Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 137 of 171
Found at i:42419335 original size:19 final size:20
Alignment explanation
Indices: 42419311--42419348 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
42419301 AATTATTTTT
42419311 TATAATATAAT-ACATATTA
1 TATAATATAATAACATATTA
*
42419330 TATAATATAGTAACATATT
1 TATAATATAATAACATATT
42419349 TTCACAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (20 bp):
TATAATATAATAACATATTA
Found at i:42419523 original size:378 final size:378
Alignment explanation
Indices: 42418678--42419822 Score: 1796
Period size: 378 Copynumber: 3.0 Consensus size: 378
42418668 ATATATACAT
* * * *
42418678 ATATGTATGTATATAATTATTTAATATTTAATTAGTATAATTATTTTTTAC-GATCAGTAAAATC
1 ATATATATATATATAATTATTTAATATTTAATTAGTATAATTATTTTTTACAG-TCAGGAAAATT
* * *
42418742 TTGCCCAGGATTTAGTTCATATAAAAAATGGGACTTAAATTTTACCTAAACTTATTATTAGACAT
65 TTGCTCAGGATTTAGTTCATATAAAAAATGGGACTTAAATTTTACTTAAACTCATTATTAG--A-
* * *
42418807 CGTATTTTTACCGTAACTCTTTCATTTTTGAACAGACATTCGAGCCTGGATGAGTGATCGACTCA
127 C--A----T--CGT-A---TTTCATTTTTGAACGGACATTTGAGCCTGGATGAGTGATCGGCTCA
* *
42418872 TGAGTAGGTGTAATTTGAAGTATGCAAAAGATAATTTAGTCAACTAAATCTAATTAATTTTTTAT
180 TGAGCATGTGTAATTTGAAGTATGCAAAAGATAATTTAGTCAACTAAATCTAATT-ATTTTTTAT
*
42418937 AATATAATACATATTATATAATATAGTAACATATTTTCACAAAAATGGAAAGCAAAATTTTTTTG
244 AATATAATACATATTATATAATATAGTAACATATTTTCACAAAAATGGAAAG-TAAATTTTTTTG
* * * *
42419002 TTCGTTTAAATAAGAAGCATTCTAGACTATTACATCATAATTAATCTCGAAATAGATAAATCAAT
308 TTTGTTTAAATAAGAAGCATTCCAGACTATTACATCATAATTAATCTCGGAATAGATAAATCAGT
42419067 AATTTA
373 AATTTA
* *
42419073 ATATATATATATAT-A-TATTTAATATTTAATTAGTATAATCATTTTTTACAGTAAGGAAAATTT
1 ATATATATATATATAATTATTTAATATTTAATTAGTATAATTATTTTTTACAGTCAGGAAAATTT
* * * * *
42419136 AGTTCAGGATTTAATTCATGTAAAAAATGGGACTTAAATTTTATTTAAACTCATTATTAGACATC
66 TGCTCAGGATTTAGTTCATATAAAAAATGGGACTTAAATTTTACTTAAACTCATTATTAGACATC
* * *
42419201 GTATTTCATTTTTGAACGGACATTTGAGCTTGGATGAGTGATTGGCTCATGAACATGTGTAATTT
131 GTATTTCATTTTTGAACGGACATTTGAGCCTGGATGAGTGATCGGCTCATGAGCATGTGTAATTT
*
42419266 AAAGTATGCAAAAGATAATTTAGTCAACTAAATCTAATTATTTTTTATAATATAATACATATTAT
196 GAAGTATGCAAAAGATAATTTAGTCAACTAAATCTAATTATTTTTTATAATATAATACATATTAT
42419331 ATAATATAGTAACATATTTTCACAAAAATGGAAAGTAAATTTTTTTGTTTGTTTAAATAAGAAGC
261 ATAATATAGTAACATATTTTCACAAAAATGGAAAGTAAATTTTTTTGTTTGTTTAAATAAGAAGC
42419396 ATTCCAGACTATTACATCATAATTAATCTCGGAATAGATAAATCAGTAATTTA
326 ATTCCAGACTATTACATCATAATTAATCTCGGAATAGATAAATCAGTAATTTA
42419449 ATATATATATATATAATTATTTAATATTTAATTAGTATAATTATTTTTTACAGTCAGGAAAATTT
1 ATATATATATATATAATTATTTAATATTTAATTAGTATAATTATTTTTTACAGTCAGGAAAATTT
* *
42419514 TGGTCAGGATTTAGTTCATATAAAAAATGGGACTTAAGTTTTACTTAAACTCATTATTAGACATC
66 TGCTCAGGATTTAGTTCATATAAAAAATGGGACTTAAATTTTACTTAAACTCATTATTAGACATC
*
42419579 GTATTTCATTTTTGAACGGACATTTGAGCCTGGATGAGTGATCAGCTCATGAGCATGTGTAATTT
131 GTATTTCATTTTTGAACGGACATTTGAGCCTGGATGAGTGATCGGCTCATGAGCATGTGTAATTT
42419644 GAAGTATGCAAAAGATAATTTAGTCAACTAAATCTAATTATTTTTTTTATAATATAATACATATT
196 GAAGTATGCAAAAGATAATTTAGTCAACTAAATCTAATTA--TTTTTTATAATATAATACATATT
42419709 ATATAATATAGTAACATATTTTCACAAAAATGGAAAGT-AATTTTTTT-TTTGTTTAAATAAGAA
259 ATATAATATAGTAACATATTTTCACAAAAATGGAAAGTAAATTTTTTTGTTTGTTTAAATAAGAA
42419772 GCATTCCAGACTATTACATCATAATTAATCTCGGAATAGATAAATCAGTAA
324 GCATTCCAGACTATTACATCATAATTAATCTCGGAATAGATAAATCAGTAA
42419823 GGTCTTCATG
Statistics
Matches: 704, Mismatches: 41, Indels: 27
0.91 0.05 0.03
Matches are distributed among these distances:
376 92 0.13
377 62 0.09
378 364 0.52
379 9 0.01
380 61 0.09
381 1 0.00
382 3 0.00
384 1 0.00
388 1 0.00
390 1 0.00
391 1 0.00
393 94 0.13
394 2 0.00
395 12 0.02
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (378 bp):
ATATATATATATATAATTATTTAATATTTAATTAGTATAATTATTTTTTACAGTCAGGAAAATTT
TGCTCAGGATTTAGTTCATATAAAAAATGGGACTTAAATTTTACTTAAACTCATTATTAGACATC
GTATTTCATTTTTGAACGGACATTTGAGCCTGGATGAGTGATCGGCTCATGAGCATGTGTAATTT
GAAGTATGCAAAAGATAATTTAGTCAACTAAATCTAATTATTTTTTATAATATAATACATATTAT
ATAATATAGTAACATATTTTCACAAAAATGGAAAGTAAATTTTTTTGTTTGTTTAAATAAGAAGC
ATTCCAGACTATTACATCATAATTAATCTCGGAATAGATAAATCAGTAATTTA
Found at i:42419715 original size:19 final size:20
Alignment explanation
Indices: 42419691--42419728 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
42419681 TTATTTTTTT
42419691 TATAATATAAT-ACATATTA
1 TATAATATAATAACATATTA
*
42419710 TATAATATAGTAACATATT
1 TATAATATAATAACATATT
42419729 TTCACAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (20 bp):
TATAATATAATAACATATTA
Found at i:42423289 original size:18 final size:18
Alignment explanation
Indices: 42423277--42423321 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 18
42423267 TTTTTATATT
*
42423277 TTTTTATAATTTTAAATA
1 TTTTTACAATTTTAAATA
42423295 TTTTTACAATTTTTATAGATA
1 TTTTTACAA-TTTTA-A-ATA
42423316 TTTTTA
1 TTTTTA
42423322 ATAATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 8 0.35
19 5 0.22
20 1 0.04
21 9 0.39
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (18 bp):
TTTTTACAATTTTAAATA
Found at i:42423330 original size:11 final size:10
Alignment explanation
Indices: 42423206--42423350 Score: 78
Period size: 10 Copynumber: 14.8 Consensus size: 10
42423196 TTGGATCTTG
42423206 AATTTTTTAT
1 AATTTTTTAT
42423216 AA-TTTTTA-
1 AATTTTTTAT
42423224 AATATTTGTT-T
1 AAT-TTT-TTAT
*
42423235 ACATTTTTTAA
1 A-ATTTTTTAT
*
42423246 AATTTTTT-C
1 AATTTTTTAT
* *
42423255 AGTTATTTA-
1 AATTTTTTAT
42423264 AATTTTTTAT
1 AATTTTTTAT
*
42423274 ATTTTTTTAT
1 AATTTTTTAT
42423284 AA--TTTTA-
1 AATTTTTTAT
*
42423291 AATATTTTTAC
1 AAT-TTTTTAT
42423302 AA-TTTTTAT
1 AATTTTTTAT
42423311 AGATATTTTTAAT
1 A-AT-TTTTT-AT
42423324 AATTTTTTA-
1 AATTTTTTAT
*
42423333 ACAATTTTTAT
1 A-ATTTTTTAT
42423344 -ATTTTTT
1 AATTTTTT
42423351 GGTCCCTGGT
Statistics
Matches: 106, Mismatches: 11, Indels: 37
0.69 0.07 0.24
Matches are distributed among these distances:
7 2 0.02
8 7 0.07
9 33 0.31
10 38 0.36
11 14 0.13
12 9 0.08
13 3 0.03
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (10 bp):
AATTTTTTAT
Found at i:42426426 original size:26 final size:26
Alignment explanation
Indices: 42426390--42426442 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
42426380 ATCGACTAAA
42426390 CCGAAGTAATTTGACACCCTGTGCCT
1 CCGAAGTAATTTGACACCCTGTGCCT
*
42426416 CCGAAGTAATTTGCCACCCTGTGCCT
1 CCGAAGTAATTTGACACCCTGTGCCT
42426442 C
1 C
42426443 ATCGACTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.21, C:0.34, G:0.19, T:0.26
Consensus pattern (26 bp):
CCGAAGTAATTTGACACCCTGTGCCT
Found at i:42431333 original size:31 final size:29
Alignment explanation
Indices: 42431278--42431348 Score: 97
Period size: 31 Copynumber: 2.4 Consensus size: 29
42431268 AAAGTTTGAA
*
42431278 TTAATTTTAAATTCATTTTTAAATTTATC
1 TTAAATTTAAATTCATTTTTAAATTTATC
* *
42431307 TTAAATTTAAATTTACTTATTTAAATTTATT
1 TTAAATTTAAATTCA-TT-TTTAAATTTATC
42431338 TTAAATTTAAA
1 TTAAATTTAAA
42431349 CTTAATTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 13 0.35
30 2 0.05
31 22 0.59
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.56
Consensus pattern (29 bp):
TTAAATTTAAATTCATTTTTAAATTTATC
Found at i:42431345 original size:11 final size:11
Alignment explanation
Indices: 42431276--42431346 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
42431266 TTAAAGTTTG
*
42431276 AATTAATTTTA
1 AATTTATTTTA
*
42431287 AATTCATTTTTA
1 AATTTA-TTTTA
*
42431299 AATTTATCTTA
1 AATTTATTTTA
*
42431310 AATTTAAATTT-
1 AATTT-ATTTTA
*
42431321 -ACTTA-TTTA
1 AATTTATTTTA
42431330 AATTTATTTTA
1 AATTTATTTTA
42431341 AATTTA
1 AATTTA
42431347 AACTTAATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
8 3 0.06
9 1 0.02
10 7 0.15
11 24 0.50
12 13 0.27
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.56
Consensus pattern (11 bp):
AATTTATTTTA
Found at i:42431357 original size:17 final size:17
Alignment explanation
Indices: 42431325--42431359 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
42431315 AAATTTACTT
* *
42431325 ATTTAAATTTATTTTAA
1 ATTTAAACTTAATTTAA
42431342 ATTTAAACTTAATTTAA
1 ATTTAAACTTAATTTAA
42431359 A
1 A
42431360 ATAATATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTAAACTTAATTTAA
Found at i:42431453 original size:16 final size:17
Alignment explanation
Indices: 42431422--42431455 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
42431412 CCAAATTAAA
42431422 GGCCCGATTACAAAAAG
1 GGCCCGATTACAAAAAG
42431439 GGCCCGATTACAAAAAG
1 GGCCCGATTACAAAAAG
42431456 CCCAATTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.24, G:0.24, T:0.12
Consensus pattern (17 bp):
GGCCCGATTACAAAAAG
Found at i:42432372 original size:12 final size:12
Alignment explanation
Indices: 42432341--42432390 Score: 52
Period size: 11 Copynumber: 4.4 Consensus size: 12
42432331 TTTTTAAAAG
*
42432341 AAAGA-AATAAT
1 AAAGATAATAAA
42432352 AAA-ATAATAAA
1 AAAGATAATAAA
*
42432363 AAAGATAATATA
1 AAAGATAATAAA
*
42432375 AAAG-TAACAAA
1 AAAGATAATAAA
42432386 AAAGA
1 AAAGA
42432391 AAGAACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
10 1 0.03
11 20 0.62
12 11 0.34
ACGTcount: A:0.74, C:0.02, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAGATAATAAA
Found at i:42432386 original size:23 final size:22
Alignment explanation
Indices: 42432341--42432392 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 22
42432331 TTTTTAAAAG
*
42432341 AAAGAAATAATAAAATAATAAA
1 AAAGAAATAATAAAATAACAAA
42432363 AAAGATAAT-ATAAAAGTAACAAA
1 AAAGA-AATAATAAAA-TAACAAA
42432386 AAAGAAA
1 AAAGAAA
42432393 GAACAAAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 13 0.48
23 14 0.52
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.15
Consensus pattern (22 bp):
AAAGAAATAATAAAATAACAAA
Found at i:42433135 original size:29 final size:30
Alignment explanation
Indices: 42433095--42433185 Score: 123
Period size: 29 Copynumber: 3.1 Consensus size: 30
42433085 AATTGTCCAC
*
42433095 AATTACATTTTGACCCCAAAACTTTCCCAA
1 AATTATATTTTGACCCCAAAACTTTCCCAA
* *
42433125 AATTATA-TTTGACACCAAAACTTTTCCAA
1 AATTATATTTTGACCCCAAAACTTTCCCAA
* *
42433154 AATTATATTTTGACCCCCAAAC-TTCCCTA
1 AATTATATTTTGACCCCAAAACTTTCCCAA
42433183 AAT
1 AAT
42433186 CCCATTTTTA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
29 35 0.66
30 18 0.34
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.33
Consensus pattern (30 bp):
AATTATATTTTGACCCCAAAACTTTCCCAA
Found at i:42433225 original size:30 final size:29
Alignment explanation
Indices: 42433191--42433288 Score: 87
Period size: 30 Copynumber: 3.3 Consensus size: 29
42433181 TAAATCCCAT
42433191 TTTTAACCCCGATTTCACCAAAATTTACCA
1 TTTTAACCCCGATTTCACCAAAA-TTACCA
* * *
42433221 TTTTACCCCCGAATCTT--TCAAAATT-CCTT
1 TTTTAACCCCG-AT-TTCACCAAAATTACC-A
*
42433250 TTTTAACCTCGATTTCACCAAAAATTACCA
1 TTTTAACCCCGATTTCACC-AAAATTACCA
42433280 TTTT-ACCCC
1 TTTTAACCCC
42433289 TGAATCTTTC
Statistics
Matches: 53, Mismatches: 8, Indels: 15
0.70 0.11 0.20
Matches are distributed among these distances:
27 2 0.04
28 4 0.08
29 16 0.30
30 25 0.47
31 4 0.08
32 2 0.04
ACGTcount: A:0.30, C:0.31, G:0.03, T:0.37
Consensus pattern (29 bp):
TTTTAACCCCGATTTCACCAAAATTACCA
Found at i:42433255 original size:59 final size:59
Alignment explanation
Indices: 42433182--42433316 Score: 225
Period size: 59 Copynumber: 2.3 Consensus size: 59
42433172 AAACTTCCCT
* *
42433182 AAATCCCATTTTTAACCCCGATTTCACCAAAATTTACCATTTTACCCCCGAATCTTTCA
1 AAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTTTCA
* * *
42433241 AAATTCCTTTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCTGAATCTTTCA
1 AAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTTTCA
42433300 AAATTCCATTTTTAACC
1 AAATTCCATTTTTAACC
42433317 ATTTTACCCC
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 70 1.00
ACGTcount: A:0.31, C:0.29, G:0.03, T:0.37
Consensus pattern (59 bp):
AAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTTTCA
Found at i:42433302 original size:30 final size:30
Alignment explanation
Indices: 42433209--42433408 Score: 93
Period size: 30 Copynumber: 6.5 Consensus size: 30
42433199 CCGATTTCAC
* *
42433209 CAAAATTTACCATTTTACCCCCGAATCTTT
1 CAAAAATTACCATTTTACCCCTGAATCTTT
* * *
42433239 C-AAAATT-CCTTTTTTA-ACCTCG-AT-TTCAC
1 CAAAAATTACC-ATTTTACCCCT-GAATCTT--T
42433268 CAAAAATTACCATTTTACCCCTGAATCTTT
1 CAAAAATTACCATTTTACCCCTGAATCTTT
42433298 CAAAATTCCATTTTTAACCATTTTACCCCTGAATCTTT
1 CAAAA----A---TT-ACCATTTTACCCCTGAATCTTT
42433336 C-AAAATT-CCATTTTTAACCCC-G---CTTT
1 CAAAAATTACCA-TTTT-ACCCCTGAATCTTT
*
42433362 CACCGAAAATTACCATTTTACCCCCGAAT-TTT
1 CA---AAAATTACCATTTTACCCCTGAATCTTT
*
42433394 CTAAAATT-CCATTTT
1 CAAAAATTACCATTTT
42433409 TAACCTCGAT
Statistics
Matches: 133, Mismatches: 9, Indels: 58
0.67 0.05 0.29
Matches are distributed among these distances:
26 5 0.04
27 2 0.02
28 16 0.12
29 28 0.21
30 36 0.27
31 10 0.08
32 6 0.05
33 1 0.01
34 1 0.01
37 5 0.04
38 23 0.17
ACGTcount: A:0.30, C:0.28, G:0.04, T:0.39
Consensus pattern (30 bp):
CAAAAATTACCATTTTACCCCTGAATCTTT
Found at i:42433312 original size:29 final size:29
Alignment explanation
Indices: 42433221--42433313 Score: 77
Period size: 29 Copynumber: 3.2 Consensus size: 29
42433211 AAATTTACCA
* *
42433221 TTTTACCCCCGAATCTTTCAAAATTCCTT
1 TTTTACCCCTGAATCTTTCAAAATTCCAT
* *
42433250 TTTTA-ACCTCG-AT-TTCACCAAAAATTACCA-
1 TTTTACCCCT-GAATCTT--TC-AAAATT-CCAT
42433280 TTTTACCCCTGAATCTTTCAAAATTCCAT
1 TTTTACCCCTGAATCTTTCAAAATTCCAT
42433309 TTTTA
1 TTTTA
42433314 ACCATTTTAC
Statistics
Matches: 49, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
27 2 0.04
28 7 0.14
29 18 0.37
30 13 0.27
31 7 0.14
32 2 0.04
ACGTcount: A:0.29, C:0.27, G:0.03, T:0.41
Consensus pattern (29 bp):
TTTTACCCCTGAATCTTTCAAAATTCCAT
Found at i:42433327 original size:38 final size:38
Alignment explanation
Indices: 42433276--42433354 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
42433266 ACCAAAAATT
42433276 ACCATTTTACCCCTGAATCTTTCAAAATTCCATTTTTA
1 ACCATTTTACCCCTGAATCTTTCAAAATTCCATTTTTA
42433314 ACCATTTTACCCCTGAATCTTTCAAAATTCCATTTTTA
1 ACCATTTTACCCCTGAATCTTTCAAAATTCCATTTTTA
42433352 ACC
1 ACC
42433355 CCGCTTTCAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.29, C:0.28, G:0.03, T:0.41
Consensus pattern (38 bp):
ACCATTTTACCCCTGAATCTTTCAAAATTCCATTTTTA
Found at i:42433336 original size:97 final size:97
Alignment explanation
Indices: 42433217--42433413 Score: 324
Period size: 97 Copynumber: 2.0 Consensus size: 97
42433207 ACCAAAATTT
* *
42433217 ACCATTTTACCCCCGAATCTTTCAAAATTCCTTTTTTAACCTCGATTTCACCAAAAATTACCATT
1 ACCATTTTACCCCCGAATCTTTCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATT
*
42433282 TTACCCCTGAATCTTTC-AAAATTCCATTTTTA
66 TTACCCCCGAAT-TTTCTAAAATTCCATTTTTA
* * *
42433314 ACCATTTTACCCCTGAATCTTTCAAAATTCCATTTTTAACCCCGCTTTCACCGAAAATTACCATT
1 ACCATTTTACCCCCGAATCTTTCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATT
42433379 TTACCCCCGAATTTTCTAAAATTCCATTTTTA
66 TTACCCCCGAATTTTCTAAAATTCCATTTTTA
42433411 ACC
1 ACC
42433414 TCGATTACGC
Statistics
Matches: 93, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
96 4 0.04
97 89 0.96
ACGTcount: A:0.29, C:0.29, G:0.04, T:0.38
Consensus pattern (97 bp):
ACCATTTTACCCCCGAATCTTTCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATT
TTACCCCCGAATTTTCTAAAATTCCATTTTTA
Found at i:42433400 original size:59 final size:58
Alignment explanation
Indices: 42433314--42433445 Score: 185
Period size: 59 Copynumber: 2.3 Consensus size: 58
42433304 TCCATTTTTA
* * *
42433314 ACCATTTTACCCCTGAATCTTTCAAAATTCCATTTTTAACCCCGCTTTCACCGAAAATT
1 ACCATTTTACCCCCGAATCTTTCAAAATTCCATTTTTAACCCCGATTACACC-AAAATT
* *
42433373 ACCATTTTACCCCCGAAT-TTTCTAAAATTCCATTTTTAACCTCGATTACGCCAAAATT
1 ACCATTTTACCCCCGAATCTTTC-AAAATTCCATTTTTAACCCCGATTACACCAAAATT
*
42433431 ACCATTTTGCCCCCG
1 ACCATTTTACCCCCG
42433446 GGTATCCATA
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
58 24 0.36
59 42 0.64
ACGTcount: A:0.28, C:0.31, G:0.06, T:0.35
Consensus pattern (58 bp):
ACCATTTTACCCCCGAATCTTTCAAAATTCCATTTTTAACCCCGATTACACCAAAATT
Found at i:42433438 original size:30 final size:28
Alignment explanation
Indices: 42433336--42433438 Score: 82
Period size: 30 Copynumber: 3.5 Consensus size: 28
42433326 CTGAATCTTT
*
42433336 CAAAATTCCATTTTTAACCCCGCTTTCAC
1 CAAAATTCCATTTTTAACCCCG-ATTCAC
* **
42433365 CGAAAATTACCA-TTTTACCCCCGAATTTTC
1 C-AAAATT-CCATTTTTAACCCCG-ATTCAC
* * *
42433395 TAAAATTCCATTTTTAACCTCGATTACGC
1 CAAAATTCCATTTTTAACCCCGATT-CAC
42433424 CAAAATTACCATTTT
1 CAAAATT-CCATTTT
42433439 GCCCCCGGGT
Statistics
Matches: 58, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
28 6 0.10
29 23 0.40
30 26 0.45
31 3 0.05
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.36
Consensus pattern (28 bp):
CAAAATTCCATTTTTAACCCCGATTCAC
Found at i:42445634 original size:31 final size:31
Alignment explanation
Indices: 42445599--42445775 Score: 122
Period size: 31 Copynumber: 5.3 Consensus size: 31
42445589 TCTTTATCTC
42445599 TGAAATTGAAGTAAGAGCAACGTCATCCCCT
1 TGAAATTGAAGTAAGAGCAACGTCATCCCCT
** * ***
42445630 TGAAATTGAAGTAGAGTGGATAATACGTCTTTATCT
1 TGAAATTGAAGTA-A---GAGCA-ACGTCATCCCCT
42445666 CTGAAATTGAAGTAAGAGCAACGTCATCCCCT
1 -TGAAATTGAAGTAAGAGCAACGTCATCCCCT
** * ***
42445698 TGAAATTGAAGTAGAGTGGATAATACGTCTTTATCT
1 TGAAATTGAAGTA-A---GAGCA-ACGTCATCCCCT
42445734 CTGAAATTGAAGTAAGAGCAACGTCAT-CCCT
1 -TGAAATTGAAGTAAGAGCAACGTCATCCCCT
42445765 TCGAAATTGAA
1 T-GAAATTGAA
42445776 ATAGAGTGGA
Statistics
Matches: 110, Mismatches: 23, Indels: 26
0.69 0.14 0.16
Matches are distributed among these distances:
30 1 0.01
31 37 0.34
32 16 0.15
33 6 0.05
35 6 0.05
36 18 0.16
37 26 0.24
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.28
Consensus pattern (31 bp):
TGAAATTGAAGTAAGAGCAACGTCATCCCCT
Found at i:42445669 original size:68 final size:69
Alignment explanation
Indices: 42445555--42446210 Score: 542
Period size: 68 Copynumber: 9.0 Consensus size: 69
42445545 ATCAATGCCA
* *
42445555 ATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCCCTTGAAATTGAAGTAGAGCTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
42445619 CGTC
66 CGTC
42445623 ATCCCCTTGAAATTGAAGTAGAG-TGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCCCTTGAAATTGAAGTAGAGCTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
42445687 CGTC
66 CGTC
42445691 ATCCCCTTGAAATTGAAGTAGAG-TGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCCCTTGAAATTGAAGTAGAGCTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
42445755 CGTC
66 CGTC
* * * **
42445759 AT-CCCTTCGAAATTGAAATAGAG-TGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAATA
1 ATCCCCTT-GAAATTGAAGTAGAGCTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
42445822 A-GATC
65 ACG-TC
* * *
42445827 ATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACATGTCTTTATCTCTGAAATTGAAGTA
1 A--T-C---CC-CTTGAAATTGAAGTAGAGCTGGATAATACGTCTTTATCTCTGAAATTGAAGTA
* * *
42445892 AGAGTAGCATC
59 AGAGCAACGTC
* * * * *
42445903 ATTTCCTATCCTCTCGAAATTGAAGTAAAGCTGGAT-ATCAAGTTTCTTATCTCCGAAAATGAAG
1 A--TCC---CCT-T-GAAATTGAAGTAGAGCTGGATAAT-ACGTCT-TTATCTCTGAAATTGAAG
*
42445967 TAAGAGCGAGATCATTTCC
57 TAAGAGC-A-A-C--GT-C
* * * * *
42445986 TATCCTCTTGAAATTGAAGTAAAGCTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGTA
1 -ATCCCCTTGAAATTGAAGTAGAGCTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
* *
42446051 GCATC
65 ACGTC
* * * * *
42446056 ATTTCCTATCCTCTCGAAATTGAAGTAAAGCTGGAT-ATCAAGTTTCTTATCTCCGAAAATGAAG
1 A--TCC---CCT-T-GAAATTGAAGTAGAGCTGGATAAT-ACGTCT-TTATCTCTGAAATTGAAG
42446120 TAAGAGCAA-GATC
57 TAAGAGCAACG-TC
* *
42446133 ATTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGAT-AT-CGAGTCTTTATCTCCGAAATTGAAG
1 A--T--C--CC-CTTGAAATTGAAGTAGAGCTGGATAATAC--GTCTTTATCTCTGAAATTGAAG
42446196 TAAGAGCAACGTC
57 TAAGAGCAACGTC
42446209 AT
1 AT
42446211 TTCCTATCCG
Statistics
Matches: 499, Mismatches: 44, Indels: 84
0.80 0.07 0.13
Matches are distributed among these distances:
67 6 0.01
68 190 0.38
69 1 0.00
70 2 0.00
71 4 0.01
72 1 0.00
73 1 0.00
74 5 0.01
75 22 0.04
76 148 0.30
77 101 0.20
78 5 0.01
79 5 0.01
80 1 0.00
81 1 0.00
82 4 0.01
83 1 0.00
84 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (69 bp):
ATCCCCTTGAAATTGAAGTAGAGCTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
CGTC
Found at i:42445872 original size:76 final size:75
Alignment explanation
Indices: 42445541--42446269 Score: 749
Period size: 76 Copynumber: 9.9 Consensus size: 75
42445531 TCAAACCAAA
* * * * *
42445541 CAAGATCAATGCCAATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTGGATAACAAGTCTTTATCTCTGAAATT
42445606 GAAGTAAGAG
66 GAAGTAAGAG
* * *
42445616 CAACG-TCA--T-C---CC-CTTGAAATTGAAGTAGAGTGGATAATACGTCTTTATCTCTGAAAT
1 CAA-GATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTGGATAACAAGTCTTTATCTCTGAAAT
42445673 TGAAGTAAGAG
65 TGAAGTAAGAG
* * *
42445684 CAACG-TCA--T-C---CC-CTTGAAATTGAAGTAGAGTGGATAATACGTCTTTATCTCTGAAAT
1 CAA-GATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTGGATAACAAGTCTTTATCTCTGAAAT
42445741 TGAAGTAAGAG
65 TGAAGTAAGAG
* * *
42445752 CAACG-TCA--T-C---CCT-TCGAAATTGAAATAGAGTGGATAACAAGTCTTTATCTCTGAAAT
1 CAA-GATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTGGATAACAAGTCTTTATCTCTGAAAT
*
42445809 TGAAGTAAGAA
65 TGAAGTAAGAG
* *
42445820 TAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACATGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAG-TGGATAACAAGTCTTTATCTCTGAAAT
42445885 TGAAGTAAGAG
65 TGAAGTAAGAG
* * * * *
42445896 -TAGCATCATTTCCTATCCTCTCGAAATTGAAGTAAAGCTGGATATCAAGTTTCTTATCTCCGAA
1 CAAG-ATCATTTCCTATCCTCTTGAAATTGAAGTAAAG-TGGATAACAAGTCT-TTATCTCTGAA
*
42445960 AATGAAGTAAGAG
63 ATTGAAGTAAGAG
* *
42445973 CGAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACATGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAG-TGGATAACAAGTCTTTATCTCTGAAAT
42446038 TGAAGTAAGAG
65 TGAAGTAAGAG
* * * * *
42446049 -TAGCATCATTTCCTATCCTCTCGAAATTGAAGTAAAGCTGGATATCAAGTTTCTTATCTCCGAA
1 CAAG-ATCATTTCCTATCCTCTTGAAATTGAAGTAAAG-TGGATAACAAGTCT-TTATCTCTGAA
*
42446113 AATGAAGTAAGAG
63 ATTGAAGTAAGAG
* * * * *
42446126 CAAGATCATTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATATCGAGTCTTTATCTCCGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAG-TGGATAACAAGTCTTTATCTCTGAAAT
42446191 TGAAGTAAGAG
65 TGAAGTAAGAG
* * * * * *
42446202 CAACG-TCATTTCCTATCCGT-TCGAAATCGAAGTAGAATTGGGTATCAAGTCTTTATCTCCGAA
1 CAA-GATCATTTCCTATCC-TCTTGAAATTGAAGTA-AAGTGGATAACAAGTCTTTATCTCTGAA
42446265 ATTGA
63 ATTGA
42446270 GGAAGACAAA
Statistics
Matches: 585, Mismatches: 49, Indels: 39
0.87 0.07 0.06
Matches are distributed among these distances:
67 1 0.00
68 190 0.32
69 2 0.00
70 1 0.00
71 1 0.00
72 1 0.00
74 3 0.01
75 24 0.04
76 225 0.38
77 133 0.23
78 4 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.31
Consensus pattern (75 bp):
CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTGGATAACAAGTCTTTATCTCTGAAATT
GAAGTAAGAG
Found at i:42446074 original size:153 final size:149
Alignment explanation
Indices: 42445541--42446265 Score: 864
Period size: 153 Copynumber: 4.9 Consensus size: 149
42445531 TCAAACCAAA
* * *
42445541 CAAGATCAATGCCAATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATT
* *
42445606 GAAGTAAGAGCAACGTCA--TCC---CCTT-GAAATTGAAGTAGAGTGGATAAT-ACGTCTTTAT
66 GAAGTAAGAGCAACGTCATTTCCTATCCTTCGAAATTGAAGTAAAGTGGAT-ATCAAGTCTTTAT
* *
42445664 CTCTGAAATTGAAGTAAGAG
130 CTCCGAAAATGAAGTAAGAG
*
42445684 CAACG-TCA--T-C---CC-CTTGAAATTGAAGTAGAGTGGATAATACGTCTTTATCTCTGAAAT
1 CAA-GATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAAT
* * *
42445741 TGAAGTAAGAGCAACGTCA--T-C---CCTTCGAAATTGAAATAGAGTGGATAACAAGTCTTTAT
65 TGAAGTAAGAGCAACGTCATTTCCTATCCTTCGAAATTGAAGTAAAGTGGATATCAAGTCTTTAT
* * *
42445800 CTCTGAAATTGAAGTAAGAA
130 CTCCGAAAATGAAGTAAGAG
* * *
42445820 TAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACATGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAAT
* * * *
42445885 TGAAGTAAGAGTAGCATCATTTCCTATCCTCTCGAAATTGAAGTAAAGCTGGATATCAAGTTTCT
65 TGAAGTAAGAGCAACGTCATTTCCTATCCT-TCGAAATTGAAGTAAAG-TGGATATCAAGTCT-T
42445950 TATCTCCGAAAATGAAGTAAGAG
127 TATCTCCGAAAATGAAGTAAGAG
* * *
42445973 CGAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACATGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAAT
* * * *
42446038 TGAAGTAAGAGTAGCATCATTTCCTATCCTCTCGAAATTGAAGTAAAGCTGGATATCAAGTTTCT
65 TGAAGTAAGAGCAACGTCATTTCCTATCCT-TCGAAATTGAAGTAAAG-TGGATATCAAGTCT-T
42446103 TATCTCCGAAAATGAAGTAAGAG
127 TATCTCCGAAAATGAAGTAAGAG
* * *
42446126 CAAGATCATTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATATCGA-GTCTTTATCTCCGAAA
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAG-TGGATAAC-ACGTCTTTATCTCTGAAA
* * *
42446190 TTGAAGTAAGAGCAACGTCATTTCCTATCCGTTCGAAATCGAAGTAGAATTGGGTATCAAGTCTT
64 TTGAAGTAAGAGCAACGTCATTTCCTATCC-TTCGAAATTGAAGTA-AAGTGGATATCAAGTCTT
42446255 TATCTCCGAAA
127 TATCTCCGAAA
42446266 TTGAGGAAGA
Statistics
Matches: 523, Mismatches: 35, Indels: 39
0.88 0.06 0.07
Matches are distributed among these distances:
135 7 0.01
136 116 0.22
137 2 0.00
138 1 0.00
139 1 0.00
140 1 0.00
142 2 0.00
143 23 0.04
144 42 0.08
146 1 0.00
147 1 0.00
150 3 0.01
151 15 0.03
152 24 0.05
153 280 0.54
154 4 0.01
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (149 bp):
CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATT
GAAGTAAGAGCAACGTCATTTCCTATCCTTCGAAATTGAAGTAAAGTGGATATCAAGTCTTTATC
TCCGAAAATGAAGTAAGAG
Found at i:42446565 original size:31 final size:29
Alignment explanation
Indices: 42446510--42446580 Score: 97
Period size: 31 Copynumber: 2.4 Consensus size: 29
42446500 AAAGTTTGAA
*
42446510 TTAATTTTAAATTCATTTTTAAATTTATC
1 TTAAATTTAAATTCATTTTTAAATTTATC
* *
42446539 TTAAATTTAAATTTACTTATTTAAATTTATT
1 TTAAATTTAAATTCA-TT-TTTAAATTTATC
42446570 TTAAATTTAAA
1 TTAAATTTAAA
42446581 CTTAATTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 13 0.35
30 2 0.05
31 22 0.59
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.56
Consensus pattern (29 bp):
TTAAATTTAAATTCATTTTTAAATTTATC
Found at i:42446577 original size:11 final size:11
Alignment explanation
Indices: 42446508--42446578 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
42446498 TTAAAGTTTG
*
42446508 AATTAATTTTA
1 AATTTATTTTA
*
42446519 AATTCATTTTTA
1 AATTTA-TTTTA
*
42446531 AATTTATCTTA
1 AATTTATTTTA
*
42446542 AATTTAAATTT-
1 AATTT-ATTTTA
*
42446553 -ACTTA-TTTA
1 AATTTATTTTA
42446562 AATTTATTTTA
1 AATTTATTTTA
42446573 AATTTA
1 AATTTA
42446579 AACTTAATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
8 3 0.06
9 1 0.02
10 7 0.15
11 24 0.50
12 13 0.27
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.56
Consensus pattern (11 bp):
AATTTATTTTA
Found at i:42446589 original size:17 final size:17
Alignment explanation
Indices: 42446557--42446591 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
42446547 AAATTTACTT
* *
42446557 ATTTAAATTTATTTTAA
1 ATTTAAACTTAATTTAA
42446574 ATTTAAACTTAATTTAA
1 ATTTAAACTTAATTTAA
42446591 A
1 A
42446592 ATAATATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTAAACTTAATTTAA
Found at i:42446685 original size:16 final size:17
Alignment explanation
Indices: 42446654--42446687 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
42446644 CCAAATTAAA
42446654 GGCCCGATTACAAAAAG
1 GGCCCGATTACAAAAAG
42446671 GGCCCGATTACAAAAAG
1 GGCCCGATTACAAAAAG
42446688 CCCAATTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.24, G:0.24, T:0.12
Consensus pattern (17 bp):
GGCCCGATTACAAAAAG
Found at i:42447443 original size:13 final size:13
Alignment explanation
Indices: 42447422--42447452 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
42447412 CGTCGCCGGA
*
42447422 GCCGGAGCCCGTC
1 GCCGTAGCCCGTC
42447435 GCCGTAGCCCGTC
1 GCCGTAGCCCGTC
42447448 GCCGT
1 GCCGT
42447453 CGTACCTCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.06, C:0.45, G:0.35, T:0.13
Consensus pattern (13 bp):
GCCGTAGCCCGTC
Found at i:42447615 original size:12 final size:12
Alignment explanation
Indices: 42447584--42447633 Score: 52
Period size: 11 Copynumber: 4.4 Consensus size: 12
42447574 TTTTTAAAAG
*
42447584 AAAGA-AATAAT
1 AAAGATAATAAA
42447595 AAA-ATAATAAA
1 AAAGATAATAAA
*
42447606 AAAGATAATATA
1 AAAGATAATAAA
*
42447618 AAAG-TAACAAA
1 AAAGATAATAAA
42447629 AAAGA
1 AAAGA
42447634 AAGAACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
10 1 0.03
11 20 0.62
12 11 0.34
ACGTcount: A:0.74, C:0.02, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAGATAATAAA
Found at i:42447629 original size:23 final size:22
Alignment explanation
Indices: 42447584--42447635 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 22
42447574 TTTTTAAAAG
*
42447584 AAAGAAATAATAAAATAATAAA
1 AAAGAAATAATAAAATAACAAA
42447606 AAAGATAAT-ATAAAAGTAACAAA
1 AAAGA-AATAATAAAA-TAACAAA
42447629 AAAGAAA
1 AAAGAAA
42447636 GAACAAAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 13 0.48
23 14 0.52
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.15
Consensus pattern (22 bp):
AAAGAAATAATAAAATAACAAA
Found at i:42448374 original size:30 final size:30
Alignment explanation
Indices: 42448329--42448506 Score: 218
Period size: 30 Copynumber: 6.0 Consensus size: 30
42448319 CCCTAAATTG
* * * *
42448329 TCCACAATTACATTTTAACCCTAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
** *
42448359 TTTAAAATTATATTTTGACCCTAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
* * *
42448389 CCCAAAATTATAATTTAACCCCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
42448419 TCCAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
*
42448449 TCCAAAATTACATTTTGACCCCAAAAC--T
1 TCCAAAATTATATTTTGACCCCAAAACTTT
42448477 TCCAAAAATTATCATTTT-ACCCCAAAACTT
1 TCC-AAAATTAT-ATTTTGACCCCAAAACTT
42448507 CCCTAAATCC
Statistics
Matches: 128, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
28 4 0.03
29 17 0.13
30 107 0.84
ACGTcount: A:0.39, C:0.24, G:0.02, T:0.35
Consensus pattern (30 bp):
TCCAAAATTATATTTTGACCCCAAAACTTT
Found at i:42448529 original size:59 final size:59
Alignment explanation
Indices: 42448338--42448529 Score: 210
Period size: 60 Copynumber: 3.2 Consensus size: 59
42448328 GTCCACAATT
* ** * *
42448338 ACATTTTAACCCTAAAACTTTTTTAAAATTATATTTTGACCCTAAAACTTTCCCAAAATT
1 ACATTTTAACCCCAAAAC-TTTCCAAAATTATATTTTGACCCCAAAACTTTCCCAAAATC
* * * *
42448398 ATAATTTAACCCCAAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTTCCAAAATT
1 ACATTTTAACCCCAAAAC-TTTCCAAAATTATATTTTGACCCCAAAACTTTCCCAAAATC
* *
42448458 ACATTTTGACCCCAAAAC-TTCCAAAAATTATCATTTT-ACCCCAAAAC-TTCCCTAAATC
1 ACATTTTAACCCCAAAACTTTCC-AAAATTAT-ATTTTGACCCCAAAACTTTCCCAAAATC
*
42448516 CCATTTTTAACCCC
1 ACA-TTTTAACCCC
42448530 GATTTCACCA
Statistics
Matches: 114, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
58 14 0.12
59 27 0.24
60 73 0.64
ACGTcount: A:0.38, C:0.26, G:0.02, T:0.35
Consensus pattern (59 bp):
ACATTTTAACCCCAAAACTTTCCAAAATTATATTTTGACCCCAAAACTTTCCCAAAATC
Found at i:42448596 original size:28 final size:30
Alignment explanation
Indices: 42448540--42448616 Score: 88
Period size: 29 Copynumber: 2.6 Consensus size: 30
42448530 GATTTCACCA
*
42448540 AAAATTACCA-TTTTACCCCCAAATCTTTC-
1 AAAATT-CCATTTTTACCTCCAAATCTTTCT
* *
42448569 AAAATTCTATTTTTACCTCCGAAT-TTTCT
1 AAAATTCCATTTTTACCTCCAAATCTTTCT
*
42448598 AAAATTCCATTTTAACCTC
1 AAAATTCCATTTTTACCTC
42448617 GATTACACCA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
28 6 0.15
29 35 0.85
ACGTcount: A:0.32, C:0.26, G:0.01, T:0.40
Consensus pattern (30 bp):
AAAATTCCATTTTTACCTCCAAATCTTTCT
Found at i:42451281 original size:12 final size:12
Alignment explanation
Indices: 42451266--42451291 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
42451256 ATACACTTAA
42451266 AAATATTAAAAC
1 AAATATTAAAAC
42451278 AAATATTAAAAC
1 AAATATTAAAAC
42451290 AA
1 AA
42451292 TAAACAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (12 bp):
AAATATTAAAAC
Found at i:42451329 original size:41 final size:41
Alignment explanation
Indices: 42451268--42451347 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
42451258 ACACTTAAAA
* *
42451268 ATATTAAAACAAATATTAAAACAATAAACAAATTAAAAACG
1 ATATTAAAACAAATAGTAAAACAACAAACAAATTAAAAACG
* * * *
42451309 ATATTAAAACAATTCGTAAAATAACAAACAAATTGAAAA
1 ATATTAAAACAAATAGTAAAACAACAAACAAATTAAAAA
42451348 TACAATAAGC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.64, C:0.10, G:0.04, T:0.23
Consensus pattern (41 bp):
ATATTAAAACAAATAGTAAAACAACAAACAAATTAAAAACG
Found at i:42454849 original size:17 final size:17
Alignment explanation
Indices: 42454810--42454842 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
42454800 TCATTTTTTT
*
42454810 TATTTTTATTAATTATA
1 TATTATTATTAATTATA
42454827 TATTATTATTAATTAT
1 TATTATTATTAATTAT
42454843 TTTTTATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TATTATTATTAATTATA
Found at i:42458005 original size:21 final size:21
Alignment explanation
Indices: 42457984--42458022 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
42457974 ACTATATTAA
*
42457984 AAAATAAATAT-AATATAATA
1 AAAATAAAAATAAATATAATA
42458004 AAAATAAAAATAAATATAA
1 AAAATAAAAATAAATATAA
42458023 ATATAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAATAAAAATAAATATAATA
Found at i:42458207 original size:15 final size:15
Alignment explanation
Indices: 42458189--42458218 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
42458179 TTTAGATTTG
42458189 TTTTTT-AAATATAA
1 TTTTTTAAAATATAA
42458203 TTTTTTAAAATATAA
1 TTTTTTAAAATATAA
42458218 T
1 T
42458219 ACAATAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTTTTAAAATATAA
Found at i:42458489 original size:20 final size:20
Alignment explanation
Indices: 42458464--42458518 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
42458454 AAAATAATTT
42458464 AAAATAATTTTTAAAAAATA
1 AAAATAATTTTTAAAAAATA
* * * *
42458484 AAAATATTTTTTTAAAATTT
1 AAAATAATTTTTAAAAAATA
*
42458504 AAAAT-ATTTATAAAA
1 AAAATAATTTTTAAAA
42458519 TTTCCAAAAT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 7 0.25
20 21 0.75
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAATAATTTTTAAAAAATA
Found at i:42458533 original size:18 final size:18
Alignment explanation
Indices: 42458459--42458521 Score: 54
Period size: 20 Copynumber: 3.3 Consensus size: 18
42458449 ATTACAAAAT
*
42458459 AATTTAAAATAATTTTTAAA
1 AATTTAAAAT-ATTTAT-AA
* * *
42458479 AAATAAAAATATTTTTTTAA
1 AATTTAAAATA--TTTATAA
42458499 AATTTAAAATATTTATAA
1 AATTTAAAATATTTATAA
42458517 AATTT
1 AATTT
42458522 CCAAAATTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
18 11 0.31
19 1 0.03
20 19 0.53
21 5 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AATTTAAAATATTTATAA
Found at i:42458850 original size:17 final size:18
Alignment explanation
Indices: 42458819--42458852 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
42458809 AATTTGATTT
42458819 TAATTAAATTATTTAAAA
1 TAATTAAATTATTTAAAA
*
42458837 TAATT-AATTTTTTAAA
1 TAATTAAATTATTTAAA
42458853 TTATAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTAAATTATTTAAAA
Found at i:42459375 original size:18 final size:19
Alignment explanation
Indices: 42459326--42459376 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
42459316 TTTATTGTAT
*
42459326 TAATATAATAAAAATAAATA
1 TAATATAAT-AAACTAAATA
* *
42459346 TAATTTTA-AAACTAAATA
1 TAATATAATAAACTAAATA
42459364 -AATATAATAAACT
1 TAATATAATAAACT
42459377 TTTTATTCGA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
17 5 0.20
18 14 0.56
20 6 0.24
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (19 bp):
TAATATAATAAACTAAATA
Found at i:42459522 original size:20 final size:18
Alignment explanation
Indices: 42459468--42459536 Score: 52
Period size: 19 Copynumber: 3.7 Consensus size: 18
42459458 TTTTTCGCAA
*
42459468 CAAAAA-TTACAAAATAAT
1 CAAAAATTTATAAAA-AAT
*
42459486 CAAAACAATTT-TCAAAAATT
1 C-AAA-AATTTAT-AAAAAAT
42459506 CAAAATATTTATAAAAAAT
1 CAAAA-ATTTATAAAAAAT
*
42459525 CTAAAATTTATA
1 CAAAAATTTATA
42459537 TTTTTTAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
18 9 0.22
19 20 0.49
20 6 0.15
21 6 0.15
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.30
Consensus pattern (18 bp):
CAAAAATTTATAAAAAAT
Found at i:42459573 original size:8 final size:9
Alignment explanation
Indices: 42459542--42459574 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
42459532 TTATATTTTT
42459542 TAAAAATTC
1 TAAAAATTC
42459551 TAAAAATT-
1 TAAAAATTC
42459559 TGAAAAATTC
1 T-AAAAATTC
42459569 TAAAAA
1 TAAAAA
42459575 ATATATAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.05
9 20 0.91
10 1 0.05
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (9 bp):
TAAAAATTC
Found at i:42464184 original size:33 final size:33
Alignment explanation
Indices: 42464147--42464210 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
42464137 AAGCAACCAA
42464147 GTTGATCGATCAATCACGGTCGAGCGACCAATT
1 GTTGATCGATCAATCACGGTCGAGCGACCAATT
42464180 GTTGATCGATCAATCACGGTCGAGCGACCAA
1 GTTGATCGATCAATCACGGTCGAGCGACCAA
42464211 AAGAAGATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (33 bp):
GTTGATCGATCAATCACGGTCGAGCGACCAATT
Found at i:42467481 original size:49 final size:50
Alignment explanation
Indices: 42467402--42467502 Score: 168
Period size: 49 Copynumber: 2.0 Consensus size: 50
42467392 AAGAAGAAGA
*
42467402 AGAAGATAGAGATTAGAACAAAACACATTCAACCAACTATAGAGATTTGGG
1 AGAAGATAGAGATTA-AACAAAACACATTCAACCAACAATAGAGATTTGGG
*
42467453 AGAAGATAGAGATT-AACAAAACACATTCAACCAACAATAGAGGTTTGGG
1 AGAAGATAGAGATTAAACAAAACACATTCAACCAACAATAGAGATTTGGG
42467502 A
1 A
42467503 TTTCTATGGG
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
49 34 0.71
51 14 0.29
ACGTcount: A:0.48, C:0.14, G:0.20, T:0.19
Consensus pattern (50 bp):
AGAAGATAGAGATTAAACAAAACACATTCAACCAACAATAGAGATTTGGG
Found at i:42469641 original size:25 final size:25
Alignment explanation
Indices: 42469607--42469658 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
42469597 TTCAACAAAG
42469607 ATGGTTTTCATAATCTGATTATTCT
1 ATGGTTTTCATAATCTGATTATTCT
42469632 ATGGTTTTCATAATCTGATTATTCT
1 ATGGTTTTCATAATCTGATTATTCT
42469657 AT
1 AT
42469659 CATCCCGAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.52
Consensus pattern (25 bp):
ATGGTTTTCATAATCTGATTATTCT
Found at i:42474760 original size:19 final size:21
Alignment explanation
Indices: 42474734--42474780 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
42474724 ACAAATTTAA
42474734 AATATTTT-ATTTT-ATTATT
1 AATATTTTGATTTTGATTATT
*
42474753 ATTATTTTGATTTTGGATTATT
1 AATATTTTGATTTT-GATTATT
42474775 AATATT
1 AATATT
42474781 CTTTGTTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 7 0.30
20 5 0.22
22 11 0.48
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (21 bp):
AATATTTTGATTTTGATTATT
Found at i:42475160 original size:2 final size:2
Alignment explanation
Indices: 42475153--42475186 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
42475143 TTTACGTTTC
42475153 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
42475187 GATTTATTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:42480884 original size:7 final size:7
Alignment explanation
Indices: 42480872--42480925 Score: 72
Period size: 7 Copynumber: 7.7 Consensus size: 7
42480862 TTGACCGACA
42480872 GTTGACC
1 GTTGACC
*
42480879 GTTGACA
1 GTTGACC
42480886 GTTGACC
1 GTTGACC
42480893 GTTGACC
1 GTTGACC
* *
42480900 ATTGACA
1 GTTGACC
42480907 GTTGACC
1 GTTGACC
*
42480914 GTTGACG
1 GTTGACC
42480921 GTTGA
1 GTTGA
42480926 TTTTTTTTGA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (7 bp):
GTTGACC
Found at i:42480897 original size:21 final size:21
Alignment explanation
Indices: 42480872--42480925 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
42480862 TTGACCGACA
42480872 GTTGACCGTTGACAGTTGACC
1 GTTGACCGTTGACAGTTGACC
*
42480893 GTTGACCATTGACAGTTGACC
1 GTTGACCGTTGACAGTTGACC
*
42480914 GTTGACGGTTGA
1 GTTGACCGTTGA
42480926 TTTTTTTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (21 bp):
GTTGACCGTTGACAGTTGACC
Found at i:42481684 original size:18 final size:18
Alignment explanation
Indices: 42481663--42481721 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
42481653 CGGTTGGCAG
*
42481663 TGGTGATTTTAATAATTT
1 TGGTGATTTTAATAGTTT
* *
42481681 TGGTGGTTTTAATAGTCT
1 TGGTGATTTTAATAGTTT
*
42481699 TGG-GAATTTTAATGGTTT
1 TGGTG-ATTTTAATAGTTT
42481717 TGGTG
1 TGGTG
42481722 TTTCACAACA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
17 1 0.03
18 31 0.94
19 1 0.03
ACGTcount: A:0.20, C:0.02, G:0.27, T:0.51
Consensus pattern (18 bp):
TGGTGATTTTAATAGTTT
Found at i:42486665 original size:9 final size:9
Alignment explanation
Indices: 42486651--42486679 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
42486641 TTACCATGAC
42486651 GACGATGGT
1 GACGATGGT
42486660 GACGATGGT
1 GACGATGGT
42486669 GACGATGGT
1 GACGATGGT
42486678 GA
1 GA
42486680 TGATATTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.24, C:0.10, G:0.45, T:0.21
Consensus pattern (9 bp):
GACGATGGT
Found at i:42486911 original size:24 final size:24
Alignment explanation
Indices: 42486879--42486927 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
42486869 CGATGATTTT
42486879 CAACATGAGTTTTATCCAATAAGC
1 CAACATGAGTTTTATCCAATAAGC
42486903 CAACATGAGTTTTATCCAATAAGC
1 CAACATGAGTTTTATCCAATAAGC
42486927 C
1 C
42486928 TTTCTGGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (24 bp):
CAACATGAGTTTTATCCAATAAGC
Found at i:42490320 original size:23 final size:23
Alignment explanation
Indices: 42490293--42490337 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
42490283 TACCTAAATC
42490293 TTTATTTTT-TTATAGATACTTAT
1 TTTATTTTTGTTATA-ATACTTAT
*
42490316 TTTATTTTTGTTTTAATACTTA
1 TTTATTTTTGTTATAATACTTA
42490338 AATTGACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (23 bp):
TTTATTTTTGTTATAATACTTAT
Found at i:42490535 original size:160 final size:160
Alignment explanation
Indices: 42490171--42490979 Score: 745
Period size: 164 Copynumber: 5.0 Consensus size: 160
42490161 TTTTAACAAG
* * * * * *
42490171 TAAATATG-TTTTCGAATTATACATCTTTTTAA-TATGCTTAAAATTTATATGTCGTGGGTGTTG
1 TAAAT-TGATTTTCAAATTATACATC-TTTTAACAATGCTTAAAGTTTATATTTCATGGGTGTTA
* * * *
42490234 TATAAATGCTTATTTTGCTTTGATTATCGGAATCATAAACCTTTCATTATACCTAAATCTTTATT
64 TATAAATGCTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTAAATCTTCATT
* * *
42490299 TTTTTATAGATACTTATTTTATTTTTGTTTTAATACT
129 TTATTATAGATGC-----TTATTTTTGTTTTAATACC
* * * *
42490336 TAAATTGACTTTCAAATTATACATCTTTTAACGATGCTTAAAGTTTATATGTCATGGGTATTATA
1 TAAATTGATTTTCAAATTATACATCTTTTAACAATGCTTAAAGTTTATATTTCATGGGTGTTATA
* * * * *
42490401 TAAATACTTATTTTGCTTTGGTTATCGGAATTATACACTTTTCACTATACTTAAATTCTGCATTT
66 TAAATGCTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTAAA-TCTTCATTT
42490466 TATTATAGATGCTTA-TTTTGTTTTAATACC
130 TATTATAGATGCTTATTTTTGTTTTAATACC
* * * *
42490496 TAAATTGATTTTCAAACTATACATATTTTAACAATGCTTAAAGTTTATATTTTATGAGTGTTATA
1 TAAATTGATTTTCAAATTATACATCTTTTAACAATGCTTAAAGTTTATATTTCATGGGTGTTATA
* * ** *
42490561 TAAATGCGTATTTTGTTTTGGTTATCAAAATCATACACCTTTCACTATACCTAAACCTAT-ATTC
66 TAAATGCTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTAAATCT-TCA-T-
* * * **
42490625 TTTTTTATAAATGCTTATATTATTTTTGTTTTACTAAG
128 TTTATTATAGATGC-----TTATTTTTGTTTTAATACC
** * * * * * * *
42490663 TAAAACGGTTTTCGAATTGTATATCTTTTAACAATACTTAAAGTTTATATTTCATAGGTGTTATG
1 TAAATTGATTTTCAAATTATACATCTTTTAACAATGCTTAAAGTTTATATTTCATGGGTGTTATA
* * * * * *
42490728 TAAATGCTTATTTTGCTTTCGTTATCGGAACCACACATCTTTCATTA-ACTTAAATCTAT-ATTT
66 TAAATGCTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTAAATCT-TCATTT
*
42490791 TATTATAGATGCTTATTTTGTTTTTGTTTTAATATC
130 TATTATAGATGCTTA-----TTTTTGTTTTAATACC
* * * * * * * *
42490827 TAAATTGGTTTTCAAATTATACATCTTTGAGCGATGCTTAATGTTTATATTTTATGAGTGTCATA
1 TAAATTGATTTTCAAATTATACATCTTTTAACAATGCTTAAAGTTTATATTTCATGGGTGTTATA
** * *
42490892 TAAATATTTATTTTGCTTT-GTCTATTGGAATCATACACCTTTCACTATACCTAAA-CCTCTATT
66 TAAATGCTTATTTTGCTTTGGT-TATCGGAATCATACACCTTTCACTATACCTAAATCTTC-ATT
* *
42490955 TTATTATAAATGCATA-TTTTGTTTT
129 TTATTATAGATGCTTATTTTTGTTTT
42490980 CAGTTTTTTA
Statistics
Matches: 526, Mismatches: 97, Indels: 48
0.78 0.14 0.07
Matches are distributed among these distances:
159 15 0.03
160 119 0.23
161 15 0.03
163 3 0.01
164 121 0.23
165 120 0.23
166 31 0.06
167 102 0.19
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (160 bp):
TAAATTGATTTTCAAATTATACATCTTTTAACAATGCTTAAAGTTTATATTTCATGGGTGTTATA
TAAATGCTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTAAATCTTCATTTT
ATTATAGATGCTTATTTTTGTTTTAATACC
Found at i:42490895 original size:331 final size:325
Alignment explanation
Indices: 42490234--42490967 Score: 900
Period size: 327 Copynumber: 2.2 Consensus size: 325
42490224 GTGGGTGTTG
* * * * *
42490234 TATAAATGCTTATTTTGCTTTGATTATCGGAATCATAAACCTTTCATTATACCTAAATCTTTATT
1 TATAAATGCTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTAAACCTATATT
* * * ** **
42490299 TTTTTATAGATACTTATTTTATTTTTGTTTTAATACTTAAATTGACTTTCAAATTATACATCTTT
66 TTTTTATAAATGCTTATATTATTTTTGTTTTAATAAGTAAAACGACTTTCAAATTATACATCTTT
* * * *
42490364 TAACGATGCTTAAAGTTTATATGTCATGGGTATTATATAAATACTTATTTTGCTTTGGTTATCGG
131 TAACAATACTTAAAGTTTATATGTCATAGGTATTATATAAATACTTATTTTGCTTTCGTTATCGG
** * *
42490429 AATTATACACTTTTCACTATACTTAAATTCTGCATTTTATTATAGATGCTTATTTTGTTTTAATA
196 AACCACACACTTTTCACTATACTTAAATTCTACATTTTATTATAGATGCTTATTTTGTTTTAATA
* *
42490494 CCTAAATTGATTTTCAAACTATACATATTTTAACAATGCTTAAAGTTTATATTTTATGAGTGTTA
261 CCTAAATTGATTTTCAAACTATACATATTTGAACAATGCTTAAAGTTTATATTTTATGAGTGTCA
* * **
42490559 TATAAATGCGTATTTTGTTTTGGTTATCAAAATCATACACCTTTCACTATACCTAAACCTATATT
1 TATAAATGCTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTAAACCTATA-T
* ** * * *
42490624 CTTTTTTATAAATGCTTATATTATTTTTGTTTTACTAAGTAAAACGGTTTTCGAATTGTATATCT
65 -TTTTTTATAAATGCTTATATTATTTTTGTTTTAATAAGTAAAACGACTTTCAAATTATACATCT
* * * *
42490689 TTTAACAATACTTAAAGTTTATATTTCATAGGTGTTATGTAAATGCTTATTTTGCTTTCGTTATC
129 TTTAACAATACTTAAAGTTTATATGTCATAGGTATTATATAAATACTTATTTTGCTTTCGTTATC
* *
42490754 GGAACCACACA-TCTTTCATTA-ACTTAAA-TCTATATTTTATTATAGATGCTTATTTTGTTTTT
194 GGAACCACACACT-TTTCACTATACTTAAATTCTACATTTTATTATAGATGCTTA------TTTT
* * * * * * *
42490816 GTTTTAATATCTAAATTGGTTTTCAAATTATACATCTTTGAGCGATGCTTAATGTTTATATTTTA
252 GTTTTAATACCTAAATTGATTTTCAAACTATACATATTTGAACAATGCTTAAAGTTTATATTTTA
42490881 TGAGTGTCA
317 TGAGTGTCA
** * *
42490890 TATAAATATTTATTTTGCTTT-GTCTATTGGAATCATACACCTTTCACTATACCTAAACCTCTAT
1 TATAAATGCTTATTTTGCTTTGGT-TATCGGAATCATACACCTTTCACTATACCTAAACCTATAT
*
42490954 TTTATTATAAATGC
65 TTTTTTATAAATGC
42490968 ATATTTTGTT
Statistics
Matches: 345, Mismatches: 54, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
325 76 0.22
326 9 0.03
327 123 0.36
329 13 0.04
330 3 0.01
331 121 0.35
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.48
Consensus pattern (325 bp):
TATAAATGCTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTAAACCTATATT
TTTTTATAAATGCTTATATTATTTTTGTTTTAATAAGTAAAACGACTTTCAAATTATACATCTTT
TAACAATACTTAAAGTTTATATGTCATAGGTATTATATAAATACTTATTTTGCTTTCGTTATCGG
AACCACACACTTTTCACTATACTTAAATTCTACATTTTATTATAGATGCTTATTTTGTTTTAATA
CCTAAATTGATTTTCAAACTATACATATTTGAACAATGCTTAAAGTTTATATTTTATGAGTGTCA
Found at i:42491183 original size:161 final size:160
Alignment explanation
Indices: 42490998--42491304 Score: 452
Period size: 161 Copynumber: 1.9 Consensus size: 160
42490988 TAACATACTG
* * * * *
42490998 TTATATTTCATTGTGTTTTATAAATGCTTATTTTGCTTTTGTTATCGAAATCATATACATTTCAC
1 TTATATTTCATGGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGAAATAATACACATTTCAC
* * **
42491063 TATACCTAAACCTCTATTTTATTATGCTTATTTTGTTCTTGTTTTAATACCTAAATTGGTTTTCA
66 TATACCTAAACCTCTATTTTATTATGCTTATTTTGTTCTTGGTTTAATAACTAAATAAGTTTTCA
42491128 AATTATACATCTTTTAGTAATGCTTATTGT
131 AATTATACATCTTTTAGTAATGCTTATTGT
* * *
42491158 TTATATTTCATGGGTGTTATATAAATGTTTATTTTGCTTTGGTTATTGAAATAATACACCTTTCA
1 TTATATTTCAT-GGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGAAATAATACACATTTCA
* * *
42491223 TTATACCTAAACCTCTATTTTATTATGCTTATTTTGTTTTTGGTTTAATAAGTAAATAAGTTTTC
65 CTATACCTAAACCTCTATTTTATTATGCTTATTTTGTTCTTGGTTTAATAACTAAATAAGTTTTC
* *
42491288 GAATTATATATCTTTTA
130 AAATTATACATCTTTTA
42491305 ACTATATTTA
Statistics
Matches: 129, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
160 11 0.09
161 118 0.91
ACGTcount: A:0.27, C:0.11, G:0.10, T:0.51
Consensus pattern (160 bp):
TTATATTTCATGGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGAAATAATACACATTTCAC
TATACCTAAACCTCTATTTTATTATGCTTATTTTGTTCTTGGTTTAATAACTAAATAAGTTTTCA
AATTATACATCTTTTAGTAATGCTTATTGT
Found at i:42491667 original size:161 final size:159
Alignment explanation
Indices: 42491355--42491942 Score: 629
Period size: 161 Copynumber: 3.7 Consensus size: 159
42491345 TATTTTGCTT
* * *
42491355 CTTTTACTATACCTAGACTTGTTTTTTATTATAAATACTTATTTTGTTCTTTGTTTGAATAAGCA
1 CTTTTACTATACCTAAACTTGTATTTTATTATAAATACTTATTTTGTT-TTT-TTT-AATAAGTA
* * * *
42491420 AAATGGTTTTCCAATTGTATATCTTTTACGATACCTAAAGTT-TATTCCATTGTGTTTTATAAAT
63 AAATGGTTTTCAAATTATATATCTTTTACGATACTTAAATTTATATTCCATTGTGTTTTATAAAT
* *
42491484 AGTTATTTTG-TTCTCATTATCGAAATCATACA
128 ACTTATTTTGCTT-TCGTTATCGAAATCATACA
* * * * *
42491516 CCTTTTTCTATACTTAAACTTGTATTTTATTATAAATGCTTAATTTG-GTTTTTTAATAAGTAAA
1 -CTTTTACTATACCTAAACTTGTATTTTATTATAAATACTTATTTTGTTTTTTTTAATAAGTAAA
* * **
42491580 ATGGTTTTTAAATTATATATCTTTTAACGATACTTAAAATTTATATTTCATCATGTTTTATAAAT
65 ATGGTTTTCAAATTATATATCTTTT-ACGATACTT-AAATTTATATTCCATTGTGTTTTATAAAT
42491645 ACTTATTTTGCTTTCGTTATCGAAATCATACA
128 ACTTATTTTGCTTTCGTTATCGAAATCATACA
* * *
42491677 TCTTTTACTATACCTAAACATGTATTTTATTAAAAATTCTTATTTTGTTTTTTTT-ATCAAGTAA
1 -CTTTTACTATACCTAAACTTGTATTTTATTATAAATACTTATTTTGTTTTTTTTAAT-AAGTAA
* * * * * *
42491741 ACTGGTTTTCGAATTATATATCTTTTA--A-A--GATA-TTCTACTCCATTGTGTTTTATAAATA
64 AATGGTTTTCAAATTATATATCTTTTACGATACTTAAATTTATATTCCATTGTGTTTTATAAATA
* * * **
42491800 TTTATTTTCCTTTGGTTATTTAAATCATACA
129 CTTATTTTGCTTTCGTTATCGAAATCATACA
* * *
42491831 CTTTTTACTATACTTAAATTTGTATTTTATTATAAATACTTATTTTGTATTTATTTTAATATGTA
1 C-TTTTACTATACCTAAACTTGTATTTTATTATAAATACTTATTTTGT-TTT-TTTTAATAAGTA
* * *
42491896 AATTTTGGTTTTCAAATTATATATCTTTTACTATACTTGTAATTTAT
63 AA--ATGGTTTTCAAATTATATATCTTTTACGATACTT-AAATTTAT
42491943 GTCAAAAAGT
Statistics
Matches: 354, Mismatches: 53, Indels: 35
0.80 0.12 0.08
Matches are distributed among these distances:
153 1 0.00
154 88 0.25
155 5 0.01
156 10 0.03
157 2 0.01
158 56 0.16
159 12 0.03
160 9 0.03
161 90 0.25
162 77 0.22
164 1 0.00
165 3 0.01
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (159 bp):
CTTTTACTATACCTAAACTTGTATTTTATTATAAATACTTATTTTGTTTTTTTTAATAAGTAAAA
TGGTTTTCAAATTATATATCTTTTACGATACTTAAATTTATATTCCATTGTGTTTTATAAATACT
TATTTTGCTTTCGTTATCGAAATCATACA
Found at i:42496630 original size:28 final size:28
Alignment explanation
Indices: 42496585--42496793 Score: 143
Period size: 28 Copynumber: 7.5 Consensus size: 28
42496575 TCAAGTGGAA
* * * *
42496585 GGCTCGGATAGAGTGTTATTTTGTTTTT
1 GGCTCGAATAAAGAGTTATTCTGTTTTT
*
42496613 GGCTCGAATAAAGAGTTATTCTGTTTCT
1 GGCTCGAATAAAGAGTTATTCTGTTTTT
* *
42496641 GGCTCAAATAAAGCGTTATTCTGTTTTT
1 GGCTCGAATAAAGAGTTATTCTGTTTTT
* *
42496669 GGCTCGGATAGAGCA-TTATTCTGTTTTT
1 GGCTCGAATAAAG-AGTTATTCTGTTTTT
* * * *
42496697 GGCTCGGACAGAGCA-TTATTCTGTTTCT
1 GGCTCGAATAAAG-AGTTATTCTGTTTTT
* * * * * *
42496725 AGATCGGATAGAGCGTTATTCTGTTTCT
1 GGCTCGAATAAAGAGTTATTCTGTTTTT
* * * * * * *
42496753 AGTTCGGATAGAGCGTTATTCTATTTCT
1 GGCTCGAATAAAGAGTTATTCTGTTTTT
*
42496781 GGCTCGAAAAAAG
1 GGCTCGAATAAAG
42496794 GCAAAATTCT
Statistics
Matches: 154, Mismatches: 25, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
28 154 1.00
ACGTcount: A:0.22, C:0.14, G:0.24, T:0.40
Consensus pattern (28 bp):
GGCTCGAATAAAGAGTTATTCTGTTTTT
Found at i:42496671 original size:56 final size:56
Alignment explanation
Indices: 42496585--42496793 Score: 213
Period size: 56 Copynumber: 3.7 Consensus size: 56
42496575 TCAAGTGGAA
* * *
42496585 GGCTCGGATAGAGTGTTATTTTGTTTTTGGCTCGAATAAAGAGTTATTCTGTTTCT
1 GGCTCGGATAGAGCGTTATTCTGTTTCTGGCTCGAATAAAGAGTTATTCTGTTTCT
** * * * * *
42496641 GGCTCAAATAAAGCGTTATTCTGTTTTTGGCTCGGATAGAGCA-TTATTCTGTTTTT
1 GGCTCGGATAGAGCGTTATTCTGTTTCTGGCTCGAATAAAG-AGTTATTCTGTTTCT
* * * * * * *
42496697 GGCTCGGACAGAGCATTATTCTGTTTCTAGATCGGATAGAGCGTTATTCTGTTTCT
1 GGCTCGGATAGAGCGTTATTCTGTTTCTGGCTCGAATAAAGAGTTATTCTGTTTCT
* * * *
42496753 AGTTCGGATAGAGCGTTATTCTATTTCTGGCTCGAAAAAAG
1 GGCTCGGATAGAGCGTTATTCTGTTTCTGGCTCGAATAAAG
42496794 GCAAAATTCT
Statistics
Matches: 123, Mismatches: 28, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
56 122 0.99
57 1 0.01
ACGTcount: A:0.22, C:0.14, G:0.24, T:0.40
Consensus pattern (56 bp):
GGCTCGGATAGAGCGTTATTCTGTTTCTGGCTCGAATAAAGAGTTATTCTGTTTCT
Found at i:42496688 original size:84 final size:84
Alignment explanation
Indices: 42496585--42496793 Score: 249
Period size: 84 Copynumber: 2.5 Consensus size: 84
42496575 TCAAGTGGAA
* * * * *
42496585 GGCTCGGATAGAGTGTTATTTTGTTTTTGGCTCGAATAAAG-AGTTATTCTGTTTCTGGCTCAAA
1 GGCTCGGATAGAGCGTTATTCTGTTTTTGGCTCGAAAAAAGCA-TTATTCTGTTTCTAGATCAAA
*
42496649 TAAAGCGTTATTCTGTTTTT
65 TAAAGCGTTATTCTGTTTCT
* * * * **
42496669 GGCTCGGATAGAGCATTATTCTGTTTTTGGCTCGGACAGAGCATTATTCTGTTTCTAGATCGGAT
1 GGCTCGGATAGAGCGTTATTCTGTTTTTGGCTCGAAAAAAGCATTATTCTGTTTCTAGATCAAAT
*
42496734 AGAGCGTTATTCTGTTTCT
66 AAAGCGTTATTCTGTTTCT
* * * *
42496753 AGTTCGGATAGAGCGTTATTCTATTTCTGGCTCGAAAAAAG
1 GGCTCGGATAGAGCGTTATTCTGTTTTTGGCTCGAAAAAAG
42496794 GCAAAATTCT
Statistics
Matches: 104, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
84 103 0.99
85 1 0.01
ACGTcount: A:0.22, C:0.14, G:0.24, T:0.40
Consensus pattern (84 bp):
GGCTCGGATAGAGCGTTATTCTGTTTTTGGCTCGAAAAAAGCATTATTCTGTTTCTAGATCAAAT
AAAGCGTTATTCTGTTTCT
Found at i:42496848 original size:28 final size:28
Alignment explanation
Indices: 42496728--42496855 Score: 73
Period size: 28 Copynumber: 4.6 Consensus size: 28
42496718 TGTTTCTAGA
* * ** *
42496728 TCGGATAGAGCGTTATTCTGTTTCTAGT
1 TCGGAAAGAGCGATATTCTAATTCTGGT
* * * *
42496756 TCGGATAGAGCGTTATTCTATTTCTGGC
1 TCGGAAAGAGCGATATTCTAATTCTGGT
* * * * *
42496784 TCGAAAAAAGGCAAAATTCTGA-T-TGGCT
1 TCGGAAAGA-GCGATATTCTAATTCTGG-T
*
42496812 T-GGGAAGAGCGATATTCTAATTCTGGT
1 TCGGAAAGAGCGATATTCTAATTCTGGT
*
42496839 TCGGAAAGAGCAATATT
1 TCGGAAAGAGCGATATT
42496856 TCGATTCTGG
Statistics
Matches: 75, Mismatches: 20, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
26 9 0.12
27 10 0.13
28 49 0.65
29 7 0.09
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (28 bp):
TCGGAAAGAGCGATATTCTAATTCTGGT
Found at i:42498844 original size:20 final size:20
Alignment explanation
Indices: 42498821--42498876 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
42498811 AAAATTTTCA
42498821 AAAAATGATAAAAA-TATTTT
1 AAAAATGATAAAAATTA-TTT
*
42498841 AAAAAT-ATTAAAATTATTT
1 AAAAATGATAAAAATTATTT
*
42498860 AAAAAAGAT-AAAATTAT
1 AAAAATGATAAAAATTAT
42498877 AAGACAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 22 0.69
20 10 0.31
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (20 bp):
AAAAATGATAAAAATTATTT
Found at i:42498864 original size:39 final size:38
Alignment explanation
Indices: 42498799--42498872 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 38
42498789 TTAATTAATT
*
42498799 TTTTAAAAATTTAAAATTTTCAAAAAATGATAAAAATA
1 TTTTAAAAATTTAAAATTTTCAAAAAAAGATAAAAATA
*
42498837 TTTTAAAAATATTAAAATTATT-TAAAAAAGATAAAA
1 TTTTAAAAAT-TTAAAATT-TTCAAAAAAAGATAAAA
42498873 TTATAAGACA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
38 10 0.31
39 20 0.62
40 2 0.06
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.36
Consensus pattern (38 bp):
TTTTAAAAATTTAAAATTTTCAAAAAAAGATAAAAATA
Found at i:42498875 original size:19 final size:19
Alignment explanation
Indices: 42498810--42498876 Score: 73
Period size: 20 Copynumber: 3.5 Consensus size: 19
42498800 TTTAAAAATT
*
42498810 TAAAATT-TTCAAAAAATGA
1 TAAAATTATTTAAAAAA-GA
* * *
42498829 TAAAAATATTTTAAAAATA
1 TAAAATTATTTAAAAAAGA
42498848 TTAAAATTATTTAAAAAAGA
1 -TAAAATTATTTAAAAAAGA
42498868 TAAAATTAT
1 TAAAATTAT
42498877 AAGACAATAT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 16 0.41
20 23 0.59
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (19 bp):
TAAAATTATTTAAAAAAGA
Found at i:42500160 original size:13 final size:13
Alignment explanation
Indices: 42500144--42500171 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
42500134 AAACTCTATT
42500144 TTTAGGATTATGA
1 TTTAGGATTATGA
42500157 TTTAGGATTATGA
1 TTTAGGATTATGA
42500170 TT
1 TT
42500172 ATGATATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (13 bp):
TTTAGGATTATGA
Found at i:42507811 original size:25 final size:26
Alignment explanation
Indices: 42507773--42507823 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
42507763 TCTGTAAAAT
*
42507773 GAAAATGAAAATAACTAAAACTTAAA
1 GAAAATGAAAATAACTAAAACCTAAA
42507799 GAAAA-GAAAATAACTAAAACCTAAA
1 GAAAATGAAAATAACTAAAACCTAAA
42507824 TTATAAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 19 0.79
26 5 0.21
ACGTcount: A:0.67, C:0.10, G:0.08, T:0.16
Consensus pattern (26 bp):
GAAAATGAAAATAACTAAAACCTAAA
Found at i:42512901 original size:28 final size:28
Alignment explanation
Indices: 42512832--42512982 Score: 124
Period size: 28 Copynumber: 5.4 Consensus size: 28
42512822 GCCCAGATAC
** *
42512832 AAAATAACGCTCTTTTCGAGCTAGAAAC
1 AAAATAACGCTCTACTCGAGCTAGAAAT
* *
42512860 AAATTAATGCTCTAC-CTGAGCTAGAAAT
1 AAAATAACGCTCTACTC-GAGCTAGAAAT
* * *
42512888 AAAATAACGCTCTACTCAAGCCAAAAAT
1 AAAATAACGCTCTACTCGAGCTAGAAAT
* * *
42512916 AGAGTACCGCTCTACTCGAGCTAGAAAT
1 AAAATAACGCTCTACTCGAGCTAGAAAT
* * * * * * *
42512944 AGAGTAATGCTCCACCCGAGCCAGAAAC
1 AAAATAACGCTCTACTCGAGCTAGAAAT
42512972 AAAATAACGCT
1 AAAATAACGCT
42512983 ATTTCCAAGC
Statistics
Matches: 96, Mismatches: 25, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
27 1 0.01
28 94 0.98
29 1 0.01
ACGTcount: A:0.40, C:0.24, G:0.15, T:0.21
Consensus pattern (28 bp):
AAAATAACGCTCTACTCGAGCTAGAAAT
Found at i:42512992 original size:84 final size:85
Alignment explanation
Indices: 42512847--42513026 Score: 202
Period size: 84 Copynumber: 2.1 Consensus size: 85
42512837 AACGCTCTTT
* * * * *
42512847 TCGAGCTAGAAACAAATTAATGCTCTACCTGAGCTAGAAATAAAATAACGCTCTACTCAAGCCAA
1 TCGAGCTAGAAACAAAGTAATGCTCCACCCGAGCCAGAAACAAAATAACGCTCTACTCAAGCCAA
*
42512912 AAAT-AGAGTACCGCTCTAC
66 AAATCAGAATACCGCTCTAC
* * * *
42512931 TCGAGCTAGAAATAGAGTAATGCTCCACCCGAGCCAGAAACAAAATAACGCTAT-TTCCAAGCCA
1 TCGAGCTAGAAACAAAGTAATGCTCCACCCGAGCCAGAAACAAAATAACGCTCTACT-CAAGCCA
* * * *
42512995 GAATTCAGAATATCGCTCTAT
65 AAAATCAGAATACCGCTCTAC
*
42513016 TCGAGCCAGAA
1 TCGAGCTAGAA
42513027 TCAGAATATT
Statistics
Matches: 79, Mismatches: 15, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
83 1 0.01
84 56 0.71
85 22 0.28
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.21
Consensus pattern (85 bp):
TCGAGCTAGAAACAAAGTAATGCTCCACCCGAGCCAGAAACAAAATAACGCTCTACTCAAGCCAA
AAATCAGAATACCGCTCTAC
Found at i:42513011 original size:29 final size:28
Alignment explanation
Indices: 42512962--42513035 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 28
42512952 GCTCCACCCG
* * *
42512962 AGCCAGAAACAAAATAACGCTAT-TTCCA
1 AGCCAGAATCAGAATATCGCTATATT-CA
* *
42512990 AGCCAGAATTCAGAATATCGCTCTATTCG
1 AGCCAGAA-TCAGAATATCGCTATATTCA
42513019 AGCCAGAATCAGAATAT
1 AGCCAGAATCAGAATAT
42513036 TGAACAAGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
28 17 0.44
29 20 0.51
30 2 0.05
ACGTcount: A:0.41, C:0.23, G:0.15, T:0.22
Consensus pattern (28 bp):
AGCCAGAATCAGAATATCGCTATATTCA
Found at i:42515688 original size:19 final size:19
Alignment explanation
Indices: 42515661--42515698 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
42515651 CTTCTTGTAA
*
42515661 TTTAGGTTTTAGTTATTTT
1 TTTAAGTTTTAGTTATTTT
42515680 TTTAAGTTTTAGTTATTTT
1 TTTAAGTTTTAGTTATTTT
42515699 CATTTTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.13, T:0.68
Consensus pattern (19 bp):
TTTAAGTTTTAGTTATTTT
Found at i:42522937 original size:12 final size:12
Alignment explanation
Indices: 42522920--42522944 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42522910 CTTCGTAGAT
42522920 ATCATCATCATA
1 ATCATCATCATA
42522932 ATCATCATCATA
1 ATCATCATCATA
42522944 A
1 A
42522945 ATGTCATCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (12 bp):
ATCATCATCATA
Found at i:42527026 original size:10 final size:10
Alignment explanation
Indices: 42527007--42527035 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
42526997 ACTTGTAAAC
42527007 TCTC-TAATT
1 TCTCATAATT
42527016 TCTCATAATT
1 TCTCATAATT
42527026 TCTCATAATT
1 TCTCATAATT
42527036 CCTCCTAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.21
10 15 0.79
ACGTcount: A:0.28, C:0.21, G:0.00, T:0.52
Consensus pattern (10 bp):
TCTCATAATT
Found at i:42527453 original size:38 final size:38
Alignment explanation
Indices: 42527393--42527512 Score: 190
Period size: 38 Copynumber: 3.2 Consensus size: 38
42527383 TGAGTCTGTT
* * *
42527393 CAGAATTG--CCCAAAATTGTCACTGCATGAGGATGTC
1 CAGAATTGCACCCAAAATTATCACTGCATGAGCATGCC
42527429 CAGAATTGCACCCAAAATTATCACTGCATGAGCATGCC
1 CAGAATTGCACCCAAAATTATCACTGCATGAGCATGCC
*
42527467 CAGAATTGCACCCAAAATTATCACTACATGAGCATGCC
1 CAGAATTGCACCCAAAATTATCACTGCATGAGCATGCC
42527505 CAGAATTG
1 CAGAATTG
42527513 TCACTGGAGG
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
36 8 0.10
38 70 0.90
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (38 bp):
CAGAATTGCACCCAAAATTATCACTGCATGAGCATGCC
Found at i:42530420 original size:15 final size:15
Alignment explanation
Indices: 42530400--42530435 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
42530390 GCTTAGAAGA
42530400 AGGGAAGGAAAAATC
1 AGGGAAGGAAAAATC
*
42530415 AGGGAAGGAAAATTC
1 AGGGAAGGAAAAATC
42530430 AGGGAA
1 AGGGAA
42530436 TTTGGGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.50, C:0.06, G:0.36, T:0.08
Consensus pattern (15 bp):
AGGGAAGGAAAAATC
Found at i:42531555 original size:24 final size:24
Alignment explanation
Indices: 42531528--42531573 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
42531518 GATTCCACCG
42531528 TATACAATGACACCAACTAATTTA
1 TATACAATGACACCAACTAATTTA
*
42531552 TATAGAATGACACCAACTAATT
1 TATACAATGACACCAACTAATT
42531574 GGAAAGAGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.20, G:0.07, T:0.28
Consensus pattern (24 bp):
TATACAATGACACCAACTAATTTA
Found at i:42535291 original size:28 final size:28
Alignment explanation
Indices: 42535247--42535423 Score: 111
Period size: 28 Copynumber: 6.3 Consensus size: 28
42535237 AATATTCTGA
** *
42535247 TTCTGGCTCAGAAAGAGCGTTATTCTAT
1 TTCTGGCTCAGGTAGAGCGTTACTCTAT
* * * *
42535275 TTTTGGCTCGGGTAGAGCATTACTCTCT
1 TTCTGGCTCAGGTAGAGCGTTACTCTAT
* * * *
42535303 TTCTAGCTTAGGTAGAGCGGTACTCTGT
1 TTCTGGCTCAGGTAGAGCGTTACTCTAT
** ** *
42535331 TTCTGGCTCAATTAGAATGGTACTCTAT
1 TTCTGGCTCAGGTAGAGCGTTACTCTAT
* * * * * *
42535359 TTTTGCCTCAGGTAGAGTGTTATTTTGT
1 TTCTGGCTCAGGTAGAGCGTTACTCTAT
* ** *
42535387 TTCTGGCTCGGGTAGAATGTTAATCTAT
1 TTCTGGCTCAGGTAGAGCGTTACTCTAT
*
42535415 TTCTTGCTC
1 TTCTGGCTC
42535424 GGAAATAGCG
Statistics
Matches: 111, Mismatches: 38, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
28 111 1.00
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.41
Consensus pattern (28 bp):
TTCTGGCTCAGGTAGAGCGTTACTCTAT
Found at i:42535977 original size:22 final size:22
Alignment explanation
Indices: 42535947--42535999 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
42535937 GACTTGTGTT
42535947 GTATCGGTATAAGTTTTTCATG
1 GTATCGGTATAAGTTTTTCATG
*
42535969 GTATAGGTATAAGTTTTTCATG
1 GTATCGGTATAAGTTTTTCATG
42535991 GTATCGGTA
1 GTATCGGTA
42536000 GTTCGTAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.25, C:0.08, G:0.25, T:0.43
Consensus pattern (22 bp):
GTATCGGTATAAGTTTTTCATG
Found at i:42564421 original size:15 final size:14
Alignment explanation
Indices: 42564396--42564430 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
42564386 TTTACATTTT
*
42564396 ATTTTATTTGTTTC
1 ATTTTACTTGTTTC
42564410 ACTTTTACTTGTTTC
1 A-TTTTACTTGTTTC
42564425 ATTTTA
1 ATTTTA
42564431 AATTTTATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.17, C:0.11, G:0.06, T:0.66
Consensus pattern (14 bp):
ATTTTACTTGTTTC
Found at i:42574003 original size:163 final size:163
Alignment explanation
Indices: 42573590--42574072 Score: 578
Period size: 164 Copynumber: 2.9 Consensus size: 163
42573580 ATGTCGTGAG
* * *
42573590 TGTTGTATAAATGCTTATTTTGCTTTGGTTATTGGAATCATAAACCTTTCACTATACTTAAATCT
1 TGTTATATAAATGCTTATTTTGCTTTGGTTA-TGAAATCATACACCTTTCACTATACTTAAATCT
* * ** * * * *
42573655 TTATTTTCTTATAGATATTTATTTTGTTTTTGTTTGAATATCTAAATTAGCTTTCAAATTATACA
65 CTATTTTATTATAGATGCTTACTTTGTTTTTGTTTTAATACCTAAATTGGCTTTCAAATTATACA
* *
42573720 TTTTTTAACGATACTTAAGGTTTATATTTTATGAC
130 TCTTTTAACGATACTTAA-GTTTATATTTTATGAA
* * * * * * *
42573755 TATTATATAAATGGTTATTTTGCTCTGGTTATTAGAATTATACACCTTTCACTATACTTAATTTT
1 TGTTATATAAATGCTTATTTTGCTTTGGTTATGA-AATCATACACCTTTCACTATACTTAAATCT
* * *
42573820 AC-ATTTTATTGTAGATGCTTA-TTTGTTTTTGTTTTAATACCTAAATGGGTTTTCAAATTATAC
65 -CTATTTTATTATAGATGCTTACTTTGTTTTTGTTTTAATACCTAAATTGGCTTTCAAATTATAC
*
42573883 ATCTTTTAACGATACTTAAGTTTATATTTTTTGAA
129 ATCTTTTAACGATACTTAAGTTTATATTTTATGAA
* * * *
42573918 TGTTATATAAATGCTTAATTTGCTTTGATTATCGAAATCATACA-CTATTCACTATACCTAAACC
1 TGTTATATAAATGCTTATTTTGCTTTGGTTAT-GAAATCATACACCT-TTCACTATACTTAAATC
* * *
42573982 TCTATTTTATTATAAATGCTTACTTTGTTTTTGTTTTAATACTTAAATTGACTTTCAAATTATAC
64 TCTATTTTATTATAGATGCTTACTTTGTTTTTGTTTTAATACCTAAATTGGCTTTCAAATTATAC
* *
42574047 ATC-TTTAACTATGCTTAAAGTTTATA
129 ATCTTTTAACGATACTT-AAGTTTATA
42574073 AGTTGTGGGT
Statistics
Matches: 269, Mismatches: 42, Indels: 15
0.83 0.13 0.05
Matches are distributed among these distances:
162 3 0.01
163 91 0.34
164 107 0.40
165 68 0.25
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (163 bp):
TGTTATATAAATGCTTATTTTGCTTTGGTTATGAAATCATACACCTTTCACTATACTTAAATCTC
TATTTTATTATAGATGCTTACTTTGTTTTTGTTTTAATACCTAAATTGGCTTTCAAATTATACAT
CTTTTAACGATACTTAAGTTTATATTTTATGAA
Found at i:42574139 original size:54 final size:54
Alignment explanation
Indices: 42574034--42574139 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 54
42574024 TTAAATTGAC
* * *
42574034 TTTCAAATTATACATCTTTAACTATGCTTAAAGTTTATAAGTTGTGGGTGTTGT
1 TTTCAAACTATACATCTTTAACTATGCTTAAAGTTTATAAGTTATGAGTGTTGT
**
42574088 TTTCAAACTATACA-CTTTTAA-TGATGCTTAAAGTTTATATTTTATGAGTGTT
1 TTTCAAACTATACATC-TTTAACT-ATGCTTAAAGTTTATAAGTTATGAGTGTT
42574140 ATATAAATGT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
53 2 0.04
54 43 0.96
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.47
Consensus pattern (54 bp):
TTTCAAACTATACATCTTTAACTATGCTTAAAGTTTATAAGTTATGAGTGTTGT
Found at i:42574683 original size:163 final size:163
Alignment explanation
Indices: 42574231--42574721 Score: 621
Period size: 166 Copynumber: 3.0 Consensus size: 163
42574221 TTATATTGTT
* * *
42574231 GTTTTCGAATTATATATTTTTTAACGATGCTTAAAGTTTATATATCATGGGTGTTATATAAATGC
1 GTTTTCGAATTATAT-CTTTTTAACGATACTTAAAGTTTATATTTCATGGGTGTTATATAAATGC
* * * * * *
42574296 TTATTTTGCTTTGGTTATCAAAATCATACACCCTTCACTATACCTAAACCTCTACTTTTTTTGTA
65 TTATTTTGCTTTGGTTATCGAAATCATACACCTTTCACTATACTTAAATCTC-A-TTTTATTATA
* * * *
42574361 AACGCTTATTTTGTTTTTGTTTTAATATGTAAAACG
128 GATGCTTATTTTGTTTTTGTTTTAATACGTAAAACA
* * * *
42574397 GTTTTCCAATTACATATC-TTTTAGCGATACTTAAAGTTTATATTTCATGGGTATTATATAAGTG
1 GTTTTCGAATT--ATATCTTTTTAACGATACTTAAAGTTTATATTTCATGGGTGTTATATAAATG
* *
42574461 -TATATCTTGCTTTGTTTATCGAAATCATACACCTTTCACTATACTTAAATCTACATTTTATTAT
64 CT-TATTTTGCTTTGGTTATCGAAATCATACACCTTTCACTATACTTAAATCT-CATTTTATTAT
*
42574525 AGATGCTTATTTTGTTTTT-CTTTAATACGTAAAACA
127 AGATGCTTATTTTGTTTTTGTTTTAATACGTAAAACA
* * *
42574561 GTTTTCGAATTTTATGCTTTTTAACGATACTTAAAGTTTATATTTCAT-TGTGTTGTATAAATGC
1 GTTTTCGAATTATAT-CTTTTTAACGATACTTAAAGTTTATATTTCATGGGTGTTATATAAATGC
* * *
42574625 TTATTTTACTTTGGTTATTGAAATCATACACCTTTCACTAAACTTAAATCTGCATTTTATTATAG
65 TTATTTTGCTTTGGTTATCGAAATCATACACCTTTCACTATACTTAAATCT-CATTTTATTATAG
* *
42574690 ATGTTTATTTTGTTTTTGTTTTAATACCTAAA
129 ATGCTTATTTTGTTTTTGTTTTAATACGTAAA
42574722 TTGACTTCCA
Statistics
Matches: 281, Mismatches: 36, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
162 3 0.01
163 86 0.31
164 66 0.23
165 25 0.09
166 96 0.34
167 1 0.00
168 4 0.01
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.48
Consensus pattern (163 bp):
GTTTTCGAATTATATCTTTTTAACGATACTTAAAGTTTATATTTCATGGGTGTTATATAAATGCT
TATTTTGCTTTGGTTATCGAAATCATACACCTTTCACTATACTTAAATCTCATTTTATTATAGAT
GCTTATTTTGTTTTTGTTTTAATACGTAAAACA
Found at i:42574759 original size:163 final size:164
Alignment explanation
Indices: 42574250--42574765 Score: 594
Period size: 163 Copynumber: 3.1 Consensus size: 164
42574240 TTATATATTT
* *
42574250 TTTAACGATGCTTAAAGTTTATATATCATGGGTGTTATATAAATGCTTATTTTGCTTTGGTTATC
1 TTTAACGATACTTAAAGTTTATATTTCATGGGTGTTATATAAATGCTTATTTTGCTTTGGTTATC
* * * * * * * *
42574315 AAAATCATACACCCTTCACTATACCTAAACCTCTACTTTTTTTGTAAACGCTTATTTTGTTTTTG
66 GAAATCATACACCTTTCACTATACTTAAATCTC-A-TTTTATTATAGATGCTTATTTTGTTTTTG
* * * *
42574380 TTTTAATATGTAAAACGGTTTTCC-AATTACATATC
129 TTTTAATACGTAAAACAGTTTTCCAAATTATACATC
* * * * *
42574415 TTTTAGCGATACTTAAAGTTTATATTTCATGGGTATTATATAAGTG-TATATCTTGCTTTGTTTA
1 -TTTAACGATACTTAAAGTTTATATTTCATGGGTGTTATATAAATGCT-TATTTTGCTTTGGTTA
42574479 TCGAAATCATACACCTTTCACTATACTTAAATCTACATTTTATTATAGATGCTTATTTTGTTTTT
64 TCGAAATCATACACCTTTCACTATACTTAAATCT-CATTTTATTATAGATGCTTATTTTGTTTTT
* * * * *
42574544 -CTTTAATACGTAAAACAGTTTTCGAATTTTATGC-TT
128 GTTTTAATACGTAAAACAGTTTTCCAA-ATTATACATC
* * * *
42574580 TTTAACGATACTTAAAGTTTATATTTCAT-TGTGTTGTATAAATGCTTATTTTACTTTGGTTATT
1 TTTAACGATACTTAAAGTTTATATTTCATGGGTGTTATATAAATGCTTATTTTGCTTTGGTTATC
* *
42574644 GAAATCATACACCTTTCACTAAACTTAAATCTGCATTTTATTATAGATGTTTATTTTGTTTTTGT
66 GAAATCATACACCTTTCACTATACTTAAATCT-CATTTTATTATAGATGCTTATTTTGTTTTTGT
* ** **
42574709 TTTAATACCT-AAATTGACTTCCAAATTATACATC
130 TTTAATACGTAAAACAGTTTTCCAAATTATACATC
* *
42574743 TTTAACCATGCTTAAAGTTTATA
1 TTTAACGATACTTAAAGTTTATA
42574766 AATCGTGGAT
Statistics
Matches: 295, Mismatches: 48, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
162 5 0.02
163 116 0.39
164 58 0.20
165 27 0.09
166 88 0.30
167 1 0.00
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (164 bp):
TTTAACGATACTTAAAGTTTATATTTCATGGGTGTTATATAAATGCTTATTTTGCTTTGGTTATC
GAAATCATACACCTTTCACTATACTTAAATCTCATTTTATTATAGATGCTTATTTTGTTTTTGTT
TTAATACGTAAAACAGTTTTCCAAATTATACATC
Found at i:42575309 original size:166 final size:162
Alignment explanation
Indices: 42574925--42575347 Score: 474
Period size: 163 Copynumber: 2.6 Consensus size: 162
42574915 ATATTGTTGT
*
42574925 TTTTGAATTATATATCTTTTAACGATGCTTAAAGTTTATATTTCATGAGTGTTATATAAATACTT
1 TTTTGAATTATATATCTTTTAACGATGCTTAAAGTTTATATTTCATGAGTGTTATAT-AATTCTT
* * * * ** * * *
42574990 ATTTTACTTTGGTTATCGGACTTATACACCTTTCATTATACTTAATGTGCAATTTATTATAGATG
65 ATTTTGCTTTGGTTATCGGAATCATACACATTTCACCATACTTAATGTCCAATTTATTAAAAATG
* * * **
42575055 TTTATTTTGTTTATGTTTTACTACCTAAATTGG
130 CTTATATTGTTTATGTTTTACTAACTAAAACGG
* * * * *
42575088 TTTTTAACTATAGATCTTTTAACGATGCTTAACGTTTATATTTTATGAGTGTTATATAATTGCTT
1 TTTTGAATTATATATCTTTTAACGATGCTTAAAGTTTATATTTCATGAGTGTTATATAATT-CTT
* * * * *
42575153 ATTTTGTTTTGGTTATTGAAATCATACACATTTCACCATA-TCTAA-G-CCTATTTTTTTTTTAA
65 ATTTTGCTTTGGTTATCGGAATCATACACATTTCACCATACT-TAATGTCC-A---ATTTATTAA
* *
42575215 AAATGCTTATATTGTTTTTGTTTTACTAAGTAAAACGG
125 AAATGCTTATATTGTTTATGTTTTACTAACTAAAACGG
* * *
42575253 TTTTCGAATTATATATCTTTTAACGATACTTAAAGTTTATATTTCATGGGTGTTATATAAATTCC
1 TTTT-GAATTATATATCTTTTAACGATGCTTAAAGTTTATATTTCATGAGTGTTATAT-AATTCT
42575318 TATTTTGCTTTGGTTATCGGAATCATACAC
64 TATTTTGCTTTGGTTATCGGAATCATACAC
42575348 CGCTCATTAT
Statistics
Matches: 214, Mismatches: 38, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
161 1 0.00
162 6 0.03
163 89 0.42
165 40 0.19
166 74 0.35
167 4 0.02
ACGTcount: A:0.28, C:0.11, G:0.12, T:0.49
Consensus pattern (162 bp):
TTTTGAATTATATATCTTTTAACGATGCTTAAAGTTTATATTTCATGAGTGTTATATAATTCTTA
TTTTGCTTTGGTTATCGGAATCATACACATTTCACCATACTTAATGTCCAATTTATTAAAAATGC
TTATATTGTTTATGTTTTACTAACTAAAACGG
Found at i:42575331 original size:692 final size:687
Alignment explanation
Indices: 42573586--42575433 Score: 2287
Period size: 693 Copynumber: 2.7 Consensus size: 687
42573576 TCATATGTCG
* * *
42573586 TGAGTGTTGTATAAATGCTTATTTTGCTTTGGTTATTGGAATCATAAACCTTTCACTATACTTAA
1 TGAGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACTT-A
* * * * * *
42573651 ATCTTTATTTTCTTATAGATATTTATTTTGTTTTTGTTTGAATATCTAAATTAGCTTTCAAATTA
65 ATC-TCATTTTATTATAGATGTTTATTTTGTTTTTGTTTTAATATCTAAATT-GGTTTTAAATTA
* * * *
42573716 TACATTTTTTAACGATACTTAAGGTTTATATTTTATGACTATTATATAAATGGTTATTTTGCTCT
128 TACATCTTTTAACGATACTTAAAGTTTATATTTTATGAGTATTATATAAAT-GTTATTTTGCTTT
* * * * *
42573781 GGTTATT-AGAATTATACACCTTTCACTATACTTAATTTTACATTTTATTGT-AGATGCTTATTT
192 GGTTATTGA-AATCATACACCTTTCACTATACTTAAATCT--ATTTTTTTTTAAGATGCTTATTT
* ** * *
42573844 GTTTTTGTTTTAATACCTAAATGGGTTTTCAAATTATACATCTTTTAACGATACTT-AAGTTTAT
254 GTTTTTGTTTTAATACGTAAAACGGTTTTCGAATTATATATCTTTTAACGATACTTAAAGTTTAT
** * * *
42573908 ATTTTTTGAATGTTATATAAATGCTTAATTTGCTTTGATTATCGAAATCATACA-CTATTCACTA
319 ATTTCATGAGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGAAATCATACACCT-TTCACTA
* * * * *
42573972 TACCTAAACCT-CTATTTTATTATAAATGCTTACTTTGTTTTTGTTTTAATACTTAAATTGACTT
383 TACTTAAATCTGC-ATTTTATTATAGATGCTTATTTTGTTTTTGTTTTAATACCTAAATTGACTT
* * * *
42574036 TCAAATTATACATCTTTAACTATGCTTAAAGTTTATAAGTTGTGGGTGTTGTTTTCAAACTATAC
447 TCAAATTATACATCTTTAACCATGCTTAAAGTTTATAAATCGTGGATGTTGTTTTCAAACTATAC
** * *
42574101 ACTTTTAATGATGCTTAAAGTTTATATTTTATGAGTGTTATATAAATGTTTAATTTGCTTTGATT
512 ACTTTTAATGACACTCAAAGTTTATATTTTATGAGTGTTATATAAATGCTTAATTTGCTTTGATT
* * *
42574166 ATCGAAATCATACACCTTTCACTATACTTAAACCTATATTTTTTTTTATAGCTGCTTATATTGTT
577 ATCGAAATCATACACCTTTCACTATACCTAAACCTATA-TATTTTTTATAGATGCTTATATTGTT
*
42574231 GTTTTCGAATTATATATTTTTTAACGATGCTTAAAGTTTATATATCA
641 GTTTTCGAATTATATATCTTTTAACGATGCTTAAAGTTTATATATCA
* ** * *
42574278 TGGGTGTTATATAAATGCTTATTTTGCTTTGGTTATCAAAATCATACACCCTTCACTATACCTAA
1 TGAGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATA-CTTA
* * * * * * * ** *
42574343 ACCTCTACTTTTTTTGTAAACGCTTATTTTGTTTTTGTTTTAATATGTAAAACGGTTTTCCAATT
65 ATCTC-A-TTTTATTATAGATGTTTATTTTGTTTTTGTTTTAATATCTAAATTGGTTTT-AAATT
* * * * * * *
42574408 ACATATCTTTTAGCGATACTTAAAGTTTATATTTCATGGGTATTATATAAGTGTATATCTTGCTT
127 ATACATCTTTTAACGATACTTAAAGTTTATATTTTATGAGTATTATATAAATGT-TATTTTGCTT
* * ** *
42574473 TGTTTATCGAAATCATACACCTTTCACTATACTTAAATCTACATTTTATTATAGATGCTTATTTT
191 TGGTTATTGAAATCATACACCTTTCACTATACTTAAATCTATTTTTTTTTA-AGATGCTTA-TTT
* *
42574538 GTTTTT-CTTTAATACGTAAAACAGTTTTCGAATT-T-TATGCTTTTTAACGATACTTAAAGTTT
254 GTTTTTGTTTTAATACGTAAAACGGTTTTCGAATTATATAT-C-TTTTAACGATACTTAAAGTTT
* * * *
42574600 ATATTTCAT-TGTGTTGTATAAATGCTTATTTTACTTTGGTTATTGAAATCATACACCTTTCACT
317 ATATTTCATGAGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGAAATCATACACCTTTCACT
* *
42574664 AAACTTAAATCTGCATTTTATTATAGATGTTTATTTTGTTTTTGTTTTAATACCTAAATTGACTT
382 ATACTTAAATCTGCATTTTATTATAGATGCTTATTTTGTTTTTGTTTTAATACCTAAATTGACTT
*
42574729 CCAAATTATACATCTTTAACCATGCTTAAAGTTTATAAATCGTGGATGTTGTTTTCAAACTATAC
447 TCAAATTATACATCTTTAACCATGCTTAAAGTTTATAAATCGTGGATGTTGTTTTCAAACTATAC
42574794 ATCTTTTAATGACACTCAAAGTTTATATTTTATGAGTGTTATATAAATGCTTAATTTGCTTTGAT
512 A-CTTTTAATGACACTCAAAGTTTATATTTTATGAGTGTTATATAAATGCTTAATTTGCTTTGAT
* *
42574859 TATCGAAATCATGCACCTTTTACTATACCTAAACCTATA-ATTTTTTATAGATGCTTATATTGTT
576 TATCGAAATCATACACCTTTCACTATACCTAAACCTATATATTTTTTATAGATGCTTATATTGTT
* *
42574923 GTTTTTGAATTATATATCTTTTAACGATGCTTAAAGTTTATATTTCA
641 GTTTTCGAATTATATATCTTTTAACGATGCTTAAAGTTTATATATCA
* * * * *
42574970 TGAGTGTTATATAAATACTTATTTTACTTTGGTTATCGGACTTATACACCTTTCATTATACTTAA
1 TGAGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACTTAA
* * * * * * *
42575035 TGTGCAATTTATTATAGATGTTTATTTTGTTTATGTTTTACTACCTAAATTGGTTTTTAACTATA
66 TCT-CATTTTATTATAGATGTTTATTTTGTTTTTGTTTTAATATCTAAATTGGTTTTAAATTATA
* * * * * *
42575100 GATCTTTTAACGATGCTTAACGTTTATATTTTATGAGTGTTATATAATTGCTTATTTTGTTTTGG
130 CATCTTTTAACGATACTTAAAGTTTATATTTTATGAGTATTATATAAATG-TTATTTTGCTTTGG
* * ** *
42575165 TTATTGAAATCATACACATTTCACCATA-TCTAAGCCTATTTTTTTTTTAAAAATGCTTATATTG
194 TTATTGAAATCATACACCTTTCACTATACT-TAAATCTA-TTTTTTTTT-AAGATGCTTAT-TTG
* *
42575229 TTTTTGTTTTACTAAGTAAAACGGTTTTCGAATTATATATCTTTTAACGATACTTAAAGTTTATA
255 TTTTTGTTTTAATACGTAAAACGGTTTTCGAATTATATATCTTTTAACGATACTTAAAGTTTATA
* * * * ** *
42575294 TTTCATGGGTGTTATATAAATTCCTATTTTGCTTTGGTTATCGGAATCATACACCGCTCATTATA
320 TTTCATGAGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGAAATCATACACCTTTCACTATA
* * * **
42575359 CTTAAATCTGTATTTTATTATAGATGCTTATCTTGTTTTTGTTTTAATAGCTAAATTGGTTTTCA
385 CTTAAATCTGCATTTTATTATAGATGCTTATTTTGTTTTTGTTTTAATACCTAAATTGACTTTCA
42575424 AATTATACAT
450 AATTATACAT
42575434 ATTTTGACAA
Statistics
Matches: 978, Mismatches: 153, Indels: 50
0.83 0.13 0.04
Matches are distributed among these distances:
688 1 0.00
689 89 0.09
690 62 0.06
691 69 0.07
692 301 0.31
693 335 0.34
694 121 0.12
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (687 bp):
TGAGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACTTAA
TCTCATTTTATTATAGATGTTTATTTTGTTTTTGTTTTAATATCTAAATTGGTTTTAAATTATAC
ATCTTTTAACGATACTTAAAGTTTATATTTTATGAGTATTATATAAATGTTATTTTGCTTTGGTT
ATTGAAATCATACACCTTTCACTATACTTAAATCTATTTTTTTTTAAGATGCTTATTTGTTTTTG
TTTTAATACGTAAAACGGTTTTCGAATTATATATCTTTTAACGATACTTAAAGTTTATATTTCAT
GAGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGAAATCATACACCTTTCACTATACTTAAA
TCTGCATTTTATTATAGATGCTTATTTTGTTTTTGTTTTAATACCTAAATTGACTTTCAAATTAT
ACATCTTTAACCATGCTTAAAGTTTATAAATCGTGGATGTTGTTTTCAAACTATACACTTTTAAT
GACACTCAAAGTTTATATTTTATGAGTGTTATATAAATGCTTAATTTGCTTTGATTATCGAAATC
ATACACCTTTCACTATACCTAAACCTATATATTTTTTATAGATGCTTATATTGTTGTTTTCGAAT
TATATATCTTTTAACGATGCTTAAAGTTTATATATCA
Found at i:42575601 original size:144 final size:144
Alignment explanation
Indices: 42575318--42575607 Score: 343
Period size: 144 Copynumber: 2.0 Consensus size: 144
42575308 TATAAATTCC
* * * * * *
42575318 TATTTTGCTTTGGTTATCGGAATCATACACCGCTCATTATACTTAAATCTGTATTTTATTATAGA
1 TATTTTGCTTTGGCTATCGGAATCATACACCGCTCACTATACCTAAACCTCTATTTTATTATAAA
* * ** * *
42575383 TGCTTATCTTGTTTTTGTTTTAATAGCTAAATTGGTTTTCAAATTATACATATTTTGACAATGCT
66 TGCATATCTTGTTTTTGCTTTAATAGCTAAAACGGTTTTCAAATTATACATATTTTAACAATACT
**
42575448 CAATGTTTATATTT
131 CAAAATTTATATTT
**
42575462 TATTTTGCTTTGGCTATCGGAATCATACACCTTTCACTATACCTAAACCTCTATTTTATTATAAA
1 TATTTTGCTTTGGCTATCGGAATCATACACCGCTCACTATACCTAAACCTCTATTTTATTATAAA
* * **
42575527 TGCATAT-TTCGTTTTTGCTTTAATA-CGTAAAACGGTTTTCTAATTATATAT-TTCTTAACGGT
66 TGCATATCTT-GTTTTTGCTTTAATAGC-TAAAACGGTTTTCAAATTATACATATT-TTAACAAT
*
42575589 ACTTAAAATTTATATTT
128 ACTCAAAATTTATATTT
42575606 TA
1 TA
42575608 CGGGTGTTAT
Statistics
Matches: 122, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
143 5 0.04
144 117 0.96
ACGTcount: A:0.28, C:0.14, G:0.10, T:0.47
Consensus pattern (144 bp):
TATTTTGCTTTGGCTATCGGAATCATACACCGCTCACTATACCTAAACCTCTATTTTATTATAAA
TGCATATCTTGTTTTTGCTTTAATAGCTAAAACGGTTTTCAAATTATACATATTTTAACAATACT
CAAAATTTATATTT
Found at i:42579444 original size:27 final size:27
Alignment explanation
Indices: 42579414--42579492 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 27
42579404 ACAATTTTCA
42579414 AAAATGATAAAAATATTTTTAAAAA-AT
1 AAAAT-ATAAAAATATTTTTAAAAAGAT
* *
42579441 AAAATATTAAAAT-TATTTAAAAAAGAT
1 AAAATATAAAAATAT-TTTTAAAAAGAT
42579468 AAAATTATATGAAAATATTTTTAAA
1 AAAA-TATA--AAAATATTTTTAAA
42579493 TTTTTTAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
25 1 0.02
26 15 0.36
27 11 0.26
28 3 0.07
30 11 0.26
31 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (27 bp):
AAAATATAAAAATATTTTTAAAAAGAT
Found at i:42584037 original size:19 final size:21
Alignment explanation
Indices: 42583997--42584038 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
42583987 TTTGTGAACC
*
42583997 AATTTTAATCTTTTTATATGT
1 AATTTTAATCTTATTATATGT
42584018 AATTTTAATC-TATT-TATGT
1 AATTTTAATCTTATTATATGT
42584037 AA
1 AA
42584039 GCCCTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 3 0.15
21 10 0.50
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (21 bp):
AATTTTAATCTTATTATATGT
Found at i:42592216 original size:14 final size:14
Alignment explanation
Indices: 42592179--42592225 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
42592169 CGTGTAGTCT
*
42592179 TATAATATT-ATAA
1 TATAATATTAAAAA
42592192 TATAATATTAAAAA
1 TATAATATTAAAAA
42592206 TA-AATATTTAAAAAA
1 TATAATA-TT-AAAAA
42592221 TATAA
1 TATAA
42592226 GATGAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 13 0.45
14 7 0.24
15 7 0.24
16 2 0.07
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TATAATATTAAAAA
Found at i:42595067 original size:163 final size:163
Alignment explanation
Indices: 42594654--42595136 Score: 587
Period size: 164 Copynumber: 2.9 Consensus size: 163
42594644 ATGTCGTGAG
* * *
42594654 TGTTGTATAAATGCTTATTTTGCTTTGGTTATTGGAATCATAAACCTTTCACTATACTTAAATCT
1 TGTTATATAAATGCTTATTTTGCTTTGGTTA-TGAAATCATACACCTTTCACTATACTTAAATCT
* * ** * * * *
42594719 TTATTTTCTTATAGATATTTATTTTGTTTTTGTTTGAATATCTAAATTAGCTTTCAAATTATACA
65 CTATTTTATTATAGATGCTTACTTTGTTTTTGTTTTAATACCTAAATTGGCTTTCAAATTATACA
*
42594784 TCTTTTAACGATACTTAAGGTTTATATTTTATGAC
130 TCTTTTAACGATACTTAA-GTTTATATTTTATGAA
* * * * * * *
42594819 TATTATATAAATGGTTATTTTGCTCTGGTTATTAGAATTATACACCTTTCACTATACTTAATTTT
1 TGTTATATAAATGCTTATTTTGCTTTGGTTATGA-AATCATACACCTTTCACTATACTTAAATCT
* * *
42594884 AC-ATTTTATTGTAGATGCTTA-TTTGTTTTTGTTTTAATACCTAAATGGGTTTTCAAATTATAC
65 -CTATTTTATTATAGATGCTTACTTTGTTTTTGTTTTAATACCTAAATTGGCTTTCAAATTATAC
*
42594947 ATCTTTTAACGATACTTAAGTTTATATTTTTTGAA
129 ATCTTTTAACGATACTTAAGTTTATATTTTATGAA
* * * *
42594982 TGTTATATAAATGCTTAATTTGCTTTGATTATCGAAATCATACA-CTATTCACTATACCTAAACC
1 TGTTATATAAATGCTTATTTTGCTTTGGTTAT-GAAATCATACACCT-TTCACTATACTTAAATC
* * *
42595046 TCTATTTTATTATAAATGCTTACTTTGTTTTTGTTTTAATACTTAAATTGACTTTCAAATTATAC
64 TCTATTTTATTATAGATGCTTACTTTGTTTTTGTTTTAATACCTAAATTGGCTTTCAAATTATAC
* *
42595111 ATC-TTTAACTATGCTTAAAGTTTATA
129 ATCTTTTAACGATACTT-AAGTTTATA
42595137 AGTTGTGGGT
Statistics
Matches: 270, Mismatches: 41, Indels: 15
0.83 0.13 0.05
Matches are distributed among these distances:
162 3 0.01
163 91 0.34
164 108 0.40
165 68 0.25
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (163 bp):
TGTTATATAAATGCTTATTTTGCTTTGGTTATGAAATCATACACCTTTCACTATACTTAAATCTC
TATTTTATTATAGATGCTTACTTTGTTTTTGTTTTAATACCTAAATTGGCTTTCAAATTATACAT
CTTTTAACGATACTTAAGTTTATATTTTATGAA
Found at i:42595203 original size:54 final size:54
Alignment explanation
Indices: 42595098--42595203 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 54
42595088 TTAAATTGAC
* * *
42595098 TTTCAAATTATACATCTTTAACTATGCTTAAAGTTTATAAGTTGTGGGTGTTGT
1 TTTCAAACTATACATCTTTAACTATGCTTAAAGTTTATAAGTTATGAGTGTTGT
**
42595152 TTTCAAACTATACA-CTTTTAA-TGATGCTTAAAGTTTATATTTTATGAGTGTT
1 TTTCAAACTATACATC-TTTAACT-ATGCTTAAAGTTTATAAGTTATGAGTGTT
42595204 ATATAAATGT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
53 2 0.04
54 43 0.96
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.47
Consensus pattern (54 bp):
TTTCAAACTATACATCTTTAACTATGCTTAAAGTTTATAAGTTATGAGTGTTGT
Found at i:42595747 original size:163 final size:163
Alignment explanation
Indices: 42595295--42595785 Score: 603
Period size: 166 Copynumber: 3.0 Consensus size: 163
42595285 TTATATTGTT
* * * *
42595295 GTTTTCGAATTATATATTTTTTCACGATGCTTAAAGTTTATATATCATGGGTGTTATATAAATGC
1 GTTTTCGAATTATAT-CTTTTTAACGATACTTAAAGTTTATATTTCATGGGTGTTATATAAATGC
* * * * * *
42595360 TTATTTTGCTTTGGTTATCAAAATCATACACCCTTCACTATACCTAAACCTCTACTTTTTTTGTA
65 TTATTTTGCTTTGGTTATCGAAATCATACACCTTTCACTATACTTAAATCTC-A-TTTTATTATA
* * * *
42595425 AACGCTTATTTTGTTTTTATTTTAATATGTAAAACG
128 GATGCTTATTTTGTTTTTATTTTAATACGTAAAACA
* * * *
42595461 GTTTTCCAATTACATATC-TTTTAGCGATACTTAAAGTTTATATTTCATGGGTATTATATAAGTG
1 GTTTTCGAATT--ATATCTTTTTAACGATACTTAAAGTTTATATTTCATGGGTGTTATATAAATG
* *
42595525 -TATATCTTGCTTTGTTTATCGAAATCATACACCTTTCACTATACTTAAATCTACATTTTATTAT
64 CT-TATTTTGCTTTGGTTATCGAAATCATACACCTTTCACTATACTTAAATCT-CATTTTATTAT
*
42595589 AGATGCTTATTTTGTTTTT-CTTTAATACGTAAAACA
127 AGATGCTTATTTTGTTTTTATTTTAATACGTAAAACA
* * *
42595625 GTTTTCGAATTTTATGCTTTTTAACGATACTTAAAGTTTATATTTCAT-TGTGTTGTATAAATGC
1 GTTTTCGAATTATAT-CTTTTTAACGATACTTAAAGTTTATATTTCATGGGTGTTATATAAATGC
* * *
42595689 TTATTTTACTTTGGTTATTGAAATCATACACCTTTCACTAAACTTAAATCTGCATTTTATTATAG
65 TTATTTTGCTTTGGTTATCGAAATCATACACCTTTCACTATACTTAAATCT-CATTTTATTATAG
* * *
42595754 ATGTTTATTTTGTTTTTGTTTTAATACCTAAA
129 ATGCTTATTTTGTTTTTATTTTAATACGTAAA
42595786 TTGACTTCCA
Statistics
Matches: 280, Mismatches: 37, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
162 3 0.01
163 86 0.31
164 66 0.24
165 25 0.09
166 95 0.34
167 1 0.00
168 4 0.01
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.48
Consensus pattern (163 bp):
GTTTTCGAATTATATCTTTTTAACGATACTTAAAGTTTATATTTCATGGGTGTTATATAAATGCT
TATTTTGCTTTGGTTATCGAAATCATACACCTTTCACTATACTTAAATCTCATTTTATTATAGAT
GCTTATTTTGTTTTTATTTTAATACGTAAAACA
Found at i:42595823 original size:163 final size:163
Alignment explanation
Indices: 42595318--42595829 Score: 575
Period size: 163 Copynumber: 3.1 Consensus size: 163
42595308 ATATTTTTTC
* * *
42595318 ACGATGCTTAAAGTTTATATATCATGGGTGTTATATAAATGCTTATTTTGCTTTGGTTATCAAAA
1 ACGATACTTAAAGTTTATATTTCATGGGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGAAA
* * * * * * *
42595383 TCATACACCCTTCACTATACCTAAACCTCTACTTTTTTTGTAAACGCTTATTTTGTTTTTATTTT
66 TCATACACCTTTCACTATACTTAAATCTC-A-TTTTATTATAGATGCTTATTTTGTTTTT-TTTT
* * * *
42595448 AATATGTAAAACGGTTTTCC-AATTACATATCTTTTA
128 AATACGTAAAACAGTTTTCCAAATTATACATC-TTTA
* * * * *
42595484 GCGATACTTAAAGTTTATATTTCATGGGTATTATATAAGTG-TATATCTTGCTTTGTTTATCGAA
1 ACGATACTTAAAGTTTATATTTCATGGGTGTTATATAAATGCT-TATTTTGCTTTGGTTATCGAA
*
42595548 ATCATACACCTTTCACTATACTTAAATCTACATTTTATTATAGATGCTTATTTTGTTTTTCTTTA
65 ATCATACACCTTTCACTATACTTAAATCT-CATTTTATTATAGATGCTTATTTTGTTTTTTTTTA
* * * *
42595613 ATACGTAAAACAGTTTTCGAATTTTATGC-TTTTTA
129 ATACGTAAAACAGTTTTCCAA-ATTATACATCTTTA
* * * *
42595648 ACGATACTTAAAGTTTATATTTCAT-TGTGTTGTATAAATGCTTATTTTACTTTGGTTATTGAAA
1 ACGATACTTAAAGTTTATATTTCATGGGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGAAA
* *
42595712 TCATACACCTTTCACTAAACTTAAATCTGCATTTTATTATAGATGTTTATTTTGTTTTTGTTTTA
66 TCATACACCTTTCACTATACTTAAATCT-CATTTTATTATAGATGCTTATTTTGTTTTT-TTTTA
* ** **
42595777 ATACCT-AAATTGACTTCCAAATTATACATCTTTA
129 ATACGTAAAACAGTTTTCCAAATTATACATCTTTA
* *
42595811 ACCATGCTTAAAGTTTATA
1 ACGATACTTAAAGTTTATA
42595830 AATCGTGGAT
Statistics
Matches: 291, Mismatches: 48, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
162 5 0.02
163 116 0.40
164 58 0.20
165 27 0.09
166 84 0.29
167 1 0.00
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.46
Consensus pattern (163 bp):
ACGATACTTAAAGTTTATATTTCATGGGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGAAA
TCATACACCTTTCACTATACTTAAATCTCATTTTATTATAGATGCTTATTTTGTTTTTTTTTAAT
ACGTAAAACAGTTTTCCAAATTATACATCTTTA
Found at i:42596373 original size:166 final size:162
Alignment explanation
Indices: 42595989--42596411 Score: 474
Period size: 163 Copynumber: 2.6 Consensus size: 162
42595979 ATATTGTTGT
*
42595989 TTTTGAATTATATATCTTTTAACGATGCTTAAAGTTTATATTTCATGAGTGTTATATAAATACTT
1 TTTTGAATTATATATCTTTTAACGATGCTTAAAGTTTATATTTCATGAGTGTTATAT-AATTCTT
* * * * ** * * *
42596054 ATTTTACTTTGGTTATCGGACTTATACACCTTTCATTATACTTAATGTGCAATTTATTATAGATG
65 ATTTTGCTTTGGTTATCGGAATCATACACATTTCACCATACTTAATGTCCAATTTATTAAAAATG
* * * **
42596119 TTTATTTTGTTTATGTTTTACTACCTAAATTGG
130 CTTATATTGTTTATGTTTTACTAACTAAAACGG
* * * * *
42596152 TTTTTAACTATAGATCTTTTAACGATGCTTAACGTTTATATTTTATGAGTGTTATATAATTGCTT
1 TTTTGAATTATATATCTTTTAACGATGCTTAAAGTTTATATTTCATGAGTGTTATATAATT-CTT
* * * * *
42596217 ATTTTGTTTTGGTTATTGAAATCATACACATTTCACCATA-TCTAA-G-CCTATTTTTTTTTTAA
65 ATTTTGCTTTGGTTATCGGAATCATACACATTTCACCATACT-TAATGTCC-A---ATTTATTAA
* *
42596279 AAATGCTTATATTGTTTTTGTTTTACTAAGTAAAACGG
125 AAATGCTTATATTGTTTATGTTTTACTAACTAAAACGG
* * *
42596317 TTTTCGAATTATATATCTTTTAACGATACTTAAAGTTTATATTTCATGGGTGTTATATAAATTCC
1 TTTT-GAATTATATATCTTTTAACGATGCTTAAAGTTTATATTTCATGAGTGTTATAT-AATTCT
42596382 TATTTTGCTTTGGTTATCGGAATCATACAC
64 TATTTTGCTTTGGTTATCGGAATCATACAC
42596412 CGCTCATTAT
Statistics
Matches: 214, Mismatches: 38, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
161 1 0.00
162 6 0.03
163 89 0.42
165 40 0.19
166 74 0.35
167 4 0.02
ACGTcount: A:0.28, C:0.11, G:0.12, T:0.49
Consensus pattern (162 bp):
TTTTGAATTATATATCTTTTAACGATGCTTAAAGTTTATATTTCATGAGTGTTATATAATTCTTA
TTTTGCTTTGGTTATCGGAATCATACACATTTCACCATACTTAATGTCCAATTTATTAAAAATGC
TTATATTGTTTATGTTTTACTAACTAAAACGG
Found at i:42596408 original size:692 final size:687
Alignment explanation
Indices: 42594650--42596497 Score: 2278
Period size: 693 Copynumber: 2.7 Consensus size: 687
42594640 TCATATGTCG
* * *
42594650 TGAGTGTTGTATAAATGCTTATTTTGCTTTGGTTATTGGAATCATAAACCTTTCACTATACTTAA
1 TGAGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACTT-A
* * * * * *
42594715 ATCTTTATTTTCTTATAGATATTTATTTTGTTTTTGTTTGAATATCTAAATTAGCTTTCAAATTA
65 ATC-TCATTTTATTATAGATGTTTATTTTGTTTTTGTTTTAATATCTAAATT-GGTTTTAAATTA
* * *
42594780 TACATCTTTTAACGATACTTAAGGTTTATATTTTATGACTATTATATAAATGGTTATTTTGCTCT
128 TACATCTTTTAACGATACTTAAAGTTTATATTTTATGAGTATTATATAAAT-GTTATTTTGCTTT
* * * * *
42594845 GGTTATT-AGAATTATACACCTTTCACTATACTTAATTTTACATTTTATTGT-AGATGCTTATTT
192 GGTTATTGA-AATCATACACCTTTCACTATACTTAAATCT--ATTTTTTTTTAAGATGCTTATTT
* ** * *
42594908 GTTTTTGTTTTAATACCTAAATGGGTTTTCAAATTATACATCTTTTAACGATACTT-AAGTTTAT
254 GTTTTTGTTTTAATACGTAAAACGGTTTTCGAATTATATATCTTTTAACGATACTTAAAGTTTAT
** * * *
42594972 ATTTTTTGAATGTTATATAAATGCTTAATTTGCTTTGATTATCGAAATCATACA-CTATTCACTA
319 ATTTCATGAGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGAAATCATACACCT-TTCACTA
* * * * *
42595036 TACCTAAACCT-CTATTTTATTATAAATGCTTACTTTGTTTTTGTTTTAATACTTAAATTGACTT
383 TACTTAAATCTGC-ATTTTATTATAGATGCTTATTTTGTTTTTGTTTTAATACCTAAATTGACTT
* * * *
42595100 TCAAATTATACATCTTTAACTATGCTTAAAGTTTATAAGTTGTGGGTGTTGTTTTCAAACTATAC
447 TCAAATTATACATCTTTAACCATGCTTAAAGTTTATAAATCGTGGATGTTGTTTTCAAACTATAC
** * *
42595165 ACTTTTAATGATGCTTAAAGTTTATATTTTATGAGTGTTATATAAATGTTTAATTTGCTTTGATT
512 ACTTTTAATGACACTCAAAGTTTATATTTTATGAGTGTTATATAAATGCTTAATTTGCTTTGATT
* * *
42595230 ATCGAAATCATACACCTTTCACTATACTTAAACCTATATTTTTTTTTATAGCTGCTTATATTGTT
577 ATCGAAATCATACACCTTTCACTATACCTAAACCTATA-TATTTTTTATAGATGCTTATATTGTT
* *
42595295 GTTTTCGAATTATATATTTTTTCACGATGCTTAAAGTTTATATATCA
641 GTTTTCGAATTATATATCTTTTAACGATGCTTAAAGTTTATATATCA
* ** * *
42595342 TGGGTGTTATATAAATGCTTATTTTGCTTTGGTTATCAAAATCATACACCCTTCACTATACCTAA
1 TGAGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATA-CTTA
* * * * * * * * ** *
42595407 ACCTCTACTTTTTTTGTAAACGCTTATTTTGTTTTTATTTTAATATGTAAAACGGTTTTCCAATT
65 ATCTC-A-TTTTATTATAGATGTTTATTTTGTTTTTGTTTTAATATCTAAATTGGTTTT-AAATT
* * * * * * *
42595472 ACATATCTTTTAGCGATACTTAAAGTTTATATTTCATGGGTATTATATAAGTGTATATCTTGCTT
127 ATACATCTTTTAACGATACTTAAAGTTTATATTTTATGAGTATTATATAAATGT-TATTTTGCTT
* * ** *
42595537 TGTTTATCGAAATCATACACCTTTCACTATACTTAAATCTACATTTTATTATAGATGCTTATTTT
191 TGGTTATTGAAATCATACACCTTTCACTATACTTAAATCTATTTTTTTTTA-AGATGCTTA-TTT
* *
42595602 GTTTTT-CTTTAATACGTAAAACAGTTTTCGAATT-T-TATGCTTTTTAACGATACTTAAAGTTT
254 GTTTTTGTTTTAATACGTAAAACGGTTTTCGAATTATATAT-C-TTTTAACGATACTTAAAGTTT
* * * *
42595664 ATATTTCAT-TGTGTTGTATAAATGCTTATTTTACTTTGGTTATTGAAATCATACACCTTTCACT
317 ATATTTCATGAGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGAAATCATACACCTTTCACT
* *
42595728 AAACTTAAATCTGCATTTTATTATAGATGTTTATTTTGTTTTTGTTTTAATACCTAAATTGACTT
382 ATACTTAAATCTGCATTTTATTATAGATGCTTATTTTGTTTTTGTTTTAATACCTAAATTGACTT
*
42595793 CCAAATTATACATCTTTAACCATGCTTAAAGTTTATAAATCGTGGATGTTGTTTTCAAACTATAC
447 TCAAATTATACATCTTTAACCATGCTTAAAGTTTATAAATCGTGGATGTTGTTTTCAAACTATAC
42595858 ATCTTTTAATGACACTCAAAGTTTATATTTTATGAGTGTTATATAAATGCTTAATTTGCTTTGAT
512 A-CTTTTAATGACACTCAAAGTTTATATTTTATGAGTGTTATATAAATGCTTAATTTGCTTTGAT
* *
42595923 TATCGAAATCATGCACCTTTTACTATACCTAAACCTATA-ATTTTTTATAGATGCTTATATTGTT
576 TATCGAAATCATACACCTTTCACTATACCTAAACCTATATATTTTTTATAGATGCTTATATTGTT
* *
42595987 GTTTTTGAATTATATATCTTTTAACGATGCTTAAAGTTTATATTTCA
641 GTTTTCGAATTATATATCTTTTAACGATGCTTAAAGTTTATATATCA
* * * * *
42596034 TGAGTGTTATATAAATACTTATTTTACTTTGGTTATCGGACTTATACACCTTTCATTATACTTAA
1 TGAGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACTTAA
* * * * * * *
42596099 TGTGCAATTTATTATAGATGTTTATTTTGTTTATGTTTTACTACCTAAATTGGTTTTTAACTATA
66 TCT-CATTTTATTATAGATGTTTATTTTGTTTTTGTTTTAATATCTAAATTGGTTTTAAATTATA
* * * * * *
42596164 GATCTTTTAACGATGCTTAACGTTTATATTTTATGAGTGTTATATAATTGCTTATTTTGTTTTGG
130 CATCTTTTAACGATACTTAAAGTTTATATTTTATGAGTATTATATAAATG-TTATTTTGCTTTGG
* * ** *
42596229 TTATTGAAATCATACACATTTCACCATA-TCTAAGCCTATTTTTTTTTTAAAAATGCTTATATTG
194 TTATTGAAATCATACACCTTTCACTATACT-TAAATCTA-TTTTTTTTT-AAGATGCTTAT-TTG
* *
42596293 TTTTTGTTTTACTAAGTAAAACGGTTTTCGAATTATATATCTTTTAACGATACTTAAAGTTTATA
255 TTTTTGTTTTAATACGTAAAACGGTTTTCGAATTATATATCTTTTAACGATACTTAAAGTTTATA
* * * * ** *
42596358 TTTCATGGGTGTTATATAAATTCCTATTTTGCTTTGGTTATCGGAATCATACACCGCTCATTATA
320 TTTCATGAGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGAAATCATACACCTTTCACTATA
* * * **
42596423 CTTAAATCTGTATTTTATTATAGATGCTTATCTTGTTTTTGTTTTAATAGCTAAATTGGTTTTCA
385 CTTAAATCTGCATTTTATTATAGATGCTTATTTTGTTTTTGTTTTAATACCTAAATTGACTTTCA
42596488 AATTATACAT
450 AATTATACAT
42596498 ATTTTGACAA
Statistics
Matches: 976, Mismatches: 155, Indels: 50
0.83 0.13 0.04
Matches are distributed among these distances:
688 1 0.00
689 89 0.09
690 61 0.06
691 69 0.07
692 300 0.31
693 335 0.34
694 121 0.12
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (687 bp):
TGAGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACTTAA
TCTCATTTTATTATAGATGTTTATTTTGTTTTTGTTTTAATATCTAAATTGGTTTTAAATTATAC
ATCTTTTAACGATACTTAAAGTTTATATTTTATGAGTATTATATAAATGTTATTTTGCTTTGGTT
ATTGAAATCATACACCTTTCACTATACTTAAATCTATTTTTTTTTAAGATGCTTATTTGTTTTTG
TTTTAATACGTAAAACGGTTTTCGAATTATATATCTTTTAACGATACTTAAAGTTTATATTTCAT
GAGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGAAATCATACACCTTTCACTATACTTAAA
TCTGCATTTTATTATAGATGCTTATTTTGTTTTTGTTTTAATACCTAAATTGACTTTCAAATTAT
ACATCTTTAACCATGCTTAAAGTTTATAAATCGTGGATGTTGTTTTCAAACTATACACTTTTAAT
GACACTCAAAGTTTATATTTTATGAGTGTTATATAAATGCTTAATTTGCTTTGATTATCGAAATC
ATACACCTTTCACTATACCTAAACCTATATATTTTTTATAGATGCTTATATTGTTGTTTTCGAAT
TATATATCTTTTAACGATGCTTAAAGTTTATATATCA
Found at i:42596664 original size:144 final size:144
Alignment explanation
Indices: 42596382--42596671 Score: 352
Period size: 144 Copynumber: 2.0 Consensus size: 144
42596372 TATAAATTCC
* * * * * *
42596382 TATTTTGCTTTGGTTATCGGAATCATACACCGCTCATTATACTTAAATCTGTATTTTATTATAGA
1 TATTTTGCTTTGGCTATCGGAATCATACACCGCTCACTATACCTAAACCTCTATTTTATTATAAA
* * ** * *
42596447 TGCTTATCTTGTTTTTGTTTTAATAGCTAAATTGGTTTTCAAATTATACATATTTTGACAATGCT
66 TGCATATCTTGTTTTTGCTTTAATAGCTAAAACGGTTTTCAAATTATACATATTTTAACAATACT
*
42596512 CAATGTTTATATTT
131 CAAAGTTTATATTT
**
42596526 TATTTTGCTTTGGCTATCGGAATCATACACCTTTCACTATACCTAAACCTCTATTTTATTATAAA
1 TATTTTGCTTTGGCTATCGGAATCATACACCGCTCACTATACCTAAACCTCTATTTTATTATAAA
* * **
42596591 TGCATAT-TTCGTTTTTGCTTTAATA-CGTAAAACGGTTTTCTAATTATATAT-TTCTTAACGGT
66 TGCATATCTT-GTTTTTGCTTTAATAGC-TAAAACGGTTTTCAAATTATACATATT-TTAACAAT
*
42596653 ACTTAAAGTTTATATTT
128 ACTCAAAGTTTATATTT
42596670 TA
1 TA
42596672 CGGGTGTTAT
Statistics
Matches: 123, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
143 5 0.04
144 118 0.96
ACGTcount: A:0.28, C:0.14, G:0.11, T:0.47
Consensus pattern (144 bp):
TATTTTGCTTTGGCTATCGGAATCATACACCGCTCACTATACCTAAACCTCTATTTTATTATAAA
TGCATATCTTGTTTTTGCTTTAATAGCTAAAACGGTTTTCAAATTATACATATTTTAACAATACT
CAAAGTTTATATTT
Found at i:42600621 original size:27 final size:28
Alignment explanation
Indices: 42600591--42600657 Score: 84
Period size: 27 Copynumber: 2.4 Consensus size: 28
42600581 TCAAAAATGA
42600591 TAAAAATATTTAAAAAA-ATAAGAA-TAT
1 TAAAAATATTTAAAAAAGATAA-AATTAT
*
42600618 TAAAATTATTTAAAAAAGATAAAATTAT
1 TAAAAATATTTAAAAAAGATAAAATTAT
*
42600646 AAGAAAATATTT
1 TA-AAAATATTT
42600658 TTAAATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 18 0.53
28 8 0.24
29 8 0.24
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (28 bp):
TAAAAATATTTAAAAAAGATAAAATTAT
Found at i:42603638 original size:27 final size:28
Alignment explanation
Indices: 42603608--42603665 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
42603598 ATAAAATTTT
* *
42603608 AAAATTTTAAAATT-TTCAAAAATGATA
1 AAAATATTAAAATTATTCAAAAAAGATA
*
42603635 AAAATATTAAAATTATTTAAAAAAGATA
1 AAAATATTAAAATTATTCAAAAAAGATA
42603663 AAA
1 AAA
42603666 TTAAAAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 13 0.48
28 14 0.52
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (28 bp):
AAAATATTAAAATTATTCAAAAAAGATA
Found at i:42603647 original size:8 final size:8
Alignment explanation
Indices: 42603599--42603628 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
42603589 AAGCAATTAA
42603599 TAAAATTT
1 TAAAATTT
42603607 TAAAATTT
1 TAAAATTT
42603615 TAAAATTT
1 TAAAATTT
42603623 TCAAAA
1 T-AAAA
42603629 ATGATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 17 0.81
9 4 0.19
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (8 bp):
TAAAATTT
Found at i:42603666 original size:27 final size:26
Alignment explanation
Indices: 42603607--42603666 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
42603597 AATAAAATTT
* *
42603607 TAAAATTTTAAAATTTTCAAAAATGA
1 TAAAATATTAAAATTTTCAAAAAAGA
*
42603633 TAAAAATATTAAAATTATTTAAAAAAGA
1 T-AAAATATTAAAATT-TTCAAAAAAGA
42603661 TAAAAT
1 TAAAAT
42603667 TAAAAGAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 1 0.03
27 18 0.62
28 10 0.34
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (26 bp):
TAAAATATTAAAATTTTCAAAAAAGA
Found at i:42604828 original size:19 final size:21
Alignment explanation
Indices: 42604788--42604829 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
42604778 TTTGTGAACC
*
42604788 AATTTTAATCTTTTTATATGT
1 AATTTTAATCTTATTATATGT
42604809 AATTTTAATC-TATT-TATGT
1 AATTTTAATCTTATTATATGT
42604828 AA
1 AA
42604830 GCCCTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 3 0.15
21 10 0.50
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (21 bp):
AATTTTAATCTTATTATATGT
Found at i:42607769 original size:23 final size:22
Alignment explanation
Indices: 42607741--42607842 Score: 88
Period size: 21 Copynumber: 4.7 Consensus size: 22
42607731 CATATTTTCT
42607741 TTATATATTTATTTATATATTA
1 TTATATATTTATTTATATATTA
42607763 TTA-ATA-TTATTTATATATTA
1 TTATATATTTATTTATATATTA
* *
42607783 TTCTATA-TTATTAATATATT-
1 TTATATATTTATTTATATATTA
* *
42607803 TTAATTTATATAATTTATATA-TA
1 TT-ATATAT-TTATTTATATATTA
*
42607826 TTAAATATATATATTTA
1 TT--ATATATTTATTTA
42607843 AATGATAAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
20 18 0.28
21 21 0.32
22 4 0.06
23 16 0.25
24 6 0.09
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (22 bp):
TTATATATTTATTTATATATTA
Found at i:42607771 original size:9 final size:9
Alignment explanation
Indices: 42607757--42607820 Score: 51
Period size: 9 Copynumber: 6.8 Consensus size: 9
42607747 ATTTATTTAT
42607757 ATATTATTA
1 ATATTATTA
42607766 ATATTATTTA
1 ATATTA-TTA
*
42607776 TATATTATTCT
1 -ATATTATT-A
42607787 ATATTATTA
1 ATATTATTA
*
42607796 ATATATTTTA
1 ATAT-TATTA
42607806 AT-TTATATA
1 ATATTAT-TA
42607815 AT-TTAT
1 ATATTAT
42607821 ATATATTAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
8 2 0.04
9 19 0.41
10 19 0.41
11 6 0.13
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (9 bp):
ATATTATTA
Found at i:42607774 original size:20 final size:20
Alignment explanation
Indices: 42607749--42607811 Score: 85
Period size: 20 Copynumber: 3.2 Consensus size: 20
42607739 CTTTATATAT
42607749 TTATTTATATATTATTAATA
1 TTATTTATATATTATTAATA
*
42607769 TTATTTATATATTATTCTATA
1 TTATTTATATATTATT-AATA
*
42607790 TTATTAATATATT-TTAAT-
1 TTATTTATATATTATTAATA
42607808 TTAT
1 TTAT
42607812 ATAATTTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
18 4 0.10
19 2 0.05
20 18 0.46
21 15 0.38
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATTTATATATTATTAATA
Found at i:42607790 original size:21 final size:20
Alignment explanation
Indices: 42607744--42607824 Score: 90
Period size: 21 Copynumber: 3.8 Consensus size: 20
42607734 ATTTTCTTTA
42607744 TATATTTATTTATATATTATT
1 TATA-TTATTTATATATTATT
*
42607765 AATATTATTTATATATTATT
1 TATATTATTTATATATTATT
*
42607785 CTATATTATTAATATATTTTAATT
1 -TATATTATT--TATATATT-ATT
*
42607809 TATATAATTTATATAT
1 TATATTATTTATATAT
42607825 ATTAAATATA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
20 16 0.31
21 17 0.33
23 15 0.29
24 3 0.06
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (20 bp):
TATATTATTTATATATTATT
Found at i:42607790 original size:30 final size:31
Alignment explanation
Indices: 42607740--42607842 Score: 101
Period size: 30 Copynumber: 3.4 Consensus size: 31
42607730 GCATATTTTC
42607740 TTTATATATTTATTTATATATTATTAATATTA
1 TTTATATATTTATTTATATATTATTAATA-TA
*
42607772 TTTATATA-TTA-TTCTATATTATTAATATA
1 TTTATATATTTATTTATATATTATTAATATA
* *
42607801 TTTTAATTTATATAATTTATATA-TATTAA-ATA
1 -TTT-ATATAT-TTATTTATATATTATTAATATA
42607833 --TATATATTTA
1 TTTATATATTTA
42607843 AATGATAAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 15
0.74 0.07 0.19
Matches are distributed among these distances:
27 2 0.03
28 5 0.08
29 3 0.05
30 18 0.30
31 7 0.12
32 11 0.18
33 8 0.13
34 6 0.10
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (31 bp):
TTTATATATTTATTTATATATTATTAATATA
Found at i:42608008 original size:21 final size:21
Alignment explanation
Indices: 42607968--42608006 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
42607958 AAATCATAGA
42607968 TAAATCCAAGCGACTCTTTCT
1 TAAATCCAAGCGACTCTTTCT
42607989 TAAATCCAAGCGA-TCTTT
1 TAAATCCAAGCGACTCTTT
42608007 TCGTAGGCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (21 bp):
TAAATCCAAGCGACTCTTTCT
Found at i:42608281 original size:13 final size:13
Alignment explanation
Indices: 42608263--42608287 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42608253 TAAATACAAA
42608263 ATGCTAAAAATGT
1 ATGCTAAAAATGT
42608276 ATGCTAAAAATG
1 ATGCTAAAAATG
42608288 ATACAAAGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (13 bp):
ATGCTAAAAATGT
Found at i:42613609 original size:14 final size:14
Alignment explanation
Indices: 42613572--42613618 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
42613562 CGTGTAGTCT
*
42613572 TATAATATT-ATAA
1 TATAATATTAAAAA
42613585 TATAATATTAAAAA
1 TATAATATTAAAAA
42613599 TA-AATATTTAAAAAA
1 TATAATA-TT-AAAAA
42613614 TATAA
1 TATAA
42613619 GATGAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 13 0.45
14 7 0.24
15 7 0.24
16 2 0.07
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TATAATATTAAAAA
Found at i:42613660 original size:24 final size:24
Alignment explanation
Indices: 42613628--42613682 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
42613618 AGATGAATTT
42613628 TAAACATATTTCTTTGGCCGACTC
1 TAAACATATTTCTTTGGCCGACTC
42613652 TAAACATATTTCTTTGGCCGACTC
1 TAAACATATTTCTTTGGCCGACTC
42613676 T-AACATA
1 TAAACATA
42613683 CCCTTCCTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 6 0.19
24 25 0.81
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (24 bp):
TAAACATATTTCTTTGGCCGACTC
Found at i:42616484 original size:163 final size:164
Alignment explanation
Indices: 42616067--42616554 Score: 574
Period size: 164 Copynumber: 3.0 Consensus size: 164
42616057 TCATATGTCG
* * *
42616067 TGAGTGTTGTATAAATGCTTATTTTGCTTTGGTTATTGGAATCATAAACCTTTCACTATACTTAA
1 TGAGTGTTATATAAATGCTTATTTTGCTTTGGTTA-TGAAATCATACACCTTTCACTATACTTAA
* * ** * * * *
42616132 ATCTTTATTTTCTTATAGATATTTATTTTGTTTTTGTTTGAATATCTAAATTAACTTTCAAATTA
65 ATCTCTATTTTATTATAGATGCTTACTTTGTTTTTGTTTTAATACCTAAATTGACTTTCAAATTA
*
42616197 TACATCTTTTAACGATATTTAAGGTTTAT-ATTTTA
130 TACATCTTTTAACGATACTTAA-GTTTATAATTTTA
* ** * * * *
42616232 TGACTAATATATAAATGGTTATTTTGCTCTGGTTATTAGAATTATACACCTTTCACTATACTTAA
1 TGAGTGTTATATAAATGCTTATTTTGCTTTGGTTATGA-AATCATACACCTTTCACTATACTTAA
* * * * **
42616297 TTTTAC-ATTTTATTGTAGATGCTTA-TTTGTTTTTGTTTTAATACCTAAATGGGTTTTCAAATT
65 ATCT-CTATTTTATTATAGATGCTTACTTTGTTTTTGTTTTAATACCTAAATTGACTTTCAAATT
42616360 ATACATCTTTTAACGATACTTAAGTTTATAATTTT-
129 ATACATCTTTTAACGATACTTAAGTTTATAATTTTA
* * *
42616395 TGAGTGTTATATAAATGCTTAATTTGCTTTGATTATCGAAATCATACA-CTATTCACTATACCTA
1 TGAGTGTTATATAAATGCTTATTTTGCTTTGGTTAT-GAAATCATACACCT-TTCACTATACTTA
* * *
42616459 AACCTCTATTTTATTATAAATGCTTACTTTGTTTTTGTTTTAATACTTAAATTGACTTTCAAATT
64 AATCTCTATTTTATTATAGATGCTTACTTTGTTTTTGTTTTAATACCTAAATTGACTTTCAAATT
* *
42616524 ATACATC-TTTAACTATGCTTAAAGTTTATAA
129 ATACATCTTTTAACGATACTT-AAGTTTATAA
42616555 GTTGTGGGTG
Statistics
Matches: 270, Mismatches: 45, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
162 3 0.01
163 85 0.31
164 112 0.41
165 70 0.26
ACGTcount: A:0.30, C:0.11, G:0.10, T:0.49
Consensus pattern (164 bp):
TGAGTGTTATATAAATGCTTATTTTGCTTTGGTTATGAAATCATACACCTTTCACTATACTTAAA
TCTCTATTTTATTATAGATGCTTACTTTGTTTTTGTTTTAATACCTAAATTGACTTTCAAATTAT
ACATCTTTTAACGATACTTAAGTTTATAATTTTA
Found at i:42617163 original size:163 final size:163
Alignment explanation
Indices: 42616711--42617201 Score: 628
Period size: 166 Copynumber: 3.0 Consensus size: 163
42616701 TTATATTGTT
* * *
42616711 GTTTTCGAATTATATATTTTTTAACGATGCTTAAAGTTTATATATCATGGGTGTTATATAAATGC
1 GTTTTCGAATTATAT-CTTTTTAACGATACTTAAAGTTTATATTTCATGGGTGTTATATAAATGC
* * * * * *
42616776 TTATTTTGCTTTGGTTATCAAAATCATACACCCTTCACTATACCTAAACCTCTACTTTTTTTGTA
65 TTATTTTGCTTTGGTTATCGAAATCATACACCTTTCACTATACTTAAATCTC-A-TTTTATTATA
* * * *
42616841 AACGCTTATTTTGTTTTTGTTTTAATATGTAAAACG
128 GATGCTTATTTTGTTTTTGTTTTAATACGTAAAACA
* * * *
42616877 GTTTTCCAATTACATATC-TTTTAGCGATACTTAAAGTTTATATTTCATGGGTATTATATAAGTG
1 GTTTTCGAATT--ATATCTTTTTAACGATACTTAAAGTTTATATTTCATGGGTGTTATATAAATG
* * *
42616941 TTTATCTTGCTTTGTTTATCGAAATCATACACCTTTCACTATACTTAAATCTACATTTTATTATA
64 CTTATTTTGCTTTGGTTATCGAAATCATACACCTTTCACTATACTTAAATCT-CATTTTATTATA
*
42617006 GATGCTTATTTTGTTTTT-CTTTAATACGTAAAACA
128 GATGCTTATTTTGTTTTTGTTTTAATACGTAAAACA
* * *
42617041 GTTTTCGAATTTTATGCTTTTTAACGATACTTAAAGTTTATATTTCAT-TGTGTTGTATAAATGC
1 GTTTTCGAATTATAT-CTTTTTAACGATACTTAAAGTTTATATTTCATGGGTGTTATATAAATGC
* * *
42617105 TTATTTTACTTTGGTTATTGAAATCATACACCTTTCACTAAACTTAAATCTGCATTTTATTATAG
65 TTATTTTGCTTTGGTTATCGAAATCATACACCTTTCACTATACTTAAATCT-CATTTTATTATAG
* *
42617170 ATGTTTATTTTGTTTTTGTTTTAATACCTAAA
129 ATGCTTATTTTGTTTTTGTTTTAATACGTAAA
42617202 TTGACTTCCA
Statistics
Matches: 281, Mismatches: 38, Indels: 14
0.84 0.11 0.04
Matches are distributed among these distances:
162 3 0.01
163 87 0.31
164 65 0.23
165 24 0.09
166 97 0.35
167 1 0.00
168 4 0.01
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.48
Consensus pattern (163 bp):
GTTTTCGAATTATATCTTTTTAACGATACTTAAAGTTTATATTTCATGGGTGTTATATAAATGCT
TATTTTGCTTTGGTTATCGAAATCATACACCTTTCACTATACTTAAATCTCATTTTATTATAGAT
GCTTATTTTGTTTTTGTTTTAATACGTAAAACA
Found at i:42617239 original size:163 final size:164
Alignment explanation
Indices: 42616730--42617245 Score: 601
Period size: 163 Copynumber: 3.1 Consensus size: 164
42616720 TTATATATTT
* *
42616730 TTTAACGATGCTTAAAGTTTATATATCATGGGTGTTATATAAATGCTTATTTTGCTTTGGTTATC
1 TTTAACGATACTTAAAGTTTATATTTCATGGGTGTTATATAAATGCTTATTTTGCTTTGGTTATC
* * * * * * * *
42616795 AAAATCATACACCCTTCACTATACCTAAACCTCTACTTTTTTTGTAAACGCTTATTTTGTTTTTG
66 GAAATCATACACCTTTCACTATACTTAAATCTC-A-TTTTATTATAGATGCTTATTTTGTTTTTG
* * * *
42616860 TTTTAATATGTAAAACGGTTTTCC-AATTACATATC
129 TTTTAATACGTAAAACAGTTTTCCAAATTATACATC
* * * * * *
42616895 TTTTAGCGATACTTAAAGTTTATATTTCATGGGTATTATATAAGTGTTTATCTTGCTTTGTTTAT
1 -TTTAACGATACTTAAAGTTTATATTTCATGGGTGTTATATAAATGCTTATTTTGCTTTGGTTAT
42616960 CGAAATCATACACCTTTCACTATACTTAAATCTACATTTTATTATAGATGCTTATTTTGTTTTT-
65 CGAAATCATACACCTTTCACTATACTTAAATCT-CATTTTATTATAGATGCTTATTTTGTTTTTG
* * * * *
42617024 CTTTAATACGTAAAACAGTTTTCGAATTTTATGC-TT
129 TTTTAATACGTAAAACAGTTTTCCAA-ATTATACATC
* * * *
42617060 TTTAACGATACTTAAAGTTTATATTTCAT-TGTGTTGTATAAATGCTTATTTTACTTTGGTTATT
1 TTTAACGATACTTAAAGTTTATATTTCATGGGTGTTATATAAATGCTTATTTTGCTTTGGTTATC
* *
42617124 GAAATCATACACCTTTCACTAAACTTAAATCTGCATTTTATTATAGATGTTTATTTTGTTTTTGT
66 GAAATCATACACCTTTCACTATACTTAAATCT-CATTTTATTATAGATGCTTATTTTGTTTTTGT
* ** **
42617189 TTTAATACCT-AAATTGACTTCCAAATTATACATC
130 TTTAATACGTAAAACAGTTTTCCAAATTATACATC
* *
42617223 TTTAACCATGCTTAAAGTTTATA
1 TTTAACGATACTTAAAGTTTATA
42617246 AATCGTGGAT
Statistics
Matches: 295, Mismatches: 50, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
162 5 0.02
163 117 0.40
164 57 0.19
165 26 0.09
166 89 0.30
167 1 0.00
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (164 bp):
TTTAACGATACTTAAAGTTTATATTTCATGGGTGTTATATAAATGCTTATTTTGCTTTGGTTATC
GAAATCATACACCTTTCACTATACTTAAATCTCATTTTATTATAGATGCTTATTTTGTTTTTGTT
TTAATACGTAAAACAGTTTTCCAAATTATACATC
Found at i:42617482 original size:692 final size:690
Alignment explanation
Indices: 42616067--42617913 Score: 2266
Period size: 692 Copynumber: 2.7 Consensus size: 690
42616057 TCATATGTCG
* * * *
42616067 TGAGTGTTGTATAAATGCTTATTTTGCTTTGGTTATTGGAATCATAAACCTTTCACTATACTTAA
1 TGAGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTAA
* * * * ***
42616132 ATCTTTA-TTTTCTTATAGATATTTATTTTGTTTTTGTTTGAATATCTAAATTAACTTTCAAATT
66 A-CTCTACTTTTATTATAGATGTTTATTTTGTTTTTGTTTTAATATCTAAATTGGTTTTCAAATT
* * * * * *
42616196 ATACATCTTTTAACGATATTTAAGGTTTATATTTTATGACTAATATATAAATGGTTATTTTGCTC
130 ATACATCTTTTAACGATACTTAAAGTTTATATTTTATGAGTATTATATAAATGCTTATTTTGCTT
* * * * *
42616261 TGGTTATTAGAATTATACACCTTTCACTATACTTAATTTTACATTTTATTGTAGATGCTTA-TTT
195 TGGTTATGA-AATCATACACCTTTCACTATACTTAAATCTACATTTTATTATAGATGCTTATTTT
* ** * *
42616325 GTTTTTGTTTTAATACCTAAATGGGTTTTCAAATTATA-CATCTTTTAACGATACTT-AAGTTTA
259 GTTTTTGTTTTAATACGTAAAACGGTTTTCGAATTTTATC-T-TTTTAACGATACTTAAAGTTTA
* *
42616388 TAATTT--TTGAGTGTTATATAAATGCTTAATTTGCTTTGATTATCGAAATCATACA-CTATTCA
322 T-ATTTCATT--GTGTTATATAAATGCTTATTTTGCTTTGGTTATCGAAATCATACACCT-TTCA
* * * * *
42616450 CTATACCTAAACCT-CTATTTTATTATAAATGCTTACTTTGTTTTTGTTTTAATACTTAAATTGA
383 CTATACTTAAATCTGC-ATTTTATTATAGATGCTTATTTTGTTTTTGTTTTAATACCTAAATTGA
* * * * *
42616514 CTTTCAAATTATACATCTTTAACTATGCTTAAAGTTTATAAGTTGTGGGTGTTGTTTTCATACTA
447 CTTTCAAATTATACATCTTTAACCATGCTTAAAGTTTATAAATCGTGGATGTTGTTTTCAAACTA
** * *
42616579 TACACTTTTAATGATGCTTAAAGTTTATATTTTATGAGTGTTATATAAATGTTTAATTTGCTTTG
512 TACACTTTTAATGACACTCAAAGTTTATATTTTATGAGTGTTATATAAATGCTTAATTTGCTTTG
* * *
42616644 ATTATCGAAATCATACACCTTTCACTATACTTAAACCTATATTTTTTTTATAGCTACTTATATTG
577 ATTATCGAAATCATACACCTTTCACTATACCTAAACCTATATATTTTTTATAGATACTTATATTG
*
42616709 TTGTTTTCGAATTATATATTTTTTAACGATGCTTAAAGTTTATATATCA
642 TTGTTTTCGAATTATATATCTTTTAACGATGCTTAAAGTTTATATATCA
* ** *
42616758 TGGGTGTTATATAAATGCTTATTTTGCTTTGGTTATCAAAATCATACACCCTTCACTATACCTAA
1 TGAGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTAA
* * * * * * ** *
42616823 ACCTCTACTTTTTTTGTAAACGCTTATTTTGTTTTTGTTTTAATATGTAAAACGGTTTTCCAATT
66 A-CTCTACTTTTATTATAGATGTTTATTTTGTTTTTGTTTTAATATCTAAATTGGTTTTCAAATT
* * * * * * * *
42616888 ACATATCTTTTAGCGATACTTAAAGTTTATATTTCATGGGTATTATATAAGTGTTTATCTTGCTT
130 ATACATCTTTTAACGATACTTAAAGTTTATATTTTATGAGTATTATATAAATGCTTATTTTGCTT
*
42616953 TGTTTATCGAAATCATACACCTTTCACTATACTTAAATCTACATTTTATTATAGATGCTTATTTT
195 TGGTTAT-GAAATCATACACCTTTCACTATACTTAAATCTACATTTTATTATAGATGCTTATTTT
* *
42617018 GTTTTT-CTTTAATACGTAAAACAGTTTTCGAATTTTATGCTTTTTAACGATACTTAAAGTTTAT
259 GTTTTTGTTTTAATACGTAAAACGGTTTTCGAATTTTAT-CTTTTTAACGATACTTAAAGTTTAT
* * * *
42617082 ATTTCATTGTGTTGTATAAATGCTTATTTTACTTTGGTTATTGAAATCATACACCTTTCACTAAA
323 ATTTCATTGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGAAATCATACACCTTTCACTATA
* *
42617147 CTTAAATCTGCATTTTATTATAGATGTTTATTTTGTTTTTGTTTTAATACCTAAATTGACTTCCA
388 CTTAAATCTGCATTTTATTATAGATGCTTATTTTGTTTTTGTTTTAATACCTAAATTGACTTTCA
42617212 AATTATACATCTTTAACCATGCTTAAAGTTTATAAATCGTGGATGTTGTTTTCAAACTATACATC
453 AATTATACATCTTTAACCATGCTTAAAGTTTATAAATCGTGGATGTTGTTTTCAAACTATACA-C
42617277 TTTTAATGACACTCAAAGTTTATATTTTATGAGTGTTATATAAATGCTTAATTTGCTTTGATTAT
517 TTTTAATGACACTCAAAGTTTATATTTTATGAGTGTTATATAAATGCTTAATTTGCTTTGATTAT
* * *
42617342 CGAAATCATGCACCTTTTACTATACCTAAACCTATA-ATTTTTTATAGATGCTTATATTGTTGTT
582 CGAAATCATACACCTTTCACTATACCTAAACCTATATATTTTTTATAGATACTTATATTGTTGTT
* *
42617406 TTTGAATTATATATCTTTTAACGATGCTTAAAGTTTATATTTCA
647 TTCGAATTATATATCTTTTAACGATGCTTAAAGTTTATATATCA
* * * * * *
42617450 TGAGTGTTATATAAATACTTATTTTACTTTGGTTATCGGACTTATACACCTTTCATTATA-CTTA
1 TGAGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTAA
* * * * * * * *
42617514 A-TGTGCAATTTATTATAGATGTTTATTTTGTTTATGTTTTACTACCTAAATTGGTTTT-TAACT
66 ACTCTAC-TTTTATTATAGATGTTTATTTTGTTTTTGTTTTAATATCTAAATTGGTTTTCAAATT
* * * * * *
42617577 ATAGATCTTTTAACGATGCTTAACGTTTATATTTTATGAGTGTTATATAATTGCTTATTTTGTTT
130 ATACATCTTTTAACGATACTTAAAGTTTATATTTTATGAGTATTATATAAATGCTTATTTTGCTT
* * ** * ** * * * *
42617642 TGGTTATTGAAATCATACACATTTCACCATA-TCTAAGCCAATTTTTTTTTTAAAAATGCTTATA
195 TGGTTA-TGAAATCATACACCTTTCACTATACT-TAAATCTA-CATTTTATTATAGATGCTTATT
* *
42617706 TTGTTTTTGTTTTACTAAGTAAAACGGTTTTCGAATTATATATC-TTTTAACGATACTTAAAGTT
257 TTGTTTTTGTTTTAATACGTAAAACGGTTTTCGAATT-T-TATCTTTTTAACGATACTTAAAGTT
* * * * ** *
42617770 TATATTTCATGGGTGTTATATAAATTCCTATTTTGCTTTGGTTATCGGAATCATACACCGCTCAT
320 TATATTTCAT-TGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGAAATCATACACCTTTCAC
* * * **
42617835 TATACTTAAATCTGTATTTTATTATAGATGCTTATCTTGTTTTTGTTTTAATAGCTAAATTGGTT
384 TATACTTAAATCTGCATTTTATTATAGATGCTTATTTTGTTTTTGTTTTAATACCTAAATTGACT
42617900 TTCAAATTATACAT
449 TTCAAATTATACAT
42617914 ATTTTGACAA
Statistics
Matches: 984, Mismatches: 153, Indels: 37
0.84 0.13 0.03
Matches are distributed among these distances:
688 1 0.00
689 90 0.09
690 64 0.07
691 120 0.12
692 586 0.60
693 120 0.12
694 3 0.00
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (690 bp):
TGAGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTAA
ACTCTACTTTTATTATAGATGTTTATTTTGTTTTTGTTTTAATATCTAAATTGGTTTTCAAATTA
TACATCTTTTAACGATACTTAAAGTTTATATTTTATGAGTATTATATAAATGCTTATTTTGCTTT
GGTTATGAAATCATACACCTTTCACTATACTTAAATCTACATTTTATTATAGATGCTTATTTTGT
TTTTGTTTTAATACGTAAAACGGTTTTCGAATTTTATCTTTTTAACGATACTTAAAGTTTATATT
TCATTGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGAAATCATACACCTTTCACTATACTT
AAATCTGCATTTTATTATAGATGCTTATTTTGTTTTTGTTTTAATACCTAAATTGACTTTCAAAT
TATACATCTTTAACCATGCTTAAAGTTTATAAATCGTGGATGTTGTTTTCAAACTATACACTTTT
AATGACACTCAAAGTTTATATTTTATGAGTGTTATATAAATGCTTAATTTGCTTTGATTATCGAA
ATCATACACCTTTCACTATACCTAAACCTATATATTTTTTATAGATACTTATATTGTTGTTTTCG
AATTATATATCTTTTAACGATGCTTAAAGTTTATATATCA
Found at i:42617789 original size:166 final size:162
Alignment explanation
Indices: 42617405--42617827 Score: 483
Period size: 163 Copynumber: 2.6 Consensus size: 162
42617395 ATATTGTTGT
*
42617405 TTTTGAATTATATATCTTTTAACGATGCTTAAAGTTTATATTTCATGAGTGTTATATAAATACTT
1 TTTTGAATTATATATCTTTTAACGATGCTTAAAGTTTATATTTCATGAGTGTTATAT-AATTCTT
* * * * ** * * *
42617470 ATTTTACTTTGGTTATCGGACTTATACACCTTTCATTATACTTAATGTGCAATTTATTATAGATG
65 ATTTTGCTTTGGTTATCGGAATCATACACATTTCACCATACTTAATGTCCAATTTATTAAAAATG
* * * **
42617535 TTTATTTTGTTTATGTTTTACTACCTAAATTGG
130 CTTATATTGTTTATGTTTTACTAACTAAAACGG
* * * * *
42617568 TTTTTAACTATAGATCTTTTAACGATGCTTAACGTTTATATTTTATGAGTGTTATATAATTGCTT
1 TTTTGAATTATATATCTTTTAACGATGCTTAAAGTTTATATTTCATGAGTGTTATATAATT-CTT
* * * *
42617633 ATTTTGTTTTGGTTATTGAAATCATACACATTTCACCATA-TCTAA-G-CCAATTTTTTTTTTAA
65 ATTTTGCTTTGGTTATCGGAATCATACACATTTCACCATACT-TAATGTCCAA----TTTATTAA
* *
42617695 AAATGCTTATATTGTTTTTGTTTTACTAAGTAAAACGG
125 AAATGCTTATATTGTTTATGTTTTACTAACTAAAACGG
* * *
42617733 TTTTCGAATTATATATCTTTTAACGATACTTAAAGTTTATATTTCATGGGTGTTATATAAATTCC
1 TTTT-GAATTATATATCTTTTAACGATGCTTAAAGTTTATATTTCATGAGTGTTATAT-AATTCT
42617798 TATTTTGCTTTGGTTATCGGAATCATACAC
64 TATTTTGCTTTGGTTATCGGAATCATACAC
42617828 CGCTCATTAT
Statistics
Matches: 215, Mismatches: 37, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
161 3 0.01
162 5 0.02
163 89 0.41
165 40 0.19
166 74 0.34
167 4 0.02
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.48
Consensus pattern (162 bp):
TTTTGAATTATATATCTTTTAACGATGCTTAAAGTTTATATTTCATGAGTGTTATATAATTCTTA
TTTTGCTTTGGTTATCGGAATCATACACATTTCACCATACTTAATGTCCAATTTATTAAAAATGC
TTATATTGTTTATGTTTTACTAACTAAAACGG
Found at i:42618080 original size:144 final size:144
Alignment explanation
Indices: 42617798--42618087 Score: 352
Period size: 144 Copynumber: 2.0 Consensus size: 144
42617788 TATAAATTCC
* * * * * *
42617798 TATTTTGCTTTGGTTATCGGAATCATACACCGCTCATTATACTTAAATCTGTATTTTATTATAGA
1 TATTTTGCTTTGGCTATCGGAATCATACACCGCTCACTATACCTAAACCTCTATTTTATTATAAA
* * ** * *
42617863 TGCTTATCTTGTTTTTGTTTTAATAGCTAAATTGGTTTTCAAATTATACATATTTTGACAATGCT
66 TGCATATCTTGTTTTTGCTTTAATAGCTAAAACGGTTTTCAAATTATACATATTTTAACAATACT
*
42617928 CAATGTTTATATTT
131 CAAAGTTTATATTT
**
42617942 TATTTTGCTTTGGCTATCGGAATCATACACCTTTCACTATACCTAAACCTCTATTTTATTATAAA
1 TATTTTGCTTTGGCTATCGGAATCATACACCGCTCACTATACCTAAACCTCTATTTTATTATAAA
* * **
42618007 TGCATAT-TTCGTTTTTGCTTTAATA-CGTAAAACGGTTTTCTAATTATATAT-TTCTTAACGGT
66 TGCATATCTT-GTTTTTGCTTTAATAGC-TAAAACGGTTTTCAAATTATACATATT-TTAACAAT
*
42618069 ACTTAAAGTTTATATTT
128 ACTCAAAGTTTATATTT
42618086 TA
1 TA
42618088 CGGGTGTTAT
Statistics
Matches: 123, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
143 5 0.04
144 118 0.96
ACGTcount: A:0.28, C:0.14, G:0.11, T:0.47
Consensus pattern (144 bp):
TATTTTGCTTTGGCTATCGGAATCATACACCGCTCACTATACCTAAACCTCTATTTTATTATAAA
TGCATATCTTGTTTTTGCTTTAATAGCTAAAACGGTTTTCAAATTATACATATTTTAACAATACT
CAAAGTTTATATTT
Found at i:42622000 original size:10 final size:9
Alignment explanation
Indices: 42621975--42622026 Score: 59
Period size: 9 Copynumber: 5.7 Consensus size: 9
42621965 ACTTAAGCAA
42621975 TTAATAAATT
1 TTAA-AAATT
42621985 TTAAAAATT
1 TTAAAAATT
42621994 TTAAAAATT
1 TTAAAAATT
* *
42622003 TCAAAAATG
1 TTAAAAATT
* *
42622012 ATAAAAATA
1 TTAAAAATT
42622021 TTAAAA
1 TTAAAA
42622027 TTATCTAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
9 32 0.89
10 4 0.11
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (9 bp):
TTAAAAATT
Done.