Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 120 of 190
Found at i:18779693 original size:21 final size:21
Alignment explanation
Indices: 18779667--18779711 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
18779657 CTTAAGTGCG
18779667 ATTCTTCTCTCCTCTTTGCAA
1 ATTCTTCTCTCCTCTTTGCAA
* **
18779688 ATTCTTCTTTTTTCTTTGCAA
1 ATTCTTCTCTCCTCTTTGCAA
18779709 ATT
1 ATT
18779712 TGCTTCTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.04, T:0.56
Consensus pattern (21 bp):
ATTCTTCTCTCCTCTTTGCAA
Found at i:18793523 original size:15 final size:15
Alignment explanation
Indices: 18793503--18793540 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
18793493 ACATAAAAAG
18793503 GAAGAACTATCTCTT
1 GAAGAACTATCTCTT
*
18793518 GAAGAATTATCTCTT
1 GAAGAACTATCTCTT
18793533 GAAGAACT
1 GAAGAACT
18793541 TGCAACACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (15 bp):
GAAGAACTATCTCTT
Found at i:18794179 original size:3 final size:3
Alignment explanation
Indices: 18794171--18794195 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
18794161 TCTCTATCAT
18794171 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
18794196 TCAATGCATT
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:18794972 original size:31 final size:32
Alignment explanation
Indices: 18794937--18794999 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
18794927 TGTTTGATTG
*
18794937 TATGTATTTGA-TTCATTAATGGAGTTACATA
1 TATGTATATGATTTCATTAATGGAGTTACATA
** *
18794968 TATGTATATGATTTTTTTAATTGAGTTACATA
1 TATGTATATGATTTCATTAATGGAGTTACATA
18795000 ATCAGAACTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 10 0.37
32 17 0.63
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.49
Consensus pattern (32 bp):
TATGTATATGATTTCATTAATGGAGTTACATA
Found at i:18796032 original size:24 final size:23
Alignment explanation
Indices: 18795986--18796033 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
18795976 ATGGAAAAAA
*
18795986 ATTTTTAATTATTAAAATATTTT
1 ATTTTCAATTATTAAAATATTTT
18796009 ATTTTCAATGTATTGAAAAT-TTTT
1 ATTTTCAAT-TATT-AAAATATTTT
18796033 A
1 A
18796034 ATACCTTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 8 0.36
24 9 0.41
25 5 0.23
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (23 bp):
ATTTTCAATTATTAAAATATTTT
Found at i:18796984 original size:16 final size:16
Alignment explanation
Indices: 18796965--18796996 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
18796955 ACATTGAAAA
18796965 ACTTGAACAAAACTGC
1 ACTTGAACAAAACTGC
18796981 ACTTGAACAAAACTGC
1 ACTTGAACAAAACTGC
18796997 TCCTTACCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.25, G:0.12, T:0.19
Consensus pattern (16 bp):
ACTTGAACAAAACTGC
Found at i:18800427 original size:2 final size:2
Alignment explanation
Indices: 18800420--18800449 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18800410 GAATGGAAAT
18800420 TA TA 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 TA TA
18800450 GGCAGAAAGC
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):
TA
Found at i:18803352 original size:8 final size:8
Alignment explanation
Indices: 18803341--18803365 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
18803331 TTTATTTTAT
18803341 TATAATTA
1 TATAATTA
18803349 TATAATTA
1 TATAATTA
18803357 TATAATTA
1 TATAATTA
18803365 T
1 T
18803366 TCAGCTATAG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TATAATTA
Found at i:18805937 original size:19 final size:20
Alignment explanation
Indices: 18805913--18805963 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
18805903 CTTTACTTCC
18805913 TAGCATTTATCTTA-ATTTT
1 TAGCATTTATCTTACATTTT
*
18805932 TAGCATTTGT-TTACATTTT
1 TAGCATTTATCTTACATTTT
* *
18805951 TAGTATTTTTCTT
1 TAGCATTTATCTT
18805964 TTCTAAACGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 3 0.11
19 22 0.81
20 2 0.07
ACGTcount: A:0.22, C:0.10, G:0.08, T:0.61
Consensus pattern (20 bp):
TAGCATTTATCTTACATTTT
Found at i:18807305 original size:24 final size:24
Alignment explanation
Indices: 18807236--18807307 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
18807226 CATGTATACT
*
18807236 ATGGTGAAACTCTTATTATGGACA
1 ATGGTGAAACTCTTATTATGGGCA
* *
18807260 ATGATGAAACTCTTATAATGGGCA
1 ATGGTGAAACTCTTATTATGGGCA
18807284 ATGGTGAAACT-TTCATTATGGGCA
1 ATGGTGAAACTCTT-ATTATGGGCA
18807308 TGTCACATAC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 2 0.05
24 40 0.95
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.32
Consensus pattern (24 bp):
ATGGTGAAACTCTTATTATGGGCA
Found at i:18809415 original size:23 final size:23
Alignment explanation
Indices: 18809384--18809439 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
18809374 CAAATAATAC
*
18809384 CATGCAATAATATTATAATATAT
1 CATGCAATAATAATATAATATAT
* *
18809407 CATGTAATAATAATATGATATAT
1 CATGCAATAATAATATAATATAT
*
18809430 CATGCGATAA
1 CATGCAATAA
18809440 ACATAAGCTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.36
Consensus pattern (23 bp):
CATGCAATAATAATATAATATAT
Found at i:18809633 original size:17 final size:16
Alignment explanation
Indices: 18809613--18809647 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
18809603 TAAGCACTAA
18809613 AATATAAATATAAAAAT
1 AATATAAATA-AAAAAT
*
18809630 AATATATATAAAAAAT
1 AATATAAATAAAAAAT
18809646 AA
1 AA
18809648 AAAATTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AATATAAATAAAAAAT
Found at i:18809640 original size:15 final size:14
Alignment explanation
Indices: 18809611--18809648 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
18809601 AATAAGCACT
18809611 AAAATATAAATATA
1 AAAATATAAATATA
*
18809625 AAAATAATATATATA
1 AAAAT-ATAAATATA
18809640 AAAA-ATAAA
1 AAAATATAAA
18809649 AAATTAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 4 0.19
14 5 0.24
15 12 0.57
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAATATAAATATA
Found at i:18810546 original size:20 final size:20
Alignment explanation
Indices: 18810523--18810560 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18810513 TTCTTTTTAA
18810523 TTTGACTATTTTTTTGGACT
1 TTTGACTATTTTTTTGGACT
* *
18810543 TTTGATTTTTTTTTTGGA
1 TTTGACTATTTTTTTGGA
18810561 TTTCTTAAAA
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:0.13, C:0.05, G:0.16, T:0.66
Consensus pattern (20 bp):
TTTGACTATTTTTTTGGACT
Found at i:18819387 original size:22 final size:22
Alignment explanation
Indices: 18819351--18819393 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
18819341 TATCTAATTG
18819351 TTTAACTTTCTTATTGATTTTTC
1 TTTAACTTTCTTATT-ATTTTTC
*
18819374 TTTAAGTTT-TTATTATTTTT
1 TTTAACTTTCTTATTATTTTT
18819394 AAAACTCTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 5 0.26
23 8 0.42
ACGTcount: A:0.19, C:0.07, G:0.05, T:0.70
Consensus pattern (22 bp):
TTTAACTTTCTTATTATTTTTC
Found at i:18823269 original size:18 final size:19
Alignment explanation
Indices: 18823246--18823281 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
18823236 AAAAGAAGGA
18823246 TAAAGG-TTCTAGGTTTGC
1 TAAAGGATTCTAGGTTTGC
*
18823264 TAAAGGATTTTAGGTTTG
1 TAAAGGATTCTAGGTTTG
18823282 TCAAAAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.25, C:0.06, G:0.28, T:0.42
Consensus pattern (19 bp):
TAAAGGATTCTAGGTTTGC
Found at i:18826320 original size:225 final size:225
Alignment explanation
Indices: 18825929--18826350 Score: 738
Period size: 225 Copynumber: 1.9 Consensus size: 225
18825919 CTTTTAGTTA
18825929 TATCAAAGCATTATTATTCTTGTTTTCACCTTTAAGAAGCAACATGCTAGAATATCTTTAAACAC
1 TATCAAAGCATTATTATTCTTGTTTTCACCTTTAAGAAGCAACATGCTAGAATATCTTTAAACAC
*
18825994 TTAGAATGATTTTTAATAGTGAAAATTTGAGCACATGCTTTTAGACCAAATATTTTACAAAAATA
66 TTAGAATGATTTTTAATAGTGAAAATTTGAGCACATGCTTTTAGAACAAATATTTTACAAAAATA
* * *
18826059 TATACCCTAGGGTAGTATGAATTTATGGTAAAAATTTGGTATTAAAATCACTTATGGTTTGAGAA
131 TATACCCAAAGGTAGTATGAATTTATGGTAAAAATTTGGTATTAAAATCACTTATGGTTTAAGAA
18826124 AAAAAATCATACTCAAATTGGTTTTAGACC
196 AAAAAATCATACTCAAATTGGTTTTAGACC
* * *
18826154 TATCAAAGCATTATTATTCTTGTTTTCACCTTTAAGAAGCAGCATGTTAGAATATGTTTAGAA-A
1 TATCAAAGCATTATTATTCTTGTTTTCACCTTTAAGAAGCAACATGCTAGAATATCTTTA-AACA
* * *
18826218 CTTGGAATGATTTTTAGTAGTGAAAATTTGAGCACATGCTTTTAGAACACATATTTTACAAAAAT
65 CTTAGAATGATTTTTAATAGTGAAAATTTGAGCACATGCTTTTAGAACAAATATTTTACAAAAAT
18826283 ATATACCCAAAGGTAGTATGAATTTATGGTAAAAATTTGGTATTAAAATCACTTATGGTTTAAGA
130 ATATACCCAAAGGTAGTATGAATTTATGGTAAAAATTTGGTATTAAAATCACTTATGGTTTAAGA
18826348 AAA
195 AAA
18826351 GCCAAACTTT
Statistics
Matches: 186, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
225 184 0.99
226 2 0.01
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.36
Consensus pattern (225 bp):
TATCAAAGCATTATTATTCTTGTTTTCACCTTTAAGAAGCAACATGCTAGAATATCTTTAAACAC
TTAGAATGATTTTTAATAGTGAAAATTTGAGCACATGCTTTTAGAACAAATATTTTACAAAAATA
TATACCCAAAGGTAGTATGAATTTATGGTAAAAATTTGGTATTAAAATCACTTATGGTTTAAGAA
AAAAAATCATACTCAAATTGGTTTTAGACC
Found at i:18831235 original size:12 final size:13
Alignment explanation
Indices: 18831209--18831242 Score: 52
Period size: 12 Copynumber: 2.6 Consensus size: 13
18831199 AATTTTCATT
18831209 CATTATTTTCAACC
1 CATT-TTTTCAACC
18831223 CATTTTTTC-ACC
1 CATTTTTTCAACC
18831235 CATTTTTT
1 CATTTTTT
18831243 TTTTTGGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 11 0.55
13 5 0.25
14 4 0.20
ACGTcount: A:0.21, C:0.26, G:0.00, T:0.53
Consensus pattern (13 bp):
CATTTTTTCAACC
Found at i:18838654 original size:10 final size:10
Alignment explanation
Indices: 18838641--18838683 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
18838631 AAAAATGTGC
18838641 CAAAATTTTG
1 CAAAATTTTG
*
18838651 CAAATTTTTG
1 CAAAATTTTG
18838661 -AAAATTTT-
1 CAAAATTTTG
18838669 CAAAAATTTTG
1 C-AAAATTTTG
18838680 CAAA
1 CAAA
18838684 TTGATGTGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
9 7 0.25
10 20 0.71
11 1 0.04
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (10 bp):
CAAAATTTTG
Found at i:18838678 original size:19 final size:19
Alignment explanation
Indices: 18838642--18838685 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
18838632 AAAATGTGCC
*
18838642 AAAATTTTGCAAATTTTTG
1 AAAATTTTGCAAAATTTTG
18838661 AAAATTTT-CAAAAATTTTG
1 AAAATTTTGC-AAAATTTTG
*
18838680 CAAATT
1 AAAATT
18838686 GATGTGCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 21 0.95
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (19 bp):
AAAATTTTGCAAAATTTTG
Found at i:18839248 original size:10 final size:9
Alignment explanation
Indices: 18839229--18839266 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
18839219 GGGATTTGGG
18839229 AAAAATAAA
1 AAAAATAAA
*
18839238 AAAAAT-CA
1 AAAAATAAA
18839246 AAAAATAAAA
1 AAAAAT-AAA
18839256 AAAAATAAA
1 AAAAATAAA
18839265 AA
1 AA
18839267 CGAAACAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
8 7 0.28
9 11 0.44
10 7 0.28
ACGTcount: A:0.87, C:0.03, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAATAAA
Found at i:18839265 original size:17 final size:17
Alignment explanation
Indices: 18839229--18839292 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
18839219 GGGATTTGGG
18839229 AAAAAT-AAAAAAAATCA
1 AAAAATAAAAAAAAAT-A
18839246 AAAAATAAAAAAAAATA
1 AAAAATAAAAAAAAATA
**
18839263 AAAACGAAACAAATAAATA
1 AAAAATAAA-AAA-AAATA
18839282 AAGAAATAAAA
1 AA-AAATAAAA
18839293 GTGTTCAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
17 14 0.36
18 12 0.31
19 8 0.21
20 5 0.13
ACGTcount: A:0.81, C:0.05, G:0.03, T:0.11
Consensus pattern (17 bp):
AAAAATAAAAAAAAATA
Found at i:18842699 original size:45 final size:45
Alignment explanation
Indices: 18842613--18842702 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
18842603 TTTAAATTTT
*
18842613 TGGTTAGGATAAGTTTTTAAATGTGGATACAATAATTAAATGATA
1 TGGTTAGGATAAGTTTTTAAATGTGGATACAATAATGAAATGATA
** *
18842658 TGGTTAGGATAAGTTTTTAAATGTGGATTTAGTAATGAAATGATA
1 TGGTTAGGATAAGTTTTTAAATGTGGATACAATAATGAAATGATA
18842703 CATTTTAGGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.38, C:0.01, G:0.22, T:0.39
Consensus pattern (45 bp):
TGGTTAGGATAAGTTTTTAAATGTGGATACAATAATGAAATGATA
Found at i:18843292 original size:17 final size:17
Alignment explanation
Indices: 18843251--18843298 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
18843241 TACTTTCCTT
18843251 TTTTAGTAAC-TTTCTA
1 TTTTAGTAACTTTTCTA
18843267 TTTTAAGTAACTTTTC-A
1 TTTT-AGTAACTTTTCTA
*
18843284 CTTTTAGTAAGTTTT
1 -TTTTAGTAACTTTT
18843299 AGGGTTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 4 0.14
17 16 0.57
18 8 0.29
ACGTcount: A:0.25, C:0.10, G:0.08, T:0.56
Consensus pattern (17 bp):
TTTTAGTAACTTTTCTA
Found at i:18848254 original size:143 final size:142
Alignment explanation
Indices: 18847906--18848309 Score: 431
Period size: 143 Copynumber: 2.8 Consensus size: 142
18847896 ATTATGATGA
* *
18847906 TTTT-AATGCATCAAAATTCATAAAATAATATCAAAACATGATGTA-AGGCTTTTCATGAAAAA-
1 TTTTCAATACATCAAAATTCATAAAATAATATCAAAACATGATATAGA-GCTTTTCATGAAAAAT
** * *
18847968 CAACCATCGAGAAGGTCAAATTATGAAAATATTCCTAAAGGGCATTTTGATAATTTCAATCCTTT
65 C-ACC-TCGAGAAGGTCAAATTATGAAAATACCCCTAAAGGGCATTTTG-GAATTACAATCCTTT
* **
18848033 CGAGGTGCAAGCGGGG
127 CAAGGTGCAAGCAAGG
* * * * * * * * *
18848049 TTTTCAATGCATAAAAATTCACAAAATGATATCAAAATATAATATGGAGCTTTTCGTAAAAAATC
1 TTTTCAATACATCAAAATTCATAAAATAATATCAAAACATGATATAGAGCTTTTCATGAAAAATC
* * *
18848114 ATCCTCAAGAAGGTCAAATTATAAAAATACCCCTAAAGGGTATTTTGGAATTACAA-CCTTTCCA
66 A-CCTCGAGAAGGTCAAATTATGAAAATACCCCTAAAGGGCATTTTGGAATTACAATCCTTT-CA
*
18848178 AGGTGCAATCAAGG
129 AGGTGCAAGCAAGG
* * * *
18848192 TTTTCAATATATCAAAATTCATGAAATAATATCAAAACATGATATAGAGCTCTTCACGAAAAACT
1 TTTTCAATACATCAAAATTCATAAAATAATATCAAAACATGATATAGAGCTTTTCATGAAAAA-T
* * *
18848257 GACCTTGAGAA-GTCCAAATTATGAAAATACCCTTAAAGGGCATTTTGGTAATT
65 CACCTCGAGAAGGT-CAAATTATGAAAATACCCCTAAAGGGCATTTTGG-AATT
18848310 TTACCCTCAT
Statistics
Matches: 214, Mismatches: 39, Indels: 15
0.80 0.15 0.06
Matches are distributed among these distances:
142 7 0.03
143 111 0.52
144 92 0.43
145 4 0.02
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.29
Consensus pattern (142 bp):
TTTTCAATACATCAAAATTCATAAAATAATATCAAAACATGATATAGAGCTTTTCATGAAAAATC
ACCTCGAGAAGGTCAAATTATGAAAATACCCCTAAAGGGCATTTTGGAATTACAATCCTTTCAAG
GTGCAAGCAAGG
Found at i:18848515 original size:38 final size:38
Alignment explanation
Indices: 18848473--18848720 Score: 187
Period size: 38 Copynumber: 6.4 Consensus size: 38
18848463 TAGGTGTTTA
* *
18848473 TTTATTTTTAAAGTTGTGTGCCTCTATTAGGAGGAGCT
1 TTTATTTTTAAAGTTGTGTGCCTCTATTAGGAAGAGCC
* * *
18848511 TTTATTTTTAAAAGTTATGTACCTCTATTAAG-AGAGCC
1 TTTATTTTT-AAAGTTGTGTGCCTCTATTAGGAAGAGCC
* * * * *
18848549 TTTATTTTTAAAGTTATGTGCCTTTGTCA-CAATGAGCC
1 TTTATTTTTAAAGTTGTGTGCCTCTATTAGGAA-GAGCC
* *** * * * * **
18848587 CTTATTTTTAAAAGCCATATGCATCTGTTATGGAAAAGTT
1 TTTATTTTT-AAAGTTGTGTGCCTCTATTA-GGAAGAGCC
* *
18848627 TTTATTTTTAAAGTTGTGTGCTTTTATTAGGAAGAGCC
1 TTTATTTTTAAAGTTGTGTGCCTCTATTAGGAAGAGCC
* * * *
18848665 ATTATTTTTAAAGTTGTGTACCTCTGTTATGAAAGAG-C
1 TTTATTTTTAAAGTTGTGTGCCTCTATTA-GGAAGAGCC
18848703 TTTAATTTTTAAAGTTGT
1 TTT-ATTTTTAAAGTTGT
18848721 TGAGCATCTG
Statistics
Matches: 163, Mismatches: 39, Indels: 15
0.75 0.18 0.07
Matches are distributed among these distances:
37 17 0.10
38 68 0.42
39 66 0.40
40 10 0.06
41 2 0.01
ACGTcount: A:0.27, C:0.11, G:0.17, T:0.45
Consensus pattern (38 bp):
TTTATTTTTAAAGTTGTGTGCCTCTATTAGGAAGAGCC
Found at i:18848740 original size:39 final size:39
Alignment explanation
Indices: 18848608--18848744 Score: 106
Period size: 39 Copynumber: 3.5 Consensus size: 39
18848598 AAGCCATATG
* * *
18848608 CATCTGTTATGGAAA-AGTTTTTATTTTTAAAGTTGTGTG
1 CATCTGTTAT-GAAAGAGCTTTAATTTTTAAAGTTGTGTA
* * * * *
18848647 CTTTTATTA-GGAAGAGCCATT-ATTTTTAAAGTTGTGTA
1 CATCTGTTATGAAAGAG-CTTTAATTTTTAAAGTTGTGTA
*
18848685 CCTCTGTTATGAAAGAGCTTTAATTTTTAAAGTTGT-TGA
1 CATCTGTTATGAAAGAGCTTTAATTTTTAAAGTTGTGT-A
18848724 GCATCTGTT-T-AGAAGAGCTTT
1 -CATCTGTTATGA-AAGAGCTTT
18848745 TTATATATTT
Statistics
Matches: 78, Mismatches: 13, Indels: 14
0.74 0.12 0.13
Matches are distributed among these distances:
37 3 0.04
38 29 0.37
39 39 0.50
40 7 0.09
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.45
Consensus pattern (39 bp):
CATCTGTTATGAAAGAGCTTTAATTTTTAAAGTTGTGTA
Found at i:18848800 original size:52 final size:51
Alignment explanation
Indices: 18848703--18848802 Score: 130
Period size: 53 Copynumber: 1.9 Consensus size: 51
18848693 ATGAAAGAGC
* * *
18848703 TTTAATTTTTAAAGTTGTTGAGCATCTGTTTAGAAGAGCTTTTTATATATT
1 TTTAATTTTTAAAGTTGTTGAGCATCTATTGAGAAGAGCTCTTTATATATT
* *
18848754 TTTATATTTTTAAAAGTTGTTGAGCTTCTATTGAGATGAGC-CTTTATAT
1 TTTA-ATTTTT-AAAGTTGTTGAGCATCTATTGAGAAGAGCTCTTTATAT
18848803 TTTCAAAATG
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
51 4 0.10
52 13 0.31
53 25 0.60
ACGTcount: A:0.27, C:0.07, G:0.16, T:0.50
Consensus pattern (51 bp):
TTTAATTTTTAAAGTTGTTGAGCATCTATTGAGAAGAGCTCTTTATATATT
Found at i:18852140 original size:27 final size:27
Alignment explanation
Indices: 18852116--18852167 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
18852106 TGGAAAAATT
18852116 AAAAAAAT-TAAAAAAAAAAAGAAAAG
1 AAAAAAATGTAAAAAAAAAAAGAAAAG
* * *
18852142 AAAGAAATGTGAAAAAGAAAAGAAAA
1 AAAAAAATGTAAAAAAAAAAAGAAAA
18852168 ACAAAAGCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (27 bp):
AAAAAAATGTAAAAAAAAAAAGAAAAG
Found at i:18854591 original size:29 final size:31
Alignment explanation
Indices: 18854557--18854627 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 31
18854547 GATTTCCATA
* *
18854557 TTTTGCATTTTA-GTCTAGTTATTATGTATC
1 TTTTGCATTTTAGGACTAGTTATAATGTATC
* *
18854587 -TTTGCATTTTAGGACTAGTTATAATTTTTC
1 TTTTGCATTTTAGGACTAGTTATAATGTATC
18854617 TTTTGCATTTT
1 TTTTGCATTTT
18854628 GTTCATTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 11 0.31
30 14 0.40
31 10 0.29
ACGTcount: A:0.20, C:0.10, G:0.13, T:0.58
Consensus pattern (31 bp):
TTTTGCATTTTAGGACTAGTTATAATGTATC
Found at i:18857413 original size:27 final size:26
Alignment explanation
Indices: 18857383--18857456 Score: 69
Period size: 29 Copynumber: 2.7 Consensus size: 26
18857373 AGAAAAATAC
18857383 AAAAATCATAAAAAAAAATAAAAATGT
1 AAAAAT-ATAAAAAAAAATAAAAATGT
* * *
18857410 AAAAATTATTTTAAAAAATATAAAAATTT
1 AAAAA-TA--TAAAAAAAAATAAAAATGT
*
18857439 AAAAA-ATAAAAATAAATA
1 AAAAATATAAAAAAAAATA
18857457 GTTCGGCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
25 9 0.24
27 7 0.18
28 1 0.03
29 21 0.55
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.26
Consensus pattern (26 bp):
AAAAATATAAAAAAAAATAAAAATGT
Found at i:18857441 original size:17 final size:16
Alignment explanation
Indices: 18857419--18857450 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
18857409 TAAAAATTAT
18857419 TTTAAAAAATATAAAAA
1 TTTAAAAAATA-AAAAA
18857436 TTTAAAAAATAAAAA
1 TTTAAAAAATAAAAA
18857451 TAAATAGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
TTTAAAAAATAAAAAA
Found at i:18859185 original size:3 final size:3
Alignment explanation
Indices: 18859179--18859235 Score: 53
Period size: 3 Copynumber: 18.0 Consensus size: 3
18859169 ATAATATGGG
* *
18859179 ATA ATA ATAA ATA GTG ATA ATA ATA ATA ATA ATA ATA ATGCA GATA ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA AT--A -ATA ATA
18859228 ATA A-A ATA
1 ATA ATA ATA
18859236 TAGAGAAGGT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
2 2 0.04
3 36 0.80
4 4 0.09
5 1 0.02
6 2 0.04
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:18859690 original size:18 final size:17
Alignment explanation
Indices: 18859666--18859705 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
18859656 TAAAAGCCCT
*
18859666 AAAAATAAAATCCTAAA
1 AAAAATAAAATCCCAAA
18859683 ATAAAATAAAATCCCAAA
1 A-AAAATAAAATCCCAAA
18859701 AAAAA
1 AAAAA
18859706 GCCATAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.72, C:0.12, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAAATAAAATCCCAAA
Found at i:18864548 original size:6 final size:6
Alignment explanation
Indices: 18864539--18864572 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
18864529 AAATGCCTTA
18864539 AAAAAG AAAAA- AAAAAG -AAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
18864573 GAAAGTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 10 0.38
6 16 0.62
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:18864554 original size:11 final size:11
Alignment explanation
Indices: 18864538--18864571 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
18864528 GAAATGCCTT
18864538 AAAAAAGAAAA
1 AAAAAAGAAAA
18864549 AAAAAAGAAAA
1 AAAAAAGAAAA
*
18864560 GAAAAAGAAAA
1 AAAAAAGAAAA
18864571 A
1 A
18864572 GGAAAGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:18865244 original size:16 final size:15
Alignment explanation
Indices: 18865219--18865270 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
18865209 GTTTAGTGTT
*
18865219 AAAAACAAAATATAAA
1 AAAAACAAAACA-AAA
*
18865235 AAAAATAAAACAAAA
1 AAAAACAAAACAAAA
18865250 AAAAAGCAAAA-AAACA
1 AAAAA-CAAAACAAA-A
18865266 AAAAA
1 AAAAA
18865271 AAAGAAAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 11 0.35
16 20 0.65
ACGTcount: A:0.85, C:0.08, G:0.02, T:0.06
Consensus pattern (15 bp):
AAAAACAAAACAAAA
Found at i:18865260 original size:24 final size:23
Alignment explanation
Indices: 18865233--18865278 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
18865223 ACAAAATATA
*
18865233 AAAAAAATAAAACAAAAAAAAAGC
1 AAAAAAACAAAA-AAAAAAAAAGC
*
18865257 AAAAAAACAAAAAAAAAGAAAG
1 AAAAAAACAAAAAAAAAAAAAG
18865279 AAAGAAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.85, C:0.07, G:0.07, T:0.02
Consensus pattern (23 bp):
AAAAAAACAAAAAAAAAAAAAGC
Found at i:18865263 original size:19 final size:19
Alignment explanation
Indices: 18865219--18865277 Score: 75
Period size: 19 Copynumber: 3.0 Consensus size: 19
18865209 GTTTAGTGTT
18865219 AAAAACAAAATATAAAA-AAA
1 AAAAACAAAA-A-AAAAGAAA
*
18865239 ATAAAACAAAAAAAAAGCAA
1 A-AAAACAAAAAAAAAGAAA
18865259 AAAAACAAAAAAAAAGAAA
1 AAAAACAAAAAAAAAGAAA
18865278 GAAAGAAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 21 0.60
20 5 0.14
21 9 0.26
ACGTcount: A:0.85, C:0.07, G:0.03, T:0.05
Consensus pattern (19 bp):
AAAAACAAAAAAAAAGAAA
Found at i:18865776 original size:15 final size:16
Alignment explanation
Indices: 18865758--18865791 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
18865748 TAAATGAAAG
*
18865758 AAAGAAGGAAAAA-AA
1 AAAGAAAGAAAAACAA
18865773 AAAGAAAGAAAAACAA
1 AAAGAAAGAAAAACAA
18865789 AAA
1 AAA
18865792 AAATGAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAGAAAGAAAAACAA
Found at i:18865790 original size:19 final size:19
Alignment explanation
Indices: 18865754--18865799 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
18865744 GGAATAAATG
*
18865754 AAAGAAAGAAGGAAAAAAA
1 AAAGAAAGAAGAAAAAAAA
18865773 AAAGAAAGAA-AAACAAAAA
1 AAAGAAAGAAGAAA-AAAAA
18865792 AAATGAAA
1 AAA-GAAA
18865800 TGAATAAGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 2 0.08
19 18 0.75
20 4 0.17
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.02
Consensus pattern (19 bp):
AAAGAAAGAAGAAAAAAAA
Found at i:18866151 original size:12 final size:12
Alignment explanation
Indices: 18866134--18866176 Score: 61
Period size: 12 Copynumber: 3.5 Consensus size: 12
18866124 AATAATTAAA
18866134 AAAAAAGAAAAG
1 AAAAAAGAAAAG
18866146 AAAAAAGAAAAAG
1 AAAAAAG-AAAAG
18866159 AAATAAA-AAAAG
1 AAA-AAAGAAAAG
18866171 AAAAAA
1 AAAAAA
18866177 TGAAGGGAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 3 0.10
12 15 0.52
13 8 0.28
14 3 0.10
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:18866158 original size:18 final size:18
Alignment explanation
Indices: 18866131--18866175 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
18866121 TATAATAATT
18866131 AAAA-AAAAAGAAA-AGAA
1 AAAAGAAAAAGAAATA-AA
18866148 AAAAGAAAAAGAAATAAA
1 AAAAGAAAAAGAAATAAA
18866166 AAAAGAAAAA
1 AAAAGAAAAA
18866176 ATGAAGGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.15
18 21 0.81
19 1 0.04
ACGTcount: A:0.87, C:0.00, G:0.11, T:0.02
Consensus pattern (18 bp):
AAAAGAAAAAGAAATAAA
Found at i:18866204 original size:20 final size:19
Alignment explanation
Indices: 18866179--18866219 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
18866169 AGAAAAAATG
18866179 AAGGGAAGAAAAACAAAGAA
1 AAGGGAAGAAAAA-AAAGAA
*
18866199 AAGGGAAGAAAGAAAAGAA
1 AAGGGAAGAAAAAAAAGAA
18866218 AA
1 AA
18866220 TAAAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.71, C:0.02, G:0.27, T:0.00
Consensus pattern (19 bp):
AAGGGAAGAAAAAAAAGAA
Found at i:18866597 original size:17 final size:17
Alignment explanation
Indices: 18866510--18866618 Score: 64
Period size: 17 Copynumber: 6.2 Consensus size: 17
18866500 ACGAAAATCT
*
18866510 AAATAAATATAAAATATA
1 AAAT-AATATAAAATAAA
*
18866528 AAAT-ATCATCAAATAAA
1 AAATAAT-ATAAAATAAA
* *
18866545 AACTAGA-AAAAAATTTAAA
1 AAATA-ATATAAAA--TAAA
*
18866564 AAAT-ATATAATAGTAAA
1 AAATAATATAA-AATAAA
18866581 AAATAATATAAAATAAA
1 AAATAATATAAAATAAA
*
18866598 TAATAAT-TGAAAAGTAAA
1 AAATAATAT-AAAA-TAAA
18866616 AAA
1 AAA
18866619 GAAAAGAGAA
Statistics
Matches: 70, Mismatches: 11, Indels: 20
0.69 0.11 0.20
Matches are distributed among these distances:
16 3 0.04
17 39 0.56
18 19 0.27
19 9 0.13
ACGTcount: A:0.69, C:0.03, G:0.04, T:0.25
Consensus pattern (17 bp):
AAATAATATAAAATAAA
Found at i:18868155 original size:15 final size:16
Alignment explanation
Indices: 18868124--18868157 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
18868114 ATCTACAAAT
*
18868124 TATCATATAAAATTTA
1 TATCATATAAAAATTA
18868140 TATCAT-TAAAAATTA
1 TATCATATAAAAATTA
18868155 TAT
1 TAT
18868158 ATGATATAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (16 bp):
TATCATATAAAAATTA
Found at i:18871626 original size:13 final size:13
Alignment explanation
Indices: 18871578--18871631 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
18871568 AAAAGTGAGG
*
18871578 GAAAAAGGAAAAA
1 GAAAAAAGAAAAA
* *
18871591 TGAAATAATGAAGAA
1 -GAAA-AAAGAAAAA
*
18871606 GAACAAAGAAAAA
1 GAAAAAAGAAAAA
18871619 GAAAAAAGAAAAA
1 GAAAAAAGAAAAA
18871632 AAAGAGAAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
13 19 0.58
14 7 0.21
15 7 0.21
ACGTcount: A:0.74, C:0.02, G:0.19, T:0.06
Consensus pattern (13 bp):
GAAAAAAGAAAAA
Found at i:18872646 original size:31 final size:29
Alignment explanation
Indices: 18872571--18872692 Score: 129
Period size: 29 Copynumber: 4.1 Consensus size: 29
18872561 GGCGATAATG
* *
18872571 AAGATTTAATCCTAGTTTAGCTGGAACCT
1 AAGATTTAAGCCTAGTTTAGCTGGCACCT
**
18872600 -AGATTTTAAATCTAGTTTAGCTGGCACCAAT
1 AAGA-TTTAAGCCTAGTTTAGCTGGCACC--T
18872631 AAGATTTAAGCCTAGTTTAGCTGGCACCT
1 AAGATTTAAGCCTAGTTTAGCTGGCACCT
* * * *
18872660 AGGCTTTGAGCCTAGTATTAGCTGGCACAT
1 AAGATTTAAGCCTAGT-TTAGCTGGCACCT
18872690 AAG
1 AAG
18872693 CGTAATAATA
Statistics
Matches: 78, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
28 3 0.04
29 35 0.45
30 14 0.18
31 23 0.29
32 3 0.04
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (29 bp):
AAGATTTAAGCCTAGTTTAGCTGGCACCT
Found at i:18872675 original size:60 final size:61
Alignment explanation
Indices: 18872571--18872687 Score: 164
Period size: 60 Copynumber: 1.9 Consensus size: 61
18872561 GGCGATAATG
* * *
18872571 AAGATTTAATCCTAGTTTAGCTGGAACCTAGATTTTAAATCTAGT-TTAGCTGGCACCAAT
1 AAGATTTAAGCCTAGTTTAGCTGGAACCTAGACTTTAAACCTAGTATTAGCTGGCACCAAT
* * * *
18872631 AAGATTTAAGCCTAGTTTAGCTGGCACCTAGGCTTTGAGCCTAGTATTAGCTGGCAC
1 AAGATTTAAGCCTAGTTTAGCTGGAACCTAGACTTTAAACCTAGTATTAGCTGGCAC
18872688 ATAAGCGTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
60 38 0.78
61 11 0.22
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (61 bp):
AAGATTTAAGCCTAGTTTAGCTGGAACCTAGACTTTAAACCTAGTATTAGCTGGCACCAAT
Found at i:18872910 original size:34 final size:34
Alignment explanation
Indices: 18872867--18873181 Score: 202
Period size: 34 Copynumber: 9.5 Consensus size: 34
18872857 CATTAACCCA
* * *
18872867 GAAAAATTTAAGCCTAATTTAACTGGCACCTAAT
1 GAAAAATTTAAGCCCAGTTTAGCTGGCACCTAAT
* **
18872901 GAAAAATTTAAGCCCAATTTAATTGGCACCTAAT
1 GAAAAATTTAAGCCCAGTTTAGCTGGCACCTAAT
** * *
18872935 -AAAAGATTTAAATCCAGTATTATCTAGCACC-AAT
1 GAAAA-ATTTAAGCCCAGT-TTAGCTGGCACCTAAT
* *
18872969 G-AAAA-TTAAGCCTAGTTTAGTTGGCACC-AAT
1 GAAAAATTTAAGCCCAGTTTAGCTGGCACCTAAT
* * *
18873000 GACAATTTTAA-CCCAGTTTAGCTAGCACC-AAT
1 GAAAAATTTAAGCCCAGTTTAGCTGGCACCTAAT
* * * * *
18873032 -AACAATTTTAGCCCAATTTAGTTGGCACCTCAT
1 GAAAAATTTAAGCCCAGTTTAGCTGGCACCTAAT
* * * *
18873065 AAAAAGATTTAAGCCTAGTTTAGCTGGCA-TTTAT
1 GAAAA-ATTTAAGCCCAGTTTAGCTGGCACCTAAT
** * * * *
18873099 -AAAAATTTAAGCTTAGTCTAGCTAGCACCCAGT
1 GAAAAATTTAAGCCCAGTTTAGCTGGCACCTAAT
* * *
18873132 G-AAAATTTAGGCCCAGCTTAGCTGGCACCCAAT
1 GAAAAATTTAAGCCCAGTTTAGCTGGCACCTAAT
* **
18873165 GGAAGGTTTAAGCCCAG
1 GAAAAATTTAAGCCCAG
18873182 AGTATTTAGC
Statistics
Matches: 218, Mismatches: 51, Indels: 24
0.74 0.17 0.08
Matches are distributed among these distances:
31 19 0.09
32 63 0.29
33 42 0.19
34 66 0.30
35 28 0.13
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.29
Consensus pattern (34 bp):
GAAAAATTTAAGCCCAGTTTAGCTGGCACCTAAT
Found at i:18872995 original size:66 final size:66
Alignment explanation
Indices: 18872892--18873089 Score: 215
Period size: 64 Copynumber: 3.0 Consensus size: 66
18872882 AATTTAACTG
* *
18872892 GCACCTAATGAAAAATTTAAGCCCAATTTAATTGGCACCTAATAAAAGATTTAAATCCAGTATTA
1 GCACC-AATG-AAAATTTAAGCCCAATTTAGTTGGCACCTAATAAAAGATTTAAACCCAGT-TTA
*
18872957 TCTA
63 GCTA
* * * * *
18872961 GCACCAATGAAAA-TTAAGCCTAGTTTAGTTGGCACC-AATGACA-ATTTTAACCCAGTTTAGCT
1 GCACCAATGAAAATTTAAGCCCAATTTAGTTGGCACCTAATAAAAGATTTAAACCCAGTTTAGCT
18873023 A
66 A
* * * *
18873024 GCACCAAT-AACAATTTTAGCCCAATTTAGTTGGCACCTCATAAAAAGATTTAAGCCTAGTTTAG
1 GCACCAATGAA-AATTTAAGCCCAATTTAGTTGGCACCTAAT-AAAAGATTTAAACCCAGTTTAG
18873088 CT
64 CT
18873090 GGCATTTATA
Statistics
Matches: 107, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
62 2 0.02
63 16 0.15
64 31 0.29
65 7 0.07
66 22 0.21
67 20 0.19
68 4 0.04
69 5 0.05
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (66 bp):
GCACCAATGAAAATTTAAGCCCAATTTAGTTGGCACCTAATAAAAGATTTAAACCCAGTTTAGCT
A
Found at i:18873028 original size:32 final size:32
Alignment explanation
Indices: 18872948--18873052 Score: 106
Period size: 32 Copynumber: 3.3 Consensus size: 32
18872938 AGATTTAAAT
* *
18872948 CCAGTATTATCTAGCACCAATGA-AA-ATTAAGC
1 CCAGT-TTAGCTAGCACCAATGACAATTTTAA-C
* * *
18872980 CTAGTTTAGTTGGCACCAATGACAATTTTAAC
1 CCAGTTTAGCTAGCACCAATGACAATTTTAAC
* *
18873012 CCAGTTTAGCTAGCACCAATAACAATTTTAGC
1 CCAGTTTAGCTAGCACCAATGACAATTTTAAC
*
18873044 CCAATTTAG
1 CCAGTTTAG
18873053 TTGGCACCTC
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
31 14 0.23
32 42 0.70
33 4 0.07
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (32 bp):
CCAGTTTAGCTAGCACCAATGACAATTTTAAC
Found at i:18873060 original size:32 final size:32
Alignment explanation
Indices: 18872984--18873060 Score: 109
Period size: 32 Copynumber: 2.4 Consensus size: 32
18872974 TTAAGCCTAG
* *
18872984 TTTAGTTGGCACCAATGACAATTTTAACCCAG
1 TTTAGTTGGCACCAATAACAATTTTAACCCAA
* * *
18873016 TTTAGCTAGCACCAATAACAATTTTAGCCCAA
1 TTTAGTTGGCACCAATAACAATTTTAACCCAA
18873048 TTTAGTTGGCACC
1 TTTAGTTGGCACC
18873061 TCATAAAAAG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.31
Consensus pattern (32 bp):
TTTAGTTGGCACCAATAACAATTTTAACCCAA
Found at i:18873382 original size:34 final size:35
Alignment explanation
Indices: 18873301--18873523 Score: 119
Period size: 34 Copynumber: 6.7 Consensus size: 35
18873291 GACTCCTAGG
* * * * *
18873301 ATTTAAGCCTAGTGTAGCTAGCA-TTCATG-AAAG
1 ATTTAAGCCCAGTTTAGCTGGCACATCATGAAAAA
* * * * **
18873334 ATATAAGCCTAGTTTAGTTGGC-CTTTTTGAAAAA
1 ATTTAAGCCCAGTTTAGCTGGCACATCATGAAAAA
*
18873368 ATTTAAGCCCAGTTTAGCTGGCACATCATGGAAAA
1 ATTTAAGCCCAGTTTAGCTGGCACATCATGAAAAA
*
18873403 ATTTAAGCCCAGTTT-GACT-G-ACATCAATG-AAAC
1 ATTTAAGCCCAGTTTAG-CTGGCACATC-ATGAAAAA
* * * * *
18873436 ATTTAAGCCTAGTTTATCTTGCAC-TCAAGAAAAG
1 ATTTAAGCCCAGTTTAGCTGGCACATCATGAAAAA
** * * *
18873470 ATTTAAGCTTAATTTAGTTGGCA-TTCATG---AA
1 ATTTAAGCCCAGTTTAGCTGGCACATCATGAAAAA
* *
18873501 ATTTAAGCCCAATCTAGCTGGCA
1 ATTTAAGCCCAGTTTAGCTGGCA
18873524 ACTAGTGAAA
Statistics
Matches: 150, Mismatches: 30, Indels: 22
0.74 0.15 0.11
Matches are distributed among these distances:
31 20 0.13
33 48 0.32
34 55 0.37
35 27 0.18
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (35 bp):
ATTTAAGCCCAGTTTAGCTGGCACATCATGAAAAA
Found at i:18873440 original size:33 final size:35
Alignment explanation
Indices: 18873364--18873523 Score: 115
Period size: 33 Copynumber: 4.8 Consensus size: 35
18873354 GCCTTTTTGA
18873364 AAAAATTTAAGCCCAGTTTAGCTGGCACATCATGG
1 AAAAATTTAAGCCCAGTTTAGCTGGCACATCATGG
18873399 AAAAATTTAAGCCCAGTTT-GACT-G-ACATCAAT-G
1 AAAAATTTAAGCCCAGTTTAG-CTGGCACATC-ATGG
* * * * *
18873432 AAACATTTAAGCCTAGTTTATCTTGCAC-TCA-AG
1 AAAAATTTAAGCCCAGTTTAGCTGGCACATCATGG
** * * *
18873465 AAAAGATTTAAGCTTAATTTAGTTGGCA-TTCAT-G
1 AAAA-ATTTAAGCCCAGTTTAGCTGGCACATCATGG
* *
18873499 --AAATTTAAGCCCAATCTAGCTGGCA
1 AAAAATTTAAGCCCAGTTTAGCTGGCA
18873524 ACTAGTGAAA
Statistics
Matches: 103, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
31 19 0.18
32 2 0.02
33 30 0.29
34 29 0.28
35 23 0.22
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (35 bp):
AAAAATTTAAGCCCAGTTTAGCTGGCACATCATGG
Found at i:18873866 original size:21 final size:21
Alignment explanation
Indices: 18873827--18873866 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
18873817 TGAAAATTTA
***
18873827 AGCCTAGTTTAGTTGGCACAT
1 AGCCTAGTTTAGCAAGCACAT
18873848 AGCCTAGTTTAGCAAGCAC
1 AGCCTAGTTTAGCAAGCAC
18873867 CTAGGTTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.28
Consensus pattern (21 bp):
AGCCTAGTTTAGCAAGCACAT
Found at i:18874026 original size:32 final size:33
Alignment explanation
Indices: 18873935--18874026 Score: 114
Period size: 33 Copynumber: 2.8 Consensus size: 33
18873925 GCCTTTATGA
* *
18873935 AAAGATTTAAGCCCAATTTAACTAGCACCTAAT
1 AAAGATTTAAGCCCAATTTAACTGGCACCTAAC
* **
18873968 AAAGATTTAAGCCCAAATTAGTTGGCACC-AAC
1 AAAGATTTAAGCCCAATTTAACTGGCACCTAAC
* *
18874000 AAAGTTTTAAGCCCAGTTTAACTGGCA
1 AAAGATTTAAGCCCAATTTAACTGGCA
18874027 TTGAGAAGAA
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
32 24 0.49
33 25 0.51
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (33 bp):
AAAGATTTAAGCCCAATTTAACTGGCACCTAAC
Found at i:18874185 original size:35 final size:35
Alignment explanation
Indices: 18874118--18874185 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
18874108 TTTATTGTAT
* *
18874118 TTTATATTTGACTTGCGGTGTTGTTTTAGTCATCC
1 TTTATATTTGACTTGCAGTGTTGTTATAGTCATCC
* *
18874153 TTTAT-TTGTGACTTGTAGTGTTGTTATGGTCAT
1 TTTATATT-TGACTTGCAGTGTTGTTATAGTCAT
18874186 TTTTTAACAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 2 0.07
35 26 0.93
ACGTcount: A:0.15, C:0.10, G:0.22, T:0.53
Consensus pattern (35 bp):
TTTATATTTGACTTGCAGTGTTGTTATAGTCATCC
Found at i:18874226 original size:5 final size:5
Alignment explanation
Indices: 18874218--18874273 Score: 71
Period size: 5 Copynumber: 11.0 Consensus size: 5
18874208 AAAAAGCAAC
18874218 CAAAA CAAAA CAAAA CAAAAA CAAAA CCAAAA -ACAAA C-AAA CAAAA
1 CAAAA CAAAA CAAAA C-AAAA CAAAA -CAAAA CA-AAA CAAAA CAAAA
18874264 CAAAA CAAAA
1 CAAAA CAAAA
18874274 TATTCTCCTT
Statistics
Matches: 46, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
4 5 0.11
5 31 0.67
6 10 0.22
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (5 bp):
CAAAA
Found at i:18874238 original size:27 final size:27
Alignment explanation
Indices: 18874215--18874273 Score: 81
Period size: 25 Copynumber: 2.3 Consensus size: 27
18874205 ATAAAAAAGC
18874215 AACC-AAAACAAAACAAAACAAAAACAA
1 AACCAAAAAC-AAACAAAACAAAAACAA
18874242 AACCAAAAACAAAC-AAAC-AAAACAA
1 AACCAAAAACAAACAAAACAAAAACAA
18874267 AA-CAAAA
1 AACCAAAA
18874274 TATTCTCCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
24 5 0.16
25 9 0.29
26 4 0.13
27 8 0.26
28 5 0.16
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (27 bp):
AACCAAAAACAAACAAAACAAAAACAA
Found at i:18876134 original size:3 final size:3
Alignment explanation
Indices: 18876126--18876166 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
18876116 CAATTGGTGT
18876126 TTA 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 TTA TT
18876167 CTCTTTTTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:18876436 original size:15 final size:15
Alignment explanation
Indices: 18876418--18876489 Score: 76
Period size: 15 Copynumber: 4.8 Consensus size: 15
18876408 GGGAGGAAAT
18876418 ATTTATGGGTTTAAA
1 ATTTATGGGTTTAAA
* *
18876433 ATTTGTGGGTTTCAA
1 ATTTATGGGTTTAAA
18876448 ATTTATGGGTTTAAA
1 ATTTATGGGTTTAAA
18876463 GATTCTA--GGTTTAAA
1 -ATT-TATGGGTTTAAA
* *
18876478 GTTTTTGGGTTT
1 ATTTATGGGTTT
18876490 GAAACTTTTG
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
13 1 0.02
14 2 0.04
15 39 0.83
16 3 0.06
17 2 0.04
ACGTcount: A:0.25, C:0.03, G:0.24, T:0.49
Consensus pattern (15 bp):
ATTTATGGGTTTAAA
Found at i:18886289 original size:30 final size:29
Alignment explanation
Indices: 18886235--18886304 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 29
18886225 GGAGGAAATA
*
18886235 TTTCTGGGTTTAAAATTCCTGGGTTTTGAAG
1 TTTCTGGGTTTAAAATT-CTGGG-TTTAAAG
18886266 TTT-TGGGTTTAAAGATT-TAGGGTTTAAAG
1 TTTCTGGGTTTAAA-ATTCT-GGGTTTAAAG
18886295 TTTCTGGGTT
1 TTTCTGGGTT
18886305 CGAAGCTTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
29 10 0.29
30 19 0.54
31 6 0.17
ACGTcount: A:0.20, C:0.06, G:0.27, T:0.47
Consensus pattern (29 bp):
TTTCTGGGTTTAAAATTCTGGGTTTAAAG
Found at i:18886303 original size:15 final size:15
Alignment explanation
Indices: 18886235--18886304 Score: 72
Period size: 15 Copynumber: 4.7 Consensus size: 15
18886225 GGAGGAAATA
*
18886235 TTTCTGGGTTTAAAA
1 TTTCTGGGTTTAAAG
* *
18886250 TTCCTGGGTTTTGAAG
1 TTTCTGGG-TTTAAAG
18886266 TTT-TGGGTTTAAAG
1 TTTCTGGGTTTAAAG
*
18886280 ATTT-AGGGTTTAAAG
1 -TTTCTGGGTTTAAAG
18886295 TTTCTGGGTT
1 TTTCTGGGTT
18886305 CGAAGCTTTG
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
14 9 0.20
15 29 0.64
16 7 0.16
ACGTcount: A:0.20, C:0.06, G:0.27, T:0.47
Consensus pattern (15 bp):
TTTCTGGGTTTAAAG
Found at i:18886327 original size:45 final size:45
Alignment explanation
Indices: 18886240--18886327 Score: 106
Period size: 45 Copynumber: 2.0 Consensus size: 45
18886230 AAATATTTCT
* * *
18886240 GGGTTTAAAATTCCTGGGTTTTGAAGTTTTGGGTTTAAAGATTTA
1 GGGTTTAAAATTCCTGGGTTTCGAAGCTTTGGGTTGAAAGATTTA
* * *
18886285 GGGTTTAAAGTTTCTGGG-TTCGAAGCTTTGGGATTGAGAGATT
1 GGGTTTAAAATTCCTGGGTTTCGAAGCTTTGGG-TTGAAAGATT
18886328 GAATTTCTAG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
44 12 0.33
45 24 0.67
ACGTcount: A:0.23, C:0.06, G:0.31, T:0.41
Consensus pattern (45 bp):
GGGTTTAAAATTCCTGGGTTTCGAAGCTTTGGGTTGAAAGATTTA
Found at i:18886711 original size:13 final size:13
Alignment explanation
Indices: 18886693--18886733 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
18886683 TCGCAAGTTT
*
18886693 TTTTTTCTTTTTA
1 TTTTTTCATTTTA
*
18886706 TTTTTTGATTTTA
1 TTTTTTCATTTTA
18886719 TTTTTT-A-TTTA
1 TTTTTTCATTTTA
18886730 TTTT
1 TTTT
18886734 GCAATTTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 8 0.31
12 1 0.04
13 17 0.65
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.83
Consensus pattern (13 bp):
TTTTTTCATTTTA
Found at i:18886840 original size:22 final size:22
Alignment explanation
Indices: 18886820--18886859 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
18886810 CAATTTTTTA
*
18886820 TTTT-TTATTT-TGTAAAATTT
1 TTTTATTATTTCTGAAAAATTT
18886840 TTTTATTATTTCTGAAAAAT
1 TTTTATTATTTCTGAAAAAT
18886860 AGCCAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 6 0.35
22 7 0.41
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (22 bp):
TTTTATTATTTCTGAAAAATTT
Found at i:18887018 original size:108 final size:109
Alignment explanation
Indices: 18886895--18887135 Score: 403
Period size: 108 Copynumber: 2.2 Consensus size: 109
18886885 AAATTTATGA
*
18886895 ATCCTACCAAACTATTGGAGGATTTTTCATGGATTTAAATTTTACGGATTCCATCAAACTATTAG
1 ATCCTACCAAACTATTGGAGGATTTTTCATGGATTTAAATTTTACGGATTCCACCAAACTATTAG
**
18886960 AGAATTTTGTAAATCAGGCAATCAAT-AAAATATTTTGTATTTT
66 AGAATTTCATAAATCAGGCAATCAATAAAAATATTTTGTATTTT
* *
18887003 ATCCTACCAAACTATTGGAGGATTTTTCATGGATTTAAATTTTATGGATTCTACCAAACTATTAG
1 ATCCTACCAAACTATTGGAGGATTTTTCATGGATTTAAATTTTACGGATTCCACCAAACTATTAG
* *
18887068 AGAATTTCATAAATTAGGCTATCAATAAAAATATTTTGTATTTT
66 AGAATTTCATAAATCAGGCAATCAATAAAAATATTTTGTATTTT
*
18887112 ATCCTACCAAACTATTGGAAGATT
1 ATCCTACCAAACTATTGGAGGATT
18887136 GCATCTCAAG
Statistics
Matches: 124, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
108 84 0.68
109 40 0.32
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (109 bp):
ATCCTACCAAACTATTGGAGGATTTTTCATGGATTTAAATTTTACGGATTCCACCAAACTATTAG
AGAATTTCATAAATCAGGCAATCAATAAAAATATTTTGTATTTT
Found at i:18888125 original size:29 final size:29
Alignment explanation
Indices: 18888083--18888155 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
18888073 ATCGTTAATT
* * * *
18888083 CCTAAATTTTAAGCCTAGTTTAGCTGGCA
1 CCTAAGTTTTAAGCCCAATTTAGCTAGCA
* *
18888112 CCTAGGTTTTAAGCCCAATTTAGCTAGTA
1 CCTAAGTTTTAAGCCCAATTTAGCTAGCA
*
18888141 TCTAAGTTTTAAGCC
1 CCTAAGTTTTAAGCC
18888156 AAGATTATCT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (29 bp):
CCTAAGTTTTAAGCCCAATTTAGCTAGCA
Found at i:18888675 original size:11 final size:11
Alignment explanation
Indices: 18888659--18888683 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18888649 TATCTTAGGG
18888659 AAAAAATTCAA
1 AAAAAATTCAA
18888670 AAAAAATTCAA
1 AAAAAATTCAA
18888681 AAA
1 AAA
18888684 TTTTTTAAAA
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:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAAATTCAA
Found at i:18889112 original size:8 final size:8
Alignment explanation
Indices: 18889099--18889181 Score: 64
Period size: 8 Copynumber: 9.9 Consensus size: 8
18889089 ATGACAAAGA
18889099 AAAAATAT
1 AAAAATAT
18889107 AAAAATAT
1 AAAAATAT
18889115 AAAAATA-
1 AAAAATAT
*
18889122 ATAAAATAAA
1 A-AAAAT-AT
*
18889132 AAAAATGT
1 AAAAATAT
18889140 AAAAATTATTT
1 AAAAA-TA--T
18889151 AAAAAAATAT
1 --AAAAATAT
18889161 AAAAAT-T
1 AAAAATAT
18889168 AAAAATA-
1 AAAAATAT
18889175 AAAAATA
1 AAAAATA
18889182 AATAGTTTCG
Statistics
Matches: 63, Mismatches: 3, Indels: 19
0.74 0.04 0.22
Matches are distributed among these distances:
7 15 0.24
8 31 0.49
9 7 0.11
10 2 0.03
11 1 0.02
12 2 0.03
13 5 0.08
ACGTcount: A:0.75, C:0.00, G:0.01, T:0.24
Consensus pattern (8 bp):
AAAAATAT
Found at i:18889209 original size:54 final size:54
Alignment explanation
Indices: 18889098--18889211 Score: 124
Period size: 54 Copynumber: 2.1 Consensus size: 54
18889088 AATGACAAAG
* * **
18889098 AAAAAATATAAAAATATAAAAATAATAAAATAAAAAAAATGTAAAAATTATTTA
1 AAAAAATATAAAAATATAAAAATAATAAAATAAAAAAAATGCAAAAATAATAAA
* ***
18889152 AAAAAATATAAAAAT-TAAAAATAA-AAAATAAATAGTTTCGCCAAAAATAATAAA
1 AAAAAATATAAAAATATAAAAATAATAAAATAAAAAAAAT-G-CAAAAATAATAAA
18889206 AAAAAA
1 AAAAAA
18889212 AGAGAACAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
52 10 0.20
53 10 0.20
54 30 0.60
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (54 bp):
AAAAAATATAAAAATATAAAAATAATAAAATAAAAAAAATGCAAAAATAATAAA
Found at i:18892962 original size:16 final size:16
Alignment explanation
Indices: 18892941--18892979 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
18892931 AAAAAAGAAG
18892941 ATAAAAGAAGAAAAAA
1 ATAAAAGAAGAAAAAA
18892957 ATAAAAG--GAAAAAA
1 ATAAAAGAAGAAAAAA
*
18892971 AAAAAAGAA
1 ATAAAAGAA
18892980 AAACAAAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
14 13 0.65
16 7 0.35
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (16 bp):
ATAAAAGAAGAAAAAA
Found at i:18892969 original size:14 final size:13
Alignment explanation
Indices: 18892916--18892987 Score: 63
Period size: 13 Copynumber: 5.2 Consensus size: 13
18892906 GGAAAAAATG
*
18892916 AAAAAATAAAAACTA
1 AAAAAAGAAAAA--A
* *
18892931 AAAAAAGAAGATA
1 AAAAAAGAAAAAA
*
18892944 AAAGAAGAAAAAA
1 AAAAAAGAAAAAA
*
18892957 ATAAAAGGAAAAAA
1 A-AAAAAGAAAAAA
18892971 AAAAAAGAAAAACA
1 AAAAAAGAAAAA-A
18892985 AAA
1 AAA
18892988 GCAATAAAGT
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
13 22 0.48
14 15 0.33
15 9 0.20
ACGTcount: A:0.82, C:0.03, G:0.10, T:0.06
Consensus pattern (13 bp):
AAAAAAGAAAAAA
Found at i:18895438 original size:30 final size:30
Alignment explanation
Indices: 18895376--18895446 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
18895366 GATTTGCACA
* *
18895376 TTTTGCATTTTAGATTAGTTATTATGTGTC
1 TTTTGCATTTTAGACTAGTTATAATGTGTC
* * *
18895406 -TTTGCATTTTAGGACTAGTTGTAATTTTTC
1 TTTTGCATTTTA-GACTAGTTATAATGTGTC
18895436 TTTTGCATTTT
1 TTTTGCATTTT
18895447 GCTCATTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 11 0.32
30 13 0.38
31 10 0.29
ACGTcount: A:0.18, C:0.08, G:0.15, T:0.58
Consensus pattern (30 bp):
TTTTGCATTTTAGACTAGTTATAATGTGTC
Found at i:18901251 original size:21 final size:21
Alignment explanation
Indices: 18901203--18901251 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
18901193 AAATATCATC
* *
18901203 CACAAAAAAATTCATAACAAT
1 CACAAAAAAATCCATAACAAA
* *
18901224 CATAAAAATATCCATAACAAA
1 CACAAAAAAATCCATAACAAA
18901245 CACAAAA
1 CACAAAA
18901252 GTCCTCAATA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.63, C:0.20, G:0.00, T:0.16
Consensus pattern (21 bp):
CACAAAAAAATCCATAACAAA
Found at i:18906461 original size:34 final size:33
Alignment explanation
Indices: 18906356--18906468 Score: 111
Period size: 33 Copynumber: 3.4 Consensus size: 33
18906346 ACAAGTTGTT
*
18906356 TTTTGTCTCAATATTGCAAAAATAGCAAGTAATC
1 TTTT-TCTCAATATTGCAAAAATACCAAGTAATC
** * * * *
18906390 CCTTTCTCAATTTTGCAAAACA-AGCAAGCAAATT
1 TTTTTCTCAATATTGCAAAA-ATACCAAG-TAATC
*
18906424 TTTTTCTCAATATTGTAAAAATACCAAGTAATC
1 TTTTTCTCAATATTGCAAAAATACCAAGTAATC
*
18906457 TTTTTCTTAATA
1 TTTTTCTCAATA
18906469 ATGTGAAAAT
Statistics
Matches: 63, Mismatches: 13, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
33 36 0.57
34 27 0.43
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.38
Consensus pattern (33 bp):
TTTTTCTCAATATTGCAAAAATACCAAGTAATC
Found at i:18927213 original size:21 final size:21
Alignment explanation
Indices: 18927169--18927225 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
18927159 TGGTTTGTAC
* *
18927169 TTATGTTTCTTAGTTTTTTATA
1 TTATGTTT-TTAATTTTTAATA
18927191 TT-TGTTTTTAATTTTTAATTA
1 TTATGTTTTTAATTTTTAA-TA
18927212 TTAT-TTTTT-ATTTT
1 TTATGTTTTTAATTTT
18927226 ATTCAGTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 14 0.45
21 14 0.45
22 3 0.10
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.74
Consensus pattern (21 bp):
TTATGTTTTTAATTTTTAATA
Found at i:18933339 original size:15 final size:14
Alignment explanation
Indices: 18933319--18933360 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
18933309 TTTTGAAAAT
18933319 AAAATATTTTTTAAA
1 AAAATATTTTTT-AA
*
18933334 AAAATATTTTGTT-C
1 AAAATATTTT-TTAA
18933348 AAAATATTTTTTA
1 AAAATATTTTTTA
18933361 TTTTCTATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 2 0.08
14 10 0.42
15 10 0.42
16 2 0.08
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (14 bp):
AAAATATTTTTTAA
Found at i:18933988 original size:13 final size:12
Alignment explanation
Indices: 18933969--18934001 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
18933959 CAGTCAGCCT
18933969 TTTTTTTTTCTC
1 TTTTTTTTTCTC
*
18933981 TTTGTTTTT-TC
1 TTTTTTTTTCTC
18933992 TTTTTTTTTC
1 TTTTTTTTTC
18934002 AACCAAAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTCTC
Found at i:18944263 original size:16 final size:16
Alignment explanation
Indices: 18944217--18944278 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
18944207 TGTTTTGTGA
18944217 TAACAATTGGTATACTT
1 TAACAATTGGTAT-CTT
* **
18944234 TATC-ATTACATATCTT
1 TAACAATT-GGTATCTT
**
18944250 TAACAATTGGTATCCA
1 TAACAATTGGTATCTT
18944266 TAACAATTGGTAT
1 TAACAATTGGTAT
18944279 GAGCTTGTAT
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
16 26 0.74
17 9 0.26
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (16 bp):
TAACAATTGGTATCTT
Found at i:18948215 original size:13 final size:14
Alignment explanation
Indices: 18948197--18948228 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
18948187 TGGTATGATT
18948197 TAAAAT-AAAAACA
1 TAAAATGAAAAACA
18948210 TAAAATGAAAAACA
1 TAAAATGAAAAACA
18948224 -AAAAT
1 TAAAAT
18948229 TTGTAGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.75, C:0.06, G:0.03, T:0.16
Consensus pattern (14 bp):
TAAAATGAAAAACA
Found at i:18950366 original size:4 final size:4
Alignment explanation
Indices: 18950328--18950353 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
18950318 AAAAGACTAA
18950328 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
18950354 GCAAGATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:18952948 original size:83 final size:84
Alignment explanation
Indices: 18952786--18952954 Score: 322
Period size: 84 Copynumber: 2.0 Consensus size: 84
18952776 GATGTGATTT
*
18952786 TGGGAATAAGGATTATAAAAAAAATAGTTTAGTCCTTATTAAATCAAGTTCCATTGAAAAAATCT
1 TGGGAATAAGGATTATAAAAAAAATAGTTTAGTCCTTATAAAATCAAGTTCCATTGAAAAAATCT
18952851 TCAAAAAGTTTAATTATTA
66 TCAAAAAGTTTAATTATTA
18952870 TGGGAATAAGGATTATAAAAAAAATAGTTTAGTCCTTATAAAATCAAGTTCCATTG-AAAAATCT
1 TGGGAATAAGGATTATAAAAAAAATAGTTTAGTCCTTATAAAATCAAGTTCCATTGAAAAAATCT
18952934 TCAAAAAGTTTAATTATTA
66 TCAAAAAGTTTAATTATTA
18952953 TG
1 TG
18952955 ATGGTGCAAC
Statistics
Matches: 84, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
83 29 0.35
84 55 0.65
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.34
Consensus pattern (84 bp):
TGGGAATAAGGATTATAAAAAAAATAGTTTAGTCCTTATAAAATCAAGTTCCATTGAAAAAATCT
TCAAAAAGTTTAATTATTA
Found at i:18961741 original size:25 final size:25
Alignment explanation
Indices: 18961713--18961771 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
18961703 ACTATGGCAA
18961713 AATGGGTCATTTTACTCATGAATGT
1 AATGGGTCATTTTACTCATGAATGT
*
18961738 AATGGGTCATTTTACTCATGACTGT
1 AATGGGTCATTTTACTCATGAATGT
*
18961763 AATGAGTCA
1 AATGGGTCA
18961772 AAGAAGGTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (25 bp):
AATGGGTCATTTTACTCATGAATGT
Found at i:18964177 original size:14 final size:15
Alignment explanation
Indices: 18964143--18964176 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
18964133 AAATATTACT
*
18964143 AAAAACTAGATCTAA
1 AAAAACAAGATCTAA
*
18964158 AAAAACAAGATTTAA
1 AAAAACAAGATCTAA
18964173 AAAA
1 AAAA
18964177 CTAAAAAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.09, G:0.06, T:0.18
Consensus pattern (15 bp):
AAAAACAAGATCTAA
Found at i:18964495 original size:13 final size:13
Alignment explanation
Indices: 18964479--18964504 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18964469 CTCACCAAAA
18964479 GAACTAAAGAAAG
1 GAACTAAAGAAAG
18964492 GAACTAAAGAAAG
1 GAACTAAAGAAAG
18964505 AAGAGAGAGA
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:0.62, C:0.08, G:0.23, T:0.08
Consensus pattern (13 bp):
GAACTAAAGAAAG
Found at i:18965892 original size:53 final size:54
Alignment explanation
Indices: 18965808--18965923 Score: 162
Period size: 53 Copynumber: 2.2 Consensus size: 54
18965798 ACTATATATA
* * * *
18965808 TATATATATATATATGTTTTACAAGATCTCATCCCTCGTATTATTGAGAGTATT
1 TATATATATATAAATGATTCACAAGATCTCATCCCGCGTATTATTGAGAGTATT
* * *
18965862 TATATATATATAAAT-ATTCACAAGATCTCATCCCGCGTATTGTTGCGAGTGTT
1 TATATATATATAAATGATTCACAAGATCTCATCCCGCGTATTATTGAGAGTATT
18965915 TATATATAT
1 TATATATAT
18965924 TATTTTTCAA
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
53 41 0.75
54 14 0.25
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (54 bp):
TATATATATATAAATGATTCACAAGATCTCATCCCGCGTATTATTGAGAGTATT
Found at i:18966455 original size:30 final size:30
Alignment explanation
Indices: 18966416--18966481 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
18966406 CATTGAAGTT
* *
18966416 AAATTTTAAAATATATAAATGTGAAGAACA
1 AAATATTAAAATATATAAATGAGAAGAACA
*
18966446 AAATATTAAAATATATAAATGAGAAGAATA
1 AAATATTAAAATATATAAATGAGAAGAACA
18966476 AAATAT
1 AAATAT
18966482 CTCATTTACT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.29
Consensus pattern (30 bp):
AAATATTAAAATATATAAATGAGAAGAACA
Found at i:18968808 original size:28 final size:29
Alignment explanation
Indices: 18968753--18968808 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
18968743 ATTGAATCAA
* *
18968753 AATAAAAGATTAGAGATTTAATTAATTAT
1 AATAAAAGATTAGAAATTTAAATAATTAT
* *
18968782 AATAAAATATTA-AAATTTAAATGATTA
1 AATAAAAGATTAGAAATTTAAATAATTA
18968809 ATGAATTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (29 bp):
AATAAAAGATTAGAAATTTAAATAATTAT
Found at i:18969197 original size:11 final size:12
Alignment explanation
Indices: 18969181--18969209 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
18969171 CTATGATTCC
18969181 TTTTTTCTTTT-
1 TTTTTTCTTTTG
18969192 TTTTTTCTTTTG
1 TTTTTTCTTTTG
18969204 TTTTTT
1 TTTTTT
18969210 AAATTCTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.00, C:0.07, G:0.03, T:0.90
Consensus pattern (12 bp):
TTTTTTCTTTTG
Found at i:18973259 original size:59 final size:59
Alignment explanation
Indices: 18973182--18973318 Score: 156
Period size: 59 Copynumber: 2.3 Consensus size: 59
18973172 AATTATACAA
* *
18973182 CCAACAAATTTTAACAAATATAA-AACCAACAAAAAACTCAACA-A-ATT-GAAACCAAAAC
1 CCAAAAAATTTCAACAAATA-AATAACCAAC-AAAAACTCAA-ATACATTGGAAACCAAAAC
* * *
18973240 CCAAATAAATTTCAACAAATAAATAACTAACAAAAACTCAAATACATTGGTAACCAAAGC
1 CCAAA-AAATTTCAACAAATAAATAACCAACAAAAACTCAAATACATTGGAAACCAAAAC
*
18973300 CCAAAAAAATTCAACAAAT
1 CCAAAAAATTTCAACAAAT
18973319 TTATAACAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
57 1 0.01
58 17 0.25
59 36 0.53
60 14 0.21
ACGTcount: A:0.58, C:0.21, G:0.03, T:0.18
Consensus pattern (59 bp):
CCAAAAAATTTCAACAAATAAATAACCAACAAAAACTCAAATACATTGGAAACCAAAAC
Found at i:18979084 original size:22 final size:22
Alignment explanation
Indices: 18979056--18979097 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
18979046 TTTAATAATA
18979056 AATTGATTAATTGAATTAAATT
1 AATTGATTAATTGAATTAAATT
*
18979078 AATTGATTAATTTAATTAAA
1 AATTGATTAATTGAATTAAA
18979098 ACCCGATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (22 bp):
AATTGATTAATTGAATTAAATT
Found at i:18979997 original size:27 final size:28
Alignment explanation
Indices: 18979937--18979999 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
18979927 ATTAAACAAG
* * *
18979937 AATAAAAAATTAAAAACTTAATTGATTT
1 AATAAAATATTAAAAACTTAAATGAATT
18979965 AATAAAATATTAAAAACTTAAAT-AATT
1 AATAAAATATTAAAAACTTAAATGAATT
*
18979992 ATTAAAAT
1 AATAAAAT
18980000 TATAATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 10 0.32
28 21 0.68
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (28 bp):
AATAAAATATTAAAAACTTAAATGAATT
Found at i:18981345 original size:29 final size:30
Alignment explanation
Indices: 18981298--18981365 Score: 102
Period size: 29 Copynumber: 2.3 Consensus size: 30
18981288 TTTTAATGCT
*
18981298 ATTATAATAAAATATTTAATATGATATTTGA
1 ATTATAA-AAAATATTTAATATGATATTTAA
*
18981329 ATT-TAAAAAATTTTTAATATGATATTTAA
1 ATTATAAAAAATATTTAATATGATATTTAA
18981358 ATTATAAA
1 ATTATAAA
18981366 TTTATTATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 24 0.71
30 7 0.21
31 3 0.09
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (30 bp):
ATTATAAAAAATATTTAATATGATATTTAA
Found at i:18983470 original size:15 final size:15
Alignment explanation
Indices: 18983447--18983476 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18983437 ATTTGTATAT
*
18983447 ATAATTTTATAAAAC
1 ATAAATTTATAAAAC
18983462 ATAAATTTATAAAAC
1 ATAAATTTATAAAAC
18983477 TGTATGTCAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (15 bp):
ATAAATTTATAAAAC
Found at i:18984388 original size:62 final size:62
Alignment explanation
Indices: 18984291--18984415 Score: 234
Period size: 62 Copynumber: 2.0 Consensus size: 62
18984281 ACGGAGTTAG
18984291 TAGTTGGGGTAAATTGCTGATGAAACATAAGTTTTAAGTATTTAAG-TGTAAATTTTTATTAT
1 TAGTTGGGGTAAATTGCTGATGAAACATAAGTTTTAAGTATTT-AGTTGTAAATTTTTATTAT
18984353 TAGTTGGGGTAAATTGCTGATGAAACATAAGTTTTAAGTATTTAGTTGTAAATTTTTATTAT
1 TAGTTGGGGTAAATTGCTGATGAAACATAAGTTTTAAGTATTTAGTTGTAAATTTTTATTAT
18984415 T
1 T
18984416 TAAATATTAA
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
61 2 0.03
62 60 0.97
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.45
Consensus pattern (62 bp):
TAGTTGGGGTAAATTGCTGATGAAACATAAGTTTTAAGTATTTAGTTGTAAATTTTTATTAT
Found at i:18985198 original size:10 final size:10
Alignment explanation
Indices: 18985183--18985232 Score: 57
Period size: 10 Copynumber: 5.1 Consensus size: 10
18985173 ATAATTTTAA
18985183 ATTAAATAAT
1 ATTAAATAAT
18985193 ATTAAATAAT
1 ATTAAATAAT
* * *
18985203 ACTAATTTAT
1 ATTAAATAAT
*
18985213 -TTAAATGAT
1 ATTAAATAAT
18985222 ATTAAATAAT
1 ATTAAATAAT
18985232 A
1 A
18985233 ATTGTTCGTT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
9 6 0.19
10 26 0.81
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (10 bp):
ATTAAATAAT
Found at i:18986831 original size:24 final size:25
Alignment explanation
Indices: 18986803--18986849 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
18986793 TATCTCACAA
*
18986803 AACCTAAGCCT-AACCTAAAACCCT
1 AACCTAAGCCTAAACCCAAAACCCT
* *
18986827 AACCTTAGCTTAAACCCAAAACC
1 AACCTAAGCCTAAACCCAAAACC
18986850 TAAAGTCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 9 0.47
25 10 0.53
ACGTcount: A:0.43, C:0.36, G:0.04, T:0.17
Consensus pattern (25 bp):
AACCTAAGCCTAAACCCAAAACCCT
Found at i:19002795 original size:20 final size:19
Alignment explanation
Indices: 19002770--19002840 Score: 67
Period size: 18 Copynumber: 3.7 Consensus size: 19
19002760 AAAATTTAAA
19002770 TTATTTAATATTTATAAAAT
1 TTATTTAATA-TTATAAAAT
*
19002790 TTATTT-ATAATATAAAAT
1 TTATTTAATATTATAAAAT
* *
19002808 TT-GTTAATAAATAATAAAAT
1 TTATTTAAT--ATTATAAAAT
19002828 TTATTTAA-ATTAT
1 TTATTTAATATTAT
19002841 TTATTAATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
17 2 0.05
18 16 0.39
19 3 0.07
20 16 0.39
21 4 0.10
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (19 bp):
TTATTTAATATTATAAAAT
Found at i:19002803 original size:18 final size:19
Alignment explanation
Indices: 19002782--19002834 Score: 72
Period size: 18 Copynumber: 2.8 Consensus size: 19
19002772 ATTTAATATT
19002782 TATAAAATTTATTTAT-AA
1 TATAAAATTTATTTATAAA
* *
19002800 TATAAAATTTGTTAATAAA
1 TATAAAATTTATTTATAAA
19002819 TAATAAAATTTATTTA
1 T-ATAAAATTTATTTA
19002835 AATTATTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 14 0.48
19 3 0.10
20 12 0.41
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
TATAAAATTTATTTATAAA
Found at i:19003374 original size:22 final size:20
Alignment explanation
Indices: 19003349--19003388 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
19003339 TTTAATTTTT
19003349 TTTTAAAGAATAAGATAAAAAA
1 TTTTAAAGAA-AAGA-AAAAAA
*
19003371 TTTTGAAGAAAAGAAAAA
1 TTTTAAAGAAAAGAAAAA
19003389 TCAGAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 4 0.24
22 9 0.53
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (20 bp):
TTTTAAAGAAAAGAAAAAAA
Found at i:19009856 original size:2 final size:2
Alignment explanation
Indices: 19009849--19009888 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
19009839 ATCAAATACA
* *
19009849 TC TC TC TC TC TC TC TC TC TC TC TC TC AC TC AC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
19009889 ACACACACAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.05, C:0.50, G:0.00, T:0.45
Consensus pattern (2 bp):
TC
Found at i:19013685 original size:7 final size:6
Alignment explanation
Indices: 19013658--19013687 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
19013648 AATGGAGAAC
19013658 AAAAGA AAAAGA AAAAGA AAAAGTA AAAAG
1 AAAAGA AAAAGA AAAAGA AAAAG-A AAAAG
19013688 GTTGTGTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:19013886 original size:6 final size:6
Alignment explanation
Indices: 19013867--19013910 Score: 60
Period size: 5 Copynumber: 8.0 Consensus size: 6
19013857 AGAAATCCGC
19013867 AAAAAT -AAAA- AAAAAT -AAAAT AAAAA- AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
19013911 CCAAACATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
5 18 0.53
6 16 0.47
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:19013895 original size:17 final size:17
Alignment explanation
Indices: 19013867--19013909 Score: 72
Period size: 16 Copynumber: 2.6 Consensus size: 17
19013857 AGAAATCCGC
19013867 AAAAAT-AAAAAAAAAT
1 AAAAATAAAAAAAAAAT
19013883 -AAAATAAAAAAAAAAT
1 AAAAATAAAAAAAAAAT
19013899 AAAAATAAAAA
1 AAAAATAAAAA
19013910 TCCAAACATG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.20
16 10 0.40
17 10 0.40
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAAATAAAAAAAAAAT
Found at i:19013902 original size:22 final size:21
Alignment explanation
Indices: 19013867--19013908 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
19013857 AGAAATCCGC
*
19013867 AAAAATAAAAAAAAATAAAAT
1 AAAAAAAAAAAAAAATAAAAT
19013888 AAAAAAAAAATAAAAATAAAA
1 AAAAAAAAAA-AAAAATAAAA
19013909 ATCCAAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (21 bp):
AAAAAAAAAAAAAAATAAAAT
Found at i:19024404 original size:29 final size:28
Alignment explanation
Indices: 19024353--19024412 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
19024343 TTTAAAAAGG
*
19024353 CTTGAATTGAATTGAAAACAAAATAGAA
1 CTTGAATTGAATAGAAAACAAAATAGAA
*
19024381 CTTGAATTTGAA-AGAAAACTAAAATTGAA
1 CTTGAA-TTGAATAGAAAAC-AAAATAGAA
19024410 CTT
1 CTT
19024413 TGCATAACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 12 0.43
29 16 0.57
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.28
Consensus pattern (28 bp):
CTTGAATTGAATAGAAAACAAAATAGAA
Found at i:19024408 original size:23 final size:24
Alignment explanation
Indices: 19024357--19024414 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
19024347 AAAAGGCTTG
19024357 AATTGAA-TTGAAAACAAAATAGA
1 AATTGAATTTGAAAACAAAATAGA
* *
19024380 ACTTGAATTTGAAAGA-AAACTA-A
1 AATTGAATTTGAAA-ACAAAATAGA
19024403 AATTGAACTTTG
1 AATTGAA-TTTG
19024415 CATAACTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 13 0.45
24 15 0.52
25 1 0.03
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (24 bp):
AATTGAATTTGAAAACAAAATAGA
Found at i:19034477 original size:17 final size:16
Alignment explanation
Indices: 19034447--19034481 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
19034437 TCCCTATCTC
19034447 TTTATTTTGATTATAG
1 TTTATTTTGATTATAG
*
19034463 TTTATATTTGCTTATAG
1 TTTAT-TTTGATTATAG
19034480 TT
1 TT
19034482 CATCAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.23, C:0.03, G:0.11, T:0.63
Consensus pattern (16 bp):
TTTATTTTGATTATAG
Found at i:19044238 original size:19 final size:19
Alignment explanation
Indices: 19044214--19044256 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
19044204 ATAAACTTTG
19044214 GTTTAGATATAAGGGATTA
1 GTTTAGATATAAGGGATTA
19044233 GTTTAGATATAAGGGATTA
1 GTTTAGATATAAGGGATTA
19044252 GTTTA
1 GTTTA
19044257 TCAACTTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.40
Consensus pattern (19 bp):
GTTTAGATATAAGGGATTA
Found at i:19046946 original size:247 final size:248
Alignment explanation
Indices: 19046484--19046973 Score: 743
Period size: 247 Copynumber: 2.0 Consensus size: 248
19046474 AAAGCATAAG
* *
19046484 TACTAAAGGAAGAAGAATACTCCCCTAATTCACCAAGATTGAATCTAAACTTGTAGGATCACCTT
1 TACTAAAGGAAGAAGAATACTACCCAAATTCACCAAGATTGAATCTAAACTTGTAGGATCACCTT
* * * *
19046549 TGCAAAAATAACTTGCTATTTTGGTTTTCTTGTTCCAAGTTTTTCAAGTTTCCCTTCCTACAAAA
66 TGCAAAAATAACTTACTATTTTGGTTTCCGTGTTCCAAGCTTTTCAAGTTTCCCTTCCTACAAAA
* *
19046614 ACAAAACAAAACAAATCAAAGCATACCTATTCCTAAAGAAAGAAAAACTAAAAATTAAAGCTTAC
131 ACAAAACAAAACAAATCAAAGCATACATATTCCTAAAGAAAGAAAAACCAAAAATTAAAGCTTAC
* ** ** *
19046679 TAACAATTTAAAGGTAGAACTTGGGTTGCCTCCCAAGTAGTGCTTTAGTTGTA
196 AAACAATTTAAAAATAGAACTTAAGTTGCCTCCCAAGTAATGCTTTAGTTGTA
*
19046732 TACTAAAGGAA-AAGGAATGCTACCCAAATTCACCAAGATTGAATCTAAACTTGTAGGATCATCC
1 TACTAAAGGAAGAA-GAATACTACCCAAATTCACCAAGATTGAATCTAAACTTGTAGGATCA-CC
** * * *
19046796 -TTGCATCAATAGCTTATTGTTTTGGTTTCCGTGTTCCAAGCTTTTCAAGTTTCCCTT-CTACAA
64 TTTGCAAAAATAACTTACTATTTTGGTTTCCGTGTTCCAAGCTTTTCAAGTTTCCCTTCCTACAA
* *
19046859 AATCAAAACAAAACAAATCAAAGCATACATATTCCTAAAGAAAGGAAAACCAAAAATTAAAGCTT
129 AAACAAAACAAAACAAATCAAAGCATACATATTCCTAAAGAAAGAAAAACCAAAAATTAAAGCTT
19046924 ACAAACAATTTAAAAATAGAACTTAAGTTGCCTCCCAAGTAATGCTTTAG
194 ACAAACAATTTAAAAATAGAACTTAAGTTGCCTCCCAAGTAATGCTTTAG
19046974 CTATAGTCTA
Statistics
Matches: 218, Mismatches: 22, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
247 113 0.52
248 103 0.47
249 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (248 bp):
TACTAAAGGAAGAAGAATACTACCCAAATTCACCAAGATTGAATCTAAACTTGTAGGATCACCTT
TGCAAAAATAACTTACTATTTTGGTTTCCGTGTTCCAAGCTTTTCAAGTTTCCCTTCCTACAAAA
ACAAAACAAAACAAATCAAAGCATACATATTCCTAAAGAAAGAAAAACCAAAAATTAAAGCTTAC
AAACAATTTAAAAATAGAACTTAAGTTGCCTCCCAAGTAATGCTTTAGTTGTA
Found at i:19048473 original size:14 final size:13
Alignment explanation
Indices: 19048451--19048484 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
19048441 AAAGATTTTT
*
19048451 TTATTTTTTAAAA
1 TTATTTTTTTAAA
*
19048464 TTATTTTTTTATA
1 TTATTTTTTTAAA
19048477 TTATTTTT
1 TTATTTTT
19048485 ATTATTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TTATTTTTTTAAA
Found at i:19049592 original size:10 final size:10
Alignment explanation
Indices: 19049577--19049602 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
19049567 TAAAATTTCT
19049577 TTTTAATTAA
1 TTTTAATTAA
19049587 TTTTAATTAA
1 TTTTAATTAA
19049597 TTTTAA
1 TTTTAA
19049603 GATTTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTAATTAA
Found at i:19049893 original size:18 final size:17
Alignment explanation
Indices: 19049862--19049904 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
19049852 TTGATTCTCT
*
19049862 AAAAAAATTAAAAATAA
1 AAAAAAATTAAAAACAA
*
19049879 AAAACAAATTGAAAACAA
1 AAAA-AAATTAAAAACAA
19049897 AAAGAAAA
1 AAA-AAAA
19049905 ATTCCACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 4 0.18
18 17 0.77
19 1 0.05
ACGTcount: A:0.79, C:0.05, G:0.05, T:0.12
Consensus pattern (17 bp):
AAAAAAATTAAAAACAA
Found at i:19061150 original size:49 final size:51
Alignment explanation
Indices: 19061046--19061556 Score: 274
Period size: 49 Copynumber: 10.6 Consensus size: 51
19061036 TATATTTTCA
* * *
19061046 AAAGTTGTT-CGCTTCTGCTTAGAGGAGCCTTTTTCCAAGATGAAATCTTT
1 AAAGTTGTTGAGCCTCTGCTTAGAGGAGCCTTTTTCCAAGATGAAATATTT
* * *
19061096 AAAGTTGTTGAGCCTCTGCTTAGAGTAG-TTTTTTTCAAGAT-AAATATTT
1 AAAGTTGTTGAGCCTCTGCTTAGAGGAGCCTTTTTCCAAGATGAAATATTT
* * ** * **
19061145 AAAGTTGTTGAGCCTCTACTTAAAAAAACCCATTT-----AT---AT-TTT
1 AAAGTTGTTGAGCCTCTGCTTAGAGGAGCCTTTTTCCAAGATGAAATATTT
** * * * *
19061187 GAAATGTCATTGAGCCTATGCTTA-ATGGAGCCTTTTTCCAATATGAATTCTTT
1 -AAA-GTTGTTGAGCCTCTGCTTAGA-GGAGCCTTTTTCCAAGATGAAATATTT
* ** *
19061240 AAAATTGTTGAGCCTCTATTTAGAGGAG-CTTTTTCCAAGAT-AAATTTTT
1 AAAGTTGTTGAGCCTCTGCTTAGAGGAGCCTTTTTCCAAGATGAAATATTT
* *
19061289 AAATTTGTTGAGCCTCTGCTTAGAGAAG-CTTATTT-----AT---AT-TTT
1 AAAGTTGTTGAGCCTCTGCTTAGAGGAGCCTT-TTTCCAAGATGAAATATTT
** * * *
19061331 CAAAAGTCATTGAGCCTCTACTTAGAGGAGCCTTTTTCCAAAATGAAATCTTTT
1 --AAAGTTGTTGAGCCTCTGCTTAGAGGAGCCTTTTTCCAAGATGAAAT-ATTT
* * * *
19061385 AAA-TTGTTAAGCCTTTGTTTAGAGGAG-C-TTTTCCAAGATGAAATTTTT
1 AAAGTTGTTGAGCCTCTGCTTAGAGGAGCCTTTTTCCAAGATGAAATATTT
**
19061433 AAAGTTGTTGAGCCTCTGCTTAGAGGAGCCCATTT-----AT---AT-TTT
1 AAAGTTGTTGAGCCTCTGCTTAGAGGAGCCTTTTTCCAAGATGAAATATTT
* * * *
19061475 CAAAAGTCGTTGAGCCTCTGCTTAGAGTAG-C-TTTTCTAAGATGAAAAATTT
1 --AAAGTTGTTGAGCCTCTGCTTAGAGGAGCCTTTTTCCAAGATGAAATATTT
* *
19061526 AAAGTTGTT-AACCATTTGCTTAGAGGAGCCT
1 AAAGTTGTTGAGCC-TCTGCTTAGAGGAGCCT
19061557 ATTTATATTT
Statistics
Matches: 354, Mismatches: 61, Indels: 91
0.70 0.12 0.18
Matches are distributed among these distances:
42 12 0.03
43 11 0.03
44 73 0.21
45 7 0.02
46 2 0.01
47 2 0.01
48 10 0.03
49 123 0.35
50 42 0.12
51 56 0.16
52 10 0.03
53 3 0.01
54 3 0.01
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.39
Consensus pattern (51 bp):
AAAGTTGTTGAGCCTCTGCTTAGAGGAGCCTTTTTCCAAGATGAAATATTT
Found at i:19061248 original size:144 final size:143
Alignment explanation
Indices: 19060988--19061509 Score: 622
Period size: 144 Copynumber: 3.6 Consensus size: 143
19060978 GTTTTGAGAA
** * **
19060988 AAGATGAAATTTTTAAAGTTGTTTTGCCCCTATTTAGAG--GCATCCATTTATATTTTCAAAAGT
1 AAGAT-AAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGAAGC--CCATTTATATTTTCAAAAGT
** * * * * *
19061051 TGTT-CGCTTCTGCTTAGAGGAGCCTTTTTCCAAGATGAAATCTTTAAAGTTGTTGAGCCTCTGC
63 CATTGAGCCTCTGCTTAGAGGAGCCTTTTTCCAAAATGAAATCTTTAAAATTGTTGAGCCTCTGT
* *
19061115 TTAGAGTAGTTTTTTTC
128 TTAGAGGAG-TTTTTCC
* * * * * * *
19061132 AAGATAAATATTTAAAGTTGTTGAGCCTCTACTTAAAAAAACCCATTTATATTTTGAAATGTCAT
1 AAGATAAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGAAGCCCATTTATATTTTCAAAAGTCAT
* * * *
19061197 TGAGCCTATGCTTA-ATGGAGCCTTTTTCCAATATGAATTCTTTAAAATTGTTGAGCCTCTATTT
66 TGAGCCTCTGCTTAGA-GGAGCCTTTTTCCAAAATGAAATCTTTAAAATTGTTGAGCCTCTGTTT
19061261 AGAGGAGCTTTTTCC
130 AGAGGAG-TTTTTCC
* **
19061276 AAGATAAATTTTTAAATTTGTTGAGCCTCTGCTTAGAGAAGCTTATTTATATTTTCAAAAGTCAT
1 AAGATAAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGAAGCCCATTTATATTTTCAAAAGTCAT
* * * *
19061341 TGAGCCTCTACTTAGAGGAGCCTTTTTCCAAAATGAAATCTTTTAAATTGTTAAGCCTTTGTTTA
66 TGAGCCTCTGCTTAGAGGAGCCTTTTTCCAAAATGAAATCTTTAAAATTGTTGAGCCTCTGTTTA
*
19061406 GAGGAGCTTTTCC
131 GAGGAGTTTTTCC
* *
19061419 AAGATGAAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCCCATTTATATTTTCAAAAGTCG
1 AAGAT-AAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGAAGCCCATTTATATTTTCAAAAGTCA
*
19061484 TTGAGCCTCTGCTTAGAGTAG-CTTTT
65 TTGAGCCTCTGCTTAGAGGAGCCTTTT
19061510 CTAAGATGAA
Statistics
Matches: 323, Mismatches: 49, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
143 63 0.20
144 258 0.80
145 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (143 bp):
AAGATAAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGAAGCCCATTTATATTTTCAAAAGTCAT
TGAGCCTCTGCTTAGAGGAGCCTTTTTCCAAAATGAAATCTTTAAAATTGTTGAGCCTCTGTTTA
GAGGAGTTTTTCC
Found at i:19061519 original size:93 final size:93
Alignment explanation
Indices: 19061394--19061572 Score: 252
Period size: 93 Copynumber: 1.9 Consensus size: 93
19061384 TAAATTGTTA
* * ** *
19061394 AGCCTTTGTTTAGAGGAGCTTTTCCAAGATGAAATTTTTAAAGTTGTTGAGCC-TCTGCTTAGAG
1 AGCCTCTGCTTAGAGGAGCTTTTCCAAGATGAAAAATTTAAAGTTGTT-AACCATCTGCTTAGAG
*
19061458 GAGCCCATTTATATTTTCAAAAGTCGTTG
65 GAGCCCATTTATATTTTAAAAAGTCGTTG
* * *
19061487 AGCCTCTGCTTAGAGTAGCTTTTCTAAGATGAAAAATTTAAAGTTGTTAACCATTTGCTTAGAGG
1 AGCCTCTGCTTAGAGGAGCTTTTCCAAGATGAAAAATTTAAAGTTGTTAACCATCTGCTTAGAGG
*
19061552 AGCCTATTTATATTTTAAAAA
66 AGCCCATTTATATTTTAAAAA
19061573 ATCAGAGCCC
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
92 3 0.04
93 72 0.96
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (93 bp):
AGCCTCTGCTTAGAGGAGCTTTTCCAAGATGAAAAATTTAAAGTTGTTAACCATCTGCTTAGAGG
AGCCCATTTATATTTTAAAAAGTCGTTG
Found at i:19061786 original size:8 final size:8
Alignment explanation
Indices: 19061758--19061819 Score: 74
Period size: 8 Copynumber: 7.5 Consensus size: 8
19061748 ATAAACACCG
19061758 TTTTAT-T
1 TTTTATAT
19061765 TATTTAT-T
1 T-TTTATAT
19061773 TATTTATAT
1 T-TTTATAT
19061782 TTTTATAT
1 TTTTATAT
19061790 TTTTATATT
1 TTTTATA-T
19061799 TTTTATATT
1 TTTTATA-T
19061808 TTTTATAT
1 TTTTATAT
19061816 TTTT
1 TTTT
19061820 CTTTTTTCTT
Statistics
Matches: 52, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
7 1 0.02
8 32 0.62
9 19 0.37
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTATAT
Found at i:19061786 original size:16 final size:16
Alignment explanation
Indices: 19061758--19061819 Score: 74
Period size: 17 Copynumber: 3.8 Consensus size: 16
19061748 ATAAACACCG
19061758 TTTTAT-TTATTTAT-T
1 TTTTATATT-TTTATAT
19061773 TATTTATATTTTTATAT
1 T-TTTATATTTTTATAT
19061790 TTTTATATTTTTTATATT
1 TTTTATA-TTTTTATA-T
19061808 TTTTATATTTTT
1 TTTTATATTTTT
19061820 CTTTTTTCTT
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.02
16 16 0.38
17 17 0.40
18 8 0.19
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTATATTTTTATAT
Done.