Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 152 of 160
Found at i:30202946 original size:371 final size:365
Alignment explanation
Indices: 30202096--30203474 Score: 1167
Period size: 371 Copynumber: 3.7 Consensus size: 365
30202086 AGTGTCATAA
* * * * *
30202096 GTCGAGACTTAAGCTTCGAACCCGCGCGACTCTGAGACCCGGGTATCCACTCATCCGGATG-CCA
1 GTCGAGACTTAAGCTTCGAACCCGAGCG-CTCCGAGACCCGGGCATCCACTCATTCGG-TGTCCG
* * *
30202160 GATCAGCCTATCTGCCACGGTTCACACCCTTGTGAGGTATTGTCTGCTCTGGCCCCTCTGGCCTC
64 GATCAGCCTAACTGCCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCCCCCCTGGCCTC
* * *
30202225 ACGGTTTTGTCCTACAAAAGGCGCCTCACAAGGCGGAGGTGGTGTGAACCCTTTTATACCCCAGT
129 ACGGTTTTATCCTACAAAAGGAGCCTCACAAGGCAGAGGTGGTGTGAACCCTTTTATACCCCAGT
* * *
30202290 GACCCTCCTATTATGTTCAATGTGAGATTCAAGACTCCTCCTTAGGTCTGTGACATTC-TCC-CG
194 GACCCTCCTATTATGTTCGATGTGAGATTCAAGACTCCTCCTTAGGTCCGTGACATTCTTCCACC
* * * *
30202353 C-A-C----G-CCTTCGTCATGGAGGCTGGCCACCCTACCTACCTCCCTCGAGACGCTCGATGTG
259 CAACCTTGTGACCCTCGTCACGGAGGCTGACCACCCTACCTACCTCCCTCGAGACGCTCGACGTG
* * * * *
30202411 GATCGAATGGTTTAGGGCTGACTCTGATACTACTTGTCACGG
324 AATCGAACGATATAGGGCTGACTCTGATACTACTTATCACGG
* * * * * * * * * * *
30202453 GTCGCGACTTAAGCTCCGAACTCGTGTGGTTCCGGGACCCGAGCATTCAC-CCTTCCGGTATCCT
1 GTCGAGACTTAAGCTTCGAACCCGAG-CGCTCCGAGACCCGGGCATCCACTCATT-CGGTGTCC-
* * * * * * **
30202517 GAATCAACTTAACCGCCACGGTTCACACCCTTGTAAGGTATTATCCGCTCTGGCCCCCCTGATCT
63 GGATCAGCCTAACTGCCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCCCCCCTGGCCT
* * ** *
30202582 CACGATTTTATCCTACAAAAGGTGTTTCACAAGGCAGAGGTGGTGTGAACCCTTATATACCCCAG
128 CACGGTTTTATCCTACAAAAGGAGCCTCACAAGGCAGAGGTGGTGTGAACCCTTTTATACCCCAG
* ** * *
30202647 TGACCTTTTTATTATGTTCGATGTGGGATTCAGGACTCCTCCTTAGGTCCGTGACATTCTTTCGC
193 TGACCCTCCTATTATGTTCGATGTGAGATTCAAGACTCCTCCTTAGGTCCGTGACATTC-TTC-C
* * ** *
30202712 ACCCAACCTTGTGACGTCCTCGTCACGGAGGTTGACCACCCTGCCTACCTCCCTCGAGGTGCT-T
256 ACCCAACCTTGTGAC--CCTCGTCACGGAGGCTGACCACCCTACCTACCTCCCTCGAGACGCTCG
*
30202776 ACCGTGAATCGAACGATATAGGGCT-AGCTCTGATA-TCATTTATCACGG
319 A-CGTGAATCGAACGATATAGGGCTGA-CTCTGATACT-ACTTATCACGG
*
30202824 GTCGAGACTTAAGCTTTGAACCCGAGCAGCTCCGAGACCCGGGCATCCACTCATTCGGTGTCTCG
1 GTCGAGACTTAAGCTTCGAACCCGAGC-GCTCCGAGACCCGGGCATCCACTCATTCGGTGTC-CG
* * *
30202889 GATCAGCCTAACTGCCACGGTTCACACCTTTATGAGGTATTGTCCGCTCTAGCCCCCCTGGCCTC
64 GATCAGCCTAACTGCCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCCCCCCTGGCCTC
* * * * *
30202954 ACGGTTTTATCCTACAAAAGGAGCCTCAGAAGGCAGAAGTGGTGTGAATCTTTTTATACCTCAGT
129 ACGGTTTTATCCTACAAAAGGAGCCTCACAAGGCAGAGGTGGTGTGAACCCTTTTATACCCCAGT
* * *
30203019 GACCCTCCTATTATGTTCGATGTGAGATTCAAGACTCTTCTTTAGGTCCGTGACATTCTCCCCCA
194 GACCCTCCTATTATGTTCGATGTGAGATTCAAGACTCCTCCTTAGGTCCGTGACATTCT--TCCA
* * * *
30203084 CCCAACCTTGTGACACCCTCATTACGGAGGCCTCGTCACAGAGGCCTGTCATCCTGTCTACCTCC
257 CCCAACCTTGTG--ACCCTCGTCACGGAGG-CT-G--AC-CA--CC---C-TAC---CTACCTCC
** * * * * * * * * * *
30203149 CTCGAGGTGCTTGGCGTGGATCGAATGGTTTAGGGCTG-GTCCTGATACCACTTGTCA-AG
306 CTCGAGACGCTCGACGTGAATCGAACGATATAGGGCTGACT-CTGATACTACTTATCACGG
* * * * ** * * **
30203208 GTCGAGACTCAAG-TTCCGAATCCGCGCGACTCTGAGACCCAAGCATTCA-TCCTTCCGACGTCC
1 GTCGAGACTTAAGCTT-CGAACCCGAGCG-CTCCGAGACCCGGGCATCCACTCATT-CGGTGT-C
** * * * * * * *
30203271 CAAATTAGCCTTACCGCCACGGTTCACACCTTTGTAAGGTATTATCCGCTCT-GACCCCCTGGCC
62 CGGATCAGCCTAACTGCCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCCCCCCTGGCC
* * * * * * * * * *
30203335 TCATGATTTTGTGCTACAAAAGGTGCCTTACAAGGCAGAGGTAGTGTGAACCCGTATATACCTCA
127 TCACGGTTTTATCCTACAAAAGGAGCCTCACAAGGCAGAGGTGGTGTGAACCCTTTTATACCCCA
* * * * * * *
30203400 GTGACCCTCCTATTATGTTTGATGTGAGATTCATGACTCTTCTTTAAGTTCGTGACAATCTCTCG
192 GTGACCCTCCTATTATGTTCGATGTGAGATTCAAGACTCCTCCTTAGGTCCGTGACATTCT-TC-
*
30203465 TACCCAACCT
255 CACCCAACCT
30203475 CGTTCTGCCC
Statistics
Matches: 819, Mismatches: 153, Indels: 74
0.78 0.15 0.07
Matches are distributed among these distances:
356 3 0.00
357 42 0.05
358 164 0.20
360 2 0.00
361 1 0.00
362 2 0.00
363 1 0.00
364 1 0.00
368 1 0.00
369 1 0.00
370 4 0.00
371 306 0.37
372 6 0.01
373 3 0.00
375 2 0.00
376 1 0.00
378 2 0.00
381 1 0.00
382 4 0.00
383 135 0.16
384 86 0.11
385 51 0.06
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (365 bp):
GTCGAGACTTAAGCTTCGAACCCGAGCGCTCCGAGACCCGGGCATCCACTCATTCGGTGTCCGGA
TCAGCCTAACTGCCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCCCCCCTGGCCTCAC
GGTTTTATCCTACAAAAGGAGCCTCACAAGGCAGAGGTGGTGTGAACCCTTTTATACCCCAGTGA
CCCTCCTATTATGTTCGATGTGAGATTCAAGACTCCTCCTTAGGTCCGTGACATTCTTCCACCCA
ACCTTGTGACCCTCGTCACGGAGGCTGACCACCCTACCTACCTCCCTCGAGACGCTCGACGTGAA
TCGAACGATATAGGGCTGACTCTGATACTACTTATCACGG
Found at i:30209512 original size:369 final size:369
Alignment explanation
Indices: 30208449--30209850 Score: 1409
Period size: 371 Copynumber: 3.8 Consensus size: 369
30208439 GCTTAACGTA
* * * *
30208449 GATCGAACAGTTTAAGACTGGCTCTGATATCACTTGTCATGGATCGAGACTTAAGTTCTGAACCC
1 GATCGAACAGTTTAAGGCTGGCTCTGATATCACTTGTCACGGGTCGAGACTTAAGCTCTGAACCC
* * * * *
30208514 ACGCGACTCTGAGACTCGAGCATCCACTCATCCGATGTCCCAGATCAGCCTTCTTACCATGG-TC
66 ACGTGACTCCGAGACCCGAGCATCCACTCATCCGATGTCCCAGATCAG-CTTATCACCATGGTTC
* * * * *
30208578 ACACCCTTGTGAGGTATTATCCGCTTCGACCCCCTTGACCTCATAATTTTATCCTAC-AAAAGAT
130 ACACCCTTGTGAAGTATTATCTGATTCGGCTCCCTTGACCTCATAATTTTATCCTACAAAAAG-T
* * * * * *
30208642 ACCTCACAAGGCGAAAATGGTGTGAACCCTTTTATAACCTAGTGACC-CTCTTATTATGTTCGAT
194 ACCTCACAAGACG-AAGTGGTGTGAACCCTTATATACCCCAGTGACCTTTC-TATTATGTTCGAT
* * * * * **
30208706 GTGAGATTCAAGACTCTTTCTTAGGTCCGTGACATTCTCTCTCATCCAACCTCGTGACGTCTTAA
257 GTGAGATTCAGGACTCTTCCTTAGGTCCGTGACATTCTCTCACACCCAACCTCGTGACGTCCTCG
* * *
30208771 TCA-TGGAGGTTGGCCATCCTGCCTACCTCCCTCGAGGTACTTGACGTG
322 TCACT-GAGGCTGGCCACCCTGCCTACCTCCCTCGAGGTACTTGACATG
* * * * *
30208819 GATCGAA-TGATTT-AGGACTAGCTCTGATATCACTTGTCATGAGTCGAGACTTAAGCTCTAAAC
1 GATCGAACAG-TTTAAGG-CTGGCTCTGATATCACTTGTCACGGGTCGAGACTTAAGCTCTGAAC
** * * * * * *** *
30208882 CCGTGCGATTCTGGGACCCGGGCATCCACTCATCCGATGTCCCAGATCAGCTT-TCTTGTTATAG
64 CCACGTGACTCCGAGACCCGAGCATCCACTCATCCGATGTCCCAGATCAGCTTATC--ACCATGG
* **
30208946 TTCACACCCTTGTGAAGTATTATCTGATTCGG-TCCCCTTGACCTTATGGTTTTATCCTACAAAA
127 TTCACACCCTTGTGAAGTATTATCTGATTCGGCT-CCCTTGACCTCATAATTTTATCCTACAAAA
* * * * * *
30209010 GGTACCTCACAAGACGAAGATGGTGTGAACCCTTTTATACCCTAATGACCCTCCTATTATGTTCG
191 AGTACCTCACAAGACGAAG-TGGTGTGAACCCTTATATACCCCAGTGACCTTTCTATTATGTTCG
* * * * *
30209075 ATGTGAGATTCAGGACTTTTTCTTAGGTCCGTGATATTTTCCCACACCCAACCTCGTGACGTCCT
255 ATGTGAGATTCAGGACTCTTCCTTAGGTCCGTGACATTCTCTCACACCCAACCTCGTGACGTCCT
*
30209140 CGTCACTGAGGCTGGCCACCCTGCCTACCTCCCTCGAGGTGCTTGACATG
320 CGTCACTGAGGCTGGCCACCCTGCCTACCTCCCTCGAGGTACTTGACATG
30209190 GATCGAAC-GATTTAAGGCTGGCTCTGATA-CTACTTGTCACGGGTCGAGACTTAAGCTCTGAAC
1 GATCGAACAG-TTTAAGGCTGGCTCTGATATC-ACTTGTCACGGGTCGAGACTTAAGCTCTGAAC
* *
30209253 CCACGT-AGCTCCGAGACCCGAACATCCACTCATCCGATGTCCCAGATCAGCTTATCACCACGGT
64 CCACGTGA-CTCCGAGACCCGAGCATCCACTCATCCGATGTCCCAGATCAGCTTATCACCATGGT
*
30209317 TCACACCCTTGTGAAGTATTGTCTG-TTCTGGCTCCC-TGACCTCATAATTTTATCCTACAAAAA
128 TCACACCCTTGTGAAGTATTATCTGATTC-GGCTCCCTTGACCTCATAATTTTATCCTACAAAAA
*
30209380 GTACCTCACAAGACAGAAGTGGTGTGAACCCTTACATACCCCAGTGACCTTTCTATTATGTTCGA
192 GTACCTCACAAGAC-GAAGTGGTGTGAACCCTTATATACCCCAGTGACCTTTCTATTATGTTCGA
* * * **
30209445 TGTGAGATTCATGACTCTTCCTTAGGTCCGTAACATTCTCTCGCACCCAACCTCGTGACACCCTC
256 TGTGAGATTCAGGACTCTTCCTTAGGTCCGTGACATTCTCTCACACCCAACCTCGTGACGTCCTC
* ** * * * * *
30209510 GTCACGGAGGCTGATCACCCTACCTATCTCTCTTGAGGCACTT-AGCATG
321 GTCACTGAGGCTGGCCACCCTGCCTACCTCCCTCGAGGTACTTGA-CATG
* * * * * * * *
30209559 AATCGAACAGTTTAGGGCTGGTTCTGATACCACTTGTCACGGGTTGAGAATTAAGCTCTAAACTC
1 GATCGAACAGTTTAAGGCTGGCTCTGATATCACTTGTCACGGGTCGAGACTTAAGCTCTGAACCC
* * * * * * * * * ** ** * * * * *
30209624 GCGTGACTTCGAGGCCTGGGTATTCACCCTTTTGACATCTC-GAATCAACCTAAC-CGTCATGAT
66 ACGTGACTCCGAGACCCGAGCATCCACTCATCCGATGTCCCAG-ATCAGCTTATCAC--CATGGT
* * * * * * *
30209687 TCATACCCTTGTGAGGTATTATCAG-CTCTGGC-CCTTCTGATCTCATGATTTTATCCTACAAAA
128 TCACACCCTTGTGAAGTATTATCTGATTC-GGCTCCCT-TGACCTCATAATTTTATCCTACAAAA
* * * *
30209750 GGTACCTCACAAGGCAGAGGTGGTGTGAACCCTTATATACCCCAGTGACCTTTCTATTATGTTTG
191 AGTACCTCACAAGAC-GAAGTGGTGTGAACCCTTATATACCCCAGTGACCTTTCTATTATGTTCG
* * *
30209815 ATGTGAGATTCAGGACTCTTCATTAGATCCATGACA
255 ATGTGAGATTCAGGACTCTTCCTTAGGTCCGTGACA
30209851 CAAGCATCAG
Statistics
Matches: 866, Mismatches: 139, Indels: 53
0.82 0.13 0.05
Matches are distributed among these distances:
368 4 0.00
369 267 0.31
370 172 0.20
371 412 0.48
372 11 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.30
Consensus pattern (369 bp):
GATCGAACAGTTTAAGGCTGGCTCTGATATCACTTGTCACGGGTCGAGACTTAAGCTCTGAACCC
ACGTGACTCCGAGACCCGAGCATCCACTCATCCGATGTCCCAGATCAGCTTATCACCATGGTTCA
CACCCTTGTGAAGTATTATCTGATTCGGCTCCCTTGACCTCATAATTTTATCCTACAAAAAGTAC
CTCACAAGACGAAGTGGTGTGAACCCTTATATACCCCAGTGACCTTTCTATTATGTTCGATGTGA
GATTCAGGACTCTTCCTTAGGTCCGTGACATTCTCTCACACCCAACCTCGTGACGTCCTCGTCAC
TGAGGCTGGCCACCCTGCCTACCTCCCTCGAGGTACTTGACATG
Found at i:30216005 original size:3 final size:3
Alignment explanation
Indices: 30215997--30216034 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
30215987 TGTTCTCGAG
30215997 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
30216035 TATCGCTCCG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:30218801 original size:20 final size:20
Alignment explanation
Indices: 30218776--30218813 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
30218766 TTCGTTATAA
30218776 TCATTGTTGTTATT-ATTTAC
1 TCATTG-TGTTATTCATTTAC
30218796 TCATTGTGTTATTCATTT
1 TCATTGTGTTATTCATTT
30218814 GGTCTCCTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.18, C:0.11, G:0.11, T:0.61
Consensus pattern (20 bp):
TCATTGTGTTATTCATTTAC
Found at i:30219371 original size:23 final size:23
Alignment explanation
Indices: 30219341--30219403 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 23
30219331 TTTGTCCTAA
30219341 ATATATAATATAAATTAAATTAT
1 ATATATAATATAAATTAAATTAT
*
30219364 ATATATAA-ATGAA--AAA-TAT
1 ATATATAATATAAATTAAATTAT
*
30219383 ATATAT-ATATATATTATAATT
1 ATATATAATATAAATTA-AATT
30219404 GTCATGTAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
18 1 0.03
19 12 0.38
20 3 0.09
21 1 0.03
22 6 0.19
23 9 0.28
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
ATATATAATATAAATTAAATTAT
Found at i:30219382 original size:17 final size:18
Alignment explanation
Indices: 30219339--30219387 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
30219329 TATTTGTCCT
*
30219339 AAAT-ATATAATATAAATT
1 AAATAATAT-ATATAAATG
*
30219357 AAATTATATATATAAATG
1 AAATAATATATATAAATG
30219375 AAA-AATATATATA
1 AAATAATATATATA
30219388 TATATATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 9 0.32
18 15 0.54
19 4 0.14
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
AAATAATATATATAAATG
Found at i:30219383 original size:19 final size:18
Alignment explanation
Indices: 30219339--30219389 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
30219329 TATTTGTCCT
*
30219339 AAATATATAATATAAATTA
1 AAATATAT-ATATAAATAA
*
30219358 AATTATATATATAAATGAA
1 AAATATATATATAAAT-AA
30219377 AAATATATATATA
1 AAATATATATATA
30219390 TATATATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 8 0.29
19 20 0.71
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
AAATATATATATAAATAA
Found at i:30220242 original size:2 final size:2
Alignment explanation
Indices: 30220235--30220260 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
30220225 CCACATTATC
30220235 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
30220261 ATCAAAGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30222412 original size:2 final size:2
Alignment explanation
Indices: 30222405--30222433 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
30222395 TTCAACTGCT
30222405 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30222434 GAGTTATCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30223281 original size:2 final size:2
Alignment explanation
Indices: 30223276--30223317 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
30223266 TAGGGATGTG
*
30223276 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30223318 CACCTAAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30238428 original size:143 final size:148
Alignment explanation
Indices: 30238252--30238652 Score: 417
Period size: 143 Copynumber: 2.7 Consensus size: 148
30238242 AGATTATTAG
* *
30238252 GAATAGTAACTCAAATTTCATAAGAAATTTGTTTGAAATTGATTAGATATTGCTTAATGAATAAA
1 GAATAGTAACTCAAATTTCATAAGAGATTTGTTTGAAATTGATTAGATATTGCTTAATAAATAAA
* * * *
30238317 AAAATTTGTACGACAAGAATTCTAATAAG-AAAAA-ATTCTTGACAAATAAGTTTG-TAT-A-AA
66 AAAACTTGTAAGACAAAAATTCTAA-AAGAAAAAAGATTCTTAACAAATAAGTTTGATATAATAA
30238377 -T-AGTCTCTATATAGTTA
130 GTAAGTCTCTATATAGTTA
** *
30238394 GAAATAGTAACTCAAATTTCATAAGAGATTTGTTT-AAGATTGATTAGATATTATTTGATAAATA
1 G-AATAGTAACTCAAATTTCATAAGAGATTTGTTTGAA-ATTGATTAGATATTGCTTAATAAATA
* * * * * *
30238458 AGAAGACTTGTAAGATAAAAATTTTAAAAGAAAAAAGATTTTTAACAGATAAGTTTGTATAATTA
64 AAAAAACTTGTAAGACAAAAATTCTAAAAGAAAAAAGATTCTTAACAAATAAGTTTG----A-TA
*
30238523 TAAATAAGTAAAGTCTTTATATAGTTA
124 T-AATAAGT-AAGTCTCTATATAGTTA
* * * *
30238550 TGAATAGTAACTCAAATTTCATAAGAGATTTCGTTTGAGATTGATTAGATATTGTTTGATAGATA
1 -GAATAGTAACTCAAATTTCATAAGAGATTT-GTTTGAAATTGATTAGATATTGCTTAATAAATA
* * *
30238615 AAAAGACTTGTAAGA-TAAAATTATAAAA-AAAAAAGATT
64 AAAAAACTTGTAAGACAAAAATTCTAAAAGAAAAAAGATT
30238653 ATTGATAGAC
Statistics
Matches: 218, Mismatches: 22, Indels: 25
0.82 0.08 0.09
Matches are distributed among these distances:
142 6 0.03
143 79 0.36
144 17 0.08
150 3 0.01
152 1 0.00
153 2 0.01
154 1 0.00
155 10 0.05
156 55 0.25
157 43 0.20
158 1 0.00
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.35
Consensus pattern (148 bp):
GAATAGTAACTCAAATTTCATAAGAGATTTGTTTGAAATTGATTAGATATTGCTTAATAAATAAA
AAAACTTGTAAGACAAAAATTCTAAAAGAAAAAAGATTCTTAACAAATAAGTTTGATATAATAAG
TAAGTCTCTATATAGTTA
Found at i:30238565 original size:156 final size:155
Alignment explanation
Indices: 30238378--30238700 Score: 499
Period size: 156 Copynumber: 2.1 Consensus size: 155
30238368 TTGTATAAAT
*
30238378 AGTCTCTATATAGTTAGAAATAGTAACTCAAATTTCATAAGAGATTT-GTTTAAGATTGATTAGA
1 AGTCTTTATATAGTTAGAAATAGTAACTCAAATTTCATAAGAGATTTCGTTTAAGATTGATTAGA
* * *
30238442 TATTATTTGATAAATAAGAAGACTTGTAAGATAAAAATTTTAAAAGAAAAAAGATTTTTAACAGA
66 TATTATTTGATAAATAAAAAGACTTGTAAGAT-AAAATTATAAAA-AAAAAAGATTATTAACAGA
*
30238507 TAAGTTTGTATAATTATAAATAAGTAA
129 CAAGTTTGTATAATTATAAATAAGTAA
*
30238534 AGTCTTTATATAGTTATG-AATAGTAACTCAAATTTCATAAGAGATTTCGTTTGAGATTGATTAG
1 AGTCTTTATATAGTTA-GAAATAGTAACTCAAATTTCATAAGAGATTTCGTTTAAGATTGATTAG
* * * *
30238598 ATATTGTTTGATAGATAAAAAGACTTGTAAGATAAAATTATAAAAAAAAAAGATTATTGATAGAC
65 ATATTATTTGATAAATAAAAAGACTTGTAAGATAAAATTATAAAAAAAAAAGATTATTAACAGAC
30238663 AAGTTTGTATAATTATAAATAAGTAA
130 AAGTTTGTATAATTATAAATAAGTAA
30238689 AGT-TTCTATATA
1 AGTCTT-TATATA
30238701 ATTAAATATG
Statistics
Matches: 154, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
154 2 0.01
155 51 0.33
156 55 0.36
157 46 0.30
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.37
Consensus pattern (155 bp):
AGTCTTTATATAGTTAGAAATAGTAACTCAAATTTCATAAGAGATTTCGTTTAAGATTGATTAGA
TATTATTTGATAAATAAAAAGACTTGTAAGATAAAATTATAAAAAAAAAAGATTATTAACAGACA
AGTTTGTATAATTATAAATAAGTAA
Found at i:30239275 original size:2 final size:2
Alignment explanation
Indices: 30239268--30239297 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
30239258 ATTATTCTTG
30239268 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
30239298 TACAAATAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30260507 original size:13 final size:13
Alignment explanation
Indices: 30260489--30260516 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
30260479 TGGCCTTAGT
30260489 TTCTTAGCTTCAG
1 TTCTTAGCTTCAG
30260502 TTCTTAGCTTCAG
1 TTCTTAGCTTCAG
30260515 TT
1 TT
30260517 GATATTTGAT
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:0.14, C:0.21, G:0.14, T:0.50
Consensus pattern (13 bp):
TTCTTAGCTTCAG
Found at i:30265852 original size:3 final size:3
Alignment explanation
Indices: 30265844--30265878 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
30265834 TGTCTTAAAG
30265844 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
30265879 GGTTTGTGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:30276283 original size:3 final size:3
Alignment explanation
Indices: 30276275--30276312 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
30276265 CGCTCGATGC
30276275 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
30276313 GTAACACCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:30285912 original size:22 final size:22
Alignment explanation
Indices: 30285886--30285929 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
30285876 AAAATAAAAA
30285886 TAATATAAATTTTT-TTATATTT
1 TAATA-AAATTTTTATTATATTT
**
30285908 TAATAATTTTTTTATTATATTT
1 TAATAAAATTTTTATTATATTT
30285930 GATGTGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
TAATAAAATTTTTATTATATTT
Found at i:30286376 original size:233 final size:236
Alignment explanation
Indices: 30285963--30286421 Score: 726
Period size: 233 Copynumber: 2.0 Consensus size: 236
30285953 ATGACATTTT
* * * *
30285963 CGCTTGCCTCAGTTTCATCAACTAATTAAATTACAAGCTGTTCACACAAGACAAACATTATCGTT
1 CGCTTGCCTCAGTTTAACCAACTAATCAAATTACAAGCTGTTCACACAAGACAAACATTATCATT
* * *
30286028 TTTCACCTTTTTTCCCGTGAAAATTTCCCGGGAAAAAAATAGAGAAAATAATAATAAAAAAAAAC
66 TTTCACCATTTTTCCCGTGAAAATTTCCCGGGAAAAAAACAGAGAAAATAATAAGAAAAAAAAAC
*
30286093 CATTACACGGTACCAAGAAAATCCCAACCAAACCAATAACTTGCTTTTATCGCTTTTCAATTTCC
131 CATTACACGATACCAAGAAAATCCCAACCAAACCAATAACTTGCTTTTATCGCTTTTCAATTTCC
30286158 TTGAAAGGAGAGTTTATTATTCTTGATTGTTTTAGTCTTTC
196 TTGAAAGGAGAGTTTATTATTCTTGATTGTTTTAGTCTTTC
* * *
30286199 CGCTTGCCTGAGTTTAACCAACTGATCAAATTACAAGCTGTTCATACAAGACAAACATTATCATT
1 CGCTTGCCTCAGTTTAACCAACTAATCAAATTACAAGCTGTTCACACAAGACAAACATTATCATT
* * **
30286264 TTTTA-CATTTTTCCCGTGAAAATTT-CCGGG-AAAATACAGAGAAAATAATTGGAAAAAAAAAC
66 TTTCACCATTTTTCCCGTGAAAATTTCCCGGGAAAAAAACAGAGAAAATAATAAGAAAAAAAAAC
* * * *
30286326 CTTTACACGATCCCAAGAAAATCCCAACCCAACCAATAACTTGTTTTTATCGCTTTTCAATTTCC
131 CATTACACGATACCAAGAAAATCCCAACCAAACCAATAACTTGCTTTTATCGCTTTTCAATTTCC
30286391 TTGAAAGGAGAGTTTATTATTCTTGATTGTT
196 TTGAAAGGAGAGTTTATTATTCTTGATTGTT
30286422 GCTCTTTTCT
Statistics
Matches: 204, Mismatches: 19, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
233 118 0.58
234 5 0.02
235 19 0.09
236 62 0.30
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (236 bp):
CGCTTGCCTCAGTTTAACCAACTAATCAAATTACAAGCTGTTCACACAAGACAAACATTATCATT
TTTCACCATTTTTCCCGTGAAAATTTCCCGGGAAAAAAACAGAGAAAATAATAAGAAAAAAAAAC
CATTACACGATACCAAGAAAATCCCAACCAAACCAATAACTTGCTTTTATCGCTTTTCAATTTCC
TTGAAAGGAGAGTTTATTATTCTTGATTGTTTTAGTCTTTC
Found at i:30306413 original size:21 final size:22
Alignment explanation
Indices: 30306383--30306423 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
30306373 ATGAAATATA
*
30306383 TATTTTTAA-TTTTGTTAAACT
1 TATTTATAATTTTTGTTAAACT
30306404 TATTTATAATTTTTGTTAAA
1 TATTTATAATTTTTGTTAAA
30306424 ATTTTAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (22 bp):
TATTTATAATTTTTGTTAAACT
Found at i:30312022 original size:24 final size:24
Alignment explanation
Indices: 30311987--30312040 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
30311977 TACTAGAAAG
* *
30311987 AACCCATGAACCCCAATTATTCGA
1 AACCCATAAACCCAAATTATTCGA
30312011 AACCCATAAACCCAAATTATTCGA
1 AACCCATAAACCCAAATTATTCGA
30312035 AACCCA
1 AACCCA
30312041 CATTGGCCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.43, C:0.33, G:0.06, T:0.19
Consensus pattern (24 bp):
AACCCATAAACCCAAATTATTCGA
Found at i:30315840 original size:31 final size:31
Alignment explanation
Indices: 30315805--30315885 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 31
30315795 GAACATTCAA
* *
30315805 CTTTGATACTACTTGTTAGAGATCACCATAG
1 CTTTGATACTACTTGTTAGAAATCACCACAG
* *
30315836 CTTTGATATTACTTGTTAGAAATTACCACAG
1 CTTTGATACTACTTGTTAGAAATCACCACAG
* *
30315867 CTCTGATACCACTTGTTAG
1 CTTTGATACTACTTGTTAG
30315886 GCAAAAAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (31 bp):
CTTTGATACTACTTGTTAGAAATCACCACAG
Found at i:30317857 original size:3 final size:3
Alignment explanation
Indices: 30317849--30317878 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
30317839 TCATGTATTC
30317849 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
30317879 GTATATCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:30318471 original size:31 final size:31
Alignment explanation
Indices: 30318436--30318506 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
30318426 AATTTCCAGA
* ** *
30318436 TTCCGGCGAAAATTCCGGCGAAGTTTGAATT
1 TTCCGGCGAAAATTCCGGCCAACATTGAAGT
30318467 TTCCGGCGAAAATTCCGGCCAACATTGAAGT
1 TTCCGGCGAAAATTCCGGCCAACATTGAAGT
30318498 TTCCGGCGA
1 TTCCGGCGA
30318507 CCTGTCCAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (31 bp):
TTCCGGCGAAAATTCCGGCCAACATTGAAGT
Found at i:30318592 original size:20 final size:20
Alignment explanation
Indices: 30318567--30318604 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
30318557 ACTTCCGGTG
*
30318567 AAATTTCCAGATTCCGGCGA
1 AAATTTCCAGAATCCGGCGA
30318587 AAATTTCCAGAATCCGGC
1 AAATTTCCAGAATCCGGC
30318605 ACCGGTGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (20 bp):
AAATTTCCAGAATCCGGCGA
Found at i:30318908 original size:12 final size:12
Alignment explanation
Indices: 30318891--30318915 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30318881 TGAGTCGAGC
30318891 CGAGCCGAGCCG
1 CGAGCCGAGCCG
30318903 CGAGCCGAGCCG
1 CGAGCCGAGCCG
30318915 C
1 C
30318916 TCCAGGTTTT
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:0.16, C:0.44, G:0.40, T:0.00
Consensus pattern (12 bp):
CGAGCCGAGCCG
Found at i:30319180 original size:60 final size:59
Alignment explanation
Indices: 30319060--30319518 Score: 659
Period size: 60 Copynumber: 7.8 Consensus size: 59
30319050 AATAAAAAAA
*
30319060 TTCCAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT-CTTAGAAATAAAT
1 TTCCAAAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
* *
30319119 TTCCAAAAAAAAAAATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAAT
1 TTCC-AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
*
30319179 TT-CAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
1 TTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
30319237 TTCC--AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
1 TTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
* * *
30319294 TTTCAAAAAAAGT-TTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCAAAAT
1 TTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAAT
30319354 TT-CAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
1 TTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
* ** *
30319412 TTTCAAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAAT
1 TTCCAAAAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAAT
*
30319474 TTTC--AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 TTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
30319519 CTAAAAAAAA
Statistics
Matches: 367, Mismatches: 18, Indels: 30
0.88 0.04 0.07
Matches are distributed among these distances:
57 56 0.15
58 98 0.27
59 95 0.26
60 109 0.30
61 1 0.00
62 8 0.02
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (59 bp):
TTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
Found at i:30322980 original size:15 final size:14
Alignment explanation
Indices: 30322960--30322989 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
30322950 CAGAAATGCT
30322960 AGAGAAGGCTAGAAG
1 AGAGAAGGCTA-AAG
30322975 AGAGAAGGCTAAAG
1 AGAGAAGGCTAAAG
30322989 A
1 A
30322990 AGGAGAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.50, C:0.07, G:0.37, T:0.07
Consensus pattern (14 bp):
AGAGAAGGCTAAAG
Found at i:30327900 original size:7 final size:8
Alignment explanation
Indices: 30327889--30327936 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
30327879 AAAAAATACA
30327889 AAAAAAAT
1 AAAAAAAT
30327897 AAAAAAAT
1 AAAAAAAT
30327905 AAAAAAAAT
1 -AAAAAAAT
*
30327914 GAAAAAAT
1 AAAAAAAT
*
30327922 GGAAAAAAT
1 -AAAAAAAT
*
30327931 GAAAAA
1 AAAAAA
30327937 TGATGAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
8 21 0.57
9 16 0.43
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:30327908 original size:17 final size:17
Alignment explanation
Indices: 30327878--30327936 Score: 64
Period size: 17 Copynumber: 3.3 Consensus size: 17
30327868 ACTATGCTTG
30327878 AAAAAAATACAAAAAAAAT
1 AAAAAAAT--AAAAAAAAT
30327897 AAAAAAATAAAAAAAAT
1 AAAAAAATAAAAAAAAT
* **
30327914 GAAAAAATGGAAAAAAT
1 AAAAAAATAAAAAAAAT
30327931 GAAAAA
1 -AAAAA
30327937 TGATGAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
17 23 0.66
18 4 0.11
19 8 0.23
ACGTcount: A:0.81, C:0.02, G:0.07, T:0.10
Consensus pattern (17 bp):
AAAAAAATAAAAAAAAT
Found at i:30327945 original size:17 final size:17
Alignment explanation
Indices: 30327890--30327974 Score: 84
Period size: 17 Copynumber: 4.8 Consensus size: 17
30327880 AAAAATACAA
* **
30327890 AAAAAATAAAAAAATAA
1 AAAAAATGAAAAAATGG
30327907 AAAAAATGAAAAAATGG
1 AAAAAATGAAAAAATGG
30327924 AAAAAATG-AAAAAT-G
1 AAAAAATGAAAAAATGG
30327939 ATGAAAAATGAAAAAAAATGG
1 A--AAAAATG--AAAAAATGG
30327960 AAAAAATGGAAAAAA
1 AAAAAAT-GAAAAAA
30327975 AGAAAAAGTG
Statistics
Matches: 58, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
15 2 0.03
16 6 0.10
17 29 0.50
18 6 0.10
19 6 0.10
20 7 0.12
21 2 0.03
ACGTcount: A:0.75, C:0.00, G:0.13, T:0.12
Consensus pattern (17 bp):
AAAAAATGAAAAAATGG
Found at i:30327954 original size:9 final size:9
Alignment explanation
Indices: 30327889--30327981 Score: 88
Period size: 9 Copynumber: 10.6 Consensus size: 9
30327879 AAAAAATACA
30327889 AAAAAAAT-
1 AAAAAAATG
*
30327897 AAAAAAATA
1 AAAAAAATG
30327906 AAAAAAATG
1 AAAAAAATG
30327915 -AAAAAATG
1 AAAAAAATG
*
30327923 GAAAAAATG
1 AAAAAAATG
30327932 --AAAAATG
1 AAAAAAATG
*
30327939 ATGAAAAATG
1 A-AAAAAATG
30327949 AAAAAAAATG
1 -AAAAAAATG
*
30327959 GAAAAAATGG
1 AAAAAAAT-G
30327969 AAAAAAA-G
1 AAAAAAATG
30327977 AAAAA
1 AAAAA
30327982 GTGAATGAAA
Statistics
Matches: 74, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
7 7 0.09
8 22 0.30
9 23 0.31
10 21 0.28
11 1 0.01
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (9 bp):
AAAAAAATG
Found at i:30327979 original size:17 final size:16
Alignment explanation
Indices: 30327890--30327986 Score: 70
Period size: 17 Copynumber: 5.6 Consensus size: 16
30327880 AAAAATACAA
* *
30327890 AAAAAATAAAAAAATAA
1 AAAAAATGAAAAAA-AG
*
30327907 AAAAAATGAAAAAATGG
1 AAAAAATGAAAAAA-AG
*
30327924 AAAAAATG-AAAAATG
1 AAAAAATGAAAAAAAG
30327939 ATGAAAAATGAAAAAAAATGG
1 A--AAAAATG-AAAAAAA--G
30327960 AAAAAATGGAAAAAAAG
1 AAAAAAT-GAAAAAAAG
*
30327977 AAAAAGTGAA
1 AAAAAATGAA
30327987 TGAAAAAGGA
Statistics
Matches: 67, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
15 2 0.03
16 8 0.12
17 36 0.54
19 18 0.27
20 1 0.01
21 2 0.03
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.11
Consensus pattern (16 bp):
AAAAAATGAAAAAAAG
Found at i:30329118 original size:41 final size:40
Alignment explanation
Indices: 30328999--30329416 Score: 599
Period size: 41 Copynumber: 10.2 Consensus size: 40
30328989 GTCTAGGAGT
* *
30328999 ATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTATTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
*
30329039 ATTTACTTTTCAAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTATTTTTC-AAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
30329081 ATTTACTTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTA-TTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
30329122 ATTTATTTTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTATTTTTCAAAGTT-CGTTGCCTCTGTTTAGAGGAGCA
30329163 ATTTATTTTTCAAAGTTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTATTTTTCAAAG-TTCGTTGCCTCTGTTTAGAGGAGCA
* * *
30329204 ATTTACTTTTCCAAAG-TCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTA-TTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
30329246 ATTTACTTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTA-TTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
30329287 ATTTATTTTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTATTTTTCAAAGTT-CGTTGCCTCTGTTTAGAGGAGCA
* *
30329328 ATTTATTTTTCAAAG-TCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTATTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
**
30329369 ATTTATTTTTCAAAGTTCCGTTGCCTCTGTTTAGAAAAGCA
1 ATTTATTTTTCAAAGTT-CGTTGCCTCTGTTTAGAGGAGCA
30329410 ATTTATT
1 ATTTATT
30329417 GTTTAGAGGA
Statistics
Matches: 348, Mismatches: 14, Indels: 31
0.89 0.04 0.08
Matches are distributed among these distances:
39 3 0.01
40 44 0.13
41 211 0.61
42 74 0.21
43 16 0.05
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (40 bp):
ATTTATTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
Found at i:30329286 original size:165 final size:164
Alignment explanation
Indices: 30328999--30329384 Score: 659
Period size: 165 Copynumber: 2.3 Consensus size: 164
30328989 GTCTAGGAGT
* * * *
30328999 ATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTGC
1 ATTTATTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTAC
*
30329064 CTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATT
66 CTCTGTTGAGAGGAGCAATTTACTTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATT
30329129 TTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCA
131 TTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCA
30329163 ATTTATTTTTCAAAGTTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTA
1 ATTTATTTTTCAAAG-TTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTA
30329228 CCTCTGTTGAGAGGAGCAATTTACTTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTAT
65 CCTCTGTTGAGAGGAGCAATTTACTTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTAT
30329293 TTTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCA
130 TTTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCA
* * *
30329328 ATTTATTTTTCAAAG-TCGTGGTACCTCTGTTGAGAGGAGCAATTTA-TTTTTCAAAGT
1 ATTTATTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGT
30329385 TCCGTTGCCT
Statistics
Matches: 211, Mismatches: 8, Indels: 6
0.94 0.04 0.03
Matches are distributed among these distances:
163 4 0.02
164 23 0.11
165 184 0.87
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (164 bp):
ATTTATTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTAC
CTCTGTTGAGAGGAGCAATTTACTTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATT
TTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCA
Found at i:30329421 original size:20 final size:20
Alignment explanation
Indices: 30329396--30329434 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
30329386 CCGTTGCCTC
30329396 TGTTTAGAAAAGCAATTTAT
1 TGTTTAGAAAAGCAATTTAT
**
30329416 TGTTTAGAGGAGCAATTTA
1 TGTTTAGAAAAGCAATTTA
30329435 CTTTTCAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (20 bp):
TGTTTAGAAAAGCAATTTAT
Found at i:30329457 original size:61 final size:61
Alignment explanation
Indices: 30329355--30329475 Score: 165
Period size: 61 Copynumber: 2.0 Consensus size: 61
30329345 GTGGTACCTC
* *
30329355 TGTTGAGAGGAGCAATTTATTTTTCAAAGTTCCGTTGCCTCTGTTTAGAAAAGCAATTTAT
1 TGTTGAGAGGAGCAATTTACTTTTCAAAGTTCCGTTACCTCTGTTTAGAAAAGCAATTTAT
* **
30329416 TGTTTAGAGGAGCAATTTACTTTTCAAAG-T-CGTGGTACCTCTGTTTAGAGGAGCAATTTA
1 TGTTGAGAGGAGCAATTTACTTTTCAAAGTTCCGT--TACCTCTGTTTAGAAAAGCAATTTA
30329476 CTTTTCAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
59 3 0.06
60 1 0.02
61 49 0.92
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.38
Consensus pattern (61 bp):
TGTTGAGAGGAGCAATTTACTTTTCAAAGTTCCGTTACCTCTGTTTAGAAAAGCAATTTAT
Found at i:30329500 original size:42 final size:42
Alignment explanation
Indices: 30329416--30329717 Score: 445
Period size: 42 Copynumber: 7.3 Consensus size: 42
30329406 AGCAATTTAT
*
30329416 TGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGTGGTACCTC
1 TGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTC
* *
30329457 TGTTTAGAGGAGCAATTTACTTTTCAAAAGTCATGGTGCCTC
1 TGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTC
* *
30329499 TGTTGAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTC
1 TGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTC
30329541 TGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTC
1 TGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTC
*
30329582 TGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTC
1 TGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTC
*
30329624 TGTTGAGAGGAGCAATTTAC-TTTCCAAAGTCCGT--TGCCTC
1 TGTTTAGAGGAGCAATTTACTTTTCCAAAGT-CGTGGTGCCTC
* * * **
30329664 TGTTTAGAGGAGCAATTTAC-TTTCAAAAGTCGTTGAGTATC
1 TGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTC
30329705 TGTTTAGAGGAGC
1 TGTTTAGAGGAGC
30329718 TTCGGCCAAA
Statistics
Matches: 241, Mismatches: 15, Indels: 10
0.91 0.06 0.04
Matches are distributed among these distances:
39 3 0.01
40 34 0.14
41 90 0.37
42 114 0.47
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (42 bp):
TGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTC
Found at i:30329577 original size:83 final size:83
Alignment explanation
Indices: 30329416--30329717 Score: 450
Period size: 83 Copynumber: 3.7 Consensus size: 83
30329406 AGCAATTTAT
* *
30329416 TGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTT
1 TGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
*
30329480 TCAAAAGTCATGGTGCCTC
66 TC-AAAGTCGTGGTGCCTC
*
30329499 TGTTGAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
1 TGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
30329564 TCAAAGTCGTGGTGCCTC
66 TCAAAGTCGTGGTGCCTC
*
30329582 TGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTT
1 TGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
*
30329647 CCAAAGTCCGT--TGCCTC
66 TCAAAGT-CGTGGTGCCTC
* * * * **
30329664 TGTTTAGAGGAGCAATTTAC-TTTCAAAAGTCGTTGAGTATCTGTTTAGAGGAGC
1 TGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
30329718 TTCGGCCAAA
Statistics
Matches: 203, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
81 28 0.14
82 25 0.12
83 106 0.52
84 44 0.22
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (83 bp):
TGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
TCAAAGTCGTGGTGCCTC
Found at i:30329638 original size:125 final size:123
Alignment explanation
Indices: 30329416--30329717 Score: 468
Period size: 125 Copynumber: 2.4 Consensus size: 123
30329406 AGCAATTTAT
*
30329416 TGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTT
1 TGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTT
*
30329481 CAAAAGTCATGGTGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAGT-CGTGGTGCCTC
66 CAAAAGTCATGGTGCCTCTGTTGAGAGGAGCAATTTA-CTTTCCAAAGTCCGT--TGCCTC
*
30329541 TGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTT
1 TGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTT
* *
30329606 CCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCCGTTGCCTC
66 CAAAAGTCATGGTGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCCGTTGCCTC
*
30329664 TGTTTAGAGGAGCAATTTAC-TTTCAAAAGTCGTTGAGTA--TCTGTTTAGAGGAGC
1 TGTTTAGAGGAGCAATTTACTTTTC-AAAGTCG-TG-GTACCTCTGTTGAGAGGAGC
30329718 TTCGGCCAAA
Statistics
Matches: 166, Mismatches: 7, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
122 4 0.02
123 47 0.28
124 12 0.07
125 103 0.62
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (123 bp):
TGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTT
CAAAAGTCATGGTGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCCGTTGCCTC
Found at i:30329740 original size:8 final size:8
Alignment explanation
Indices: 30329727--30329825 Score: 98
Period size: 8 Copynumber: 12.6 Consensus size: 8
30329717 CTTCGGCCAA
30329727 AAAAAAAC
1 AAAAAAAC
30329735 AAAAAAAC
1 AAAAAAAC
30329743 --AAAAAC
1 AAAAAAAC
30329749 AAAAAAAC
1 AAAAAAAC
*
30329757 AAAAACAC
1 AAAAAAAC
*
30329765 AAAAAATC
1 AAAAAAAC
30329773 AAAAAAATC
1 AAAAAAA-C
**
30329782 AAAAAATT
1 AAAAAAAC
30329790 AAAAAAA-
1 AAAAAAAC
*
30329797 ATAAAAAC
1 AAAAAAAC
30329805 AAAAATAA-
1 AAAAA-AAC
*
30329813 AAAAAATC
1 AAAAAAAC
30329821 AAAAA
1 AAAAA
30329826 TAAAAATGTT
Statistics
Matches: 75, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
6 6 0.08
7 7 0.09
8 53 0.71
9 9 0.12
ACGTcount: A:0.83, C:0.10, G:0.00, T:0.07
Consensus pattern (8 bp):
AAAAAAAC
Found at i:30329740 original size:9 final size:9
Alignment explanation
Indices: 30329726--30329825 Score: 71
Period size: 10 Copynumber: 10.6 Consensus size: 9
30329716 GCTTCGGCCA
30329726 AAAAAAAAC
1 AAAAAAAAC
30329735 -AAAAAAAC
1 AAAAAAAAC
*
30329743 AAAAACAAAA
1 AAAAA-AAAC
30329753 AAACAAAAAC
1 AAA-AAAAAC
*
30329763 ACAAAAAATC
1 A-AAAAAAAC
*
30329773 AAAAAAATC
1 AAAAAAAAC
30329782 AAAAAATTAA-
1 AAAAAA--AAC
30329792 AAAAAATAA-
1 AAAAAA-AAC
*
30329801 AAACAAAAAT
1 AAA-AAAAAC
30329811 AAAAAAAATC
1 AAAAAAAA-C
30329821 AAAAA
1 AAAAA
30329826 TAAAAATGTT
Statistics
Matches: 77, Mismatches: 5, Indels: 17
0.78 0.05 0.17
Matches are distributed among these distances:
8 8 0.10
9 31 0.40
10 33 0.43
11 5 0.06
ACGTcount: A:0.83, C:0.10, G:0.00, T:0.07
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:30329795 original size:48 final size:47
Alignment explanation
Indices: 30329726--30329825 Score: 132
Period size: 48 Copynumber: 2.1 Consensus size: 47
30329716 GCTTCGGCCA
*
30329726 AAAAAAAACAAAAAAACAAAAACAA-AAAAACAAAAACACAAAAAATC
1 AAAAAAAACAAAAAAACAAAAA-AATAAAAACAAAAACAAAAAAAATC
* *
30329773 AAAAAAATCAAAAAATTA-AAAAAAATAAAAACAAAAATAAAAAAAATC
1 AAAAAAAACAAAAAA--ACAAAAAAATAAAAACAAAAACAAAAAAAATC
30329821 AAAAA
1 AAAAA
30329826 TAAAAATGTT
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
47 16 0.34
48 30 0.64
49 1 0.02
ACGTcount: A:0.83, C:0.10, G:0.00, T:0.07
Consensus pattern (47 bp):
AAAAAAAACAAAAAAACAAAAAAATAAAAACAAAAACAAAAAAAATC
Found at i:30329831 original size:1 final size:1
Alignment explanation
Indices: 30329725--30329818 Score: 53
Period size: 1 Copynumber: 94.0 Consensus size: 1
30329715 AGCTTCGGCC
* * * * * * ** ** **
30329725 AAAAAAAAACAAAAAAACAAAAACAAAAAAACAAAAACACAAAAAATCAAAAAAATCAAAAAATT
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
30329790 AAAAAAAATAAAAACAAAAATAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
30329819 TCAAAAATAA
Statistics
Matches: 67, Mismatches: 26, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 67 1.00
ACGTcount: A:0.84, C:0.10, G:0.00, T:0.06
Consensus pattern (1 bp):
A
Found at i:30330028 original size:3 final size:3
Alignment explanation
Indices: 30330020--30330046 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
30330010 TTATGTATTC
30330020 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
30330047 GTATATCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:30330590 original size:26 final size:24
Alignment explanation
Indices: 30330548--30330601 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
30330538 CTGGGAGTGA
*
30330548 GAAAAATTTTTTAGAAATTTTTGG
1 GAAAAATTTTTTAGAAATTTCTGG
* *
30330572 CGAAAATTTTTTCTGGAAATTTCTGG
1 -GAAAAATTTTT-TAGAAATTTCTGG
30330598 GAAA
1 GAAA
30330602 TTTCAGATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.41
Consensus pattern (24 bp):
GAAAAATTTTTTAGAAATTTCTGG
Found at i:30330668 original size:31 final size:31
Alignment explanation
Indices: 30330609--30330679 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
30330599 AAATTTCAGA
* * ** *
30330609 TTCCGACGAAAATTCCGGCGAAGTTTGAATT
1 TTCCGGCGAAAATTCCGGCCAACATTGAAGT
30330640 TTCCGGCGAAAATTCCGGCCAACATTGAAGT
1 TTCCGGCGAAAATTCCGGCCAACATTGAAGT
30330671 TTCCGGCGA
1 TTCCGGCGA
30330680 CCTGCCCAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (31 bp):
TTCCGGCGAAAATTCCGGCCAACATTGAAGT
Found at i:30331299 original size:59 final size:59
Alignment explanation
Indices: 30331242--30331702 Score: 566
Period size: 59 Copynumber: 7.7 Consensus size: 59
30331232 AAAAAAATTC
30331242 CAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTT
1 CAAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
* * * * *
30331301 C-TAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTCAGAAATAAATTTA
1 CAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
* * *
30331359 AAAAAAAAACATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-ATT
1 CAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
* * *
30331417 C-CAAAAACTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
1 CAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
*** *
30331475 CAAAAAAAGGGTTTTT-GAGAAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTTT
1 CAAAAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTT
*
30331536 CAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
1 C-AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
30331596 CAAAAAAAA-AGGGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAAT
1 CAAAAAAAATA-----TTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAAT
30331658 TTT
57 TTT
30331661 C--AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
1 CAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
30331703 CTACAAAAAA
Statistics
Matches: 352, Mismatches: 28, Indels: 44
0.83 0.07 0.10
Matches are distributed among these distances:
57 93 0.26
58 14 0.04
59 129 0.37
60 9 0.03
61 8 0.02
62 45 0.13
63 45 0.13
64 1 0.00
65 8 0.02
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.34
Consensus pattern (59 bp):
CAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
Found at i:30331363 original size:116 final size:117
Alignment explanation
Indices: 30331243--30331702 Score: 601
Period size: 116 Copynumber: 3.9 Consensus size: 117
30331233 AAAAAATTCC
* *
30331243 AAAAAAATATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAAT-AAATTTCTAA
1 AAAAAAAAAGATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATCAAATTTCTAA
* * *
30331305 AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTCAGAAATAAATTTA
64 AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
* * *
30331359 AAAAAAAAACATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAAT-AAAATTCCAA
1 AAAAAAAAAGATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATCAAATTTCTAA
*
30331421 AAACTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
64 AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
* * * * *
30331475 CAAAAAAAGGGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTTTCAAA
1 AAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC-AAA-TTTC--T
30331540 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
62 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
*
30331596 CAAAAAAAAAGGGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTT-
1 -AAAAAAAAA---GATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC-AAATTTC
*
30331660 TCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
61 T-AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
30331703 CTACAAAAAA
Statistics
Matches: 311, Mismatches: 21, Indels: 18
0.89 0.06 0.05
Matches are distributed among these distances:
116 151 0.49
117 2 0.01
118 3 0.01
119 3 0.01
121 55 0.18
122 47 0.15
124 3 0.01
125 47 0.15
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.34
Consensus pattern (117 bp):
AAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTTCTAAAA
AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
Found at i:30337501 original size:38 final size:40
Alignment explanation
Indices: 30337445--30337523 Score: 117
Period size: 38 Copynumber: 2.0 Consensus size: 40
30337435 ATTACGATAT
30337445 ATTATTTTTATGTTATTGTATTTATTACTTCAGACCCAAC
1 ATTATTTTTATGTTATTGTATTTATTACTTCAGACCCAAC
* * *
30337485 ATTA-TTTT-TGTTATTGTGTTTGTTACTTCAGACTCAAC
1 ATTATTTTTATGTTATTGTATTTATTACTTCAGACCCAAC
30337523 A
1 A
30337524 AGTGGTATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 28 0.78
39 4 0.11
40 4 0.11
ACGTcount: A:0.25, C:0.14, G:0.10, T:0.51
Consensus pattern (40 bp):
ATTATTTTTATGTTATTGTATTTATTACTTCAGACCCAAC
Found at i:30340050 original size:13 final size:13
Alignment explanation
Indices: 30340008--30340051 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
30339998 TTAACATGTC
30340008 TTATTATTTACTT
1 TTATTATTTACTT
*
30340021 TTACTATATTTAGTT
1 TTA-T-TATTTACTT
*
30340036 TTATCATTTACTT
1 TTATTATTTACTT
30340049 TTA
1 TTA
30340052 ATAAACAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 13 0.50
14 2 0.08
15 11 0.42
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (13 bp):
TTATTATTTACTT
Found at i:30340996 original size:167 final size:167
Alignment explanation
Indices: 30340716--30341046 Score: 513
Period size: 167 Copynumber: 2.0 Consensus size: 167
30340706 GCTGATCTGA
* *
30340716 GATGTCGGATGAGTGGATGCTCGGATTCTAGAGTCGCGCAAGTTCGAAGCTTAAGTTTCGACCCG
1 GATGTCGGATGAGTGGATACTCGGATTCTAGAGTCACGCAAGTTCGAAGCTTAAGTTTCGACCCG
*
30340781 TGACAAGTGGTATCAAAGCTAGCCCTAAACCGTTTGATCCACGCCAAGCACCTCGAGGGAA-GTA
66 TGACAAGTGGTATCAAAGCTAGCCCTAAACCGTTCGATCCACGCCAAGCACCTCGA-GGAAGGTA
* *
30340845 GGCAGGGTGACCATC-TTCTGTGATAAGAGCGTCACAAG
130 AGCAGGGTGACCAGCTTTC-GTGATAAGAGCGTCACAAG
* * * *
30340883 GATGTCGGATGAGTGGATACTCGGGTTCTAGAGTCACGCAGGTTTGAAGCTTAAGTTTCGACTCG
1 GATGTCGGATGAGTGGATACTCGGATTCTAGAGTCACGCAAGTTCGAAGCTTAAGTTTCGACCCG
* *
30340948 TGACAAGTGGTATCAAAGCTAGCCCTAAACCGTTCGATCCATGCCAAGCGCCTCGAGGAAGGTAA
66 TGACAAGTGGTATCAAAGCTAGCCCTAAACCGTTCGATCCACGCCAAGCACCTCGAGGAAGGTAA
**
30341013 GCAGGGTGGTCAGCTTTCGTGATAAGAGCGTCAC
131 GCAGGGTGACCAGCTTTCGTGATAAGAGCGTCAC
30341047 GAGTTTGAGT
Statistics
Matches: 149, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
166 4 0.03
167 142 0.95
168 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (167 bp):
GATGTCGGATGAGTGGATACTCGGATTCTAGAGTCACGCAAGTTCGAAGCTTAAGTTTCGACCCG
TGACAAGTGGTATCAAAGCTAGCCCTAAACCGTTCGATCCACGCCAAGCACCTCGAGGAAGGTAA
GCAGGGTGACCAGCTTTCGTGATAAGAGCGTCACAAG
Found at i:30347114 original size:23 final size:24
Alignment explanation
Indices: 30347076--30347124 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
30347066 AAATTTTTTA
30347076 TTAAATAATATAAATT-AT-TATT
1 TTAAATAATATAAATTAATATATT
30347098 TTAAATTAAT-TAGAATTAATATATT
1 TTAAA-TAATATA-AATTAATATATT
30347123 TT
1 TT
30347125 TATTGAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
22 7 0.30
23 8 0.35
24 2 0.09
25 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
TTAAATAATATAAATTAATATATT
Found at i:30347210 original size:20 final size:20
Alignment explanation
Indices: 30347187--30347224 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
30347177 ATAAGATAAA
30347187 AATAAAAAAGATAAAAAAAT
1 AATAAAAAAGATAAAAAAAT
* *
30347207 AATATATAAGATAAAAAA
1 AATAAAAAAGATAAAAAA
30347225 TAAATCTTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (20 bp):
AATAAAAAAGATAAAAAAAT
Found at i:30356460 original size:9 final size:9
Alignment explanation
Indices: 30356440--30356477 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
30356430 TCTTCGTTTG
*
30356440 AATAATTAA
1 AATAAATAA
*
30356449 AATTAATAA
1 AATAAATAA
30356458 AATAAAT-A
1 AATAAATAA
30356466 AATAAATAA
1 AATAAATAA
30356475 AAT
1 AAT
30356478 TTTAACAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (9 bp):
AATAAATAA
Found at i:30359009 original size:52 final size:51
Alignment explanation
Indices: 30358921--30359076 Score: 195
Period size: 52 Copynumber: 3.0 Consensus size: 51
30358911 TGGACAAGAA
* * *
30358921 GACTTCCAAAAGAAGAATTCTAAGAGAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGAAAGA-GATTCTTAATAGGCAAGTTT
** * *
30358973 GACTTGTAAGAGAAGAATTGTAAAAGGAAAGAGATTCTTAATAGGCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGA-GAAAGAGATTCTTAATAGGCAAGTTT
* * *
30359025 GACTTACAGGAGAAGAATTCTAAGAGAAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGAA-AGAGATTCTTAATAGGCAAGTTT
30359077 ATATGGTTAT
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
51 3 0.03
52 80 0.90
53 6 0.07
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.26
Consensus pattern (51 bp):
GACTTACAAGAGAAGAATTCTAAGAGAAAGAGATTCTTAATAGGCAAGTTT
Found at i:30359729 original size:26 final size:26
Alignment explanation
Indices: 30359700--30359833 Score: 76
Period size: 26 Copynumber: 5.0 Consensus size: 26
30359690 AAAGCTTGAG
* *
30359700 AAGAGTTGAAGATTCAATATGTGAAA
1 AAGAGTCGAAGATTCAAGATGTGAAA
* *
30359726 AAGAGTCGAAGGTTCGAGATGTGAAA
1 AAGAGTCGAAGATTCAAGATGTGAAA
** * * *
30359752 GAACTGAAAC-AAGTGGTATCAAAGCT-TGAGA
1 -AA--GAGTCGAA--GAT-TC-AAGATGTGAAA
*
30359783 -AGAGTTGAAGATTCAAGATGTGAAA
1 AAGAGTCGAAGATTCAAGATGTGAAA
* *
30359808 AAGAGTCGAAGGTTCGAGATGTGAAA
1 AAGAGTCGAAGATTCAAGATGTGAAA
30359834 GAACTGAAAG
Statistics
Matches: 80, Mismatches: 18, Indels: 20
0.68 0.15 0.17
Matches are distributed among these distances:
24 4 0.05
25 6 0.08
26 46 0.57
27 4 0.05
28 4 0.05
29 4 0.05
30 3 0.04
31 6 0.08
32 3 0.04
ACGTcount: A:0.42, C:0.07, G:0.29, T:0.22
Consensus pattern (26 bp):
AAGAGTCGAAGATTCAAGATGTGAAA
Found at i:30359867 original size:24 final size:24
Alignment explanation
Indices: 30359778--30359867 Score: 74
Period size: 24 Copynumber: 3.6 Consensus size: 24
30359768 TATCAAAGCT
* * *
30359778 TGAGAAGAGTTGAAGATTCAAGATG
1 TGAGAAGAGCTAAAG-TTCGAGATG
* * *
30359803 TGAAAAAGAGTCGAAGGTTCGAGATG
1 TG-AGAAGAG-CTAAAGTTCGAGATG
*
30359829 TGA-AAGAACTGAAAGTTCGAGATG
1 TGAGAAGAGCT-AAAGTTCGAGATG
30359853 TGAGAAGAGCTAAAG
1 TGAGAAGAGCTAAAG
30359868 GTTTAAGATG
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
23 1 0.02
24 23 0.45
25 9 0.18
26 16 0.31
27 2 0.04
ACGTcount: A:0.41, C:0.07, G:0.32, T:0.20
Consensus pattern (24 bp):
TGAGAAGAGCTAAAGTTCGAGATG
Found at i:30359876 original size:82 final size:82
Alignment explanation
Indices: 30359595--30359842 Score: 478
Period size: 82 Copynumber: 3.0 Consensus size: 82
30359585 GATGTTCCCC
*
30359595 AACAAGTGGTATCAAAGCTTGAGAAGAGTTGAAGATTCAAGATGTGAAAAAAAGTCGAAGGTTCG
1 AACAAGTGGTATCAAAGCTTGAGAAGAGTTGAAGATTCAAGATGTGAAAAAGAGTCGAAGGTTCG
30359660 AGATGTGAAAGAACTGA
66 AGATGTGAAAGAACTGA
*
30359677 AACAAGTGGTATCAAAGCTTGAGAAGAGTTGAAGATTCAATATGTGAAAAAGAGTCGAAGGTTCG
1 AACAAGTGGTATCAAAGCTTGAGAAGAGTTGAAGATTCAAGATGTGAAAAAGAGTCGAAGGTTCG
30359742 AGATGTGAAAGAACTGA
66 AGATGTGAAAGAACTGA
30359759 AACAAGTGGTATCAAAGCTTGAGAAGAGTTGAAGATTCAAGATGTGAAAAAGAGTCGAAGGTTCG
1 AACAAGTGGTATCAAAGCTTGAGAAGAGTTGAAGATTCAAGATGTGAAAAAGAGTCGAAGGTTCG
30359824 AGATGTGAAAGAACTGA
66 AGATGTGAAAGAACTGA
30359841 AA
1 AA
30359843 GTTCGAGATG
Statistics
Matches: 163, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 163 1.00
ACGTcount: A:0.42, C:0.08, G:0.28, T:0.21
Consensus pattern (82 bp):
AACAAGTGGTATCAAAGCTTGAGAAGAGTTGAAGATTCAAGATGTGAAAAAGAGTCGAAGGTTCG
AGATGTGAAAGAACTGA
Found at i:30360144 original size:11 final size:11
Alignment explanation
Indices: 30360126--30360167 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
30360116 AATCTCATAA
30360126 GAGATTTGTTT
1 GAGATTTGTTT
* *
30360137 GGGATTTGTTA
1 GAGATTTGTTT
30360148 GAGATTTGTTT
1 GAGATTTGTTT
30360159 GAGATTTGT
1 GAGATTTGT
30360168 CAGATATTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:30360150 original size:22 final size:22
Alignment explanation
Indices: 30360125--30360167 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
30360115 AAATCTCATA
*
30360125 AGAGATTTGTTTGGGATTTGTT
1 AGAGATTTGTTTGAGATTTGTT
30360147 AGAGATTTGTTTGAGATTTGT
1 AGAGATTTGTTTGAGATTTGT
30360168 CAGATATTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (22 bp):
AGAGATTTGTTTGAGATTTGTT
Found at i:30360282 original size:52 final size:52
Alignment explanation
Indices: 30360193--30360348 Score: 197
Period size: 52 Copynumber: 3.0 Consensus size: 52
30360183 GGACAAGAAA
* * *
30360193 ACTTACAAAAGAAAAATTCT-AAGAGAAAGAGGATTCTTAATAGGTAAGTTTG
1 ACTTACAAGAGAAGAATTCTAAAAAGAAA-AGGATTCTTAATAGGTAAGTTTG
* *
30360245 ACTTGCAAGAGAAGAATTCTAAAAAGAAAAAGATTCTTAATAGGTAAGTTTG
1 ACTTACAAGAGAAGAATTCTAAAAAGAAAAGGATTCTTAATAGGTAAGTTTG
* * * * * *
30360297 ACTTACAGGAGAAGAATTCTAAGAGGAGAAGGATTCTTAATGGGCAAGTTTG
1 ACTTACAAGAGAAGAATTCTAAAAAGAAAAGGATTCTTAATAGGTAAGTTTG
30360349 TATGGTTATA
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
52 83 0.92
53 7 0.08
ACGTcount: A:0.43, C:0.08, G:0.22, T:0.26
Consensus pattern (52 bp):
ACTTACAAGAGAAGAATTCTAAAAAGAAAAGGATTCTTAATAGGTAAGTTTG
Found at i:30362730 original size:13 final size:13
Alignment explanation
Indices: 30362712--30362736 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30362702 TGATTATATT
30362712 ATCTTAAAGTAAA
1 ATCTTAAAGTAAA
30362725 ATCTTAAAGTAA
1 ATCTTAAAGTAA
30362737 TAGAAAACTT
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:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (13 bp):
ATCTTAAAGTAAA
Found at i:30370016 original size:29 final size:26
Alignment explanation
Indices: 30369973--30370025 Score: 79
Period size: 29 Copynumber: 1.9 Consensus size: 26
30369963 TCTAAAAACA
30369973 AAATTCTCTTTCAACCTTTAGAAATCC
1 AAATTCTCTTTCAACCTTTA-AAATCC
30370000 AAATTCTCACTTTCAACCTTTAAAAT
1 AAATTCT--CTTTCAACCTTTAAAAT
30370026 TCATTTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 7 0.29
28 4 0.17
29 13 0.54
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.38
Consensus pattern (26 bp):
AAATTCTCTTTCAACCTTTAAAATCC
Found at i:30371099 original size:40 final size:40
Alignment explanation
Indices: 30371048--30371123 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
30371038 TTCAGGTTTC
* *
30371048 TTATAAATTTCATTCATTTCTTCCTCTTTCTTTCGGTTCT
1 TTATAAATTTCATTCATTTCTTCCTCGTTATTTCGGTTCT
*
30371088 TTATAAATTTCATTCATTTTTTCCTCGTTATTTCGG
1 TTATAAATTTCATTCATTTCTTCCTCGTTATTTCGG
30371124 ATTTCATATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.17, C:0.20, G:0.07, T:0.57
Consensus pattern (40 bp):
TTATAAATTTCATTCATTTCTTCCTCGTTATTTCGGTTCT
Found at i:30379523 original size:15 final size:14
Alignment explanation
Indices: 30379487--30379526 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
30379477 TTGGTTCAGT
30379487 TTAATTTTTAAAAA
1 TTAATTTTTAAAAA
* *
30379501 TTATTTTTTTAAAA
1 TTAATTTTTAAAAA
*
30379515 TTAAATTTTAAA
1 TTAATTTTTAAA
30379527 TTAAATTAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTAATTTTTAAAAA
Found at i:30380743 original size:21 final size:20
Alignment explanation
Indices: 30380702--30380743 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
30380692 GATTTTTTAG
*
30380702 TTTTATTTTTTAAAAATAAA
1 TTTTATTTTTTAAAAAAAAA
30380722 TTTTATTTTTTAAATAAAAAA
1 TTTTATTTTTTAAA-AAAAAA
30380743 T
1 T
30380744 CATATAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTATTTTTTAAAAAAAAA
Found at i:30382397 original size:24 final size:23
Alignment explanation
Indices: 30382365--30382410 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
30382355 AATATTAATT
*
30382365 TAATAAAAATATTATATTTATATA
1 TAATAAAAATATGAT-TTTATATA
*
30382389 TAATTAAAATATGATTTTATAT
1 TAATAAAAATATGATTTTATAT
30382411 TTCAAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TAATAAAAATATGATTTTATATA
Found at i:30382409 original size:19 final size:19
Alignment explanation
Indices: 30382387--30382430 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
30382377 TATATTTATA
30382387 TATAATTAAAAT-ATGATTT
1 TATAATTAAAATAAT-ATTT
* *
30382406 TATATTTCAAATAATATTT
1 TATAATTAAAATAATATTT
30382425 TATAAT
1 TATAAT
30382431 ATTATATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (19 bp):
TATAATTAAAATAATATTT
Found at i:30382461 original size:11 final size:11
Alignment explanation
Indices: 30382437--30382480 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
30382427 TAATATTATA
30382437 TTAAATTAAATT
1 TTAAATT-AATT
30382449 TTAAATTAATT
1 TTAAATTAATT
*
30382460 TTAAA-TAATA
1 TTAAATTAATT
*
30382470 TAAAATTAATT
1 TTAAATTAATT
30382481 ATAATTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 8 0.29
11 13 0.46
12 7 0.25
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TTAAATTAATT
Found at i:30387476 original size:14 final size:14
Alignment explanation
Indices: 30387457--30387483 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30387447 GCTTTCATTA
30387457 CTCTCTTTCTCTTT
1 CTCTCTTTCTCTTT
30387471 CTCTCTTTCTCTT
1 CTCTCTTTCTCTT
30387484 CAGACAAACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (14 bp):
CTCTCTTTCTCTTT
Found at i:30389471 original size:15 final size:14
Alignment explanation
Indices: 30389436--30389479 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
30389426 TTGATTGAAC
30389436 AAGGAAAAAGAAAG
1 AAGGAAAAAGAAAG
*
30389450 AAAGAAAAAGAAAG
1 AAGGAAAAAGAAAG
* *
30389464 AGGGGAAAACGAAAG
1 A-AGGAAAAAGAAAG
30389479 A
1 A
30389480 TTCGAGATCG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.68, C:0.02, G:0.30, T:0.00
Consensus pattern (14 bp):
AAGGAAAAAGAAAG
Found at i:30406687 original size:12 final size:13
Alignment explanation
Indices: 30406661--30406691 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
30406651 TAAAATACTA
30406661 TAGCAGTCAACTG
1 TAGCAGTCAACTG
30406674 TAGCAGTC-ACTG
1 TAGCAGTCAACTG
30406686 TAGCAG
1 TAGCAG
30406692 ACAGATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.23
Consensus pattern (13 bp):
TAGCAGTCAACTG
Found at i:30411762 original size:11 final size:11
Alignment explanation
Indices: 30411746--30411817 Score: 62
Period size: 11 Copynumber: 6.8 Consensus size: 11
30411736 CATGTCAATG
30411746 ATATTTTAATA
1 ATATTTTAATA
*
30411757 ATATTTTGATA
1 ATATTTTAATA
30411768 ATA--TT-ATA
1 ATATTTTAATA
*
30411776 A-ATTAATAATA
1 ATATT-TTAATA
* *
30411787 TTAATTTAATA
1 ATATTTTAATA
*
30411798 ATATTTCAATA
1 ATATTTTAATA
30411809 ATATTTTAA
1 ATATTTTAA
30411818 ATTGATTTGA
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
7 1 0.02
8 4 0.09
9 2 0.04
10 1 0.02
11 37 0.79
12 2 0.04
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (11 bp):
ATATTTTAATA
Found at i:30416784 original size:41 final size:43
Alignment explanation
Indices: 30416739--30416820 Score: 116
Period size: 41 Copynumber: 1.9 Consensus size: 43
30416729 TAATGTTTTG
30416739 ATAATATTTTAGATTGA-TGATATT-ATTCTA-AAAATATTTCA
1 ATAATATTTTAGATTGATTGATATTAATT-TAGAAAATATTTCA
*
30416780 ATAATATTTTATATTGATTTGATATTAATTTAGAAAATATT
1 ATAATATTTTAGATTGA-TTGATATTAATTTAGAAAATATT
30416821 AAATATTGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
41 16 0.44
43 9 0.25
44 11 0.31
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (43 bp):
ATAATATTTTAGATTGATTGATATTAATTTAGAAAATATTTCA
Found at i:30419777 original size:13 final size:14
Alignment explanation
Indices: 30419761--30419794 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
30419751 AAAATTAAAA
30419761 AAAAAAAAAC-AAT
1 AAAAAAAAACTAAT
*
30419774 AAAAAAAACCTAAT
1 AAAAAAAAACTAAT
30419788 AAAAAAA
1 AAAAAAA
30419795 GCAGATAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.82, C:0.09, G:0.00, T:0.09
Consensus pattern (14 bp):
AAAAAAAAACTAAT
Found at i:30428540 original size:2 final size:2
Alignment explanation
Indices: 30428533--30428575 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
30428523 ATAACTGCTC
* *
30428533 AT AT AT AT AT AT AT AA AT AT AT AT AT AT AT AA AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30428575 A
1 A
30428576 ACGTGTGTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:30428554 original size:16 final size:16
Alignment explanation
Indices: 30428533--30428575 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
30428523 ATAACTGCTC
30428533 ATATATATATATATAA
1 ATATATATATATATAA
30428549 ATATATATATATATAA
1 ATATATATATATATAA
30428565 ATATATATATA
1 ATATATATATA
30428576 ACGTGTGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATATATATATATAA
Found at i:30435711 original size:2 final size:2
Alignment explanation
Indices: 30435704--30435733 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
30435694 TTATCACCAA
30435704 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
30435734 GGAAAATGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30439589 original size:10 final size:11
Alignment explanation
Indices: 30439572--30439600 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
30439562 TATGTTTATT
30439572 ATAATTTTTTA
1 ATAATTTTTTA
30439583 A-AATTTTTTA
1 ATAATTTTTTA
30439593 ATAATTTT
1 ATAATTTT
30439601 CGCAATTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
ATAATTTTTTA
Found at i:30447652 original size:69 final size:70
Alignment explanation
Indices: 30447569--30447707 Score: 199
Period size: 69 Copynumber: 2.0 Consensus size: 70
30447559 ATATGCTAAA
* *
30447569 GTCTGACAAGAAAAGACTATTAGGAAACGAATATTTTTGGCCTAGTATGTTGGATGATAA-TTTT
1 GTCTGACAAGAAAAGACTATTAGGAAACGAATATTATTAGCCTAGTATGTTGGATGATAATTTTT
30447633 TGAAC
66 TGAAC
* * * * * *
30447638 GTCTGATAAGAAAAGATTCTTTGGAAACGATTATTATTAGCTTAGTATGTTGGATGATAATTTTT
1 GTCTGACAAGAAAAGACTATTAGGAAACGAATATTATTAGCCTAGTATGTTGGATGATAATTTTT
30447703 TGAAC
66 TGAAC
30447708 AACAGTAATT
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
69 52 0.85
70 9 0.15
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.37
Consensus pattern (70 bp):
GTCTGACAAGAAAAGACTATTAGGAAACGAATATTATTAGCCTAGTATGTTGGATGATAATTTTT
TGAAC
Found at i:30469597 original size:20 final size:21
Alignment explanation
Indices: 30469555--30469612 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 21
30469545 AATAAAATAT
*
30469555 TTTTTATATATAAAATATTAA
1 TTTTTATATATAAAATATAAA
30469576 TTTTTA-ATAT-AAATATAAA
1 TTTTTATATATAAAATATAAA
* **
30469595 ATTAAATATATATAAATA
1 TTTTTATATATA-AAATA
30469613 ATTAATTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
19 11 0.37
20 8 0.27
21 6 0.20
22 5 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTTTATATATAAAATATAAA
Found at i:30486492 original size:23 final size:23
Alignment explanation
Indices: 30486466--30486517 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
30486456 AGCATAAAAA
* *
30486466 TATAGAGATATTAAATTTTAAAT
1 TATAAAGATATTAAATATTAAAT
**
30486489 TATAAATTTATTAAATATTAAAT
1 TATAAAGATATTAAATATTAAAT
*
30486512 TTTAAA
1 TATAAA
30486518 AAATAATTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (23 bp):
TATAAAGATATTAAATATTAAAT
Found at i:30486504 original size:16 final size:16
Alignment explanation
Indices: 30486473--30486513 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
30486463 AAATATAGAG
30486473 ATATTAAA-TT-TTAA
1 ATATTAAATTTATTAA
30486487 AT-TATAAATTTATTAA
1 ATAT-TAAATTTATTAA
30486503 ATATTAAATTT
1 ATATTAAATTT
30486514 TAAAAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 1 0.04
14 6 0.26
15 2 0.09
16 13 0.57
17 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATTAAATTTATTAA
Found at i:30497085 original size:17 final size:18
Alignment explanation
Indices: 30497045--30497085 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
30497035 TATTATTTTT
* *
30497045 TTAAAATAATTATATGAA
1 TTAAATTAAGTATATGAA
30497063 TT-AATTAAGTATAT-AA
1 TTAAATTAAGTATATGAA
30497079 TTAAATT
1 TTAAATT
30497086 TGATTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 4 0.20
17 14 0.70
18 2 0.10
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (18 bp):
TTAAATTAAGTATATGAA
Found at i:30533680 original size:22 final size:22
Alignment explanation
Indices: 30533652--30533695 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
30533642 CTAAATCTTC
*
30533652 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
*
30533674 CTTAATTCTAGAGATATAAATA
1 CTTAATTCTAGAGATACAAATA
30533696 TAAACATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:30533718 original size:8 final size:8
Alignment explanation
Indices: 30533705--30533729 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
30533695 ATAAACATAC
30533705 AGATTACA
1 AGATTACA
30533713 AGATTACA
1 AGATTACA
30533721 AGATTACA
1 AGATTACA
30533729 A
1 A
30533730 CCAGCTGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (8 bp):
AGATTACA
Found at i:30537584 original size:22 final size:22
Alignment explanation
Indices: 30537556--30537599 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
30537546 CTAAATCTTC
*
30537556 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
30537578 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
30537600 TAAACATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:30538775 original size:33 final size:33
Alignment explanation
Indices: 30538733--30538795 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
30538723 CCCCTAATAG
*
30538733 AGTTGGATGACTTAGAGTTTTGTGTCATTTATC
1 AGTTGGATGACTTAGACTTTTGTGTCATTTATC
*
30538766 AGTTGGATGACTTGGACTTTTGTGTCATTT
1 AGTTGGATGACTTAGACTTTTGTGTCATTT
30538796 GTCGGTGCTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.19, C:0.10, G:0.25, T:0.46
Consensus pattern (33 bp):
AGTTGGATGACTTAGACTTTTGTGTCATTTATC
Found at i:30551802 original size:20 final size:18
Alignment explanation
Indices: 30551779--30551823 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 18
30551769 CTTAATATGA
30551779 AAAATAAATAATTTTTATTG
1 AAAATAAA-AA-TTTTATTG
30551799 AAAACTAAAAATTTTATTG
1 AAAA-TAAAAATTTTATTG
*
30551818 TAAATA
1 AAAATA
30551824 TAAGCAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 2 0.09
19 11 0.48
20 6 0.26
21 4 0.17
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (18 bp):
AAAATAAAAATTTTATTG
Found at i:30551815 original size:19 final size:21
Alignment explanation
Indices: 30551776--30551826 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
30551766 TGTCTTAATA
30551776 TGAAAAATAAATAATTTTTAT
1 TGAAAAATAAATAATTTTTAT
*
30551797 TGAAAACTAAA-AA-TTTTAT
1 TGAAAAATAAATAATTTTTAT
*
30551816 TGTAAATATAA
1 TG-AAAAATAA
30551827 GCAAAACCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 8 0.31
20 8 0.31
21 10 0.38
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (21 bp):
TGAAAAATAAATAATTTTTAT
Found at i:30555761 original size:4 final size:4
Alignment explanation
Indices: 30555745--30555777 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
30555735 TTGCACTGAA
30555745 ACAT ACA- ACAT ACAT ACAT ACAT ACAT ACAT AC
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC
30555778 CAGTTTGGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (4 bp):
ACAT
Found at i:30557337 original size:10 final size:10
Alignment explanation
Indices: 30557311--30557339 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
30557301 TTCCTTTTTC
30557311 AAAAAAA-AA
1 AAAAAAAGAA
30557320 AAAAAAAGAA
1 AAAAAAAGAA
30557330 AAAAAAAGAA
1 AAAAAAAGAA
30557340 GAATAATGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.37
10 12 0.63
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:30557798 original size:2 final size:2
Alignment explanation
Indices: 30557791--30557819 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
30557781 ACAAGCAAAC
30557791 AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30557820 GTGCGCGCGC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30559875 original size:11 final size:11
Alignment explanation
Indices: 30559859--30559883 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30559849 CTTCATGCTA
30559859 CCCGACCCGAC
1 CCCGACCCGAC
30559870 CCCGACCCGAC
1 CCCGACCCGAC
30559881 CCC
1 CCC
30559884 CCGATTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.68, G:0.16, T:0.00
Consensus pattern (11 bp):
CCCGACCCGAC
Found at i:30562742 original size:6 final size:6
Alignment explanation
Indices: 30562731--30562756 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
30562721 GTTGCAATTT
30562731 TTGTAA TTGTAA TTGTAA TTGTAA TT
1 TTGTAA TTGTAA TTGTAA TTGTAA TT
30562757 TTGACCACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (6 bp):
TTGTAA
Found at i:30569427 original size:23 final size:23
Alignment explanation
Indices: 30569401--30569502 Score: 66
Period size: 23 Copynumber: 4.5 Consensus size: 23
30569391 AAATTATAAG
30569401 TTATAATTTATAATAATATAAAA
1 TTATAATTTATAATAATATAAAA
** * * *
30569424 TTATTTTTTAAAAT-TTATTAAA
1 TTATAATTTATAATAATATAAAA
*
30569446 TT-T-ATATATAATAATTATTAAAA
1 TTATAATTTATAATAA-TA-TAAAA
* * * *
30569469 TTTTAAATTATAATATTTTAAAA
1 TTATAATTTATAATAATATAAAA
*
30569492 TTATATTTTAT
1 TTATAATTTAT
30569503 TATATTTTAA
Statistics
Matches: 57, Mismatches: 17, Indels: 10
0.68 0.20 0.12
Matches are distributed among these distances:
20 6 0.11
21 1 0.02
22 10 0.18
23 30 0.53
24 2 0.04
25 8 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TTATAATTTATAATAATATAAAA
Found at i:30569463 original size:22 final size:21
Alignment explanation
Indices: 30569438--30569497 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 21
30569428 TTTTTAAAAT
30569438 TTATTAAATTTATATATAATAA
1 TTATTAAATTTATATATAAT-A
*
30569460 TTATTAAAATTTTAAATTATAATA
1 TTATT-AAA-TTTATA-TATAATA
*
30569484 TT-TTAAAATTATAT
1 TTATTAAATTTATAT
30569498 TTTATTATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
20 1 0.03
21 4 0.12
22 8 0.25
23 5 0.16
24 8 0.25
25 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTATTAAATTTATATATAATA
Found at i:30569488 original size:15 final size:16
Alignment explanation
Indices: 30569458--30569496 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
30569448 TATATATAAT
30569458 AATTATTAAAATTTT-A
1 AATTA-TAAAATTTTAA
*
30569474 AATTATAATATTTTAA
1 AATTATAAAATTTTAA
30569490 AATTATA
1 AATTATA
30569497 TTTTATTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AATTATAAAATTTTAA
Found at i:30569491 original size:68 final size:67
Alignment explanation
Indices: 30569370--30569501 Score: 160
Period size: 68 Copynumber: 2.0 Consensus size: 67
30569360 AATTTATATT
* * *
30569370 TTTATATAATATTTTATATAAAAATTATAAGTTATAATTTATAATAATATAAAATTATTTTTTAA
1 TTTATATAATATTTTATATAAAAATTATAAATTATAAATTATAATAATATAAAATTATATTTTAA
30569435 AA
66 AA
* * * *
30569437 TTTAT-TAA-ATTTATATATAATAATTATTAAAATTTTAAATTATAATATTTTAAAATTATATTT
1 TTTATATAATATTT-TATATAAAAATTA-T-AAATTATAAATTATAATAATATAAAATTATATTT
30569500 TA
63 TA
30569502 TTATATTTTA
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
65 4 0.07
66 15 0.27
67 6 0.11
68 30 0.55
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.52
Consensus pattern (67 bp):
TTTATATAATATTTTATATAAAAATTATAAATTATAAATTATAATAATATAAAATTATATTTTAA
AA
Found at i:30573482 original size:29 final size:32
Alignment explanation
Indices: 30573424--30573494 Score: 85
Period size: 29 Copynumber: 2.3 Consensus size: 32
30573414 ATTAATAATT
*
30573424 TATAAAATAATTAAATATTATTTTATAAAAAAC
1 TATAAAAT-ATTAAATATAATTTTATAAAAAAC
*
30573457 TATAAAATA-TAAAT-TAATTTT-TAAAAAAT
1 TATAAAATATTAAATATAATTTTATAAAAAAC
*
30573486 TATTAAATA
1 TATAAAATA
30573495 AATTCATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 15 0.43
30 6 0.17
31 5 0.14
32 1 0.03
33 8 0.23
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (32 bp):
TATAAAATATTAAATATAATTTTATAAAAAAC
Found at i:30574431 original size:16 final size:16
Alignment explanation
Indices: 30574410--30574443 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
30574400 AATTAAATCA
*
30574410 AATTTTATATATTTTT
1 AATTTTATATATATTT
*
30574426 AATTTTTTATATATTT
1 AATTTTATATATATTT
30574442 AA
1 AA
30574444 AATTTTTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
AATTTTATATATATTT
Found at i:30574449 original size:17 final size:18
Alignment explanation
Indices: 30574412--30574455 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
30574402 TTAAATCAAA
* *
30574412 TTTTATATATTTTTAATT
1 TTTTATATATTTTAAAAT
30574430 TTTTATATA-TTTAAAAT
1 TTTTATATATTTTAAAAT
30574447 TTTTATATA
1 TTTTATATA
30574456 ATAAATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTATATATTTTAAAAT
Found at i:30576647 original size:3 final size:3
Alignment explanation
Indices: 30576639--30576674 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
30576629 TATTTTATTT
30576639 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
30576675 CTATAAACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:30576680 original size:9 final size:8
Alignment explanation
Indices: 30576641--30576709 Score: 54
Period size: 9 Copynumber: 8.1 Consensus size: 8
30576631 TTTTATTTTA
30576641 ATAATAAT
1 ATAATAAT
30576649 AATAATAAT
1 -ATAATAAT
30576658 AATAATAAT
1 -ATAATAAT
30576667 AATAATAACT
1 -ATAATAA-T
30576677 ATAAACTAA-
1 AT-AA-TAAT
30576686 AT-ATAAT
1 ATAATAAT
30576693 ATCAATAAT
1 AT-AATAAT
30576702 A-AATAAT
1 ATAATAAT
30576709 A
1 A
30576710 CCAATAATAA
Statistics
Matches: 54, Mismatches: 0, Indels: 14
0.79 0.00 0.21
Matches are distributed among these distances:
6 3 0.06
7 10 0.19
9 35 0.65
10 3 0.06
11 3 0.06
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (8 bp):
ATAATAAT
Found at i:30576718 original size:45 final size:45
Alignment explanation
Indices: 30576644--30576750 Score: 164
Period size: 45 Copynumber: 2.4 Consensus size: 45
30576634 TATTTTAATA
*
30576644 ATAATAAT-AATAAT-AATAATAATAATAATAACTATAAACTAAAT
1 ATAAT-ATCAATAATAAATAATAACAATAATAACTATAAACTAAAT
* *
30576688 ATAATATCAATAATAAATAATACCAATAATAACTCTAAACTAAAT
1 ATAATATCAATAATAAATAATAACAATAATAACTATAAACTAAAT
30576733 ATAATATCAATAATAAAT
1 ATAATATCAATAATAAAT
30576751 TTAAAAAATT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
43 2 0.03
44 11 0.19
45 45 0.78
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (45 bp):
ATAATATCAATAATAAATAATAACAATAATAACTATAAACTAAAT
Found at i:30583260 original size:22 final size:22
Alignment explanation
Indices: 30583232--30583274 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
30583222 AATCGCTTTT
* *
30583232 TTAATTCCGAGATTATGTCTTC
1 TTAATTCCGAGACTATATCTTC
30583254 TTAATTCCGAGACTATATCTT
1 TTAATTCCGAGACTATATCTT
30583275 TCTTTGTACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.44
Consensus pattern (22 bp):
TTAATTCCGAGACTATATCTTC
Found at i:30588652 original size:37 final size:36
Alignment explanation
Indices: 30588611--30588686 Score: 82
Period size: 36 Copynumber: 2.1 Consensus size: 36
30588601 AGATAAAGAG
* *
30588611 TTTTTGAATTTTAATTAA-AAATTTATTTAAATTTTTA
1 TTTTTGAA-TGTAATTAATAAATTT-TTTAAATATTTA
* * *
30588648 TTTTTTAATGTAATTAATTAATTTTTTTAATATTTA
1 TTTTTGAATGTAATTAATAAATTTTTTAAATATTTA
30588684 TTT
1 TTT
30588687 ATACTCAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
36 21 0.64
37 12 0.36
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (36 bp):
TTTTTGAATGTAATTAATAAATTTTTTAAATATTTA
Found at i:30589659 original size:15 final size:14
Alignment explanation
Indices: 30589635--30589681 Score: 58
Period size: 16 Copynumber: 3.1 Consensus size: 14
30589625 TTTGTTTTTT
*
30589635 AAAATTATTTATTA
1 AAAATAATTTATTA
30589649 ATAAATAATTTGATATA
1 A-AAATAATTT-AT-TA
30589666 AAAATAATTTATTA
1 AAAATAATTTATTA
30589680 AA
1 AA
30589682 TAATTTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 5 0.17
15 10 0.34
16 11 0.38
17 3 0.10
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (14 bp):
AAAATAATTTATTA
Found at i:30589714 original size:21 final size:21
Alignment explanation
Indices: 30589670--30589731 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
30589660 GATATAAAAA
*
30589670 TAATTTATTA-A-ATAATTTA
1 TAATTTATTACATATAATTTT
*
30589689 AAATTTATTACATATAATTTT
1 TAATTTATTACATATAATTTT
* * *
30589710 TAATTTAATACTTTTAATTTT
1 TAATTTATTACATATAATTTT
30589731 T
1 T
30589732 TCCCATTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 9 0.26
20 1 0.03
21 25 0.71
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.56
Consensus pattern (21 bp):
TAATTTATTACATATAATTTT
Found at i:30589819 original size:17 final size:18
Alignment explanation
Indices: 30589785--30589829 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
30589775 TAAATATATA
30589785 TATTTTTATCACTAATTT
1 TATTTTTATCACTAATTT
* *
30589803 TATTTTTATTA-TTATTT
1 TATTTTTATCACTAATTT
*
30589820 TATATTTATC
1 TATTTTTATC
30589830 GTTCATCCGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (18 bp):
TATTTTTATCACTAATTT
Found at i:30590990 original size:26 final size:27
Alignment explanation
Indices: 30590940--30590991 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
30590930 TTTATTATAT
* *
30590940 TAAAATTGAATTCAAATATCAATTTTAG
1 TAAAATTAAATT-AAATATAAATTTTAG
30590968 TAAAATTAAATT-AATATAAATTTT
1 TAAAATTAAATTAAATATAAATTTT
30590992 TTATTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 11 0.50
28 11 0.50
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (27 bp):
TAAAATTAAATTAAATATAAATTTTAG
Found at i:30596657 original size:12 final size:12
Alignment explanation
Indices: 30596640--30596665 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30596630 AGTGGTTGCG
30596640 TGCAAGACTAGT
1 TGCAAGACTAGT
30596652 TGCAAGACTAGT
1 TGCAAGACTAGT
30596664 TG
1 TG
30596666 TCATAGGAAA
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:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (12 bp):
TGCAAGACTAGT
Found at i:30600406 original size:34 final size:34
Alignment explanation
Indices: 30600367--30600434 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
30600357 ATAAGGGCCC
**
30600367 TCCATAGATTACATGCTATAATATGAAATATAGG
1 TCCATAGATTACACACTATAATATGAAATATAGG
*
30600401 TCCATAGATTACACACTATAATTTGAAATATAGG
1 TCCATAGATTACACACTATAATATGAAATATAGG
30600435 AACCTCAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.32
Consensus pattern (34 bp):
TCCATAGATTACACACTATAATATGAAATATAGG
Found at i:30608932 original size:12 final size:12
Alignment explanation
Indices: 30608915--30608948 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
30608905 TATAAAATAT
30608915 ATAAATAATTAA
1 ATAAATAATTAA
30608927 ATAAATAATTAA
1 ATAAATAATTAA
30608939 A-AAATTAATT
1 ATAAA-TAATT
30608949 TTTATATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 3 0.14
12 18 0.86
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAAATAATTAA
Found at i:30610269 original size:2 final size:2
Alignment explanation
Indices: 30610264--30610293 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
30610254 GTGTGTGTGT
30610264 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
30610294 ACCTATGACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:30615052 original size:10 final size:10
Alignment explanation
Indices: 30615037--30615069 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
30615027 GCTACAGCAC
30615037 AAATTTAAAA
1 AAATTTAAAA
30615047 AAATTTAAAA
1 AAATTTAAAA
30615057 AAA-TTAAAA
1 AAATTTAAAA
30615066 AAAT
1 AAAT
30615070 GAATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
AAATTTAAAA
Found at i:30616000 original size:14 final size:14
Alignment explanation
Indices: 30615991--30616024 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
30615981 TCAAAATTAT
30615991 AATTTAAAAATAAA
1 AATTTAAAAATAAA
*
30616005 AATTTTAAAATAAA
1 AATTTAAAAATAAA
30616019 AATTTA
1 AATTTA
30616025 TTATATGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AATTTAAAAATAAA
Found at i:30617229 original size:16 final size:17
Alignment explanation
Indices: 30617200--30617242 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
30617190 TAATTTATGT
30617200 TATTATATTTTATAAAA
1 TATTATATTTTATAAAA
*
30617217 TATTATATTTATATAATA
1 TATTATATTT-TATAAAA
*
30617235 TTTTATAT
1 TATTATAT
30617243 AAAAAGTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TATTATATTTTATAAAA
Found at i:30625039 original size:32 final size:32
Alignment explanation
Indices: 30625017--30625077 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
30625007 TGATAATTTT
30625017 TATAT-TTATATT-ATATAAAATATTAATATTA
1 TATATATTAT-TTGATATAAAATATTAATATTA
30625048 TATATATTATTTGATATAAAA-ATTATATAT
1 TATATATTATTTGATATAAAATATTA-ATAT
30625078 CATAATTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
31 11 0.41
32 16 0.59
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (32 bp):
TATATATTATTTGATATAAAATATTAATATTA
Found at i:30625127 original size:21 final size:21
Alignment explanation
Indices: 30625103--30625150 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
30625093 TATAAAAATA
*
30625103 TAAAATATATAT-TTATTTTAT
1 TAAAATATATATAAT-TTTTAT
*
30625124 TAAATTATATATAATTTTTAT
1 TAAAATATATATAATTTTTAT
30625145 TAAAAT
1 TAAAAT
30625151 TTTAAATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TAAAATATATATAATTTTTAT
Done.