 final size:24
Alignment explanation
Indices: 253996--254059 Score: 92
Period size: 24 Copynumber: 2.7 Consensus size: 24
253986 AGTGGAGCCA
*
253996 AAATTTAAATTGAAATTCAAACTC
1 AAATTAAAATTGAAATTCAAACTC
* *
254020 AAATTGAAATTTAAATTCAAACTC
1 AAATTAAAATTGAAATTCAAACTC
*
254044 CAATTAAAATTGAAAT
1 AAATTAAAATTGAAAT
254060 GAACATGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.33
Consensus pattern (24 bp):
AAATTAAAATTGAAATTCAAACTC
Found at i:256628 original size:18 final size:18
Alignment explanation
Indices: 256607--256646 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
256597 TGATTTGATC
* *
256607 AGAATCCCTTTGTTGAGA
1 AGAATACCTTGGTTGAGA
*
256625 AGAATAGCTTGGTTGAGA
1 AGAATACCTTGGTTGAGA
256643 AGAA
1 AGAA
256647 GGTTGTCGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.28
Consensus pattern (18 bp):
AGAATACCTTGGTTGAGA
Found at i:257384 original size:200 final size:200
Alignment explanation
Indices: 256980--257648 Score: 927
Period size: 200 Copynumber: 3.4 Consensus size: 200
256970 TAACAGTGTT
* * * *
256980 TTCATACTGGAC-AAAATGTATCGATA-TAACTTAAA-AAGTATCGATACTTTTTGTTTACCTAT
1 TTCATACTGGACTAAAA-GTATCGATACT-ATTTAAACACGTATCGATACTTTATGTATACCTAT
* * * * *
257042 TCTCTCATTAAATCGGTATATTTTTACCGGTTATATTGTATATTTACCTATTACTTTATAATTAT
64 TCTCTCATTAAACCGGTATATTTTTACCGGTTACATTGTAAAATTACCTATTACTTTATAATAAT
* * *
257107 CGGTTTCGATGTTTTAAGGATCGATACTTATGATACATGTATCAATACTTTATGCGTCCATCTCG
129 AGGTTTCGATGTTTTAAGGATCGATACTTATCATACATGTATCAATACTTTATGCGTGCATCTCG
257172 TTTGTGA
194 TTTGTGA
*
257179 TTCATATTGGACTAAAAGTATCGATACTATTTAAACACGTATCGATACTTTATGTATACCTATTC
1 TTCATACTGGACTAAAAGTATCGATACTATTTAAACACGTATCGATACTTTATGTATACCTATTC
* * * *
257244 TCTCATTAAACCGATATATTTTTATCGCTTACATTGTAAAATTACCTATTACTTTATAATAATTG
66 TCTCATTAAACCGGTATATTTTTACCGGTTACATTGTAAAATTACCTATTACTTTATAATAATAG
* * *
257309 GTTTCTATATTTTAAGGA-CTGATACTTATCATACATGCATCGAA-ACTTTATGCGTGCATCTCG
131 GTTTCGATGTTTTAAGGATC-GATACTTATCATACATGTATC-AATACTTTATGCGTGCATCTCG
*
257372 TTTGTTA
194 TTTGTGA
* * * *
257379 TTCATACTGGAGTAAAAGTATCGATACTATTTAAACACATATCAATACTTTATATATACCTATTC
1 TTCATACTGGACTAAAAGTATCGATACTATTTAAACACGTATCGATACTTTATGTATACCTATTC
* *
257444 TCTCTTTAAACCGGTATATTTTTACCGGTTACATTGTAAAATTACCTATTACTTTATAATAATAA
66 TCTCATTAAACCGGTATATTTTTACCGGTTACATTGTAAAATTACCTATTACTTTATAATAATAG
* *
257509 ATTTCGATGTTTTAAGGATCGATACTTATCATACATGTATCAATACTTTATGTGTGCATCTCGTT
131 GTTTCGATGTTTTAAGGATCGATACTTATCATACATGTATCAATACTTTATGCGTGCATCTCGTT
*
257574 TGGGA
196 TGTGA
* * * * * *
257579 TTCATACTGGACAAAAAGTATCGATACAACTTAAAAAAC-TATCGATACTTTTTGTTTACCTATT
1 TTCATACTGGACTAAAAGTATCGATACTA-TTTAAACACGTATCGATACTTTATGTATACCTATT
257643 CTCTCA
65 CTCTCA
257649 ATCGATACAC
Statistics
Matches: 414, Mismatches: 48, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
199 29 0.07
200 375 0.91
201 10 0.02
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (200 bp):
TTCATACTGGACTAAAAGTATCGATACTATTTAAACACGTATCGATACTTTATGTATACCTATTC
TCTCATTAAACCGGTATATTTTTACCGGTTACATTGTAAAATTACCTATTACTTTATAATAATAG
GTTTCGATGTTTTAAGGATCGATACTTATCATACATGTATCAATACTTTATGCGTGCATCTCGTT
TGTGA
Found at i:260095 original size:16 final size:16
Alignment explanation
Indices: 260057--260088 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
260047 CCTTCACCAC
*
260057 TCCATCAAATTTTCTA
1 TCCATCAAATTTTCCA
260073 TCCATCAAATTTTCCA
1 TCCATCAAATTTTCCA
260089 CCTATCACCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (16 bp):
TCCATCAAATTTTCCA
Found at i:262721 original size:183 final size:183
Alignment explanation
Indices: 262413--262823 Score: 621
Period size: 183 Copynumber: 2.2 Consensus size: 183
262403 ATTAAAGTAC
* * * *
262413 CGATACCTTCAACATATCCGGTAGCGCTTTAC-AAGTTTTGTCATAATGAAACCGGTTTTGTCAT
1 CGATACCTTCAACATATCCGGTATCTCTTTACTGA-TTTTGTCATAATGAAACCAGTTTTGTCAT
* * * *
262477 ATTTTGACCTGTTATATTTTTATGTATCGATACATGTTTATAAAGTATCGATACTTTATAGGCGC
65 ATTTTGACATGTTATATTGTTATGTATCGATACATATTTATAAAGTATCAATACTTTATAGGCGC
*
262542 TAGTATT-TCTTTTCTTTTAAATTCCAAAAGTATCGATACTTATTTTAATGGTAT
130 TAGTATTGT-TTTTCTTTTAAATTCCAAAAGTATCGATACATATTTTAATGGTAT
262596 CGATACCTTCAACATATCCGGTATCTCTTTACTGATTTTGTCATAATGAAACCAGTTTTGTCATA
1 CGATACCTTCAACATATCCGGTATCTCTTTACTGATTTTGTCATAATGAAACCAGTTTTGTCATA
* * *
262661 TTTTTATATGTTATATTGTTATGTATCGATAGATATTTATAAAGTATCAATACTTTATAGGCGCT
66 TTTTGACATGTTATATTGTTATGTATCGATACATATTTATAAAGTATCAATACTTTATAGGCGCT
* *
262726 ATTATTGTTTTTCTTTTAAATTCTAAAAGTATCGATACATATTTTAATGGTAT
131 AGTATTGTTTTTCTTTTAAATTCCAAAAGTATCGATACATATTTTAATGGTAT
* * *
262779 CGATACCTTCAACATATTCAGTATCTCTTTA-TCGGTTTTGTCATA
1 CGATACCTTCAACATATCCGGTATCTCTTTACT-GATTTTGTCATA
262824 TTTTTACCTG
Statistics
Matches: 208, Mismatches: 17, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
182 1 0.00
183 205 0.99
184 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (183 bp):
CGATACCTTCAACATATCCGGTATCTCTTTACTGATTTTGTCATAATGAAACCAGTTTTGTCATA
TTTTGACATGTTATATTGTTATGTATCGATACATATTTATAAAGTATCAATACTTTATAGGCGCT
AGTATTGTTTTTCTTTTAAATTCCAAAAGTATCGATACATATTTTAATGGTAT
Found at i:262838 original size:163 final size:163
Alignment explanation
Indices: 262650--262958 Score: 555
Period size: 163 Copynumber: 1.9 Consensus size: 163
262640 AATGAAACCA
* *
262650 GTTTTGTCATATTTTTATATGTTATATTGTTATGTATCGATAGATATTTATAAAGTATCAATACT
1 GTTTTGTCATATTTTTACATGTTATATTGTTATGTATCGATACATATTTATAAAGTATCAATACT
* *
262715 TTATAGGCGCTATTATTGTTTTTCTTTTAAATTCTAAAAGTATCGATACATATTTTAATGGTATC
66 TTATAGGCGCTAATATTGTTTTTCTTTTAAATTCCAAAAGTATCGATACATATTTTAATGGTATC
262780 GATACCTTCAACATATTCAGTATCTCTTTATCG
131 GATACCTTCAACATATTCAGTATCTCTTTATCG
*
262813 GTTTTGTCATATTTTTACCTGTTATATTGTTATGTATCGATACATATTTATAAAGTATCAATACT
1 GTTTTGTCATATTTTTACATGTTATATTGTTATGTATCGATACATATTTATAAAGTATCAATACT
* *
262878 TTATAGGCGCTAATATTGTTTTTCTTTTAAATTCCAAAAGTATTGATACTTATTTTAATGGTATC
66 TTATAGGCGCTAATATTGTTTTTCTTTTAAATTCCAAAAGTATCGATACATATTTTAATGGTATC
262943 GATACCTTCAACATAT
131 GATACCTTCAACATAT
262959 CCGGTAGCGC
Statistics
Matches: 139, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
163 139 1.00
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.47
Consensus pattern (163 bp):
GTTTTGTCATATTTTTACATGTTATATTGTTATGTATCGATACATATTTATAAAGTATCAATACT
TTATAGGCGCTAATATTGTTTTTCTTTTAAATTCCAAAAGTATCGATACATATTTTAATGGTATC
GATACCTTCAACATATTCAGTATCTCTTTATCG
Found at i:263130 original size:21 final size:21
Alignment explanation
Indices: 263104--263145 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
263094 ACATTATTAT
263104 TACTCAACATTTTCGGTAGTG
1 TACTCAACATTTTCGGTAGTG
263125 TACTCAACATTTTCGGTAGTG
1 TACTCAACATTTTCGGTAGTG
263146 CTAAATCGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (21 bp):
TACTCAACATTTTCGGTAGTG
Found at i:265096 original size:2 final size:2
Alignment explanation
Indices: 265089--265139 Score: 52
Period size: 2 Copynumber: 26.5 Consensus size: 2
265079 TCAGGCCGGG
* * * *
265089 TA TA TA TA TT TA AA T- TA AA TA TA TA AA TA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
265129 TA TA TA TA TA T
1 TA TA TA TA TA T
265140 TTAAATTTAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:265144 original size:42 final size:42
Alignment explanation
Indices: 265097--265180 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 42
265087 GGTATATATA
265097 TTTAAA-TTAAATATATAA-ATATT-ATATATATATATATATATA
1 TTTAAATTTAAAT-TA-AATATATTAATAT-TATATATATATATA
* *
265139 TTTAAATTTAAATTAAATGTATTAATATTGTATATATATATA
1 TTTAAATTTAAATTAAATATATTAATATTATATATATATATA
265181 AAATAATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
41 2 0.05
42 25 0.68
43 10 0.27
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (42 bp):
TTTAAATTTAAATTAAATATATTAATATTATATATATATATA
Found at i:266369 original size:136 final size:137
Alignment explanation
Indices: 266037--266422 Score: 454
Period size: 136 Copynumber: 2.8 Consensus size: 137
266027 CTTTTTAAAA
* * *
266037 TTAGAGAATAATTCGATGTGGCCTTCGCATTAAAATGCCCAAGGGTCCACATTGATTATTCGATT
1 TTAGGGAATAATTCGATTTGGCATTCGCATTAAAATGCCCAAGGGTCCACATTGATTATTCGATT
* * * * *
266102 CCATAATTGATATAATTAATTACGATTAACAATTAGAGCCTCCACTTTAGGCTGAATTTCACTTT
66 CAATAATTGATAAAATTAATTAGGATTAA-TATTAGAGCCTCCACTTTA-G-T-AATTTCACGTT
266167 AGTCCCTTAAT
127 AGTCCCTTAAT
* *** * *
266178 TTAGGGAATAATTCGATTTGGAATTCGCATTAAAATGCTTGAGGGACCACATTGATTATTTGATT
1 TTAGGGAATAATTCGATTTGGCATTCGCATTAAAATGCCCAAGGGTCCACATTGATTATTCGATT
* *
266243 CAATAATTGGATAAAATTAACTAGGATTAATATTAGAGCCTCCACTTTA-T-TTTTCACGTTAGT
66 CAATAATT-GATAAAATTAATTAGGATTAATATTAGAGCCTCCACTTTAGTAATTTCACGTTAGT
*
266306 TCCTTAAT
130 CCCTTAAT
* * * ** *
266314 TTAGGGAATAATTCGATTTGGCTTTCAG-ATTTAAATGCCCAAGGTTCCATGTTGATTATTCGAA
1 TTAGGGAATAATTCGATTTGGCATTC-GCATTAAAATGCCCAAGGGTCCACATTGATTATTCGAT
* * *
266378 TAAATAATTTGTTAAAATCAATTAGGATTAATATTAGAGCCTCCA
65 TCAATAA-TTGATAAAATTAATTAGGATTAATATTAGAGCCTCCA
266423 TTTTTAGGTT
Statistics
Matches: 209, Mismatches: 33, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
136 106 0.51
137 3 0.01
138 1 0.00
141 81 0.39
142 18 0.09
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (137 bp):
TTAGGGAATAATTCGATTTGGCATTCGCATTAAAATGCCCAAGGGTCCACATTGATTATTCGATT
CAATAATTGATAAAATTAATTAGGATTAATATTAGAGCCTCCACTTTAGTAATTTCACGTTAGTC
CCTTAAT
Found at i:271385 original size:44 final size:44
Alignment explanation
Indices: 271333--271419 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 44
271323 ATCTTGGACC
* *
271333 CATTTTTTTTAATTTAAGGTGCCCTCTCGGGTTTTCACCCTAAA
1 CATTTTTTTCAACTTAAGGTGCCCTCTCGGGTTTTCACCCTAAA
* *
271377 CATTTTTTTCAACTTAAGGTGCCCTTTCTGGTTTTCACCCTAA
1 CATTTTTTTCAACTTAAGGTGCCCTCTCGGGTTTTCACCCTAA
271420 GCGATATATT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.44
Consensus pattern (44 bp):
CATTTTTTTCAACTTAAGGTGCCCTCTCGGGTTTTCACCCTAAA
Done.