Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167949.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_21, 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: 19848060
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Warning! 113000 characters in sequence are not A, C, G, or T
File 50 of 138
Found at i:10636340 original size:14 final size:15
Alignment explanation
Indices: 10636323--10636355 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
10636313 TATTTAAGAA
*
10636323 AAAATATTTATA-TT
1 AAAATATTCATATTT
10636337 AAAATATTCATATTT
1 AAAATATTCATATTT
10636352 AAAA
1 AAAA
10636356 AATTACTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (15 bp):
AAAATATTCATATTT
Found at i:10638412 original size:35 final size:35
Alignment explanation
Indices: 10638345--10638412 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
10638335 TTAAAAAATT
* * **
10638345 AAAAGGAAAATTATAATAATAATAAATTTTAATGG
1 AAAAAGAAAATTATAAAAATAATAAAGATTAATGG
10638380 AAAAAGAAAATATATAAAAAT-ATAAAGATTAAT
1 AAAAAGAAAAT-TATAAAAATAATAAAGATTAAT
10638413 TTTTTAGAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 20 0.71
36 8 0.29
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (35 bp):
AAAAAGAAAATTATAAAAATAATAAAGATTAATGG
Found at i:10638593 original size:40 final size:39
Alignment explanation
Indices: 10638505--10638598 Score: 95
Period size: 40 Copynumber: 2.4 Consensus size: 39
10638495 TAAAACCTTG
* * *
10638505 AAATGAAATCCTAAACTTATGTGTAAACCCTAAACCCTA
1 AAATGAAAACCTAAACTTATGTGAAAACCCTAAACACTA
*
10638544 AAATG-AAACCTTAAACCTTATGTGCAAAACTC-AAACACT-
1 AAATGAAAACC-TAAA-CTTATGTG-AAAACCCTAAACACTA
*
10638583 AAATGAAAACCCAAAC
1 AAATGAAAACCTAAAC
10638599 CATAAATGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
38 5 0.11
39 17 0.37
40 19 0.41
41 5 0.11
ACGTcount: A:0.48, C:0.23, G:0.07, T:0.21
Consensus pattern (39 bp):
AAATGAAAACCTAAACTTATGTGAAAACCCTAAACACTA
Found at i:10638597 original size:19 final size:19
Alignment explanation
Indices: 10638569--10638609 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
10638559 CCTTATGTGC
*
10638569 AAAACTCAAA-CACTAAATG
1 AAAACCCAAACCA-TAAATG
10638588 AAAACCCAAACCATAAATG
1 AAAACCCAAACCATAAATG
10638607 AAA
1 AAA
10638610 CTTTGAAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.61, C:0.22, G:0.05, T:0.12
Consensus pattern (19 bp):
AAAACCCAAACCATAAATG
Found at i:10638599 original size:39 final size:40
Alignment explanation
Indices: 10638505--10638599 Score: 99
Period size: 39 Copynumber: 2.4 Consensus size: 40
10638495 TAAAACCTTG
* * *
10638505 AAATGAAATCCTAAA-CTTATGTGTAAACCCTAAACCCTA
1 AAATGAAAACCTAAACCTTATGTGAAAACCCTAAACACTA
*
10638544 AAATG-AAACCTTAAACCTTATGTGCAAAACTC-AAACACT-
1 AAATGAAAACC-TAAACCTTATGTG-AAAACCCTAAACACTA
*
10638583 AAATGAAAACCCAAACC
1 AAATGAAAACCTAAACC
10638600 ATAAATGAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
38 4 0.09
39 19 0.40
40 19 0.40
41 5 0.11
ACGTcount: A:0.47, C:0.24, G:0.07, T:0.21
Consensus pattern (40 bp):
AAATGAAAACCTAAACCTTATGTGAAAACCCTAAACACTA
Found at i:10638797 original size:6 final size:6
Alignment explanation
Indices: 10638780--10638829 Score: 59
Period size: 6 Copynumber: 8.7 Consensus size: 6
10638770 TCAAAACAAT
* * *
10638780 AATA-A AAT-TA AATATA AATATA AATATA AATAGA ATTTTA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
10638826 AATA
1 AATA
10638830 GTCACATCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
5 7 0.19
6 30 0.81
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (6 bp):
AATATA
Found at i:10641711 original size:21 final size:21
Alignment explanation
Indices: 10641662--10641712 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
10641652 TTGTCAACTC
*
10641662 TTGAGATCGCCCATTAAGAGT
1 TTGAGATTGCCCATTAAGAGT
* *
10641683 TTGAGATTGCCTATTGAGAGT
1 TTGAGATTGCCCATTAAGAGT
10641704 TTGAGATTG
1 TTGAGATTG
10641713 AAAAGAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.35
Consensus pattern (21 bp):
TTGAGATTGCCCATTAAGAGT
Found at i:10650252 original size:35 final size:36
Alignment explanation
Indices: 10650195--10650343 Score: 101
Period size: 36 Copynumber: 4.2 Consensus size: 36
10650185 CTAGTCACTT
* * *
10650195 TTATTTCATAACTCGTGGTTCAA-TCCC-GATCATCC
1 TTATTTCTTGACTCGTGATTCAATTCCCAG-TCATCC
* * *
10650230 TTATTTCTTGACTTGTGATTCAATTCTCAGTCATCT
1 TTATTTCTTGACTCGTGATTCAATTCCCAGTCATCC
*** *
10650266 TTATTTCTTGACTCACAATTCAATTCCTCA-TCATCT
1 TTATTTCTTGACTCGTGATTCAATTCC-CAGTCATCC
* * * *
10650302 TTATCTCTTAACTCATAGATT-AA-TCCCTAATCATCC
1 TTATTTCTTGACTCGT-GATTCAATTCCC-AGTCATCC
10650338 TTATTT
1 TTATTT
10650344 TCTAACTTGC
Statistics
Matches: 91, Mismatches: 17, Indels: 11
0.76 0.14 0.09
Matches are distributed among these distances:
34 1 0.01
35 23 0.25
36 61 0.67
37 6 0.07
ACGTcount: A:0.24, C:0.25, G:0.07, T:0.44
Consensus pattern (36 bp):
TTATTTCTTGACTCGTGATTCAATTCCCAGTCATCC
Found at i:10650271 original size:36 final size:36
Alignment explanation
Indices: 10650223--10650343 Score: 111
Period size: 36 Copynumber: 3.4 Consensus size: 36
10650213 TTCAATCCCG
* ****
10650223 ATCATCCTTATTTCTTGACTTGTGATTCAATT-CTC
1 ATCATCTTTATTTCTTGACTCACAATTCAATTCCTC
10650258 AGTCATCTTTATTTCTTGACTCACAATTCAATTCCTC
1 A-TCATCTTTATTTCTTGACTCACAATTCAATTCCTC
* * * * *
10650295 ATCATCTTTATCTCTTAACTCATAGATT-AATCCCTA
1 ATCATCTTTATTTCTTGACTCACA-ATTCAATTCCTC
*
10650331 ATCATCCTTATTT
1 ATCATCTTTATTT
10650344 TCTAACTTGC
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
35 1 0.01
36 63 0.89
37 7 0.10
ACGTcount: A:0.25, C:0.25, G:0.05, T:0.45
Consensus pattern (36 bp):
ATCATCTTTATTTCTTGACTCACAATTCAATTCCTC
Found at i:10651252 original size:38 final size:37
Alignment explanation
Indices: 10651176--10651276 Score: 143
Period size: 37 Copynumber: 2.7 Consensus size: 37
10651166 TTAATGACAT
* *
10651176 ATATATATATAAATTATTAAATAAAAACCCAAATAAA
1 ATATATATAAAAATTATTAAATAAAAAACCAAATAAA
10651213 ATATATATAAAAATTATTAAATAAAAAACCAAATAAA
1 ATATATATAAAAATTATTAAATAAAAAACCAAATAAA
*
10651250 A-ATATAAAAATTAATTATTAAA-AAAAA
1 ATATATATAAA--AATTATTAAATAAAAA
10651277 TAAAAAAAGG
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
36 8 0.14
37 41 0.69
38 10 0.17
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (37 bp):
ATATATATAAAAATTATTAAATAAAAAACCAAATAAA
Found at i:10653127 original size:16 final size:16
Alignment explanation
Indices: 10653106--10653149 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
10653096 AGAAATTATT
10653106 AAATAATAAAAAATAA
1 AAATAATAAAAAATAA
**
10653122 AAATAATAAAAGCTAA
1 AAATAATAAAAAATAA
10653138 ATAATAATAAAA
1 A-AATAATAAAA
10653150 TAGTAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.20
Consensus pattern (16 bp):
AAATAATAAAAAATAA
Found at i:10653327 original size:20 final size:20
Alignment explanation
Indices: 10653304--10653366 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
10653294 GCTTAAAATG
10653304 AAACCTTAAACCTTATGTGT
1 AAACCTTAAACCTTATGTGT
* * **
10653324 AAACCCTAAACCCTAAAATG-
1 AAACCTTAAA-CCTTATGTGT
*
10653344 AAACCTTAAACCCTATGTGT
1 AAACCTTAAACCTTATGTGT
10653364 AAA
1 AAA
10653367 ACCCAAACCT
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
19 5 0.16
20 21 0.66
21 6 0.19
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.25
Consensus pattern (20 bp):
AAACCTTAAACCTTATGTGT
Found at i:10653374 original size:20 final size:19
Alignment explanation
Indices: 10653324--10653401 Score: 68
Period size: 19 Copynumber: 3.9 Consensus size: 19
10653314 CCTTATGTGT
10653324 AAACCCTAAACCCTAAAATG-
1 AAACCC-AAACCCT-AAATGA
* **
10653344 AAACCTTAAACCCTATGTGTA
1 AAACC-CAAACCCTAAATG-A
*
10653365 AAACCCAAACCTTAAATGA
1 AAACCCAAACCCTAAATGA
*
10653384 AAACCCAAACCATAAATG
1 AAACCCAAACCCTAAATG
10653402 GAATTCTAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
19 21 0.45
20 21 0.45
21 5 0.11
ACGTcount: A:0.49, C:0.27, G:0.06, T:0.18
Consensus pattern (19 bp):
AAACCCAAACCCTAAATGA
Found at i:10653388 original size:40 final size:40
Alignment explanation
Indices: 10653297--10653385 Score: 137
Period size: 40 Copynumber: 2.2 Consensus size: 40
10653287 TTTAAAAGCT
*
10653297 TAAAATGAAACCTTAAACCTTATGTGTAAACCCTAAACCC
1 TAAAATGAAACCTTAAACCCTATGTGTAAACCCTAAACCC
10653337 TAAAATGAAACCTTAAACCCTATGTGTAAAACCC-AAA-CC
1 TAAAATGAAACCTTAAACCCTATGTGT-AAACCCTAAACCC
*
10653376 TTAAATGAAA
1 TAAAATGAAA
10653386 ACCCAAACCA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
39 11 0.24
40 29 0.63
41 6 0.13
ACGTcount: A:0.46, C:0.22, G:0.08, T:0.24
Consensus pattern (40 bp):
TAAAATGAAACCTTAAACCCTATGTGTAAACCCTAAACCC
Found at i:10655750 original size:13 final size:14
Alignment explanation
Indices: 10655725--10655753 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10655715 TGAAAAGTCT
10655725 TAAAGTATTTTGGA
1 TAAAGTATTTTGGA
10655739 TAAAGT-TTTTGGA
1 TAAAGTATTTTGGA
10655752 TA
1 TA
10655754 TCCATATCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (14 bp):
TAAAGTATTTTGGA
Found at i:10656223 original size:24 final size:24
Alignment explanation
Indices: 10656196--10656243 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
10656186 TTCCCACATT
10656196 TGTA-TTA-TTTATTTTAAGATTAAA
1 TGTATTTATTTTA-TTTAA-ATTAAA
10656220 TGTATTTATTTTATTTAAATTAAA
1 TGTATTTATTTTATTTAAATTAAA
10656244 AATAAACATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 10 0.45
25 8 0.36
26 4 0.18
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (24 bp):
TGTATTTATTTTATTTAAATTAAA
Found at i:10656717 original size:23 final size:22
Alignment explanation
Indices: 10656699--10656750 Score: 81
Period size: 21 Copynumber: 2.4 Consensus size: 22
10656689 CCTAAAATTA
10656699 ATAAAATATTA-TTTTTAAAAT
1 ATAAAATATTACTTTTTAAAAT
10656720 ATAAAATATTACTTTTTAAAA-
1 ATAAAATATTACTTTTTAAAAT
10656741 ATAAATATAT
1 ATAAA-ATAT
10656751 AATATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 16 0.55
22 13 0.45
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
ATAAAATATTACTTTTTAAAAT
Found at i:10656759 original size:9 final size:9
Alignment explanation
Indices: 10656741--10656770 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
10656731 CTTTTTAAAA
10656741 ATAA-ATAT
1 ATAATATAT
10656749 ATAATATAT
1 ATAATATAT
10656758 ATAATATAT
1 ATAATATAT
10656767 ATAA
1 ATAA
10656771 ATAAAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.19
9 17 0.81
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
ATAATATAT
Found at i:10657188 original size:21 final size:20
Alignment explanation
Indices: 10657164--10657211 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 20
10657154 AATTTTTTTT
10657164 ATATTTTAGGATTTAGAGTTA
1 ATATTTTAGGATTTAG-GTTA
*
10657185 ATATTTTTAGGGTTTAGGTTA
1 ATA-TTTTAGGATTTAGGTTA
10657206 AT-TTTT
1 ATATTTT
10657212 TTATAAAAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 4 0.16
21 9 0.36
22 12 0.48
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (20 bp):
ATATTTTAGGATTTAGGTTA
Found at i:10657212 original size:21 final size:22
Alignment explanation
Indices: 10657167--10657214 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
10657157 TTTTTTTATA
10657167 TTTTAGGATTTAGAGTTAATAT
1 TTTTAGGATTTAGAGTTAATAT
* *
10657189 TTTTAGGGTTTAG-GTTAATTT
1 TTTTAGGATTTAGAGTTAATAT
10657210 TTTTA
1 TTTTA
10657215 TAAAAGCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.25, C:0.00, G:0.19, T:0.56
Consensus pattern (22 bp):
TTTTAGGATTTAGAGTTAATAT
Found at i:10657274 original size:62 final size:61
Alignment explanation
Indices: 10657208--10657337 Score: 149
Period size: 61 Copynumber: 2.1 Consensus size: 61
10657198 TTAGGTTAAT
*
10657208 TTTTTTATAAAAGCATTATT-TAAGGCATTTTT-TATACAAAAACA-TCTTAAATAATCATTTTA
1 TTTTTTATAAAAGCATTATTCAAAGG--TTTTTGTATA-AAAAACACT-TTAAATAATCATTTTA
* * * *
10657270 TTTTTTATAAATGGATTATTCAAAGGTTTTTGTATAAAAAATACTTTAAATAATCTTTTTA
1 TTTTTTATAAAAGCATTATTCAAAGGTTTTTGTATAAAAAACACTTTAAATAATCATTTTA
*
10657331 TATTTTA
1 TTTTTTA
10657338 AGGTTTAAGT
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
61 32 0.54
62 23 0.39
63 4 0.07
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.48
Consensus pattern (61 bp):
TTTTTTATAAAAGCATTATTCAAAGGTTTTTGTATAAAAAACACTTTAAATAATCATTTTA
Found at i:10657488 original size:28 final size:28
Alignment explanation
Indices: 10657456--10657520 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
10657446 ATATAAAAAA
* *
10657456 ATAAAAAAACTATTTAAGACGTTTCTGT
1 ATAAAAAAACTATTTAAGACATTTCTAT
* * *
10657484 ATAAAAATATTATTTAAGACATTTTTAT
1 ATAAAAAAACTATTTAAGACATTTCTAT
10657512 ATAAAAAAA
1 ATAAAAAAA
10657521 TACTTTATGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (28 bp):
ATAAAAAAACTATTTAAGACATTTCTAT
Found at i:10658386 original size:18 final size:17
Alignment explanation
Indices: 10658363--10658396 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
10658353 CAGATCAAGT
10658363 AAAGTCAGAAACTAAGGG
1 AAAGTCAGAAA-TAAGGG
10658381 AAAGTCAGAAATAAGG
1 AAAGTCAGAAATAAGG
10658397 ATTTTTTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.53, C:0.09, G:0.26, T:0.12
Consensus pattern (17 bp):
AAAGTCAGAAATAAGGG
Found at i:10659260 original size:60 final size:59
Alignment explanation
Indices: 10659141--10659550 Score: 340
Period size: 60 Copynumber: 6.9 Consensus size: 59
10659131 AATGAATAAA
* * *
10659141 AAAAATTGTCAAAAAAATGTTTTAATGA--AAAAGTT-AAAAGTATTAATTTTCTTTGAAAAT
1 AAAAATT-TCAAAAAAATATTTT--TGAGGAAAAGTTGAAAAGTATCAATTTTC-TTAAAAAT
* * * *
10659201 AAAATTTTCAAAAAGATGTTTTTGAGGAAAAGTTGAAAAGTATCAACTTTTCTTGAAAAT
1 AAAAATTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAAGTATCAA-TTTTCTTAAAAAT
* ** * *
10659261 AAAATTTTCAAAAAGGTATTTTTGAGGAAAAGTT-AAAAGTATCAATTTCCCTTGAAAAT
1 AAAAATTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAAGTATCAATTT-TCTTAAAAAT
* * * * *
10659320 AAAGATTTC-AAAAAATATTTTTAAGTAAAAATTGAGAA-TA-CTAATTTTCCTTAAAAAAAT
1 AAAAATTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAAGTATC-AATTTT-CTT--AAAAAT
** * *
10659380 AAAAATTTCAGAAAAAAGTATTTTTGAAAAAAAGTTGAAAA-TATAAATTTTATTTAAAAAT
1 AAAAATTTCA-AAAAAA-TATTTTTGAGGAAAAGTTGAAAAGTATCAATTTT-CTTAAAAAT
** * * *
10659441 AAAAAAAT-AAAAAAA-ATGTTTTAAGGAAAAATTG-AGAGTATCAATTTTCCTTAAAGAAT
1 AAAAATTTCAAAAAAATAT-TTTTGAGGAAAAGTTGAAAAGTATCAATTTT-CTTAAA-AAT
*
10659500 AAAAATTTCAAAAAAAATATTTTTGAAGAAAAGTTG-AAAGTATCAATTTTC
1 AAAAATTTC-AAAAAAATATTTTTGAGGAAAAGTTGAAAAGTATCAATTTTC
10659551 CTTGTATAAA
Statistics
Matches: 289, Mismatches: 41, Indels: 40
0.78 0.11 0.11
Matches are distributed among these distances:
57 8 0.03
58 58 0.20
59 66 0.23
60 71 0.25
61 50 0.17
62 8 0.03
63 28 0.10
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (59 bp):
AAAAATTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAAGTATCAATTTTCTTAAAAAT
Found at i:10659274 original size:119 final size:117
Alignment explanation
Indices: 10659141--10659550 Score: 363
Period size: 119 Copynumber: 3.4 Consensus size: 117
10659131 AATGAATAAA
*
10659141 AAAAATTGTCAAAAAAATGTTTTAATG-AAAAAGTTAAAAGTATTAATTTTCTTTGAAAATAAAA
1 AAAAATT-TCAAAAAAATGTTTT-ATGAAAAAAGTTAAAAGTATCAATTTTCTTTGAAAATAAAA
* * *
10659205 TTTTCAAAAAGATGTTTTTGAGGAAAAGTTGAAAAGTATCAACTTTT-CTTGAAAAT
64 -TTTCAAAAA-ATGTTTTTAAGGAAAAATTGAAAAGTATCAA-TTTTCCTTAAAAAT
* ** * * * *
10659261 AAAATTTTCAAAAAGGTATTTT-TGAGGAAAAGTTAAAAGTATCAATTTCCCTTGAAAATAAAGA
1 AAAAATTTCAAAAAAATGTTTTATGA-AAAAAGTTAAAAGTATCAATTTTCTTTGAAAATAAA-A
* * *
10659325 TTTCAAAAAATATTTTTAAGTAAAAATTGAGAA-TA-CTAATTTTCCTTAAAAAAAT
64 TTTCAAAAAATGTTTTTAAGGAAAAATTGAAAAGTATC-AATTTTCCTT--AAAAAT
* * * *
10659380 AAAAATTTCAGAAAAAA-GTATTTTTGAAAAAAAGTTGAAAA-TATAAATTTTATTTAAAAATAA
1 AAAAATTTCA-AAAAAATGT-TTTATG-AAAAAAGTT-AAAAGTATCAATTTTCTTTGAAAAT--
* ** *
10659443 AAAAATAAAAAAAATG-TTTTAAGGAAAAATTG-AGAGTATCAATTTTCCTTAAAGAAT
60 AAAATTTCAAAAAATGTTTTTAAGGAAAAATTGAAAAGTATCAATTTTCCTTAAA-AAT
* *
10659500 AAAAATTTCAAAAAAAATATTTT-TGAAGAAAAGTTGAAAGTATCAATTTTC
1 AAAAATTTC-AAAAAAATGTTTTATGAA-AAAAGTTAAAAGTATCAATTTTC
10659551 CTTGTATAAA
Statistics
Matches: 234, Mismatches: 35, Indels: 43
0.75 0.11 0.14
Matches are distributed among these distances:
116 5 0.02
117 9 0.04
118 24 0.10
119 89 0.38
120 36 0.15
121 53 0.23
122 15 0.06
123 3 0.01
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (117 bp):
AAAAATTTCAAAAAAATGTTTTATGAAAAAAGTTAAAAGTATCAATTTTCTTTGAAAATAAAATT
TCAAAAAATGTTTTTAAGGAAAAATTGAAAAGTATCAATTTTCCTTAAAAAT
Found at i:10659441 original size:121 final size:119
Alignment explanation
Indices: 10659210--10659549 Score: 359
Period size: 121 Copynumber: 2.8 Consensus size: 119
10659200 TAAAATTTTC
* * * * * *
10659210 AAAAAGATGTTTTTGAGGAAAAGTTGAAAAGTATCAACTTTT-CTT-GAAAATAAAATTTTC-AA
1 AAAAAAATG-TTTTAAGGAAAAATTGAGAA-TATCAA-TTTTCCTTAAAAAATAAAAATTTCAAA
* * ** * * **
10659272 AAAGGTATTTTTGAGGAAAAGTT-AAAAGTATCAATTTCCCTTGAAAATAAAGATTTCA
63 AAAAGTATTTTTGAAGAAAAGTTGAAAA-TATCAATTTTACTTAAAAATAAAAAAAT-A
* *
10659330 AAAAATAT-TTTTAAGTAAAAATTGAGAATA-CTAATTTTCCTTAAAAAAATAAAAATTTCAGAA
1 AAAAAAATGTTTTAAGGAAAAATTGAGAATATC-AATTTTCCTT-AAAAAATAAAAATTTCA-AA
* * *
10659393 AAAAGTATTTTTGAAAAAAAGTTGAAAATATAAATTTTATTTAAAAATAAAAAAATA
63 AAAAGTATTTTTGAAGAAAAGTTGAAAATATCAATTTTACTTAAAAATAAAAAAATA
* *
10659450 AAAAAAATGTTTTAAGGAAAAATTGAGAGTATCAATTTTCCTTAAAGAATAAAAATTTCAAAAAA
1 AAAAAAATGTTTTAAGGAAAAATTGAGAATATCAATTTTCCTTAAAAAATAAAAATTTCAAAAAA
* *
10659515 AATATTTTTGAAGAAAAGTTGAAAGTATCAATTTT
66 AGTATTTTTGAAGAAAAGTTGAAAATATCAATTTT
10659550 CCTTGTATAA
Statistics
Matches: 185, Mismatches: 26, Indels: 19
0.80 0.11 0.08
Matches are distributed among these distances:
116 5 0.03
117 7 0.04
118 16 0.09
119 49 0.26
120 31 0.17
121 72 0.39
122 5 0.03
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.33
Consensus pattern (119 bp):
AAAAAAATGTTTTAAGGAAAAATTGAGAATATCAATTTTCCTTAAAAAATAAAAATTTCAAAAAA
AGTATTTTTGAAGAAAAGTTGAAAATATCAATTTTACTTAAAAATAAAAAAATA
Found at i:10661176 original size:1 final size:1
Alignment explanation
Indices: 10661170--10661204 Score: 70
Period size: 1 Copynumber: 35.0 Consensus size: 1
10661160 TCATTGAATC
10661170 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
10661205 CAAGGAATGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:10661890 original size:28 final size:27
Alignment explanation
Indices: 10661859--10661921 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 27
10661849 AATTTGAACA
*
10661859 TTAAGGCAATCGTTTCTTAATATTAAAT
1 TTAAGG-AATCGTTTCTCAATATTAAAT
*
10661887 TTAA-GAATCGTTTCTCAATATTAGAT
1 TTAAGGAATCGTTTCTCAATATTAAAT
10661913 TTAA-GAATC
1 TTAAGGAATC
10661922 TAAACTGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 28 0.85
27 1 0.03
28 4 0.12
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (27 bp):
TTAAGGAATCGTTTCTCAATATTAAAT
Found at i:10661901 original size:26 final size:26
Alignment explanation
Indices: 10661866--10661921 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
10661856 ACATTAAGGC
*
10661866 AATCGTTTCTTAATATTAAATTTAAG
1 AATCGTTTCTCAATATTAAATTTAAG
*
10661892 AATCGTTTCTCAATATTAGATTTAAG
1 AATCGTTTCTCAATATTAAATTTAAG
10661918 AATC
1 AATC
10661922 TAAACTGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.43
Consensus pattern (26 bp):
AATCGTTTCTCAATATTAAATTTAAG
Found at i:10662572 original size:14 final size:14
Alignment explanation
Indices: 10662553--10662591 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
10662543 ATCAACTATT
10662553 AGAAAAAAGAAATA
1 AGAAAAAAGAAATA
10662567 AG-AAAAAGAAATA
1 AGAAAAAAGAAATA
*
10662580 ATAAAAAA-AAAT
1 AGAAAAAAGAAAT
10662592 TTTAGTTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (14 bp):
AGAAAAAAGAAATA
Found at i:10672690 original size:18 final size:18
Alignment explanation
Indices: 10672658--10672701 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
10672648 TTGGTATTGG
*
10672658 TTTAATTTGATTTT-AAT
1 TTTAATTTCATTTTAAAT
10672675 TTTAATGTTCATTTTAAAT
1 TTTAAT-TTCATTTTAAAT
*
10672694 TTTCATTT
1 TTTAATTT
10672702 TCAAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 6 0.26
18 9 0.39
19 8 0.35
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.64
Consensus pattern (18 bp):
TTTAATTTCATTTTAAAT
Found at i:10673578 original size:6 final size:6
Alignment explanation
Indices: 10673569--10673603 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
10673559 TTAAAAATTA
* *
10673569 AAAAAC AAAACC AAAAAC AAAAAA AAAAAC AAAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAA
10673604 AAGCAGAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:10673586 original size:12 final size:12
Alignment explanation
Indices: 10673568--10673605 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
10673558 ATTAAAAATT
*
10673568 AAAAAACAAAAC
1 AAAAAACAAAAA
*
10673580 CAAAAACAAAAA
1 AAAAAACAAAAA
10673592 AAAAAACAAAAA
1 AAAAAACAAAAA
10673604 AA
1 AA
10673606 GCAGAAAGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAACAAAAA
Found at i:10673604 original size:19 final size:19
Alignment explanation
Indices: 10673568--10673604 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10673558 ATTAAAAATT
* *
10673568 AAAAAACAAAACCAAAAAC
1 AAAAAAAAAAACAAAAAAC
10673587 AAAAAAAAAAACAAAAAA
1 AAAAAAAAAAACAAAAAA
10673605 AGCAGAAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAACAAAAAAC
Found at i:10674869 original size:3 final size:3
Alignment explanation
Indices: 10674863--10674887 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10674853 TAATAATCTA
10674863 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
10674888 TTTTTTTCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10681570 original size:11 final size:11
Alignment explanation
Indices: 10681556--10681597 Score: 59
Period size: 10 Copynumber: 3.8 Consensus size: 11
10681546 CACAAAATTA
10681556 AAAAAAAAGGT
1 AAAAAAAAGGT
10681567 -AAAAAAAGGT
1 AAAAAAAAGGT
*
10681577 AAAAAAAAAGT
1 AAAAAAAAGGT
10681588 AGAAAAAAAG
1 A-AAAAAAAG
10681598 AAAAGAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 10 0.37
11 10 0.37
12 7 0.26
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (11 bp):
AAAAAAAAGGT
Found at i:10681585 original size:23 final size:22
Alignment explanation
Indices: 10681555--10681607 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
10681545 TCACAAAATT
*
10681555 AAAAAAAAAGGTA-AAAAAAGG
1 AAAAAAAAAGGTAGAAAAAAAG
10681576 TAAAAAAAAA-GTAGAAAAAAAG
1 -AAAAAAAAAGGTAGAAAAAAAG
10681598 AAAAGAAAAA
1 AAAA-AAAAA
10681608 AGAGACATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 7 0.25
22 21 0.75
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (22 bp):
AAAAAAAAAGGTAGAAAAAAAG
Found at i:10683162 original size:25 final size:25
Alignment explanation
Indices: 10683112--10683175 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
10683102 ACAAAAAAAG
* *
10683112 ACATTTGCATTTGCACCTGTATAAA
1 ACATTTGCATTTGCACCTGAAGAAA
*
10683137 ACATTTACATTTGCACCAT-AAGAAA
1 ACATTTGCATTTGCACC-TGAAGAAA
*
10683162 A-ATCTGCATTTGCA
1 ACATTTGCATTTGCA
10683176 TCATGGCATT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
24 11 0.33
25 21 0.64
26 1 0.03
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (25 bp):
ACATTTGCATTTGCACCTGAAGAAA
Found at i:10683906 original size:88 final size:88
Alignment explanation
Indices: 10683747--10684209 Score: 392
Period size: 88 Copynumber: 5.2 Consensus size: 88
10683737 ACATAATCTT
* * * * * * * *
10683747 TAAGACCTCCCGGTATAATTTTGATTCGCTGTGTCATCTCGATCGATTTTTTATTTTTTAAATTA
1 TAAGACCTCCGGGCATAATTTTGATTCGCGGTGTCATCCCGATCGATTCTTTATTTTTTGACTTG
* *
10683812 CAATGTTGTCCCAGTTGATTCTG
66 CGATGTTGTCCCAGTCGATTCTG
* * * * *
10683835 TAAGACCTTCGGACATAATTTTGATTCGCAGTGTCATCCCGATTGATTCATTATTTTTTGACTTG
1 TAAGACCTCCGGGCATAATTTTGATTCGCGGTGTCATCCCGATCGATTCTTTATTTTTTGACTTG
* * *
10683900 CGATGTTATCCCGGTCAATTCTG
66 CGATGTTGTCCCAGTCGATTCTG
* * * * * *
10683923 TAAGAACCTCCGGGCATAATTATGATTTGTGGTAT-TTACCCGATCGATTTTTTATTTTTTGACT
1 TAAG-ACCTCCGGGCATAATTTTGATTCGCGGTGTCAT-CCCGATCGATTCTTTATTTTTTGACT
* * *
10683987 TGCGGTGTTGCCCCAGTCGATTCTA
64 TGCGATGTTGTCCCAGTCGATTCTG
* ** *
10684012 TAAGACCTCCGGGCATAAATTTGATTCGCGGTGTTGTCTCGATCGATTCTTTATTTTTTGACTTG
1 TAAGACCTCCGGGCATAATTTTGATTCGCGGTGTCATCCCGATCGATTCTTTATTTTTTGACTTG
* * *
10684077 CGATGTTAT-CCTGATCAATTCTG
66 CGATGTTGTCCCAG-TCGATTCTG
* * * ** * * * **
10684100 TAAGACCAT-CGAGCATAAATTTAATTTACGGTGTTATCTCGATCGATTCTTTATTTCTCAACTT
1 TAAGACC-TCCGGGCATAATTTTGATTCGCGGTGTCATCCCGATCGATTCTTTATTTTTTGACTT
* * * * * *
10684164 GAGGTGTTATCTCGGTCGATTTTG
65 GCGATGTTGTCCCAGTCGATTCTG
* * *
10684188 TAAGACTTCCAGGCATGATTTT
1 TAAGACCTCCGGGCATAATTTT
10684210 TTAATACATC
Statistics
Matches: 301, Mismatches: 67, Indels: 14
0.79 0.18 0.04
Matches are distributed among these distances:
87 4 0.01
88 224 0.74
89 73 0.24
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (88 bp):
TAAGACCTCCGGGCATAATTTTGATTCGCGGTGTCATCCCGATCGATTCTTTATTTTTTGACTTG
CGATGTTGTCCCAGTCGATTCTG
Found at i:10684082 original size:177 final size:177
Alignment explanation
Indices: 10683786--10684104 Score: 467
Period size: 177 Copynumber: 1.8 Consensus size: 177
10683776 TGTGTCATCT
* * * *
10683786 CGATCGATTTTTTATTTTTTAAATTACAATGTTGTCCCAGTTGATTCTGTAAGACCTTCGGACAT
1 CGATCGATTTTTTATTTTTTAAATTACAATGTTGCCCCAGTCGATTCTATAAGACCTCCGGACAT
* * *
10683851 AATTTTGATTCGCAGTGTCATCCCGATTGATTCATTATTTTTTGACTTGCGATGTTATCCCGGTC
66 AAATTTGATTCGCAGTGTCATCCCGATCGATTCATTATTTTTTGACTTGCGATGTTATCCCGATC
10683916 AATTCTGTAAGAACCTCCGGGCATAATTATGATTTGTGGTATTTACC
131 AATTCTGTAAGAACCTCCGGGCATAATTATGATTTGTGGTATTTACC
* * * ** *
10683963 CGATCGATTTTTTATTTTTTGACTTGCGGTGTTGCCCCAGTCGATTCTATAAGACCTCCGGGCAT
1 CGATCGATTTTTTATTTTTTAAATTACAATGTTGCCCCAGTCGATTCTATAAGACCTCCGGACAT
* ** * * *
10684028 AAATTTGATTCGCGGTGTTGTCTCGATCGATTCTTTATTTTTTGACTTGCGATGTTATCCTGATC
66 AAATTTGATTCGCAGTGTCATCCCGATCGATTCATTATTTTTTGACTTGCGATGTTATCCCGATC
10684093 AATTCTGTAAGA
131 AATTCTGTAAGA
10684105 CCATCGAGCA
Statistics
Matches: 123, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
177 123 1.00
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.41
Consensus pattern (177 bp):
CGATCGATTTTTTATTTTTTAAATTACAATGTTGCCCCAGTCGATTCTATAAGACCTCCGGACAT
AAATTTGATTCGCAGTGTCATCCCGATCGATTCATTATTTTTTGACTTGCGATGTTATCCCGATC
AATTCTGTAAGAACCTCCGGGCATAATTATGATTTGTGGTATTTACC
Found at i:10684221 original size:23 final size:23
Alignment explanation
Indices: 10684181--10684245 Score: 60
Period size: 23 Copynumber: 2.9 Consensus size: 23
10684171 TATCTCGGTC
* * *
10684181 GATTTTGTAAGACTTCCAGGCAT
1 GATTTTCTAATACATCCAGGCAT
* *
10684204 GATTTTTTAATACATCCAGGTAT
1 GATTTTCTAATACATCCAGGCAT
* *
10684227 CA-TTTCTAATACCTCCAGG
1 GATTTTCTAATACATCCAGG
10684246 TATAATCTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
22 15 0.43
23 20 0.57
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (23 bp):
GATTTTCTAATACATCCAGGCAT
Found at i:10684403 original size:23 final size:23
Alignment explanation
Indices: 10684371--10684421 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
10684361 GTCTTGATCG
* *
10684371 ATTTTGTAAGACCT-TTGGACATA
1 ATTTTCTAAGACCTCTAGG-CATA
10684394 ATTTTCTAAGACCTCTAGGCATA
1 ATTTTCTAAGACCTCTAGGCATA
10684417 ATTTT
1 ATTTT
10684422 GATTCGTGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 22 0.88
24 3 0.12
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (23 bp):
ATTTTCTAAGACCTCTAGGCATA
Found at i:10685019 original size:3 final size:3
Alignment explanation
Indices: 10685011--10685053 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
10685001 AGTTCTTATT
10685011 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
10685054 TAAAAATTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:10686355 original size:18 final size:18
Alignment explanation
Indices: 10686334--10686368 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10686324 TTAAAATGAT
*
10686334 TAAAAAATGATAATAATC
1 TAAAAAATAATAATAATC
*
10686352 TAAATAATAATAATAAT
1 TAAAAAATAATAATAAT
10686369 AATAATTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (18 bp):
TAAAAAATAATAATAATC
Found at i:10688231 original size:20 final size:20
Alignment explanation
Indices: 10688203--10688307 Score: 106
Period size: 19 Copynumber: 5.2 Consensus size: 20
10688193 TGCATGAGTT
*
10688203 TGATGATTAATATATTTGCA
1 TGATTATTAATATATTTGCA
*
10688223 TGATTATTAAT-TAATTGCA
1 TGATTATTAATATATTTGCA
*
10688242 TGATAATTATATTATATTTGCA
1 TGATTATTA-A-TATATTTGCA
* *
10688264 TGATTA-TAATTTAGTTGCA
1 TGATTATTAATATATTTGCA
* * *
10688283 TGATTGTTAACATATTTTCA
1 TGATTATTAATATATTTGCA
10688303 TGATT
1 TGATT
10688308 TAACTTAATA
Statistics
Matches: 69, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
19 28 0.41
20 26 0.38
21 3 0.04
22 12 0.17
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.49
Consensus pattern (20 bp):
TGATTATTAATATATTTGCA
Found at i:10692883 original size:22 final size:23
Alignment explanation
Indices: 10692848--10692890 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
10692838 CTGCAAGGGA
* *
10692848 AAAACAAAGCAAAAAATAAAGCT
1 AAAACAAAGAAAAAAAAAAAGCT
10692871 AAAA-AAAGAAAAAAAAAAAG
1 AAAACAAAGAAAAAAAAAAAG
10692891 AGAAAAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.79, C:0.07, G:0.09, T:0.05
Consensus pattern (23 bp):
AAAACAAAGAAAAAAAAAAAGCT
Found at i:10692896 original size:22 final size:22
Alignment explanation
Indices: 10692848--10692898 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
10692838 CTGCAAGGGA
* * **
10692848 AAAACAAAGCAAAAAATAAAGCT
1 AAAA-AAAGAAAAAAAAAAAGAG
10692871 AAAAAAAGAAAAAAAAAAAGAG
1 AAAAAAAGAAAAAAAAAAAGAG
10692893 AAAAAA
1 AAAAAA
10692899 GATGAAAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.80, C:0.06, G:0.10, T:0.04
Consensus pattern (22 bp):
AAAAAAAGAAAAAAAAAAAGAG
Found at i:10701242 original size:16 final size:17
Alignment explanation
Indices: 10701208--10701242 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10701198 CTTAGCATCG
*
10701208 TTGCGAGTTTAGAACCT
1 TTGCGAATTTAGAACCT
10701225 TTGCGAATTTAG-ACCT
1 TTGCGAATTTAGAACCT
10701241 TT
1 TT
10701243 ACAACTCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (17 bp):
TTGCGAATTTAGAACCT
Found at i:10701350 original size:10 final size:10
Alignment explanation
Indices: 10701335--10701371 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
10701325 TTGTGAATTT
10701335 TAAATCTTTG
1 TAAATCTTTG
10701345 TAAATC-TTG
1 TAAATCTTTG
10701354 -AAATCTTTG
1 TAAATCTTTG
*
10701363 AAAATCTTT
1 TAAATCTTT
10701372 ACGAATCTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 5 0.20
9 6 0.24
10 14 0.56
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.46
Consensus pattern (10 bp):
TAAATCTTTG
Found at i:10701359 original size:18 final size:18
Alignment explanation
Indices: 10701336--10701473 Score: 96
Period size: 18 Copynumber: 8.1 Consensus size: 18
10701326 TGTGAATTTT
10701336 AAATCTTTGTAAATCTTG
1 AAATCTTTGTAAATCTTG
*
10701354 AAATCTTTGAAAATCTT-
1 AAATCTTTGTAAATCTTG
*
10701371 -TA-C---G--AATCTTG
1 AAATCTTTGTAAATCTTG
* * *
10701382 AAAGCTTTATGAATCTTG
1 AAATCTTTGTAAATCTTG
*
10701400 AAATCTTTATAAATCTT-
1 AAATCTTTGTAAATCTTG
* *
10701417 AATATCTTTCTAAATCTTA
1 AA-ATCTTTGTAAATCTTG
* *
10701436 AAATTTTTGCAAATCTTG
1 AAATCTTTGTAAATCTTG
* *
10701454 AAATCTTCGCAAATCTTG
1 AAATCTTTGTAAATCTTG
10701472 AA
1 AA
10701474 TCATTTGCGA
Statistics
Matches: 97, Mismatches: 13, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
10 6 0.06
12 2 0.02
13 1 0.01
15 1 0.01
16 1 0.01
17 2 0.02
18 82 0.85
19 2 0.02
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (18 bp):
AAATCTTTGTAAATCTTG
Found at i:10701460 original size:36 final size:36
Alignment explanation
Indices: 10701354--10701460 Score: 108
Period size: 36 Copynumber: 2.9 Consensus size: 36
10701344 GTAAATCTTG
* *
10701354 AAATCTTTGAAAATCTTTACGAATCTTGAAAGCTTTAT
1 AAATC-TT-AAAATCTTTACAAATCTTGAAATCTTTAT
* * * *
10701392 GAATCTTGAAATCTTTATAAATCTT-AATATCTTTCT
1 AAATCTTAAAATCTTTACAAATCTTGAA-ATCTTTAT
* *
10701428 AAATCTTAAAATTTTTGCAAATCTTGAAATCTT
1 AAATCTTAAAATCTTTACAAATCTTGAAATCTT
10701461 CGCAAATCTT
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
35 2 0.04
36 46 0.82
37 4 0.07
38 4 0.07
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.43
Consensus pattern (36 bp):
AAATCTTAAAATCTTTACAAATCTTGAAATCTTTAT
Found at i:10702004 original size:6 final size:6
Alignment explanation
Indices: 10701995--10702058 Score: 67
Period size: 6 Copynumber: 10.8 Consensus size: 6
10701985 GTTTAAATTG
* * * * *
10701995 ATTTTA ATTTTA ATTTTA ATTTTG ACTTTA ATTTTA ATGTTC ACTTTA
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA
*
10702043 ATTTT- ATTTTA CTTTT
1 ATTTTA ATTTTA ATTTT
10702059 GGAGTAATTT
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
5 5 0.11
6 41 0.89
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (6 bp):
ATTTTA
Found at i:10702024 original size:18 final size:17
Alignment explanation
Indices: 10702003--10702057 Score: 76
Period size: 18 Copynumber: 3.2 Consensus size: 17
10701993 TGATTTTAAT
10702003 TTTAATTTTAATTTTGAC
1 TTTAATTTTAATTTT-AC
*
10702021 TTTAATTTTAATGTTCAC
1 TTTAATTTTAAT-TTTAC
10702039 TTTAATTTT-ATTTTAC
1 TTTAATTTTAATTTTAC
10702055 TTT
1 TTT
10702058 TGGAGTAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 7 0.21
17 2 0.06
18 23 0.68
19 2 0.06
ACGTcount: A:0.25, C:0.07, G:0.04, T:0.64
Consensus pattern (17 bp):
TTTAATTTTAATTTTAC
Found at i:10702101 original size:18 final size:17
Alignment explanation
Indices: 10702075--10702120 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 17
10702065 ATTTTTATTT
10702075 TTAAAAAAATTAGAAAA
1 TTAAAAAAATTAGAAAA
10702092 TTAAAGAAAATTAGAAAA
1 TTAAA-AAAATTAGAAAA
10702110 GTATAAAAAAA
1 -T-TAAAAAAA
10702121 AAGTTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.19
18 12 0.46
19 5 0.19
20 4 0.15
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.22
Consensus pattern (17 bp):
TTAAAAAAATTAGAAAA
Found at i:10703668 original size:13 final size:13
Alignment explanation
Indices: 10703652--10703676 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10703642 CCTTACATTT
10703652 TTTATATTTATTA
1 TTTATATTTATTA
10703665 TTTATATTTATT
1 TTTATATTTATT
10703677 TCTAGGGTTA
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTATATTTATTA
Found at i:10704505 original size:22 final size:20
Alignment explanation
Indices: 10704461--10704519 Score: 59
Period size: 22 Copynumber: 2.9 Consensus size: 20
10704451 CAAGTTAGTC
* *
10704461 AAAAGAGAAATAAAATGTTAG
1 AAAAGAGAATTTAAA-GTTAG
10704482 AAAAAGAGAATTTAAAGTT-G
1 -AAAAGAGAATTTAAAGTTAG
10704502 AGAAAGA-AATTTAAAGTT
1 A-AAAGAGAATTTAAAGTT
10704520 TTGATGAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 12 0.35
20 6 0.18
21 3 0.09
22 13 0.38
ACGTcount: A:0.58, C:0.00, G:0.19, T:0.24
Consensus pattern (20 bp):
AAAAGAGAATTTAAAGTTAG
Found at i:10707344 original size:21 final size:21
Alignment explanation
Indices: 10707320--10707380 Score: 106
Period size: 21 Copynumber: 3.0 Consensus size: 21
10707310 TATGATAATT
10707320 TATATTATATTTGCATGATTA
1 TATATTATATTTGCATGATTA
10707341 TATATTATATTTGCATGATTA
1 TATATTATATTTGCATGATTA
*
10707362 T-TAATATATTTGCATGATT
1 TATATTATATTTGCATGATT
10707381 TAACTTAATA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
20 17 0.44
21 22 0.56
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (21 bp):
TATATTATATTTGCATGATTA
Found at i:10707465 original size:8 final size:8
Alignment explanation
Indices: 10707455--10707513 Score: 82
Period size: 8 Copynumber: 7.4 Consensus size: 8
10707445 ATTTTTTATT
*
10707455 ATTACATT
1 ATTACATG
10707463 ATTACATG
1 ATTACATG
10707471 ATTACATG
1 ATTACATG
*
10707479 ATTGCATG
1 ATTACATG
10707487 ATTACATG
1 ATTACATG
*
10707495 ATTGCATG
1 ATTACATG
*
10707503 ATTGCATG
1 ATTACATG
10707511 ATT
1 ATT
10707514 TGATTCTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 47 1.00
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (8 bp):
ATTACATG
Found at i:10707476 original size:16 final size:16
Alignment explanation
Indices: 10707455--10707513 Score: 91
Period size: 16 Copynumber: 3.7 Consensus size: 16
10707445 ATTTTTTATT
* *
10707455 ATTACATTATTACATG
1 ATTACATGATTGCATG
10707471 ATTACATGATTGCATG
1 ATTACATGATTGCATG
10707487 ATTACATGATTGCATG
1 ATTACATGATTGCATG
*
10707503 ATTGCATGATT
1 ATTACATGATT
10707514 TGATTCTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (16 bp):
ATTACATGATTGCATG
Found at i:10707495 original size:24 final size:24
Alignment explanation
Indices: 10707463--10707513 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
10707453 TTATTACATT
10707463 ATTACATGATTACATGATTGCATG
1 ATTACATGATTACATGATTGCATG
*
10707487 ATTACATGATTGCATGATTGCATG
1 ATTACATGATTACATGATTGCATG
10707511 ATT
1 ATT
10707514 TGATTCTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (24 bp):
ATTACATGATTACATGATTGCATG
Found at i:10712450 original size:13 final size:13
Alignment explanation
Indices: 10712432--10712457 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10712422 GGCAAGCTGG
10712432 GGATAACTATTAT
1 GGATAACTATTAT
10712445 GGATAACTATTAT
1 GGATAACTATTAT
10712458 ATAATGTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
GGATAACTATTAT
Found at i:10712876 original size:18 final size:20
Alignment explanation
Indices: 10712835--10712876 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
10712825 TTATTATTTT
* *
10712835 ATATTAAAACAATAATAAAG
1 ATATTAAAACAATAAAAAAA
10712855 ATATT-AAA-AATAAAAAAA
1 ATATTAAAACAATAAAAAAA
10712873 ATAT
1 ATAT
10712877 AGAAACTGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 12 0.60
19 3 0.15
20 5 0.25
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (20 bp):
ATATTAAAACAATAAAAAAA
Found at i:10714211 original size:27 final size:29
Alignment explanation
Indices: 10714176--10714229 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
10714166 TTATCTCATT
*
10714176 AATAAATAAATATT-A-ATTTTTAAAATA
1 AATAAATAAAAATTAATATTTTTAAAATA
*
10714203 AATATATAAAAATTAATATTTTTAAAA
1 AATAAATAAAAATTAATATTTTTAAAA
10714230 AATTTATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 12 0.52
28 1 0.04
29 10 0.43
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (29 bp):
AATAAATAAAAATTAATATTTTTAAAATA
Found at i:10714232 original size:17 final size:18
Alignment explanation
Indices: 10714210--10714254 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
10714200 ATAAATATAT
10714210 AAAAATTAATATTT-TTA
1 AAAAATTAATATTTATTA
10714227 AAAAATT--TATTTATTA
1 AAAAATTAATATTTATTA
10714243 ATAAAA-TAATAT
1 A-AAAATTAATAT
10714255 CATTTAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
15 5 0.21
16 5 0.21
17 11 0.46
18 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAAATTAATATTTATTA
Found at i:10714283 original size:24 final size:23
Alignment explanation
Indices: 10714229--10714306 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 23
10714219 TATTTTTAAA
*
10714229 AAATTTATTTATTAATAAAATAAT
1 AAATTTATTTATTAATAATAT-AT
* *
10714253 ATCATTTAATTAATTAATAATATAT
1 A-AATTT-ATTTATTAATAATATAT
*
10714278 AAATTTTATTTATTGATAATATAT
1 AAA-TTTATTTATTAATAATATAT
10714302 CAAAT
1 -AAAT
10714307 ATAAAATTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
24 18 0.41
25 13 0.30
26 13 0.30
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (23 bp):
AAATTTATTTATTAATAATATAT
Found at i:10714670 original size:22 final size:23
Alignment explanation
Indices: 10714645--10714692 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
10714635 ATTAAATGAG
*
10714645 TTAAATTCAAATATTTTA-ATAT
1 TTAAATTCAAATAATTTATATAT
*
10714667 TT-AATTTAAATAATTTATATAT
1 TTAAATTCAAATAATTTATATAT
10714689 TTAA
1 TTAA
10714693 TTAAAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 13 0.59
22 8 0.36
23 1 0.05
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
TTAAATTCAAATAATTTATATAT
Found at i:10714677 original size:21 final size:22
Alignment explanation
Indices: 10714648--10714699 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
10714638 AAATGAGTTA
* *
10714648 AATTCAAATATTTTA-ATATTT
1 AATTAAAATAATTTATATATTT
*
10714669 AATTTAAATAATTTATATATTT
1 AATTAAAATAATTTATATATTT
10714691 AATTAAAAT
1 AATTAAAAT
10714700 TATATATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 13 0.48
22 14 0.52
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
AATTAAAATAATTTATATATTT
Found at i:10714681 original size:48 final size:47
Alignment explanation
Indices: 10714565--10714684 Score: 120
Period size: 48 Copynumber: 2.5 Consensus size: 47
10714555 TTATAAATTA
* ** *
10714565 TTTAAATTTAATTAAAATAAAAT-TTAAACTGATTCAATTCAAATAT
1 TTTAAATTTAATTTAAATAATTTATTAAACTGATTAAATTCAAATAT
* * *
10714611 TATTGAATTTAA-ATAATTTAATTTATTAAA-TGAGTTAAATTCAAATAT
1 T-TTAAATTTAATTTAA-ATAATTTATTAAACTGA-TTAAATTCAAATAT
10714659 TTTAATATTTAATTTAAATAATTTAT
1 TTTAA-ATTTAATTTAAATAATTTAT
10714685 ATATTTAATT
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
46 3 0.05
47 19 0.33
48 33 0.57
49 3 0.05
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (47 bp):
TTTAAATTTAATTTAAATAATTTATTAAACTGATTAAATTCAAATAT
Found at i:10714710 original size:19 final size:19
Alignment explanation
Indices: 10714681--10714750 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 19
10714671 TTTAAATAAT
10714681 TTATATA-TTTAATTAAAA
1 TTATATATTTTAATTAAAA
* *
10714699 TTATATATTTTAATATATAT
1 TTATATATTTTAAT-TAAAA
* *
10714719 TTTTATTATTTTAACTAAAAA
1 TTATA-TATTTTAA-TTAAAA
10714740 TTAT-TATTTTA
1 TTATATATTTTA
10714751 CTTTTATATA
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
18 7 0.17
19 13 0.32
20 7 0.17
21 13 0.32
22 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (19 bp):
TTATATATTTTAATTAAAA
Found at i:10716314 original size:33 final size:33
Alignment explanation
Indices: 10716252--10716315 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
10716242 TTATAATGTT
* *
10716252 TAAAACAAAAAGTAATTAAATTTTTAAAAATTG
1 TAAAACAAAAAATAATTAAAATTTTAAAAATTG
10716285 TAAAACAAAAAATAATTAAAATTTTAAAAAT
1 TAAAACAAAAAATAATTAAAATTTTAAAAAT
10716316 AATTATAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (33 bp):
TAAAACAAAAAATAATTAAAATTTTAAAAATTG
Found at i:10718708 original size:2 final size:2
Alignment explanation
Indices: 10718701--10718731 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10718691 TAAAATGGGC
10718701 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
10718732 AGATATCAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10720918 original size:17 final size:17
Alignment explanation
Indices: 10720876--10720922 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
10720866 AAGACCAATG
*
10720876 AAATC-ATAAAACTTGCA
1 AAATCAATAAAA-TTGAA
**
10720893 AAAGAAATAAAATTGAA
1 AAATCAATAAAATTGAA
10720910 AAATCAATAAAAT
1 AAATCAATAAAAT
10720923 ATTTTTATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.64, C:0.09, G:0.06, T:0.21
Consensus pattern (17 bp):
AAATCAATAAAATTGAA
Found at i:10721764 original size:14 final size:15
Alignment explanation
Indices: 10721745--10721781 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
10721735 ATTTTTTGTC
10721745 TTTTTAAAT-ATTTA
1 TTTTTAAATAATTTA
10721759 TTTTTAAATAATTTA
1 TTTTTAAATAATTTA
*
10721774 TTATTAAA
1 TTTTTAAA
10721782 ATGTAAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTTTAAATAATTTA
Found at i:10721985 original size:59 final size:59
Alignment explanation
Indices: 10721800--10721985 Score: 134
Period size: 59 Copynumber: 3.1 Consensus size: 59
10721790 ACATAAAAAA
*
10721800 TTAATATTCCAACCTTTCATATTTTACTTTTTACTTCAAATAAATATTGAATTAACAAC
1 TTAATATTCCAACCTTTCATATTTTACTTTTTACTTCAAATAAATACTGAATTAACAAC
** * * ** * * * *
10721859 TTAATA-T--AATATATAT-ATATATATA-TATGCAC-ACACATCATTAATGAGCTTAACATAA-
1 TTAATATTCCAACCT-T-TCATAT-TTTACTTTTTACTTCA-A--ATAAAT-A-CTGAA-TTAAC
*
10721917 AAA
57 AAC
10721920 TTAATATTCCAACCTTTCATATTTTACTTTTTACTTCAAATAAATACTGAATTAACAAC
1 TTAATATTCCAACCTTTCATATTTTACTTTTTACTTCAAATAAATACTGAATTAACAAC
10721979 TTAATAT
1 TTAATAT
10721986 ATAATATATA
Statistics
Matches: 88, Mismatches: 23, Indels: 32
0.62 0.16 0.22
Matches are distributed among these distances:
56 5 0.06
57 10 0.11
58 8 0.09
59 24 0.27
60 2 0.02
61 16 0.18
62 8 0.09
63 10 0.11
64 5 0.06
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (59 bp):
TTAATATTCCAACCTTTCATATTTTACTTTTTACTTCAAATAAATACTGAATTAACAAC
Found at i:10724015 original size:18 final size:19
Alignment explanation
Indices: 10723970--10724016 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
10723960 TCAAGTTGGT
* *
10723970 TTTAGGATTTGGGAGTTAG
1 TTTAGGGTTTGGGAGTTAA
* *
10723989 TGTATGGTTTGGG-GTTAA
1 TTTAGGGTTTGGGAGTTAA
10724007 TTTAGGGTTT
1 TTTAGGGTTT
10724017 AGGTTAGGGA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.17, C:0.00, G:0.36, T:0.47
Consensus pattern (19 bp):
TTTAGGGTTTGGGAGTTAA
Found at i:10724120 original size:26 final size:26
Alignment explanation
Indices: 10724066--10724134 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 26
10724056 AGGTCTTGGG
* *
10724066 TTTAAGGTTTAGATTTACGGTCTAGA
1 TTTAAGGTTTAGGTTTACGGTCGAGA
*
10724092 TTTAAGGTTTAGGTTTAGGGTTCGA-A
1 TTTAAGGTTTAGGTTTACGG-TCGAGA
*
10724118 TTTAGGGTTTAAGGTTT
1 TTTAAGGTTT-AGGTTT
10724135 GGACTATAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 28 0.76
27 9 0.24
ACGTcount: A:0.23, C:0.04, G:0.28, T:0.45
Consensus pattern (26 bp):
TTTAAGGTTTAGGTTTACGGTCGAGA
Found at i:10724168 original size:13 final size:13
Alignment explanation
Indices: 10724064--10724168 Score: 61
Period size: 13 Copynumber: 7.9 Consensus size: 13
10724054 CAAGGTCTTG
*
10724064 GGTTTAAGGTTTA
1 GGTTTAGGGTTTA
* * *
10724077 GATTTACGGTCTA
1 GGTTTAGGGTTTA
* *
10724090 GATTTAAGGTTTA
1 GGTTTAGGGTTTA
*
10724103 GGTTTAGGG-TTC
1 GGTTTAGGGTTTA
*
10724115 GAATTTAGGGTTTAA
1 G-GTTTAGGGTTT-A
* *
10724130 GGTTT-GGACTATA
1 GGTTTAGG-GTTTA
*
10724143 GGTTGTTGGGTTTA
1 GGTT-TAGGGTTTA
10724157 GGTTTAGGGTTT
1 GGTTTAGGGTTT
10724169 GGATTTGAAG
Statistics
Matches: 70, Mismatches: 16, Indels: 12
0.71 0.16 0.12
Matches are distributed among these distances:
12 3 0.04
13 49 0.70
14 15 0.21
15 3 0.04
ACGTcount: A:0.20, C:0.04, G:0.32, T:0.44
Consensus pattern (13 bp):
GGTTTAGGGTTTA
Found at i:10724188 original size:26 final size:26
Alignment explanation
Indices: 10724159--10724209 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
10724149 TGGGTTTAGG
*
10724159 TTTAGGGTTTGGATTTGAAGTTTGGT
1 TTTAGGGTTTCGATTTGAAGTTTGGT
*
10724185 TTTAGGGTTTCGATTTGATGTTTGG
1 TTTAGGGTTTCGATTTGAAGTTTGG
10724210 ATAGGAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.33, T:0.51
Consensus pattern (26 bp):
TTTAGGGTTTCGATTTGAAGTTTGGT
Found at i:10726171 original size:30 final size:31
Alignment explanation
Indices: 10726123--10726203 Score: 80
Period size: 30 Copynumber: 2.7 Consensus size: 31
10726113 AAGATTGACT
*
10726123 CAAGTTTAA-TATGATTTGACTGAT-TTTAAC
1 CAAGTTTAATTAAG-TTTGACTGATGTTTAAC
* **
10726153 CAA-TTTTATCTAAGTTTGA-TTTTGTTTAAC
1 CAAGTTTAAT-TAAGTTTGACTGATGTTTAAC
10726183 CAAGTTTAATTAAGTTTGACT
1 CAAGTTTAATTAAGTTTGACT
10726204 TTAGGACATT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
29 6 0.15
30 26 0.63
31 9 0.22
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (31 bp):
CAAGTTTAATTAAGTTTGACTGATGTTTAAC
Found at i:10726917 original size:30 final size:30
Alignment explanation
Indices: 10726883--10726940 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
10726873 GAAATCATCC
* **
10726883 AAAAATCTGAGATTTTGCTTAAAGGTCTTT
1 AAAAATCTAAGATTTTGCCCAAAGGTCTTT
*
10726913 AAAAATTTAAGATTTTGCCCAAAGGTCT
1 AAAAATCTAAGATTTTGCCCAAAGGTCT
10726941 AGGAAAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (30 bp):
AAAAATCTAAGATTTTGCCCAAAGGTCTTT
Found at i:10726965 original size:39 final size:39
Alignment explanation
Indices: 10726911--10727006 Score: 122
Period size: 39 Copynumber: 2.4 Consensus size: 39
10726901 TTAAAGGTCT
**
10726911 TTAAAAATTTAAGATTTTGCCCAAAGGTCTAGGAAA-ATA
1 TTAAAAATTTAAGATTTCACCCAAAGGTCTAGGAAATA-A
* * *
10726950 TTAAAAATTTAAGATTTCACCTAAAGGTTTTGGAAATAA
1 TTAAAAATTTAAGATTTCACCCAAAGGTCTAGGAAATAA
10726989 TTAAAAAATTTAAGATTT
1 TT-AAAAATTTAAGATTT
10727007 AACTTGGAGG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
39 34 0.68
40 16 0.32
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.35
Consensus pattern (39 bp):
TTAAAAATTTAAGATTTCACCCAAAGGTCTAGGAAATAA
Found at i:10729060 original size:33 final size:31
Alignment explanation
Indices: 10729022--10729082 Score: 77
Period size: 33 Copynumber: 1.9 Consensus size: 31
10729012 CTTTCTTTTG
* *
10729022 TTTCTTCCCCTCTTTTTTTTTTCTTTCATTTAT
1 TTTCTTCCCCT-TTTCTTATTT-TTTCATTTAT
*
10729055 TTTCTTTCCCTTTTCTTATTTTTTCATT
1 TTTCTTCCCCTTTTCTTATTTTTTCATT
10729083 CTTTAACTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 7 0.28
32 8 0.32
33 10 0.40
ACGTcount: A:0.07, C:0.23, G:0.00, T:0.70
Consensus pattern (31 bp):
TTTCTTCCCCTTTTCTTATTTTTTCATTTAT
Found at i:10729608 original size:13 final size:14
Alignment explanation
Indices: 10729580--10729628 Score: 57
Period size: 13 Copynumber: 3.5 Consensus size: 14
10729570 TTTTCATTTC
10729580 ATTTTTCATTTTTTTT
1 ATTTTTCA--TTTTTT
10729596 ATTTTT-ATTTTTT
1 ATTTTTCATTTTTT
*
10729609 ATTTTTCATTCTTT
1 ATTTTTCATTTTTT
10729623 -TTTTTC
1 ATTTTTC
10729629 TTCTTTTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
13 18 0.58
14 6 0.19
15 1 0.03
16 6 0.19
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (14 bp):
ATTTTTCATTTTTT
Found at i:10729632 original size:12 final size:13
Alignment explanation
Indices: 10729557--10729637 Score: 56
Period size: 14 Copynumber: 5.8 Consensus size: 13
10729547 TTTCTTCCTT
10729557 ATTCTTTTTTTTC
1 ATTCTTTTTTTTC
*
10729570 TTTTCATTTCATTTTTC
1 -ATTC-TTT--TTTTTC
* *
10729587 ATTTTTTTTATTTTT
1 A-TTCTTTT-TTTTC
*
10729602 ATTTTTTATTTTTC
1 ATTCTTT-TTTTTC
10729616 ATTCTTTTTTTTC
1 ATTCTTTTTTTTC
10729629 -TTCTTTTTT
1 ATTCTTTTTT
10729638 CTTTGCATGC
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
12 9 0.16
13 6 0.11
14 20 0.36
15 9 0.16
16 3 0.05
17 8 0.15
ACGTcount: A:0.10, C:0.11, G:0.00, T:0.79
Consensus pattern (13 bp):
ATTCTTTTTTTTC
Found at i:10729635 original size:10 final size:9
Alignment explanation
Indices: 10729558--10729641 Score: 55
Period size: 10 Copynumber: 8.7 Consensus size: 9
10729548 TTCTTCCTTA
10729558 TTCTTTTTT
1 TTCTTTTTT
*
10729567 TTCTTTTCAT
1 TTCTTTT-TT
10729577 TTCATTTTTCAT
1 TTC-TTTTT--T
10729589 TT-TTTTTAT
1 TTCTTTTT-T
10729598 TT-TTATTTT
1 TTCTT-TTTT
* *
10729607 TTATTTTTCA
1 TTCTTTTT-T
10729617 TTCTTTTTT
1 TTCTTTTTT
10729626 TTCTTCTTTT
1 TTCTT-TTTT
10729636 TTCTTT
1 TTCTTT
10729642 GCATGCCCCC
Statistics
Matches: 62, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
9 25 0.40
10 30 0.48
11 4 0.06
12 3 0.05
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:10729635 original size:29 final size:28
Alignment explanation
Indices: 10729557--10729637 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 28
10729547 TTTCTTCCTT
*
10729557 ATTCTTTTTTTTCTTTTCATTTCATTTTTC
1 ATTCTTTTTTTTCTTTT--TTTTATTTTTC
*
10729587 ATT-TTTTTTATTTTTATTTTTTATTTTTC
1 ATTCTTTTTT-TTCTT-TTTTTTATTTTTC
10729616 ATTCTTTTTTTTCTTCTTTTTT
1 ATTCTTTTTTTTCTT-TTTTTT
10729638 CTTTGCATGC
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
29 29 0.66
30 13 0.30
31 2 0.05
ACGTcount: A:0.10, C:0.11, G:0.00, T:0.79
Consensus pattern (28 bp):
ATTCTTTTTTTTCTTTTTTTTATTTTTC
Found at i:10732434 original size:13 final size:14
Alignment explanation
Indices: 10732416--10732444 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10732406 GGAAAAACTC
10732416 TTTTTGTTT-TTTT
1 TTTTTGTTTCTTTT
10732429 TTTTTGTTTCTTTT
1 TTTTTGTTTCTTTT
10732443 TT
1 TT
10732445 ATGTGTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.00, C:0.03, G:0.07, T:0.90
Consensus pattern (14 bp):
TTTTTGTTTCTTTT
Found at i:10732490 original size:19 final size:19
Alignment explanation
Indices: 10732466--10732502 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
10732456 AGATAATACT
10732466 AAAAAAAATCTTTTTTTAA
1 AAAAAAAATCTTTTTTTAA
*
10732485 AAAAAAAATTTTTTTTTA
1 AAAAAAAATCTTTTTTTA
10732503 TTATTGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
AAAAAAAATCTTTTTTTAA
Found at i:10732496 original size:17 final size:17
Alignment explanation
Indices: 10732465--10732499 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10732455 TAGATAATAC
**
10732465 TAAAAAAAATCTTTTTT
1 TAAAAAAAAAATTTTTT
10732482 TAAAAAAAAAATTTTTT
1 TAAAAAAAAAATTTTTT
10732499 T
1 T
10732500 TTATTATTGT
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:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
TAAAAAAAAAATTTTTT
Found at i:10733304 original size:29 final size:29
Alignment explanation
Indices: 10733250--10733308 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 29
10733240 AACATCACAA
10733250 AATTTGTTTTTCAAAATTTTTTCTTTTTTT
1 AATTTGTTTTTC-AAATTTTTTCTTTTTTT
**
10733280 AATTT-TTTTTC-AATTTTTTCACTTTTT
1 AATTTGTTTTTCAAATTTTTTCTTTTTTT
10733307 AA
1 AA
10733309 GAAAACAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 16 0.59
29 6 0.22
30 5 0.19
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (29 bp):
AATTTGTTTTTCAAATTTTTTCTTTTTTT
Found at i:10734173 original size:14 final size:15
Alignment explanation
Indices: 10734154--10734186 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
10734144 ATGCATGACA
10734154 ATAAAATATGAATG-
1 ATAAAATATGAATGC
10734168 ATAAAATATGAATGC
1 ATAAAATATGAATGC
10734183 ATAA
1 ATAA
10734187 TAATTAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.58, C:0.03, G:0.12, T:0.27
Consensus pattern (15 bp):
ATAAAATATGAATGC
Found at i:10734361 original size:13 final size:13
Alignment explanation
Indices: 10734289--10734428 Score: 88
Period size: 13 Copynumber: 10.4 Consensus size: 13
10734279 GTTTGGAGTA
*
10734289 ATTTAAGGTTTAG
1 ATTTAGGGTTTAG
* *
10734302 -GTTAGGGTTTTGG
1 ATTTAGGG-TTTAG
*
10734315 CTTTAGGGTTTAGG
1 ATTTAGGGTTTA-G
*
10734329 ATTT-GGCTTT-G
1 ATTTAGGGTTTAG
*
10734340 ATCTAGGGTTTAG
1 ATTTAGGGTTTAG
*
10734353 ATTTAGGGTTTGG
1 ATTTAGGGTTTAG
* *
10734366 GTTTAGGGCTTAG
1 ATTTAGGGTTTAG
*
10734379 GTTTAGGGTTTAGG
1 ATTTAGGGTTTA-G
10734393 ATTTAAGTTTAGGTTTAG
1 ATTT-AG----GGTTTAG
*
10734411 ATTTAGGGTTTGG
1 ATTTAGGGTTTAG
10734424 ATTTA
1 ATTTA
10734429 AGATTTAGGA
Statistics
Matches: 99, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
11 4 0.04
12 10 0.10
13 56 0.57
14 14 0.14
15 2 0.02
17 2 0.02
18 5 0.05
19 6 0.06
ACGTcount: A:0.19, C:0.03, G:0.33, T:0.46
Consensus pattern (13 bp):
ATTTAGGGTTTAG
Found at i:10734367 original size:6 final size:7
Alignment explanation
Indices: 10734343--10734421 Score: 71
Period size: 6 Copynumber: 12.1 Consensus size: 7
10734333 GGCTTTGATC
10734343 TAGGGTT
1 TAGGGTT
*
10734350 TA-GATT
1 TAGGGTT
10734356 TAGGGTT
1 TAGGGTT
10734363 T-GGGTT
1 TAGGGTT
*
10734369 TAGGGCT
1 TAGGGTT
10734376 TA-GGTT
1 TAGGGTT
10734382 TAGGGTT
1 TAGGGTT
*
10734389 TAGGATT
1 TAGGGTT
*
10734396 TA-AGTT
1 TAGGGTT
10734402 TA-GGTT
1 TAGGGTT
*
10734408 TA-GATT
1 TAGGGTT
10734414 TAGGGTT
1 TAGGGTT
10734421 T
1 T
10734422 GGATTTAAGA
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
6 30 0.52
7 28 0.48
ACGTcount: A:0.19, C:0.01, G:0.34, T:0.46
Consensus pattern (7 bp):
TAGGGTT
Found at i:10734434 original size:20 final size:21
Alignment explanation
Indices: 10734343--10734437 Score: 87
Period size: 20 Copynumber: 4.9 Consensus size: 21
10734333 GGCTTTGATC
10734343 TAGGGTTT-AGATTTAGGGTT
1 TAGGGTTTAAGATTTAGGGTT
* **
10734363 T-GGGTTTAGGGCTTA-GGTT
1 TAGGGTTTAAGATTTAGGGTT
* *
10734382 TAGGGTTTAGGATTTA-AGTT
1 TAGGGTTTAAGATTTAGGGTT
10734402 TA-GGTTT-AGATTTAGGGTT
1 TAGGGTTTAAGATTTAGGGTT
*
10734421 T-GGATTTAAGATTTAGG
1 TAGGGTTTAAGATTTAGG
10734438 ATTTCAGTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
18 6 0.10
19 24 0.39
20 31 0.51
ACGTcount: A:0.21, C:0.01, G:0.34, T:0.44
Consensus pattern (21 bp):
TAGGGTTTAAGATTTAGGGTT
Found at i:10734572 original size:50 final size:50
Alignment explanation
Indices: 10734475--10734617 Score: 164
Period size: 50 Copynumber: 2.9 Consensus size: 50
10734465 TGCATATGAA
* * *
10734475 AAATTATGGAAATGCTATTGAT-AAAATGTAAAATTTGAAGCATGTAAC-
1 AAATTATGGAAATACCATTGATAAAAATGTAAAATTTGATGCATGTAACT
* * * * *
10734523 AACATTATGGAAATTCCATTGGTAAAAATGCAAACTCTGATGCATGTAACT
1 AA-ATTATGGAAATACCATTGATAAAAATGTAAAATTTGATGCATGTAACT
* * *
10734574 AAATTATTGAAATAACATTGATAAAAATGTAAATTTTGATGCAT
1 AAATTATGGAAATACCATTGATAAAAATGTAAAATTTGATGCAT
10734618 AGGGAATACA
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
48 2 0.03
49 17 0.22
50 57 0.73
51 2 0.03
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (50 bp):
AAATTATGGAAATACCATTGATAAAAATGTAAAATTTGATGCATGTAACT
Found at i:10736489 original size:24 final size:25
Alignment explanation
Indices: 10736449--10736505 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
10736439 TTATCATGCA
*
10736449 AAAATCATCACACATAT-ATATAAT
1 AAAATCATCACAAATATCATATAAT
*
10736473 AAAATCAT-ATCAAATATCATGTAAT
1 AAAATCATCA-CAAATATCATATAAT
*
10736498 AATATCAT
1 AAAATCAT
10736506 GCCTAGATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 1 0.04
24 14 0.50
25 13 0.46
ACGTcount: A:0.53, C:0.14, G:0.02, T:0.32
Consensus pattern (25 bp):
AAAATCATCACAAATATCATATAAT
Found at i:10736574 original size:17 final size:18
Alignment explanation
Indices: 10736554--10736587 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10736544 GCAAATATAT
*
10736554 TAATTATCATG-CAATAA
1 TAATAATCATGTCAATAA
10736571 TAATAATCATGTCAATA
1 TAATAATCATGTCAATA
10736588 TGCAAATCAA
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:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (18 bp):
TAATAATCATGTCAATAA
Found at i:10736831 original size:20 final size:20
Alignment explanation
Indices: 10736806--10737255 Score: 210
Period size: 20 Copynumber: 22.6 Consensus size: 20
10736796 TGCAAATAGA
*
10736806 CATGTAATTAAATATATAAT
1 CATGCAATTAAATATATAAT
* * *
10736826 CATGTAATTAACA-ATGTAAAA
1 CATGCAATTAA-ATATAT-AAT
* * *
10736847 CTTGTAATTGAAA-ATCTAAT
1 CATGCAATT-AAATATATAAT
*
10736867 CATGCAATTAACA-ATATAAA
1 CATGCAATTAA-ATATATAAT
* *
10736887 CATGCAAATAAATATATAAA
1 CATGCAATTAAATATATAAT
* *
10736907 CATGC----AACTA-ACAAT
1 CATGCAATTAAATATATAAT
*
10736922 -AT--AA-TAAACATATAAT
1 CATGCAATTAAATATATAAT
* *
10736938 CATGCAGTAAAATATATAAT
1 CATGCAATTAAATATATAAT
*
10736958 CAAGCAATTAACA-ATATAAAT
1 CATGCAATTAA-ATATAT-AAT
*
10736979 CATGCAATCAAATATATAAT
1 CATGCAATTAAATATATAAT
* *
10736999 CATGTAATTAACA-ATATAAAA
1 CATGCAATTAA-ATATAT-AAT
* *
10737020 CATGCAATTAAATATCTTAT
1 CATGCAATTAAATATATAAT
* *
10737040 CATGTAATTAACA-ATATAAAA
1 CATGCAATTAA-ATATAT-AAT
* *
10737061 CATGCAA--ATATATATTAT
1 CATGCAATTAAATATATAAT
*
10737079 CATGCAATTAACA-ATATAAAA
1 CATGCAATTAA-ATATAT-AAT
**
10737100 CACACAATTAAATATACT-AT
1 CATGCAATTAAATATA-TAAT
*
10737120 CATGCAATTAACA-ATATAAAA
1 CATGCAATTAA-ATATAT-AAT
10737141 CATGCAATTAAATATAGT-AT
1 CATGCAATTAAATATA-TAAT
*
10737161 CATGCAATTAACA-ATATAAAA
1 CATGCAATTAA-ATATAT-AAT
* *
10737182 CATGCAAATAAATATATTAT
1 CATGCAATTAAATATATAAT
10737202 CATGCAAATTAAATA-AGTAAT
1 CATGC-AATTAAATATA-TAAT
* * *
10737223 AATACAAATAACA-ATATAAAT
1 CATGCAATTAA-ATATAT-AAT
*
10737244 CATGCAAATAAA
1 CATGCAATTAAA
10737256 CATGCAATTA
Statistics
Matches: 328, Mismatches: 60, Indels: 84
0.69 0.13 0.18
Matches are distributed among these distances:
14 2 0.01
15 6 0.02
16 8 0.02
17 2 0.01
18 9 0.03
19 11 0.03
20 156 0.48
21 130 0.40
22 4 0.01
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (20 bp):
CATGCAATTAAATATATAAT
Found at i:10736853 original size:41 final size:41
Alignment explanation
Indices: 10736805--10737213 Score: 434
Period size: 41 Copynumber: 9.8 Consensus size: 41
10736795 ATGCAAATAG
* * *
10736805 ACATGTAATTAAATATATAATCATGTAATTAACAATGTAAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATATAAA
* * *
10736846 ACTTGTAATTGAAA-ATCTAATCATGCAATTAACAATAT-AA
1 ACATGCAATT-AAATATATAATCATGCAATTAACAATATAAA
* * *
10736886 ACATGCAAATAAATATATAAACATGCAACTAACAATATAATAAACATATA
1 ACATGCAATTAAATATATAATCATGCAATTAAC-A-AT-AT----A-A-A
* * *
10736936 ATCATGCAGTAAAATATATAATCAAGCAATTAACAATATAAA
1 A-CATGCAATTAAATATATAATCATGCAATTAACAATATAAA
* * *
10736978 TCATGCAATCAAATATATAATCATGTAATTAACAATATAAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATATAAA
* * *
10737019 ACATGCAATTAAATATCTTATCATGTAATTAACAATATAAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATATAAA
* *
10737060 ACATGCAA--ATATATATTATCATGCAATTAACAATATAAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATATAAA
**
10737099 ACACACAATTAAATATACT-ATCATGCAATTAACAATATAAA
1 ACATGCAATTAAATATA-TAATCATGCAATTAACAATATAAA
10737140 ACATGCAATTAAATATAGT-ATCATGCAATTAACAATATAAA
1 ACATGCAATTAAATATA-TAATCATGCAATTAACAATATAAA
* *
10737181 ACATGCAAATAAATATATTATCATGCAAATTAA
1 ACATGCAATTAAATATATAATCATGC-AATTAA
10737214 ATAAGTAATA
Statistics
Matches: 315, Mismatches: 35, Indels: 35
0.82 0.09 0.09
Matches are distributed among these distances:
39 37 0.12
40 26 0.08
41 201 0.64
42 13 0.04
43 3 0.01
44 1 0.00
48 2 0.01
49 3 0.01
50 3 0.01
51 26 0.08
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (41 bp):
ACATGCAATTAAATATATAATCATGCAATTAACAATATAAA
Found at i:10736955 original size:31 final size:31
Alignment explanation
Indices: 10736893--10736957 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
10736883 TAAACATGCA
* *
10736893 AATAAATATATAAACATGCAACTAACAATAT
1 AATAAACATATAAACATGCAACTAAAAATAT
* *
10736924 AATAAACATATAATCATGC-AGTAAAATATAT
1 AATAAACATATAAACATGCAACTAAAA-ATAT
10736955 AAT
1 AAT
10736958 CAAGCAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 5 0.17
31 24 0.83
ACGTcount: A:0.57, C:0.11, G:0.05, T:0.28
Consensus pattern (31 bp):
AATAAACATATAAACATGCAACTAAAAATAT
Found at i:10737086 original size:121 final size:122
Alignment explanation
Indices: 10736948--10737213 Score: 401
Period size: 121 Copynumber: 2.2 Consensus size: 122
10736938 CATGCAGTAA
* * * ** *
10736948 AATATATAATCAAGCAATTAACAATATAAATCATGCAATCAAATATA-TAATCATGTAATTAACA
1 AATATATTATCATGCAATTAACAATATAAAACACACAATCAAATATACT-ATCATGCAATTAACA
** *
10737012 ATATAAAACATGCAATTAAATATCTTATCATGTAATTAACAATATAAAACATGCAAAT
65 ATATAAAACATGCAATTAAATATAGTATCATGCAATTAACAATATAAAACATGCAAAT
*
10737070 -ATATATTATCATGCAATTAACAATATAAAACACACAATTAAATATACTATCATGCAATTAACAA
1 AATATATTATCATGCAATTAACAATATAAAACACACAATCAAATATACTATCATGCAATTAACAA
10737134 TATAAAACATGCAATTAAATATAGTATCATGCAATTAACAATATAAAACATGCAAAT
66 TATAAAACATGCAATTAAATATAGTATCATGCAATTAACAATATAAAACATGCAAAT
10737191 AAATATATTATCATGCAAATTAA
1 -AATATATTATCATGC-AATTAA
10737214 ATAAGTAATA
Statistics
Matches: 130, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
121 109 0.84
122 1 0.01
123 14 0.11
124 6 0.05
ACGTcount: A:0.52, C:0.13, G:0.05, T:0.30
Consensus pattern (122 bp):
AATATATTATCATGCAATTAACAATATAAAACACACAATCAAATATACTATCATGCAATTAACAA
TATAAAACATGCAATTAAATATAGTATCATGCAATTAACAATATAAAACATGCAAAT
Found at i:10737251 original size:62 final size:62
Alignment explanation
Indices: 10737048--10737255 Score: 200
Period size: 62 Copynumber: 3.4 Consensus size: 62
10737038 ATCATGTAAT
*
10737048 TAACAATATAAAACATGCAAAT--ATATATTATCATGCAATTAACA-ATA-TAA-AACACACAA
1 TAACAATATAAAACATGCAAATAAATATATTATCATGCAATTAA-ATATAGTAATAATACA-AA
* * * * * * * * *
10737107 TTA-AATATACTATCATGCAATTAACA-ATATAAAACATGCAATTAAATATAGT-ATCATGCAAT
1 TAACAATATA-AAACATGCAAATAA-ATATAT-TATCATGCAATTAAATATAGTAATAATACAAA
10737169 TAACAATATAAAACATGCAAATAAATATATTATCATGCAAATTAAATA-AGTAATAATACAAA
1 TAACAATATAAAACATGCAAATAAATATATTATCATGC-AATTAAATATAGTAATAATACAAA
*
10737231 TAACAATATAAATCATGCAAATAAA
1 TAACAATATAAAACATGCAAATAAA
10737256 CATGCAATTA
Statistics
Matches: 117, Mismatches: 20, Indels: 21
0.74 0.13 0.13
Matches are distributed among these distances:
58 6 0.05
59 11 0.09
61 15 0.13
62 75 0.64
63 10 0.09
ACGTcount: A:0.55, C:0.12, G:0.05, T:0.28
Consensus pattern (62 bp):
TAACAATATAAAACATGCAAATAAATATATTATCATGCAATTAAATATAGTAATAATACAAA
Found at i:10737279 original size:3 final size:3
Alignment explanation
Indices: 10737266--10737308 Score: 77
Period size: 3 Copynumber: 14.0 Consensus size: 3
10737256 CATGCAATTA
10737266 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10737309 GCAATCACAC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:10737348 original size:20 final size:20
Alignment explanation
Indices: 10737323--10737415 Score: 96
Period size: 20 Copynumber: 4.6 Consensus size: 20
10737313 TCACACAAAT
*
10737323 AAATAAATTGATAATCATGC
1 AAATAAATTAATAATCATGC
*
10737343 AAATAAATTAATAACCATGC
1 AAATAAATTAATAATCATGC
* * * *
10737363 AAACATATTAATAGTCATGG
1 AAATAAATTAATAATCATGC
* *
10737383 AAATATATTAATAAATCATAC
1 AAATAAATTAAT-AATCATGC
*
10737404 AAATATATTAAT
1 AAATAAATTAAT
10737416 CATGTAAATA
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
20 44 0.72
21 17 0.28
ACGTcount: A:0.53, C:0.10, G:0.06, T:0.31
Consensus pattern (20 bp):
AAATAAATTAATAATCATGC
Found at i:10737381 original size:40 final size:41
Alignment explanation
Indices: 10737337--10737415 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
10737327 AAATTGATAA
*
10737337 TCATGCAAATAAATTAAT-AACCATGCAAACATATTAATAG
1 TCATGCAAATAAATTAATAAACCATACAAACATATTAATAG
* * * *
10737377 TCATGGAAATATATTAATAAATCATACAAATATATTAAT
1 TCATGCAAATAAATTAATAAACCATACAAACATATTAAT
10737416 CATGTAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
40 16 0.48
41 17 0.52
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.32
Consensus pattern (41 bp):
TCATGCAAATAAATTAATAAACCATACAAACATATTAATAG
Found at i:10737442 original size:16 final size:16
Alignment explanation
Indices: 10737421--10737465 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
10737411 TTAATCATGT
10737421 AAATAAAATATTAGGC
1 AAATAAAATATTAGGC
* * *
10737437 AAATAAATTATCATGC
1 AAATAAAATATTAGGC
*
10737453 AAATATAATATTA
1 AAATAAAATATTA
10737466 ATCATGCAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (16 bp):
AAATAAAATATTAGGC
Found at i:10737451 original size:32 final size:33
Alignment explanation
Indices: 10737403--10737465 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
10737393 ATAAATCATA
* *
10737403 CAAATATATTAATCATGTAAATAAAATATTAGG
1 CAAATAAATTAATCATGCAAATAAAATATTAGG
*
10737436 CAAATAAATT-ATCATGCAAATATAATATTA
1 CAAATAAATTAATCATGCAAATAAAATATTA
10737466 ATCATGCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 18 0.67
33 9 0.33
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.33
Consensus pattern (33 bp):
CAAATAAATTAATCATGCAAATAAAATATTAGG
Found at i:10737471 original size:20 final size:20
Alignment explanation
Indices: 10737334--10737496 Score: 80
Period size: 20 Copynumber: 8.7 Consensus size: 20
10737324 AATAAATTGA
*
10737334 TAATCATGCAAATA-AATTAA
1 TAATCATGCAAATATAA-TAT
* * * *
10737354 TAACCATGCAAACATATTAA
1 TAATCATGCAAATATAATAT
* * *
10737374 TAGTCATGGAAATATATTAAT
1 TAATCATGCAAATATAAT-AT
* *
10737395 AAATCATAC-AA-AT-ATAT
1 TAATCATGCAAATATAATAT
*
10737412 TAATCATGTAAATA-AA-A-
1 TAATCATGCAAATATAATAT
* *
10737429 T-ATTAGGC-AA-ATAA-AT
1 TAATCATGCAAATATAATAT
10737445 T-ATCATGCAAATATAATAT
1 TAATCATGCAAATATAATAT
*
10737464 TAATCATGCAAATATGATAT
1 TAATCATGCAAATATAATAT
* *
10737484 TAGTCATACAAAT
1 TAATCATGCAAAT
10737497 TCAGGCAAAA
Statistics
Matches: 108, Mismatches: 24, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
14 1 0.01
15 5 0.05
16 10 0.09
17 11 0.10
18 8 0.07
19 7 0.06
20 59 0.55
21 7 0.06
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.32
Consensus pattern (20 bp):
TAATCATGCAAATATAATAT
Found at i:10738083 original size:19 final size:18
Alignment explanation
Indices: 10738061--10738102 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
10738051 TTCTTTTTTC
10738061 TTTTT-ACCTTTTTTTTAT
1 TTTTTAACC-TTTTTTTAT
*
10738079 TTTTTAATCTTTTTTTAT
1 TTTTTAACCTTTTTTTAT
10738097 TTTTTA
1 TTTTTA
10738103 TTTTTTACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTAACCTTTTTTTAT
Found at i:10738511 original size:43 final size:42
Alignment explanation
Indices: 10738440--10738636 Score: 185
Period size: 43 Copynumber: 4.7 Consensus size: 42
10738430 TTTTTTTTGA
* ** *
10738440 AAAATGCT-TCCCTACAATTGAGATTTTGAAACTTTTGAAAAAT
1 AAAATGCTCTCCC-ACAACTGAGGCTTTGGAAC-TTTGAAAAAT
10738483 AAAATGCTCTCCCACAACTGAGGCTTT-GAA----GAAAAAT
1 AAAATGCTCTCCCACAACTGAGGCTTTGGAACTTTGAAAAAT
* *
10738520 AAAATGCT-TCCCCACAACTAAGGCTTTGGAACTTTTAAAAAAT
1 AAAATGCTCT-CCCACAACTGAGGCTTTGGAAC-TTTGAAAAAT
* *
10738563 AAAATACTC-CTCCACAATTGAGGCTTTGGAACTTTGAAAAAAT
1 AAAATGCTCTC-CCACAACTGAGGCTTTGGAACTTTG-AAAAAT
* * *
10738606 AAAATGCTCCCCCACAACTAAGGTTTTGGAA
1 AAAATGCTCTCCCACAACTGAGGCTTTGGAA
10738637 AAGTAATATA
Statistics
Matches: 128, Mismatches: 14, Indels: 24
0.77 0.08 0.14
Matches are distributed among these distances:
36 1 0.01
37 31 0.24
38 3 0.02
42 6 0.05
43 82 0.64
44 5 0.04
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (42 bp):
AAAATGCTCTCCCACAACTGAGGCTTTGGAACTTTGAAAAAT
Found at i:10738520 original size:37 final size:37
Alignment explanation
Indices: 10738476--10738547 Score: 119
Period size: 37 Copynumber: 1.9 Consensus size: 37
10738466 TGAAACTTTT
*
10738476 GAAAAATAAAATGC-TCTCCCACAACTGAGGCTTTGAA
1 GAAAAATAAAATGCTTC-CCCACAACTAAGGCTTTGAA
10738513 GAAAAATAAAATGCTTCCCCACAACTAAGGCTTTG
1 GAAAAATAAAATGCTTCCCCACAACTAAGGCTTTG
10738548 GAACTTTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
37 31 0.94
38 2 0.06
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.22
Consensus pattern (37 bp):
GAAAAATAAAATGCTTCCCCACAACTAAGGCTTTGAA
Found at i:10738566 original size:80 final size:83
Alignment explanation
Indices: 10738440--10738636 Score: 240
Period size: 80 Copynumber: 2.4 Consensus size: 83
10738430 TTTTTTTTGA
* * * * * * *
10738440 AAAATGCTTCCCTACAATTGAGATTTTGAAACTTTTGAAAAATAAAATGCT-CTCCCACAACTGA
1 AAAATGCTTCCCCACAACTAAGGTTTTGGAACTTTTAAAAAATAAAATACTCCT-CCACAACTGA
10738504 GGCTTT-GAA-G-AAAAAT
65 GGCTTTGGAATGAAAAAAT
* *
10738520 AAAATGCTTCCCCACAACTAAGGCTTTGGAACTTTTAAAAAATAAAATACTCCTCCACAATTGAG
1 AAAATGCTTCCCCACAACTAAGGTTTTGGAACTTTTAAAAAATAAAATACTCCTCCACAACTGAG
10738585 GCTTTGGAACTTTGAAAAAAT
66 GCTTTGGAA---TGAAAAAAT
*
10738606 AAAATGCTCCCCCACAACTAAGGTTTTGGAA
1 AAAATGCTTCCCCACAACTAAGGTTTTGGAA
10738637 AAGTAATATA
Statistics
Matches: 99, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
80 58 0.59
81 5 0.05
85 1 0.01
86 35 0.35
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (83 bp):
AAAATGCTTCCCCACAACTAAGGTTTTGGAACTTTTAAAAAATAAAATACTCCTCCACAACTGAG
GCTTTGGAATGAAAAAAT
Found at i:10738610 original size:123 final size:121
Alignment explanation
Indices: 10738453--10738688 Score: 296
Period size: 123 Copynumber: 1.9 Consensus size: 121
10738443 ATGCTTCCCT
* * *
10738453 ACAATTGAGATTTTGAAACTTTTGAAAAATAAAATGCTCTCCCACAACTGAGGCTTTGAAGAAAA
1 ACAATTGAGACTTTGAAACTTTTGAAAAATAAAATGCTCCCCCACAACTAAGGCTTTG--GAAAA
* * *
10738518 ATAAAATGCTTCCCC-ACAACTAAGGCTTTGGAACTTTTAAAAAATAAAATACTCCTCC
64 ATAAAATAC-TCCCCAACAACTAAAGCTTTGAAACTTTTAAAAAATAAAATACTCCTCC
* * * *
10738576 ACAATTGAGGCTTTGGAAC-TTTGAAAAAATAAAATGCTCCCCCACAACTAAGGTTTTGGAAAAG
1 ACAATTGAGACTTTGAAACTTTTG-AAAAATAAAATGCTCCCCCACAACTAAGGCTTTGGAAAAA
* * * *
10738640 TAATATACTCCCCAATAACTAAAGCTTTTAAACTTTTGAAAAATAAAAT
65 TAAAATACTCCCCAACAACTAAAGCTTTGAAACTTTTAAAAAATAAAAT
10738689 GAGATCATAT
Statistics
Matches: 97, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
120 5 0.05
121 41 0.42
122 4 0.04
123 47 0.48
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (121 bp):
ACAATTGAGACTTTGAAACTTTTGAAAAATAAAATGCTCCCCCACAACTAAGGCTTTGGAAAAAT
AAAATACTCCCCAACAACTAAAGCTTTGAAACTTTTAAAAAATAAAATACTCCTCC
Found at i:10738991 original size:13 final size:13
Alignment explanation
Indices: 10738973--10738998 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10738963 TATGATAAAC
10738973 ACAATGAATGCAT
1 ACAATGAATGCAT
10738986 ACAATGAATGCAT
1 ACAATGAATGCAT
10738999 GAGCTAAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (13 bp):
ACAATGAATGCAT
Found at i:10746897 original size:19 final size:19
Alignment explanation
Indices: 10746853--10746899 Score: 62
Period size: 17 Copynumber: 2.5 Consensus size: 19
10746843 TTATGCATAT
10746853 AATAAATATAAAATCATGC
1 AATAAATATAAAATCATGC
*
10746872 AAT-AATA-ATAATCATGC
1 AATAAATATAAAATCATGC
10746889 AAATAAATATA
1 -AATAAATATA
10746900 TTAATAATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 9 0.38
18 7 0.29
19 7 0.29
20 1 0.04
ACGTcount: A:0.60, C:0.09, G:0.04, T:0.28
Consensus pattern (19 bp):
AATAAATATAAAATCATGC
Found at i:10747036 original size:19 final size:19
Alignment explanation
Indices: 10747009--10747045 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
10746999 ATTAAATATC
10747009 AAATCATGCAATTAATATAA
1 AAATCATGCAATT-ATATAA
10747029 AAAT-ATGCAATTATATA
1 AAATCATGCAATTATATA
10747046 TCATTCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.32
Consensus pattern (19 bp):
AAATCATGCAATTATATAA
Found at i:10747093 original size:19 final size:19
Alignment explanation
Indices: 10747071--10747124 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
10747061 ATAATAACAT
10747071 ATCATGCAATAAATATAAA
1 ATCATGCAATAAATATAAA
*
10747090 ATCATGCAAT-AATA-ATA
1 ATCATGCAATAAATATAAA
10747107 ATCATGCAAATAAATATA
1 ATCATGC-AATAAATATA
10747125 TTAATAATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
17 9 0.29
18 7 0.23
19 14 0.45
20 1 0.03
ACGTcount: A:0.56, C:0.11, G:0.06, T:0.28
Consensus pattern (19 bp):
ATCATGCAATAAATATAAA
Found at i:10747130 original size:24 final size:24
Alignment explanation
Indices: 10747102--10747170 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 24
10747092 CATGCAATAA
*
10747102 TAATAATCATGCAAATAAATATAT
1 TAATAATCATGCAAATAAATAAAT
* *
10747126 TAATAATCATTCAATCACACAAATAAAT
1 TAATAATCATGC-A--A-ATAAATAAAT
10747154 TAATAATCATGCAAATA
1 TAATAATCATGCAAATA
10747171 GACATGCAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
24 13 0.36
25 2 0.06
27 2 0.06
28 19 0.53
ACGTcount: A:0.54, C:0.13, G:0.03, T:0.30
Consensus pattern (24 bp):
TAATAATCATGCAAATAAATAAAT
Found at i:10747135 original size:60 final size:59
Alignment explanation
Indices: 10747010--10747140 Score: 149
Period size: 60 Copynumber: 2.2 Consensus size: 59
10747000 TTAAATATCA
* * * *
10747010 AATCATGCAATTAATATAAAAATATGCAATTATATATCATTCAAAATTAATATAATAAC
1 AATCATGCAATAAATATAAAAATATGCAATAATATATCATGCAAAATAAATATAATAAC
* *
10747069 ATATCATGCAATAAATAT-AAAATCATGCAATAATAATAATCATGC-AAATAAATATATTAAT
1 A-ATCATGCAATAAATATAAAAAT-ATGCAATAAT-AT-ATCATGCAAAATAAATATAATAAC
*
10747130 AATCATTCAAT
1 AATCATGCAAT
10747141 CACACAAATA
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
59 6 0.10
60 33 0.54
61 16 0.26
62 6 0.10
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.33
Consensus pattern (59 bp):
AATCATGCAATAAATATAAAAATATGCAATAATATATCATGCAAAATAAATATAATAAC
Found at i:10747235 original size:41 final size:41
Alignment explanation
Indices: 10747172--10747449 Score: 208
Period size: 41 Copynumber: 6.8 Consensus size: 41
10747162 ATGCAAATAG
*
10747172 ACATGCAATTAAATATATAATCATGCAATTAACAATGTGAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATGTAAA
* * **
10747213 ACAAGTAATTAAATAGCTAATCATGCAATTAACAATGTAAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATGTAAA
* * * * *
10747254 AGATGGAAATAAATATATAATCATGCAATTAACAATATCAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATGTAAA
* * *
10747295 TCATGCAATCAAATATATAATCATGCAATT-A-AATATATAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATGTA-AA
* ** * * * *
10747335 TCATGTGATTAACA-ATATAAAACATGCAAAT-A-AATATATTA
1 ACATGCAATTAA-ATATAT-AATCATGCAATTAACAATGTA-AA
* * *
10747376 TCATGCAATTAACA-ATATAAAACATGCAATTAACAATATAAA
1 ACATGCAATTAA-ATATAT-AATCATGCAATTAACAATGTAAA
** * * *
10747418 ACATATAAATAAATAAATTATCATGCAATTAA
1 ACATGCAATTAAATATATAATCATGCAATTAA
10747450 ATATAAAATA
Statistics
Matches: 195, Mismatches: 36, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
39 5 0.03
40 16 0.08
41 155 0.79
42 13 0.07
43 6 0.03
ACGTcount: A:0.52, C:0.12, G:0.07, T:0.29
Consensus pattern (41 bp):
ACATGCAATTAAATATATAATCATGCAATTAACAATGTAAA
Done.