Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 101 of 121
Found at i:17156958 original size:35 final size:35
Alignment explanation
Indices: 17156889--17157081 Score: 208
Period size: 35 Copynumber: 5.5 Consensus size: 35
17156879 ATGATCATTA
* ** *
17156889 ATATTATTGCATGATAATTTTTGTATGGTGTGATTTT
1 ATATTATTGCATGAT--TTATTACATGGTATGATTTT
* *
17156926 ATATAATTGCATGATTTATTACATGGTATGATTCT
1 ATATTATTGCATGATTTATTACATGGTATGATTTT
* * *
17156961 ATATTATTGCACGATTTATTGCATGATATGATTTT
1 ATATTATTGCATGATTTATTACATGGTATGATTTT
* * * *
17156996 AT-TTATTGCTTGATTTATTACATGATATAATTCT
1 ATATTATTGCATGATTTATTACATGGTATGATTTT
* * *
17157030 ATATTATTGCATTATTTATTGCATGGTATGATTTA
1 ATATTATTGCATGATTTATTACATGGTATGATTTT
17157065 ATATTTATTGCATGATT
1 ATA-TTATTGCATGATT
17157082 GCCTGATATT
Statistics
Matches: 130, Mismatches: 24, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
34 29 0.22
35 75 0.58
36 12 0.09
37 14 0.11
ACGTcount: A:0.28, C:0.07, G:0.14, T:0.51
Consensus pattern (35 bp):
ATATTATTGCATGATTTATTACATGGTATGATTTT
Found at i:17157011 original size:69 final size:69
Alignment explanation
Indices: 17156919--17157081 Score: 236
Period size: 69 Copynumber: 2.3 Consensus size: 69
17156909 TTGTATGGTG
* * *
17156919 TGATTTTATATAATTGCATGATTTATTACATGGTATGATTCTATATTATTGCACGATTTATTGCA
1 TGATTTTAT-TTATTGCATGATTTATTACATGATATAATTCTATATTATTGCACGATTTATTGCA
17156984 TGATA
65 TGATA
* **
17156989 TGATTTTATTTATTGCTTGATTTATTACATGATATAATTCTATATTATTGCATTATTTATTGCAT
1 TGATTTTATTTATTGCATGATTTATTACATGATATAATTCTATATTATTGCACGATTTATTGCAT
*
17157054 GGTA
66 GATA
17157058 TGATTTAATATTTATTGCATGATT
1 TGATTT--TATTTATTGCATGATT
17157082 GCCTGATATT
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
69 59 0.71
70 9 0.11
71 15 0.18
ACGTcount: A:0.29, C:0.07, G:0.13, T:0.51
Consensus pattern (69 bp):
TGATTTTATTTATTGCATGATTTATTACATGATATAATTCTATATTATTGCACGATTTATTGCAT
GATA
Found at i:17163053 original size:46 final size:48
Alignment explanation
Indices: 17162984--17163098 Score: 162
Period size: 47 Copynumber: 2.4 Consensus size: 48
17162974 TTAGATGTTT
* * * *
17162984 ATTTTTAAGTTTCAAGCCTTTGTTGACAATGAGCTTT-TTAGATGAGA
1 ATTTTAAAGTTTCAAGCCTTTGTTGACAAGGAGCTTTCCTAAATGAGA
* *
17163031 ATTTTAAAGTTT-ATGCCTTTGTTGAGAAGGAGCTTTCCTAAATGAGA
1 ATTTTAAAGTTTCAAGCCTTTGTTGACAAGGAGCTTTCCTAAATGAGA
17163078 ATTTTAAAGTTTCAAGCCTTT
1 ATTTTAAAGTTTCAAGCCTTT
17163099 ATAGAAAAAG
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
46 21 0.36
47 31 0.53
48 7 0.12
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (48 bp):
ATTTTAAAGTTTCAAGCCTTTGTTGACAAGGAGCTTTCCTAAATGAGA
Found at i:17163188 original size:38 final size:38
Alignment explanation
Indices: 17163146--17163450 Score: 298
Period size: 38 Copynumber: 8.1 Consensus size: 38
17163136 AAAGTTGGAT
*
17163146 CCTCAGTGGAGGAGTTCTTTATTTTTCAAAAGTTAAAA
1 CCTCAGTGGAGGAGTTCTTTATTTTTCAAAAGTTAAAG
* * *
17163184 CCTCAATAGAGGAGTT-TTATATTTTTCCAAAGTTAAAG
1 CCTCAGTGGAGGAGTTCTT-TATTTTTCAAAAGTTAAAG
* *
17163222 CCTCAGTAGAGGTGTT-TTATATTTTTTCAAAAGTTAAAG
1 CCTCAGTGGAGGAGTTCTT-TA-TTTTTCAAAAGTTAAAG
* * * *
17163261 CATC-GATGGAGAAGTTCTTTATTTTTC-CAAGTTGAAG
1 CCTCAG-TGGAGGAGTTCTTTATTTTTCAAAAGTTAAAG
* * * *
17163298 CCTCGGTGGAGGAGTTTTTTATTTTTCAAAACTTGAAG
1 CCTCAGTGGAGGAGTTCTTTATTTTTCAAAAGTTAAAG
* * *
17163336 CCTCGGTGGAAGAGTACTTTATTTTTC-AAAGTTAAAG
1 CCTCAGTGGAGGAGTTCTTTATTTTTCAAAAGTTAAAG
* ** * *
17163373 CCTTAGTAAAAGAGTTTTTTATTTTTC-AAAGTTAAAG
1 CCTCAGTGGAGGAGTTCTTTATTTTTCAAAAGTTAAAG
* * * *
17163410 CCTCAATGGAGGAGTACTTTATTTTTTAAAAGTTGAAG
1 CCTCAGTGGAGGAGTTCTTTATTTTTCAAAAGTTAAAG
17163448 CCT
1 CCT
17163451 TAATGGAGAA
Statistics
Matches: 222, Mismatches: 38, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
37 90 0.41
38 102 0.46
39 28 0.13
40 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.38
Consensus pattern (38 bp):
CCTCAGTGGAGGAGTTCTTTATTTTTCAAAAGTTAAAG
Found at i:17163452 original size:75 final size:75
Alignment explanation
Indices: 17163132--17163450 Score: 336
Period size: 75 Copynumber: 4.2 Consensus size: 75
17163122 GATTTTGTTC
** * * * * *
17163132 TTTCAAAGTTGGATCCTCAGTGGAGGAGTTCTTTATTTTTCAAAAGTTAAAACCTCAATAGAGGA
1 TTTCAAAGTTAAAGCCTCAGTAGAGGAGTTTTTTATTTTTCAAAAGTTAAAGCCTCAATGGAGGA
*
17163197 GT-TTTATATT
66 GTACTT-TATT
* * * *
17163207 TTTCCAAAGTTAAAGCCTCAGTAGAGGTGTTTTATATTTTTTCAAAAGTTAAAGCATCGATGGAG
1 TTT-CAAAGTTAAAGCCTCAGTAGAGGAGTTTTTTA-TTTTTCAAAAGTTAAAGCCTCAATGGAG
* *
17163272 AAGTTCTTTATT
64 GAGTACTTTATT
* * * * * * ** *
17163284 TTTCCAAGTTGAAGCCTCGGTGGAGGAGTTTTTTATTTTTCAAAACTTGAAGCCTCGGTGGAAGA
1 TTTCAAAGTTAAAGCCTCAGTAGAGGAGTTTTTTATTTTTCAAAAGTTAAAGCCTCAATGGAGGA
17163349 GTACTTTATT
66 GTACTTTATT
* * *
17163359 TTTCAAAGTTAAAGCCTTAGTAAAAGAGTTTTTTATTTTTC-AAAGTTAAAGCCTCAATGGAGGA
1 TTTCAAAGTTAAAGCCTCAGTAGAGGAGTTTTTTATTTTTCAAAAGTTAAAGCCTCAATGGAGGA
17163423 GTACTTTATTT
66 GTACTTTA-TT
* *
17163434 TTTAAAAGTTGAAGCCT
1 TTTCAAAGTTAAAGCCT
17163451 TAATGGAGAA
Statistics
Matches: 200, Mismatches: 40, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
74 26 0.13
75 87 0.44
76 51 0.25
77 34 0.17
78 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (75 bp):
TTTCAAAGTTAAAGCCTCAGTAGAGGAGTTTTTTATTTTTCAAAAGTTAAAGCCTCAATGGAGGA
GTACTTTATT
Found at i:17165001 original size:20 final size:20
Alignment explanation
Indices: 17164976--17165022 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
17164966 GACTTTTTTG
*
17164976 ACTAAAAAAATAAAAATTAA
1 ACTAAAAAAATAAAAATAAA
*
17164996 ACTAAAAAAATTAAAATAAA
1 ACTAAAAAAATAAAAATAAA
*
17165016 AATAAAA
1 ACTAAAA
17165023 TTTAAGGCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (20 bp):
ACTAAAAAAATAAAAATAAA
Found at i:17165006 original size:14 final size:14
Alignment explanation
Indices: 17164987--17165017 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
17164977 CTAAAAAAAT
*
17164987 AAAAATTAAACTAA
1 AAAAATTAAAATAA
17165001 AAAAATTAAAATAA
1 AAAAATTAAAATAA
17165015 AAA
1 AAA
17165018 TAAAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAAATTAAAATAA
Found at i:17165299 original size:43 final size:44
Alignment explanation
Indices: 17165243--17165544 Score: 301
Period size: 43 Copynumber: 7.0 Consensus size: 44
17165233 ATCTCAAAAA
*
17165243 CTCCCCTACAACTGAGGCTTTGAAACTTTTAG-AAAATAAAATG
1 CTCCCCCACAACTGAGGCTTTGAAACTTTTAGAAAAATAAAATG
* * *
17165286 CTCCCCCATAACTGAGGCTTTGAAAC-TTTAGAAAACTAAAATA
1 CTCCCCCACAACTGAGGCTTTGAAACTTTTAGAAAAATAAAATG
** * *
17165329 CTTTCCCACAATTGAGGCTTTGAAACATTT-GAAAAATAAAATG
1 CTCCCCCACAACTGAGGCTTTGAAACTTTTAGAAAAATAAAATG
* * ** * * *
17165372 CTTCCCCACAACTAAGATTTTGAAAC-GTTGGTAAAATAAAATG
1 CTCCCCCACAACTGAGGCTTTGAAACTTTTAGAAAAATAAAATG
** * * **
17165415 CTCCCCCACAACTGAAACTTTGAAATTTTTAGAAAAAAAAAAAC
1 CTCCCCCACAACTGAGGCTTTGAAACTTTTAGAAAAATAAAATG
* * * * *
17165459 CTCACCCACAACTTAGGGTTTTAAACTTTT-GGAAAATAAAATG
1 CTCCCCCACAACTGAGGCTTTGAAACTTTTAGAAAAATAAAATG
* * *
17165502 CTCTCCCACAACTGAGGCTTTGCAA-TTTTTGAAAAATAAAATG
1 CTCCCCCACAACTGAGGCTTTGAAACTTTTAGAAAAATAAAATG
17165545 AGATCATGCT
Statistics
Matches: 209, Mismatches: 45, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
42 11 0.05
43 161 0.77
44 37 0.18
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (44 bp):
CTCCCCCACAACTGAGGCTTTGAAACTTTTAGAAAAATAAAATG
Found at i:17166181 original size:90 final size:91
Alignment explanation
Indices: 17166011--17166206 Score: 286
Period size: 90 Copynumber: 2.2 Consensus size: 91
17166001 TCAAGTAATC
* * *
17166011 TCATCCAAATTCAAAGATTTCTTATCAACATGGGTTATCATGCATGATTCTCATCGACATCATGC
1 TCATCCAAATTCAAAGATTTCTTAACAACAAGGGTTATCATGCATGATTCTCATCGACATCATAC
* * *
17166076 ATTGTTAAACGATCTTATCCA-TTTA
66 ATTATCAAACAATCTTATCCATTTTA
* *
17166101 TCATCCAAATTCAAAGATTTCTTAACAACAAGGGTTATCATGCATGATTGTCATGGACATCATAC
1 TCATCCAAATTCAAAGATTTCTTAACAACAAGGGTTATCATGCATGATTCTCATCGACATCATAC
* *
17166166 TTTATCAAATAATCTTATCCATTTTA
66 ATTATCAAACAATCTTATCCATTTTA
*
17166192 TCATCCAAATACAAA
1 TCATCCAAATTCAAA
17166207 CAGGGATCTT
Statistics
Matches: 94, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
90 76 0.81
91 18 0.19
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (91 bp):
TCATCCAAATTCAAAGATTTCTTAACAACAAGGGTTATCATGCATGATTCTCATCGACATCATAC
ATTATCAAACAATCTTATCCATTTTA
Found at i:17168551 original size:32 final size:32
Alignment explanation
Indices: 17168513--17168574 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
17168503 TAATGAAAAC
* *
17168513 CATAAAACAAAATCAATAAATAAATAATTATG
1 CATAAAACAAAATCAATAAACAAACAATTATG
*
17168545 CATAAAACAAAATGAATAAACAAACAATTA
1 CATAAAACAAAATCAATAAACAAACAATTA
17168575 AAGAATAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.65, C:0.11, G:0.03, T:0.21
Consensus pattern (32 bp):
CATAAAACAAAATCAATAAACAAACAATTATG
Found at i:17170108 original size:86 final size:88
Alignment explanation
Indices: 17170018--17170212 Score: 232
Period size: 86 Copynumber: 2.2 Consensus size: 88
17170008 CTTTTCATTT
* * * *
17170018 GAGTTCAAAGATTCACATTCAATAAATTTTAGAGTTTCACATCTAAATTCATAGGTTCTCATCC-
1 GAGTTCAAAAATTCACATTCAATAAATTTTAAACTTTCACATCTAAATTCAAAGGTTCTCATCCA
*
17170082 AAAAATTT-TGGTTCACATCCAA
66 AAAAATTTGGGGTTCACATCCAA
* * ** * * * *
17170104 GAGTTTAAAAATTCATATTTGATAGATTTTAAACTTTTACATCTATATTCAAAGGTTCTTATCCA
1 GAGTTCAAAAATTCACATTCAATAAATTTTAAACTTTCACATCTAAATTCAAAGGTTCTCATCCA
17170169 AAAAATTTGGGGTTCACATCCAA
66 AAAAATTTGGGGTTCACATCCAA
**
17170192 GAGTAAAAAAACTTCACATTC
1 GAGTTCAAAAA-TTCACATTC
17170213 GAAAACTTTT
Statistics
Matches: 89, Mismatches: 17, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
86 52 0.58
87 8 0.09
88 22 0.25
89 7 0.08
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.35
Consensus pattern (88 bp):
GAGTTCAAAAATTCACATTCAATAAATTTTAAACTTTCACATCTAAATTCAAAGGTTCTCATCCA
AAAAATTTGGGGTTCACATCCAA
Found at i:17171429 original size:19 final size:18
Alignment explanation
Indices: 17171407--17171446 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 18
17171397 TCATTTGACA
17171407 TTTTTTCTATTCTTTCATTT
1 TTTTTTC-ATT-TTTCATTT
17171427 TTTTTTCATTTTTCATTT
1 TTTTTTCATTTTTCATTT
17171445 TT
1 TT
17171447 CATTTTTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.50
19 3 0.15
20 7 0.35
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTTCATTTTTCATTT
Found at i:17171455 original size:8 final size:7
Alignment explanation
Indices: 17171408--17171453 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
17171398 CATTTGACAT
17171408 TTTTTCTA
1 TTTTTC-A
17171416 TTCTTTCA
1 TT-TTTCA
17171424 -TTTT--
1 TTTTTCA
17171428 TTTTTCA
1 TTTTTCA
17171435 TTTTTCA
1 TTTTTCA
17171442 TTTTTCA
1 TTTTTCA
17171449 TTTTT
1 TTTTT
17171454 TCCCTATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
5 4 0.12
6 3 0.09
7 20 0.59
8 3 0.09
9 4 0.12
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTCA
Found at i:17175850 original size:32 final size:32
Alignment explanation
Indices: 17175812--17175873 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
17175802 TAATGAAAAC
* *
17175812 CATAAAACAAAGTGAATAAATAAATAATTATG
1 CATAAAACAAAATGAATAAACAAATAATTATG
17175844 CATAAAACAAAATGAATAAACAAATAATTA
1 CATAAAACAAAATGAATAAACAAATAATTA
17175874 AAGAATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.63, C:0.08, G:0.06, T:0.23
Consensus pattern (32 bp):
CATAAAACAAAATGAATAAACAAATAATTATG
Found at i:17184872 original size:20 final size:20
Alignment explanation
Indices: 17184809--17184872 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 20
17184799 CAAGAATGTT
* *
17184809 ATGCAAATATTATTAATTATC
1 ATGCAAATA-TATTAATAACC
* *
17184830 ATGC-AATAATATAAAATACCC
1 ATGCAAAT-ATAT-TAATAACC
17184851 ATGCAAATATATTAATAACC
1 ATGCAAATATATTAATAACC
17184871 AT
1 AT
17184873 ATCATGCAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
20 14 0.41
21 17 0.50
22 3 0.09
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (20 bp):
ATGCAAATATATTAATAACC
Found at i:17185264 original size:54 final size:55
Alignment explanation
Indices: 17185147--17185275 Score: 172
Period size: 54 Copynumber: 2.4 Consensus size: 55
17185137 TAACAATGTA
*
17185147 AATCATGCAAATAAACATATATAAACCATACAAATAAATATGCAAGTAAATATAT
1 AATCATGCAAATAAACATATATAAACCATACAAATAAAAATGCAAGTAAATATAT
** * * *
17185202 AATCATGCAAATAATA-ATATATAAATTATGCAAA-AAAAATGCAATTAAATTTAT
1 AATCATGCAAATAA-ACATATATAAACCATACAAATAAAAATGCAAGTAAATATAT
*
17185256 AATCATGCAAATAAATATAT
1 AATCATGCAAATAAACATAT
17185276 TAATAATCAT
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
53 1 0.02
54 35 0.53
55 29 0.44
56 1 0.02
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.29
Consensus pattern (55 bp):
AATCATGCAAATAAACATATATAAACCATACAAATAAAAATGCAAGTAAATATAT
Found at i:17185265 original size:20 final size:20
Alignment explanation
Indices: 17185240--17185378 Score: 71
Period size: 21 Copynumber: 6.3 Consensus size: 20
17185230 TGCAAAAAAA
17185240 ATGCAATTAAATTTATAATC
1 ATGCAATTAAATTTATAATC
*
17185260 ATGCAAATAAATATATTAATAATC
1 ATGC-AATTAA-AT-TT-ATAATC
*
17185284 ATGCAATCAAATTAAATATAATC
1 ATGCAATTAAATT---TATAATC
* *
17185307 ATACAAATAAATATATTAATAATC
1 ATGC-AATTAA-AT-TT-ATAATC
* * *
17185331 ATGCAAATATATTAATAAATC
1 ATGCAATTAAATTTAT-AATC
* * *
17185352 ATACAAATAAATATATTAATC
1 ATGCAATTAAATTTA-TAATC
17185373 ATGCAA
1 ATGCAA
17185379 AAAAAATATA
Statistics
Matches: 92, Mismatches: 14, Indels: 25
0.70 0.11 0.19
Matches are distributed among these distances:
20 6 0.07
21 31 0.34
22 7 0.08
23 20 0.22
24 25 0.27
25 2 0.02
26 1 0.01
ACGTcount: A:0.53, C:0.10, G:0.04, T:0.33
Consensus pattern (20 bp):
ATGCAATTAAATTTATAATC
Found at i:17185281 original size:24 final size:24
Alignment explanation
Indices: 17185254--17185391 Score: 134
Period size: 24 Copynumber: 6.0 Consensus size: 24
17185244 AATTAAATTT
17185254 ATAATCATGCAAATAAATATATTA
1 ATAATCATGCAAATAAATATATTA
*
17185278 ATAATCATGC-AATCAAAT-TA-AA
1 ATAATCATGCAAAT-AAATATATTA
*
17185300 TATAATCATACAAATAAATATATTA
1 -ATAATCATGCAAATAAATATATTA
17185325 ATAATCATGC----AAATATATTA
1 ATAATCATGCAAATAAATATATTA
*
17185345 ATAAATCATACAAATAAATATA-T-
1 AT-AATCATGCAAATAAATATATTA
*
17185368 -TAATCATGCAAAAAAAATATATTA
1 ATAATCATGC-AAATAAATATATTA
17185392 GGCAAATAAA
Statistics
Matches: 94, Mismatches: 7, Indels: 26
0.74 0.06 0.20
Matches are distributed among these distances:
20 12 0.13
21 14 0.15
22 12 0.13
23 19 0.20
24 29 0.31
25 8 0.09
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.32
Consensus pattern (24 bp):
ATAATCATGCAAATAAATATATTA
Found at i:17185315 original size:47 final size:47
Alignment explanation
Indices: 17185244--17185371 Score: 190
Period size: 47 Copynumber: 2.7 Consensus size: 47
17185234 AAAAAAATGC
*
17185244 AATTAAATTTATAATCATGCAAATAAATATATTAATAATCATGC-AATCA
1 AATTAAA--TATAATCATACAAATAAATATATTAATAATCATGCAAAT-A
17185293 AATTAAATATAATCATACAAATAAATATATTAATAATCATGCAAATA
1 AATTAAATATAATCATACAAATAAATATATTAATAATCATGCAAATA
*
17185340 TATT-AATA-AATCATACAAATAAATATATTAAT
1 AATTAAATATAATCATACAAATAAATATATTAAT
17185372 CATGCAAAAA
Statistics
Matches: 76, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
45 24 0.32
46 4 0.05
47 38 0.50
48 3 0.04
49 7 0.09
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (47 bp):
AATTAAATATAATCATACAAATAAATATATTAATAATCATGCAAATA
Found at i:17185353 original size:21 final size:20
Alignment explanation
Indices: 17185315--17185379 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 20
17185305 TCATACAAAT
17185315 AAATATATTAATAATCATGC
1 AAATATATTAATAATCATGC
*
17185335 AAATATATTAATAAATCATAC
1 AAATATATTAAT-AATCATGC
* *
17185356 AAATAAATATATTAATCATGC
1 AAATATAT-TAATAATCATGC
17185377 AAA
1 AAA
17185380 AAAAATATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
20 12 0.31
21 24 0.62
22 3 0.08
ACGTcount: A:0.55, C:0.09, G:0.03, T:0.32
Consensus pattern (20 bp):
AAATATATTAATAATCATGC
Found at i:17185389 original size:47 final size:47
Alignment explanation
Indices: 17185198--17185391 Score: 148
Period size: 47 Copynumber: 4.0 Consensus size: 47
17185188 GCAAGTAAAT
* * *
17185198 ATATAATCATGCAAATAATAATATATAAATTATGCAAAAAAA-ATGCAATTAA
1 ATATAATCATACAAAT-A-AATATATTAATCATGCAAAAAAATAT---ATT-A
* **
17185250 ATTTATAATCATGCAAATAAATATATTAATAATCATGCAATCAAAT-TA--A
1 A--TATAATCATACAAATAAATATA-T--TAATCATGCAAAAAAATATATTA
* ***
17185299 ATATAATCATACAAATAAATATATTAATAAT-CATGCAAATATATTA
1 ATATAATCATACAAATAAATATATTAATCATGCAAAAAAATATATTA
17185345 ATA-AATCATACAAATAAATATATTAATCATGCAAAAAAAATATATTA
1 ATATAATCATACAAATAAATATATTAATCATGC-AAAAAAATATATTA
17185392 GGCAAATAAA
Statistics
Matches: 119, Mismatches: 12, Indels: 27
0.75 0.08 0.17
Matches are distributed among these distances:
43 7 0.06
44 8 0.07
45 26 0.22
46 6 0.05
47 32 0.27
49 2 0.02
52 8 0.07
53 2 0.02
54 15 0.13
55 13 0.11
ACGTcount: A:0.56, C:0.09, G:0.04, T:0.32
Consensus pattern (47 bp):
ATATAATCATACAAATAAATATATTAATCATGCAAAAAAATATATTA
Found at i:17186635 original size:21 final size:23
Alignment explanation
Indices: 17186611--17186661 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
17186601 TTCGAATGCA
17186611 AATCTTTAA-ATCTT-AAATGTG
1 AATCTTTAAGATCTTCAAATGTG
* * *
17186632 AATCTCTAAGATTTTCGAATGTG
1 AATCTTTAAGATCTTCAAATGTG
17186655 AATCTTT
1 AATCTTT
17186662 GAATATTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 8 0.33
22 4 0.17
23 12 0.50
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (23 bp):
AATCTTTAAGATCTTCAAATGTG
Found at i:17186661 original size:44 final size:45
Alignment explanation
Indices: 17186611--17186845 Score: 180
Period size: 44 Copynumber: 5.3 Consensus size: 45
17186601 TTCGAATGCA
*
17186611 AATCTTT-AAATCTTAAATGTGAATCTCTAAGATTTTCGAATGTG
1 AATCTTTGAAATCTTAAATGTGAATCTCTAAGATTTTCAAATGTG
* * * * *
17186655 AATCTTTG-AATATTATATGTTAATATCTAAGATTTTCAAATGAG
1 AATCTTTGAAATCTTAAATGTGAATCTCTAAGATTTTCAAATGTG
* * * * * * *
17186699 AA-CCTT--AATCTTGAATTTGAATCTTTAAGAGTTTCAATTGAG
1 AATCTTTGAAATCTTAAATGTGAATCTCTAAGATTTTCAAATGTG
* * * *
17186741 AATTTTTGAAAT-TTGAATGTAAATCTCTAA-AATTTCTAAAT-TAG
1 AATCTTTGAAATCTTAAATGTGAATCTCTAAGATTTTC-AAATGT-G
* * * * *
17186785 GATATTTGAAATTTTAGATGTGAATCTCTAAAATTTTTCAAATGTG
1 AATCTTTGAAATCTTAAATGTGAATCTCTAAGA-TTTTCAAATGTG
*
17186831 AATATTTGAAATCTT
1 AATCTTTGAAATCTT
17186846 TTGCAAATCT
Statistics
Matches: 149, Mismatches: 32, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
42 29 0.19
43 10 0.07
44 68 0.46
45 18 0.12
46 19 0.13
47 5 0.03
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.43
Consensus pattern (45 bp):
AATCTTTGAAATCTTAAATGTGAATCTCTAAGATTTTCAAATGTG
Found at i:17186842 original size:24 final size:24
Alignment explanation
Indices: 17186786--17186853 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
17186776 CTAAATTAGG
*
17186786 ATATTTGAAA-TTTT-AGATGTGA
1 ATATTTGAAATTTTTCAAATGTGA
* * *
17186808 ATCTCTAAAATTTTTCAAATGTGA
1 ATATTTGAAATTTTTCAAATGTGA
17186832 ATATTTGAAATCTTTTGCAAAT
1 ATATTTGAAAT-TTTT-CAAAT
17186854 CTTTGAATCT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
22 7 0.20
23 4 0.11
24 15 0.43
25 4 0.11
26 5 0.14
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (24 bp):
ATATTTGAAATTTTTCAAATGTGA
Found at i:17186864 original size:19 final size:19
Alignment explanation
Indices: 17186830--17187029 Score: 130
Period size: 19 Copynumber: 10.7 Consensus size: 19
17186820 TTTCAAATGT
*
17186830 GAATATTTGAAATCTTTTGC
1 GAATCTTTG-AATCTTTTGC
*
17186850 AAATCTTTGAATCTTTAT--
1 GAATCTTTGAATCTTT-TGC
17186868 GAATCTTTGAAT-TCTTTGC
1 GAATCTTTGAATCT-TTTGC
*
17186887 GAATC-TTAAATCTTTTGC
1 GAATCTTTGAATCTTTTGC
* **
17186905 AAATCTTTGAATCACTTGC
1 GAATCTTTGAATCTTTTGC
* * *
17186924 GAATTTTTTAAT-TTTTGT
1 GAATCTTTGAATCTTTTGC
*
17186942 GAATC-TTGAAT-TTTTAC
1 GAATCTTTGAATCTTTTGC
**
17186959 GAATCTTTGAATCACTTGC
1 GAATCTTTGAATCTTTTGC
* * *
17186978 AAATATTTGAAAT-TCTTTGT
1 GAATCTTTG-AATCT-TTTGC
* *
17186998 GAATC-TTGAATTTTTTGT
1 GAATCTTTGAATCTTTTGC
*
17187016 GAATTTTTGAATCT
1 GAATCTTTGAATCT
17187030 GTGAATCTTA
Statistics
Matches: 138, Mismatches: 30, Indels: 25
0.72 0.16 0.13
Matches are distributed among these distances:
17 16 0.12
18 52 0.38
19 53 0.38
20 17 0.12
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (19 bp):
GAATCTTTGAATCTTTTGC
Found at i:17186903 original size:55 final size:54
Alignment explanation
Indices: 17186839--17187029 Score: 170
Period size: 55 Copynumber: 3.5 Consensus size: 54
17186829 TGAATATTTG
* *
17186839 AAATCTTTTGCAAATCTTTGAATCTTTATGAATCTTTGAATTCTTTGCGAATCTT
1 AAATCTTTTGCAAATCTTTGAATCTTT-TGAATATTTGAATTCTTTGTGAATCTT
** * *
17186894 AAATCTTTTGCAAATCTTTGAATCACTTGCGAATTTTTTAATT-TTTGTGAATCTT
1 AAATCTTTTGCAAATCTTTGAAT--CTTTTGAATATTTGAATTCTTTGTGAATCTT
* * * **
17186949 GAAT-TTTTACGAATCTTTGAATCACTTGCAAATATTTGAAATTCTTTGTGAATCTT
1 AAATCTTTTGCAAATCTTTGAATCTTTTG--AATATTTG-AATTCTTTGTGAATCTT
* * ** *
17187005 GAATTTTTTGTGAATTTTTGAATCT
1 AAATCTTTTGCAAATCTTTGAATCT
17187030 GTGAATCTTA
Statistics
Matches: 111, Mismatches: 18, Indels: 12
0.79 0.13 0.09
Matches are distributed among these distances:
52 2 0.02
54 22 0.20
55 41 0.37
56 27 0.24
57 19 0.17
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (54 bp):
AAATCTTTTGCAAATCTTTGAATCTTTTGAATATTTGAATTCTTTGTGAATCTT
Found at i:17186940 original size:37 final size:37
Alignment explanation
Indices: 17186869--17187057 Score: 95
Period size: 37 Copynumber: 5.2 Consensus size: 37
17186859 AATCTTTATG
*
17186869 AATCTTTGAATTCTTTGCGAATCTTAAATCTTTTGCA
1 AATCTTTGAATTCCTTGCGAATCTTAAATCTTTTGCA
* * **
17186906 AATCTTTGAA-TCACTTGCGAATTTTTTAAT-TTTTGTG
1 AATCTTTGAATTC-CTTGCGAA-TCTTAAATCTTTTGCA
* * * **
17186943 AATC-TTGAATT-TTTACGAATCTTTGAATCACTTGCA
1 AATCTTTGAATTCCTTGCGAATC-TTAAATCTTTTGCA
* * * * * **
17186979 AATATTTGAAATTCTTTGTGAATCTTGAATTTTTTGTG
1 AATCTTTG-AATTCCTTGCGAATCTTAAATCTTTTGCA
* * * **
17187017 AATTTTTGAA-T-C-TGTGAATCTTAAATTTTTTATA
1 AATCTTTGAATTCCTTGCGAATCTTAAATCTTTTGCA
17187051 AATCTTT
1 AATCTTT
17187058 ATAATTGCAA
Statistics
Matches: 117, Mismatches: 27, Indels: 19
0.72 0.17 0.12
Matches are distributed among these distances:
34 26 0.22
35 11 0.09
36 14 0.12
37 32 0.27
38 26 0.22
39 8 0.07
ACGTcount: A:0.28, C:0.11, G:0.12, T:0.49
Consensus pattern (37 bp):
AATCTTTGAATTCCTTGCGAATCTTAAATCTTTTGCA
Found at i:17187165 original size:18 final size:18
Alignment explanation
Indices: 17187127--17187228 Score: 100
Period size: 17 Copynumber: 5.6 Consensus size: 18
17187117 TTGAATCGTT
17187127 ATCTTGAATCTCTTGTTGTGA
1 ATCTTGAAT-T-TT-TTGTGA
17187148 ATCTTGAATTTTTTGTGA
1 ATCTTGAATTTTTTGTGA
*
17187166 ATCTTGAA-TTTTTGAGA
1 ATCTTGAATTTTTTGTGA
* *
17187183 ATCTTGAATCTTTTATGA
1 ATCTTGAATTTTTTGTGA
* **
17187201 ACCTT-AAACTTTTGTGA
1 ATCTTGAATTTTTTGTGA
17187218 ATCTTTGAATT
1 ATC-TTGAATT
17187229 CAATTTATTT
Statistics
Matches: 68, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
17 28 0.41
18 26 0.38
19 4 0.06
20 1 0.01
21 9 0.13
ACGTcount: A:0.25, C:0.11, G:0.15, T:0.49
Consensus pattern (18 bp):
ATCTTGAATTTTTTGTGA
Found at i:17187179 original size:17 final size:17
Alignment explanation
Indices: 17187142--17187228 Score: 102
Period size: 18 Copynumber: 4.9 Consensus size: 17
17187132 GAATCTCTTG
17187142 TTGTGAATCTTGAATTTT
1 TTGTGAATCTTGAA-TTT
17187160 TTGTGAATCTTGAATTT
1 TTGTGAATCTTGAATTT
*
17187177 TTGAGAATCTTGAATCTT
1 TTGTGAATCTTGAAT-TT
* * * *
17187195 TTATGAACCTTAAACTT
1 TTGTGAATCTTGAATTT
17187212 TTGTGAATCTTTGAATT
1 TTGTGAATC-TTGAATT
17187229 CAATTTATTT
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
17 26 0.46
18 31 0.54
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.49
Consensus pattern (17 bp):
TTGTGAATCTTGAATTT
Found at i:17187189 original size:35 final size:35
Alignment explanation
Indices: 17187146--17187228 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
17187136 CTCTTGTTGT
* * * *
17187146 GAATCTTGAATTTTTTGTGAATCTTGAATTTTTGA
1 GAATCTTGAATTTTTTATGAACCTTAAACTTTTGA
* *
17187181 GAATCTTGAATCTTTTATGAACCTTAAACTTTTGT
1 GAATCTTGAATTTTTTATGAACCTTAAACTTTTGA
17187216 GAATCTTTGAATT
1 GAATC-TTGAATT
17187229 CAATTTATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
35 34 0.85
36 6 0.15
ACGTcount: A:0.28, C:0.10, G:0.14, T:0.48
Consensus pattern (35 bp):
GAATCTTGAATTTTTTATGAACCTTAAACTTTTGA
Found at i:17191418 original size:3 final size:3
Alignment explanation
Indices: 17191412--17191471 Score: 111
Period size: 3 Copynumber: 19.7 Consensus size: 3
17191402 GTATAGGTAG
17191412 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
17191460 TAA TAA TTAA TA
1 TAA TAA -TAA TA
17191472 TTATTATTAT
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 53 0.95
4 3 0.05
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:17192393 original size:16 final size:16
Alignment explanation
Indices: 17192383--17192415 Score: 57
Period size: 16 Copynumber: 2.0 Consensus size: 16
17192373 AAAAATAGGT
17192383 TAAAAATAAAATAAAA
1 TAAAAATAAAATAAAA
17192399 TAAAAATAAAATGAAAA
1 TAAAAATAAAAT-AAAA
17192416 AAGAAAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (16 bp):
TAAAAATAAAATAAAA
Found at i:17193270 original size:12 final size:12
Alignment explanation
Indices: 17193239--17193276 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
17193229 ATGCAGATTT
17193239 AAACAAAAAAGA
1 AAACAAAAAAGA
*
17193251 ATACAAAAAAGA
1 AAACAAAAAAGA
*
17193263 AAA-GAAAAAGA
1 AAACAAAAAAGA
17193274 AAA
1 AAA
17193277 AAATGAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.82, C:0.05, G:0.11, T:0.03
Consensus pattern (12 bp):
AAACAAAAAAGA
Found at i:17193296 original size:3 final size:3
Alignment explanation
Indices: 17193290--17193317 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
17193280 TGAAAATAGA
17193290 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
17193318 TTATTATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:17193382 original size:3 final size:3
Alignment explanation
Indices: 17193374--17193428 Score: 92
Period size: 3 Copynumber: 18.3 Consensus size: 3
17193364 AAAAGGAAAG
* *
17193374 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
17193422 TAA TAA T
1 TAA TAA T
17193429 TTATAAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:17193562 original size:26 final size:26
Alignment explanation
Indices: 17193518--17193608 Score: 87
Period size: 26 Copynumber: 3.5 Consensus size: 26
17193508 GATGTCAGTA
*
17193518 GGCCTAATTGGGC-CTGAACATCAATG
1 GGCCTAATCGGGCTC-GAACATCAATG
* * *
17193544 GGCCTAATTGGGCTCGAACGTTAATG
1 GGCCTAATCGGGCTCGAACATCAATG
* **
17193570 AAG-CTAATCGAACTCGAACATCAATG
1 -GGCCTAATCGGGCTCGAACATCAATG
17193596 GGCCTAATCGGGC
1 GGCCTAATCGGGC
17193609 CTAGACGTCA
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
25 1 0.02
26 48 0.94
27 2 0.04
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (26 bp):
GGCCTAATCGGGCTCGAACATCAATG
Found at i:17194090 original size:113 final size:113
Alignment explanation
Indices: 17193837--17194107 Score: 271
Period size: 113 Copynumber: 2.4 Consensus size: 113
17193827 GATTAGGACA
* * *
17193837 ATGTCGTAAGTCGAAAGATGATCTGACCAGAGTCGAGATCAAATGACTAGAACGATGCTATGAGT
1 ATGTCGTAAGTCAAAAGATGATCTGACCTGAGTCAAGATCAAATGACTAGAACGATGCTA-GAGT
* * * *
17193902 TTGAAGAAGACCAAGACTGAGTCAATGACGTAAATAAATGTCTAGACTG
65 TCGAAGAAGACCAAGACTGAGTCAAAGACATAAATAAATGACTAGACTG
* * * ** * * *
17193951 ATGTCATGACTCTGAAGATGATCTGACCTGAGTTAAGATCAAATGACTAGGATGATGTCGTA-AG
1 ATGTCGTAAGTCAAAAGATGATCTGACCTGAGTCAAGATCAAATGACTAGAACGATG-C-TAGAG
** * * *
17194015 -TCGAAAGGTGACCAA-A-TCGAGTCAAAGTCATAAATCAATGACTGGACTG
64 TTCG-AAGAAGACCAAGACT-GAGTCAAAGACATAAATAAATGACTAGACTG
* *
17194064 ATGTCGTAAGTCAAAAGATGATCTGACCTGAGTCGATATCAAAT
1 ATGTCGTAAGTCAAAAGATGATCTGACCTGAGTCAAGATCAAAT
17194108 AATTAAGACA
Statistics
Matches: 126, Mismatches: 27, Indels: 9
0.78 0.17 0.06
Matches are distributed among these distances:
112 1 0.01
113 64 0.51
114 58 0.46
115 1 0.01
116 2 0.02
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (113 bp):
ATGTCGTAAGTCAAAAGATGATCTGACCTGAGTCAAGATCAAATGACTAGAACGATGCTAGAGTT
CGAAGAAGACCAAGACTGAGTCAAAGACATAAATAAATGACTAGACTG
Found at i:17195173 original size:47 final size:47
Alignment explanation
Indices: 17195101--17195212 Score: 113
Period size: 47 Copynumber: 2.4 Consensus size: 47
17195091 AAAATTTTTG
* * ** *
17195101 ACTTGAAC-CATTTCCTTT-GGATTCAAGCTGCCCTTTCGGGTTTTCA
1 ACTTGAACTCTTTTCTTTTAGG-TTCAAGCCACCCTTTCGAGTTTTCA
* *
17195147 ACTTGAACCTCTTTT-TTTTAGGTTCAAGCCACCTTTTTGAGTTTTCA
1 ACTTGAA-CTCTTTTCTTTTAGGTTCAAGCCACCCTTTCGAGTTTTCA
*
17195194 CCTTGAACTCTTTTCTTTT
1 ACTTGAACTCTTTTCTTTT
17195213 TTTTCTTGGA
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
46 14 0.26
47 34 0.63
48 6 0.11
ACGTcount: A:0.17, C:0.24, G:0.13, T:0.46
Consensus pattern (47 bp):
ACTTGAACTCTTTTCTTTTAGGTTCAAGCCACCCTTTCGAGTTTTCA
Found at i:17201939 original size:20 final size:18
Alignment explanation
Indices: 17201911--17202010 Score: 61
Period size: 20 Copynumber: 5.6 Consensus size: 18
17201901 TTTTGCATGA
*
17201911 ATTTACATGACTAATATTGT
1 ATTTGCATGA-TAATATT-T
17201931 ATTTGCATGAT-A-ATTT
1 ATTTGCATGATAATATTT
17201947 ATTTGC-T--TAATATTTT
1 ATTTGCATGATAATA-TTT
17201963 ATTTGCATGATTAATA--T
1 ATTTGCATGA-TAATATTT
** *
17201980 ATTTGTGTGACTATTAATTT
1 ATTTGCATGA-TAAT-ATTT
17202000 ATTTGCATGAT
1 ATTTGCATGAT
17202011 TATCAATTTA
Statistics
Matches: 63, Mismatches: 7, Indels: 21
0.69 0.08 0.23
Matches are distributed among these distances:
13 1 0.02
14 1 0.02
15 2 0.03
16 16 0.25
17 16 0.25
18 2 0.03
19 2 0.03
20 23 0.37
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.51
Consensus pattern (18 bp):
ATTTGCATGATAATATTT
Found at i:17201951 original size:16 final size:16
Alignment explanation
Indices: 17201930--17201984 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
17201920 ACTAATATTG
17201930 TATTTGCATGATAATT
1 TATTTGCATGATAATT
* * *
17201946 TATTTGCTTAATATTT
1 TATTTGCATGATAATT
*
17201962 TATTTGCATGATTAATA
1 TATTTGCATGA-TAATT
17201979 TATTTG
1 TATTTG
17201985 TGTGACTATT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 22 0.71
17 9 0.29
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.55
Consensus pattern (16 bp):
TATTTGCATGATAATT
Found at i:17201958 original size:32 final size:33
Alignment explanation
Indices: 17201922--17201984 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
17201912 TTTACATGAC
*
17201922 TAATATTGTATTTGCATGA-TAATTTATTTGCT
1 TAATATTGTATTTGCATGATTAATATATTTGCT
*
17201954 TAATATTTTATTTGCATGATTAATATATTTG
1 TAATATTGTATTTGCATGATTAATATATTTG
17201985 TGTGACTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 18 0.64
33 10 0.36
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (33 bp):
TAATATTGTATTTGCATGATTAATATATTTGCT
Found at i:17202018 original size:20 final size:18
Alignment explanation
Indices: 17201930--17202023 Score: 72
Period size: 20 Copynumber: 5.3 Consensus size: 18
17201920 ACTAATATTG
17201930 TATTTGCATG--ATAATT
1 TATTTGCATGATATAATT
* *
17201946 TATTTGC-TTA-ATATTT
1 TATTTGCATGATATAATT
*
17201962 TATTTGCATGAT-TAATA
1 TATTTGCATGATATAATT
**
17201979 TATTTGTGTGACTATTAATT
1 TATTTGCATGA-TA-TAATT
17201999 TATTTGCATGATTATCAATT
1 TATTTGCATGA-TAT-AATT
17202019 TATTT
1 TATTT
17202024 ATTTGTATGA
Statistics
Matches: 60, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
15 1 0.02
16 19 0.32
17 14 0.23
18 1 0.02
19 1 0.02
20 24 0.40
ACGTcount: A:0.29, C:0.06, G:0.11, T:0.54
Consensus pattern (18 bp):
TATTTGCATGATATAATT
Found at i:17202068 original size:21 final size:21
Alignment explanation
Indices: 17202042--17202104 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
17202032 GATTGCATGA
17202042 TTATATATTTAATTGCATATT
1 TTATATATTTAATTGCATATT
*
17202063 TTATAT-TGTTAATTGC-T-TGA
1 TTATATAT-TTAATTGCATAT-T
*
17202083 TTATATATTTAGTTGCATATT
1 TTATATATTTAATTGCATATT
17202104 T
1 T
17202105 AGTTGCATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
19 1 0.03
20 15 0.44
21 17 0.50
22 1 0.03
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.57
Consensus pattern (21 bp):
TTATATATTTAATTGCATATT
Found at i:17202078 original size:41 final size:41
Alignment explanation
Indices: 17202033--17202397 Score: 389
Period size: 41 Copynumber: 8.7 Consensus size: 41
17202023 TATTTGTATG
17202033 ATTGCATGATTATATATTTAATTGCATATTTTATATTGTTA
1 ATTGCATGATTATATATTTAATTGCATATTTTATATTGTTA
* *
17202074 ATTGCTTGATTATATATTTAGTTGCATATTTAGTTGCATGTTTTATATTGTTA
1 ATTGCATGA-T-TATA--TA-TT---TA---A-TTGCATATTTTATATTGTTA
* * *
17202127 ATTGCATGATAATATATTTATTTGCATGTTTTATATTGTTA
1 ATTGCATGATTATATATTTAATTGCATATTTTATATTGTTA
* * **
17202168 ATTGAATGATAATATATTTAATTGCATGGTTTATATTGTTA
1 ATTGCATGATTATATATTTAATTGCATATTTTATATTGTTA
*
17202209 ATTGCATGATTATATATTTAATTGCATGA--TTATA-CGTTTA
1 ATTGCATGATTATATATTTAATTGCAT-ATTTTATATTG-TTA
* * * *
17202249 TTTGCATGATTATATATTTATTTGCATGA-TTTATACTATTA
1 ATTGCATGATTATATATTTAATTGCAT-ATTTTATATTGTTA
* *
17202290 ATTACATGATTATATATTTAATTGCATA-TTCATATTGTTA
1 ATTGCATGATTATATATTTAATTGCATATTTTATATTGTTA
* * *
17202330 ATTGCATGATTATATATTTATTTGCATGTTTTATATTGTCA
1 ATTGCATGATTATATATTTAATTGCATATTTTATATTGTTA
17202371 ATTGCATGATTATATATTTAATTGCAT
1 ATTGCATGATTATATATTTAATTGCAT
17202398 GATTATTAAT
Statistics
Matches: 279, Mismatches: 28, Indels: 34
0.82 0.08 0.10
Matches are distributed among these distances:
39 1 0.00
40 70 0.25
41 159 0.57
42 1 0.00
43 4 0.01
45 4 0.01
46 2 0.01
48 2 0.01
49 4 0.01
51 3 0.01
52 2 0.01
53 27 0.10
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (41 bp):
ATTGCATGATTATATATTTAATTGCATATTTTATATTGTTA
Found at i:17202104 original size:12 final size:12
Alignment explanation
Indices: 17202087--17202112 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17202077 GCTTGATTAT
17202087 ATATTTAGTTGC
1 ATATTTAGTTGC
17202099 ATATTTAGTTGC
1 ATATTTAGTTGC
17202111 AT
1 AT
17202113 GTTTTATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.08, G:0.15, T:0.50
Consensus pattern (12 bp):
ATATTTAGTTGC
Found at i:17202104 original size:53 final size:53
Alignment explanation
Indices: 17202046--17202153 Score: 171
Period size: 53 Copynumber: 2.0 Consensus size: 53
17202036 GCATGATTAT
* *
17202046 ATATTTAATTGCATATTTTATATTGTTAATTGCTTGATTATATATTTAGTTGC
1 ATATTTAATTGCATATTTTATATTGTTAATTGCATGATAATATATTTAGTTGC
* * *
17202099 ATATTTAGTTGCATGTTTTATATTGTTAATTGCATGATAATATATTTATTTGC
1 ATATTTAATTGCATATTTTATATTGTTAATTGCATGATAATATATTTAGTTGC
17202152 AT
1 AT
17202154 GTTTTATATT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.54
Consensus pattern (53 bp):
ATATTTAATTGCATATTTTATATTGTTAATTGCATGATAATATATTTAGTTGC
Found at i:17202281 original size:135 final size:129
Alignment explanation
Indices: 17202033--17202356 Score: 330
Period size: 135 Copynumber: 2.5 Consensus size: 129
17202023 TATTTGTATG
* * * * *
17202033 ATTGCATGATTATATATTTAATTGCATATTTTATATTGTTAATTGCTTGATTATATATTTAGTTG
1 ATTGAATGATAATATATTTAATTGCATAGTTTATATTGTTAATTGCATGATTATATATTTAATTG
*
17202098 CATATTTAGTTGCATGTTTTATATTGTTAATTGCATGATAATATATTTATTTGCATGTTTTATAT
66 CATATTTAGTTGCATGTTATATATTGTTAATTGCATG-----A-ATTTATTTGCATGTTTTATAT
17202163 TGTTA
125 TGTTA
*
17202168 ATTGAATGATAATATATTTAATTGCATGGTTTATATTGTTAATTGCATGATTATATATTTAATTG
1 ATTGAATGATAATATATTTAATTGCATAGTTTATATTGTTAATTGCATGATTATATATTTAATTG
* * * * * *
17202233 CATGA-TTA--T--ACGTT-TAT-TTGCATGATT--AT-ATATTTATTTGCATGATTTATACTAT
66 CAT-ATTTAGTTGCATGTTATATATTG-TTAATTGCATGA-ATTTATTTGCATGTTTTATATTGT
17202288 TA
128 TA
* * *
17202290 ATT-ACATGATTATATATTTAATTGCATA-TTCATATTGTTAATTGCATGATTATATATTTATTT
1 ATTGA-ATGATAATATATTTAATTGCATAGTTTATATTGTTAATTGCATGATTATATATTTAATT
17202353 GCAT
65 GCAT
17202357 GTTTTATATT
Statistics
Matches: 170, Mismatches: 16, Indels: 20
0.83 0.08 0.10
Matches are distributed among these distances:
121 38 0.22
122 49 0.29
128 2 0.01
129 3 0.02
130 7 0.04
131 4 0.02
133 1 0.01
135 65 0.38
136 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.52
Consensus pattern (129 bp):
ATTGAATGATAATATATTTAATTGCATAGTTTATATTGTTAATTGCATGATTATATATTTAATTG
CATATTTAGTTGCATGTTATATATTGTTAATTGCATGAATTTATTTGCATGTTTTATATTGTTA
Found at i:17202292 original size:81 final size:81
Alignment explanation
Indices: 17202099--17202403 Score: 434
Period size: 81 Copynumber: 3.8 Consensus size: 81
17202089 ATTTAGTTGC
* * * *
17202099 ATATTTAGTTGCATGTTTTATATTGTTAATTGCATGATAATATATTTATTTGCATGTTTTATATT
1 ATATTTATTTGCATGTTTTATATTGTTAATTGCATGATTATATATTTAATTGCATG-ATTATATT
* *
17202164 GTTAATTGAATGATAAT
65 GTTAATTGCATGATTAT
* * *
17202181 ATATTTAATTGCATGGTTTATATTGTTAATTGCATGATTATATATTTAATTGCATGATTATA-CG
1 ATATTTATTTGCATGTTTTATATTGTTAATTGCATGATTATATATTTAATTGCATGATTATATTG
*
17202245 TTTATTTGCATGATTAT
66 -TTAATTGCATGATTAT
* * * *
17202262 ATATTTATTTGCATGATTTATACTATTAATTACATGATTATATATTTAATTGCAT-ATTCATATT
1 ATATTTATTTGCATGTTTTATATTGTTAATTGCATGATTATATATTTAATTGCATGATT-ATATT
17202326 GTTAATTGCATGATTAT
65 GTTAATTGCATGATTAT
*
17202343 ATATTTATTTGCATGTTTTATATTGTCAATTGCATGATTATATATTTAATTGCATGATTAT
1 ATATTTATTTGCATGTTTTATATTGTTAATTGCATGATTATATATTTAATTGCATGATTAT
17202404 TAATTTATTT
Statistics
Matches: 198, Mismatches: 21, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
80 4 0.02
81 138 0.70
82 56 0.28
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.51
Consensus pattern (81 bp):
ATATTTATTTGCATGTTTTATATTGTTAATTGCATGATTATATATTTAATTGCATGATTATATTG
TTAATTGCATGATTAT
Found at i:17202398 original size:41 final size:41
Alignment explanation
Indices: 17202099--17202398 Score: 408
Period size: 41 Copynumber: 7.4 Consensus size: 41
17202089 ATTTAGTTGC
* *
17202099 ATATTTAGTTGCATGTTTTATATTGTTAATTGCATGATAAT
1 ATATTTAATTGCATGTTTTATATTGTTAATTGCATGATTAT
* * *
17202140 ATATTTATTTGCATGTTTTATATTGTTAATTGAATGATAAT
1 ATATTTAATTGCATGTTTTATATTGTTAATTGCATGATTAT
*
17202181 ATATTTAATTGCATGGTTTATATTGTTAATTGCATGATTAT
1 ATATTTAATTGCATGTTTTATATTGTTAATTGCATGATTAT
* * *
17202222 ATATTTAATTGCATG-ATTATA-CGTTTATTTGCATGATTAT
1 ATATTTAATTGCATGTTTTATATTG-TTAATTGCATGATTAT
* * * * *
17202262 ATATTTATTTGCATGATTTATACTATTAATTACATGATTAT
1 ATATTTAATTGCATGTTTTATATTGTTAATTGCATGATTAT
* *
17202303 ATATTTAATTGCAT-ATTCATATTGTTAATTGCATGATTAT
1 ATATTTAATTGCATGTTTTATATTGTTAATTGCATGATTAT
* *
17202343 ATATTTATTTGCATGTTTTATATTGTCAATTGCATGATTAT
1 ATATTTAATTGCATGTTTTATATTGTTAATTGCATGATTAT
17202384 ATATTTAATTGCATG
1 ATATTTAATTGCATG
17202399 ATTATTAATT
Statistics
Matches: 230, Mismatches: 25, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
39 1 0.00
40 69 0.30
41 160 0.70
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.51
Consensus pattern (41 bp):
ATATTTAATTGCATGTTTTATATTGTTAATTGCATGATTAT
Found at i:17202410 original size:20 final size:20
Alignment explanation
Indices: 17202033--17202403 Score: 342
Period size: 20 Copynumber: 18.6 Consensus size: 20
17202023 TATTTGTATG
17202033 ATTGCATGATTATATATTTA
1 ATTGCATGATTATATATTTA
*
17202053 ATTGCAT-ATTTTATATTGTTA
1 ATTGCATGATTATATA-T-TTA
*
17202074 ATTGCTTGATTATATATTTA
1 ATTGCATGATTATATATTTA
*
17202094 GTTGC--------ATATTTA
1 ATTGCATGATTATATATTTA
* *
17202106 GTTGCATG-TTTTATATTGTTA
1 ATTGCATGATTATATA-T-TTA
*
17202127 ATTGCATGATAATATATTTA
1 ATTGCATGATTATATATTTA
* *
17202147 TTTGCATG-TTTTATATTGTTA
1 ATTGCATGATTATATA-T-TTA
* *
17202168 ATTGAATGATAATATATTTA
1 ATTGCATGATTATATATTTA
*
17202188 ATTGCATGGTT-TATATTGTTA
1 ATTGCATGATTATATA-T-TTA
17202209 ATTGCATGATTATATATTTA
1 ATTGCATGATTATATATTTA
**
17202229 ATTGCATGATTATACGTTTA
1 ATTGCATGATTATATATTTA
*
17202249 TTTGCATGATTATATATTTA
1 ATTGCATGATTATATATTTA
*
17202269 TTTGCATGATT-TATACTATTA
1 ATTGCATGATTATATA-T-TTA
*
17202290 ATTACATGATTATATATTTA
1 ATTGCATGATTATATATTTA
17202310 ATTGCAT-ATTCATAT-TGTTA
1 ATTGCATGATT-ATATAT-TTA
17202330 ATTGCATGATTATATATTTA
1 ATTGCATGATTATATATTTA
* *
17202350 TTTGCATG-TTTTATATTGTCA
1 ATTGCATGATTATATATT-T-A
17202371 ATTGCATGATTATATATTTA
1 ATTGCATGATTATATATTTA
17202391 ATTGCATGATTAT
1 ATTGCATGATTAT
17202404 TAATTTATTT
Statistics
Matches: 292, Mismatches: 30, Indels: 58
0.77 0.08 0.15
Matches are distributed among these distances:
12 12 0.04
19 35 0.12
20 141 0.48
21 71 0.24
22 33 0.11
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (20 bp):
ATTGCATGATTATATATTTA
Found at i:17202457 original size:32 final size:32
Alignment explanation
Indices: 17202391--17202457 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
17202381 TATATATTTA
* **
17202391 ATTGCATGATTATTAATTTATTTATTTGTGTG
1 ATTGCATGATTATTAATATATTTATTTGCATG
*
17202423 ATTGTATGATTATTAATATATTTATTTGCATG
1 ATTGCATGATTATTAATATATTTATTTGCATG
17202455 ATT
1 ATT
17202458 ATTATTATTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.28, C:0.03, G:0.13, T:0.55
Consensus pattern (32 bp):
ATTGCATGATTATTAATATATTTATTTGCATG
Found at i:17203201 original size:20 final size:20
Alignment explanation
Indices: 17203176--17203224 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
17203166 TGACCTTTAA
17203176 TTTTTTTATGGATTTCAACC
1 TTTTTTTATGGATTTCAACC
* * **
17203196 TTTTTTT-TGTATTTTATTC
1 TTTTTTTATGGATTTCAACC
17203215 TTTTTTTATG
1 TTTTTTTATG
17203225 AGAAAAATGC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.14, C:0.08, G:0.08, T:0.69
Consensus pattern (20 bp):
TTTTTTTATGGATTTCAACC
Found at i:17205507 original size:15 final size:15
Alignment explanation
Indices: 17205487--17205518 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
17205477 GTGTCTGAAT
*
17205487 ATTTTTTAGAGTTTC
1 ATTTTTCAGAGTTTC
17205502 ATTTTTCAGAGTTTC
1 ATTTTTCAGAGTTTC
17205517 AT
1 AT
17205519 GCTTTTAGCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.09, G:0.12, T:0.56
Consensus pattern (15 bp):
ATTTTTCAGAGTTTC
Found at i:17205690 original size:15 final size:15
Alignment explanation
Indices: 17205666--17205696 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17205656 TTTGTCAACG
*
17205666 TTTTTTAGAGTTTCA
1 TTTTTCAGAGTTTCA
17205681 TTTTTCAGAGTTTCA
1 TTTTTCAGAGTTTCA
17205696 T
1 T
17205697 GCTTTTTGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.10, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTTTCAGAGTTTCA
Found at i:17205787 original size:178 final size:178
Alignment explanation
Indices: 17205488--17205836 Score: 601
Period size: 178 Copynumber: 2.0 Consensus size: 178
17205478 TGTCTGAATA
17205488 TTTTTTAGAGTTTCATTTTTCAGAGTTTCATGCTTTTAGCGTTGATTATTGGCTTATGACATGGA
1 TTTTTTAGAGTTTCATTTTTCAGAGTTTCATGCTTTTAGCGTTGATTATTGGCTTATGACATGGA
* * *
17205553 GAATTTTTTGCTCTGTTCGCAAGCGTGACGCAAGAACCAGCACCGGTGATCCACCAGCATCCGAA
66 GAACTTTTTGCTCTGTTCGCAAGCGTGACGCAAGAACCAGCACAGGTGATCCACCAGCATCAGAA
17205618 GGTACACCATTGCTTCATCCCATCAATTACTATGTTTCTTTGTCAACG
131 GGTACACCATTGCTTCATCCCATCAATTACTATGTTTCTTTGTCAACG
* *
17205666 TTTTTTAGAGTTTCATTTTTCAGAGTTTCATGCTTTTTGTGTTGATTATTGGCTTATGACATGGA
1 TTTTTTAGAGTTTCATTTTTCAGAGTTTCATGCTTTTAGCGTTGATTATTGGCTTATGACATGGA
* *
17205731 GAACTTTTTG-TCCTGTTTGCAATCGTGACGCAAGAACCAGCACAGGTGATCCACCAGCATCAGA
66 GAACTTTTTGCT-CTGTTCGCAAGCGTGACGCAAGAACCAGCACAGGTGATCCACCAGCATCAGA
* *
17205795 AGGTACACCATTGCTTCATCCCATTAATTACTGTGTTTCTTT
130 AGGTACACCATTGCTTCATCCCATCAATTACTATGTTTCTTT
17205837 AAATCAAAAT
Statistics
Matches: 161, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
177 1 0.01
178 160 0.99
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (178 bp):
TTTTTTAGAGTTTCATTTTTCAGAGTTTCATGCTTTTAGCGTTGATTATTGGCTTATGACATGGA
GAACTTTTTGCTCTGTTCGCAAGCGTGACGCAAGAACCAGCACAGGTGATCCACCAGCATCAGAA
GGTACACCATTGCTTCATCCCATCAATTACTATGTTTCTTTGTCAACG
Found at i:17205916 original size:63 final size:62
Alignment explanation
Indices: 17205843--17206029 Score: 160
Period size: 71 Copynumber: 2.8 Consensus size: 62
17205833 CTTTAAATCA
*
17205843 AAATGTAGTAATTATTCATTGTGATATTTTTATAATAATTAATTATTGTGTTTTAATAAAATT
1 AAATGTAGTAATTATTCATTAT-ATATTTTTATAATAATTAATTATTGTGTTTTAATAAAATT
* * * * ** *
17205906 AAATGTAGTAATTGTTTATTATAATTTTTTAAAAATTATAAGAAGCTTAATTATTGCATTTTATT
1 AAATGTAGTAATTATTCATTAT-A-TATTT-----TTATAATAA--TTAATTATTGTGTTTTAAT
*
17205971 GAAATT
57 AAAATT
* *
17205977 AAATGTAATAATTATTCATTATA-ATTTTTATAAAATAATTAATTATTATGTTT
1 AAATGTAGTAATTATTCATTATATATTTTTAT--AATAATTAATTATTGTGTTT
17206030 CTTTAATAAT
Statistics
Matches: 96, Mismatches: 18, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
63 36 0.38
64 4 0.04
65 4 0.04
68 3 0.03
69 8 0.08
70 1 0.01
71 40 0.42
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (62 bp):
AAATGTAGTAATTATTCATTATATATTTTTATAATAATTAATTATTGTGTTTTAATAAAATT
Found at i:17206014 original size:27 final size:25
Alignment explanation
Indices: 17205983--17206075 Score: 66
Period size: 27 Copynumber: 3.6 Consensus size: 25
17205973 AATTAAATGT
17205983 AATAATTATTCATTATAATTTTTATAA
1 AATAATTATT-ATTATAATTTTT-TAA
*
17206010 AATAATTAATTATTAT-GTTTCTTT--
1 AATAATT-ATTATTATAATTT-TTTAA
* *
17206034 AATAATTGTTTATAATAATTTTTTTAA
1 AATAATT-ATTATTATAA-TTTTTTAA
*
17206061 AATAATAAATTATTA
1 AATAAT-TATTATTA
17206076 CATTACTTTA
Statistics
Matches: 51, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
24 13 0.25
25 3 0.06
26 7 0.14
27 25 0.49
28 3 0.06
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (25 bp):
AATAATTATTATTATAATTTTTTAA
Found at i:17206085 original size:51 final size:51
Alignment explanation
Indices: 17205982--17206086 Score: 138
Period size: 51 Copynumber: 2.1 Consensus size: 51
17205972 AAATTAAATG
* * ** *
17205982 TAATAATTATTCATTATAATTTTTATAAAATAATTAATTATTATGTTTCTT
1 TAATAATTATTCATAATAATTTTTATAAAATAATAAATTATTACATTACTT
* * *
17206033 TAATAATTGTTTATAATAATTTTTTTAAAATAATAAATTATTACATTACTT
1 TAATAATTATTCATAATAATTTTTATAAAATAATAAATTATTACATTACTT
17206084 TAA
1 TAA
17206087 AGATAAATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (51 bp):
TAATAATTATTCATAATAATTTTTATAAAATAATAAATTATTACATTACTT
Found at i:17206676 original size:17 final size:17
Alignment explanation
Indices: 17206637--17206678 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
17206627 AAAATATATG
*
17206637 TATAAAATAATAAAATA
1 TATAAAATAAAAAAATA
*
17206654 TTTAAAATATAAAAAATA
1 TATAAAATA-AAAAAATA
17206672 -ATAAAAT
1 TATAAAAT
17206679 GATCTTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
TATAAAATAAAAAAATA
Found at i:17207120 original size:14 final size:14
Alignment explanation
Indices: 17207101--17207130 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17207091 ATACTTTGTT
17207101 TAGAAAACAAAAAA
1 TAGAAAACAAAAAA
*
17207115 TAGAAAATAAAAAA
1 TAGAAAACAAAAAA
17207129 TA
1 TA
17207131 TTTTCTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.77, C:0.03, G:0.07, T:0.13
Consensus pattern (14 bp):
TAGAAAACAAAAAA
Found at i:17208745 original size:29 final size:28
Alignment explanation
Indices: 17208679--17208746 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 28
17208669 TTATTTTTAA
*
17208679 AAAAATTTACGTAAGATATTAAAAATTC
1 AAAAATTTATGTAAGATATTAAAAATTC
* * *
17208707 AAGAATTTTATGTAAGATTTTAAAAATTTT
1 AA-AAATTTATGTAAGATATTAAAAA-TTC
17208737 AAAAATTTAT
1 AAAAATTTAT
17208747 CTTAAATCTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
28 2 0.06
29 27 0.82
30 4 0.12
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (28 bp):
AAAAATTTATGTAAGATATTAAAAATTC
Found at i:17209944 original size:44 final size:45
Alignment explanation
Indices: 17209890--17209990 Score: 109
Period size: 44 Copynumber: 2.3 Consensus size: 45
17209880 TAAAAATAAT
** *
17209890 ATGAT-GATTTTATGTATTT-ATATAGGATTAATGATACATTATA
1 ATGATAGATTTTATGTATTTGATATAAAATCAATGATACATTATA
* * * *
17209933 ATGTTAGATTTT-TGTTTTTGTTATAAAATCAATTATACATTATA
1 ATGATAGATTTTATGTATTTGATATAAAATCAATGATACATTATA
*
17209977 ATGATAAATTTTAT
1 ATGATAGATTTTAT
17209991 ATATATGGTT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
43 10 0.22
44 35 0.76
45 1 0.02
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.50
Consensus pattern (45 bp):
ATGATAGATTTTATGTATTTGATATAAAATCAATGATACATTATA
Found at i:17223048 original size:17 final size:16
Alignment explanation
Indices: 17223017--17223057 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
17223007 TCAATATAAA
17223017 ATATAAATA-TTTAAT
1 ATATAAATATTTTAAT
17223032 AGTATAAATATTTTAAT
1 A-TATAAATATTTTAAT
17223049 A-ATAAATAT
1 ATATAAATAT
17223058 AGCTATTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.38
16 8 0.33
17 7 0.29
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
ATATAAATATTTTAAT
Found at i:17223175 original size:14 final size:15
Alignment explanation
Indices: 17223141--17223197 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
17223131 TAAAGAATAA
* *
17223141 TAAATAGTTTTATTT
1 TAAATATTTTTATAT
17223156 TAAATATTTTTATAT
1 TAAATATTTTTATAT
17223171 TAATATAATATTTTAATAT
1 TAA-AT-AT-TTTT-ATAT
17223190 TAAATATT
1 TAAATATT
17223198 ATTAATAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
15 16 0.44
16 3 0.08
17 4 0.11
18 6 0.17
19 7 0.19
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (15 bp):
TAAATATTTTTATAT
Found at i:17223188 original size:13 final size:14
Alignment explanation
Indices: 17223168--17223210 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
17223158 AATATTTTTA
17223168 TATTAATATAATAT
1 TATTAATATAATAT
17223182 T-TTAATATTAAATAT
1 TATTAATA-T-AATAT
17223197 TATTAATAATAATA
1 TATTAAT-ATAATA
17223211 AAATATAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
13 6 0.24
14 2 0.08
15 10 0.40
16 6 0.24
17 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TATTAATATAATAT
Found at i:17223216 original size:35 final size:33
Alignment explanation
Indices: 17223136--17223216 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 33
17223126 TAATATAAAG
* *
17223136 AATAAT-AAATAGTTTTATTTTAAATATTTTTAT
1 AATAATAAAATA-TTTTATATTAAATATTTTAAT
* *
17223169 ATTAATATAATATTTTAATATTAAATATTATTAAT
1 AATAATAAAATATTTT-ATATTAAATATT-TTAAT
17223204 AATAATAAAATAT
1 AATAATAAAATAT
17223217 AATTATTCTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
33 9 0.23
34 15 0.38
35 15 0.38
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (33 bp):
AATAATAAAATATTTTATATTAAATATTTTAAT
Found at i:17223441 original size:13 final size:14
Alignment explanation
Indices: 17223413--17223441 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17223403 CAAAAAATGT
17223413 AAACATTTTCCTGA
1 AAACATTTTCCTGA
17223427 AAACATTTT-CTGA
1 AAACATTTTCCTGA
17223440 AA
1 AA
17223442 GTCAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.34
Consensus pattern (14 bp):
AAACATTTTCCTGA
Found at i:17223692 original size:27 final size:26
Alignment explanation
Indices: 17223643--17223705 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 26
17223633 TGTTGGGTAC
* *
17223643 ATAAAATTATGATAAGATAAGA-TAA
1 ATAATATTATGATAAAATAAGATTAA
* *
17223668 GATAATGTTATGAATAAAATTAGATTAA
1 -ATAATATTATG-ATAAAATAAGATTAA
17223696 ATAATATTAT
1 ATAATATTAT
17223706 CTTATTTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 9 0.30
27 18 0.60
28 3 0.10
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.35
Consensus pattern (26 bp):
ATAATATTATGATAAAATAAGATTAA
Found at i:17223786 original size:17 final size:18
Alignment explanation
Indices: 17223746--17223786 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
17223736 ATGATAAAAT
**
17223746 AATTTATTTATTTGTCAA
1 AATTTATTTATTCCTCAA
17223764 AA-TTATTT-TTCCTCAA
1 AATTTATTTATTCCTCAA
17223780 AATTTAT
1 AATTTAT
17223787 ACAATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 8 0.40
17 10 0.50
18 2 0.10
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.54
Consensus pattern (18 bp):
AATTTATTTATTCCTCAA
Found at i:17224156 original size:2 final size:2
Alignment explanation
Indices: 17224151--17224185 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
17224141 TAAATTCTTT
17224151 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17224186 GTATGGGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:17225071 original size:76 final size:76
Alignment explanation
Indices: 17224945--17225092 Score: 260
Period size: 76 Copynumber: 1.9 Consensus size: 76
17224935 ATATCAAGTG
17224945 TCAACAAGAAATTTCGTTTATTGTGTTGATCATAATGTAAACACATGTATAACATGCTGATCATT
1 TCAACAAGAAATTTCGTTTATTGTGTTGATCATAATGTAAACACATGTATAACATGCTGATCATT
17225010 TATCATAATAA
66 TATCATAATAA
* * **
17225021 TCAACAAGAAATTTCTTTTATTGTGTTGATGATAATGTAAACACATGTATAACATTTTGATCATT
1 TCAACAAGAAATTTCGTTTATTGTGTTGATCATAATGTAAACACATGTATAACATGCTGATCATT
17225086 TATCATA
66 TATCATA
17225093 GTAAGGCATT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 68 1.00
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.39
Consensus pattern (76 bp):
TCAACAAGAAATTTCGTTTATTGTGTTGATCATAATGTAAACACATGTATAACATGCTGATCATT
TATCATAATAA
Found at i:17227723 original size:3 final size:3
Alignment explanation
Indices: 17227715--17227743 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
17227705 AATGCCAGTA
17227715 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
17227744 CTTTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:17245599 original size:30 final size:30
Alignment explanation
Indices: 17245564--17245623 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
17245554 TTACACATTA
17245564 ATGCTCCCAATTAATCCCTCCTAAACTATC
1 ATGCTCCCAATTAATCCCTCCTAAACTATC
17245594 ATGCTCCCAATTAATCCCTCCTAAACTATC
1 ATGCTCCCAATTAATCCCTCCTAAACTATC
17245624 TCCCATGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.37, G:0.03, T:0.30
Consensus pattern (30 bp):
ATGCTCCCAATTAATCCCTCCTAAACTATC
Found at i:17246155 original size:3 final size:3
Alignment explanation
Indices: 17246147--17246171 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
17246137 GAATTGTCAT
17246147 TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA T
17246172 TTGTTATCTT
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:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:17248580 original size:25 final size:25
Alignment explanation
Indices: 17248552--17248622 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 25
17248542 AAATCCAATC
17248552 TAATTTGAAATATTAAATTAATTAA
1 TAATTTGAAATATTAAATTAATTAA
*
17248577 TAA--TAAAATATT---TTAATT--
1 TAATTTGAAATATTAAATTAATTAA
17248595 TAATTTGAAATATTAATATT--TTAA
1 TAATTTGAAATATTAA-ATTAATTAA
17248619 TAAT
1 TAAT
17248623 GTTTGAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 17
0.65 0.04 0.31
Matches are distributed among these distances:
18 3 0.08
20 14 0.39
22 2 0.06
23 8 0.22
24 6 0.17
25 3 0.08
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (25 bp):
TAATTTGAAATATTAAATTAATTAA
Found at i:17248831 original size:12 final size:12
Alignment explanation
Indices: 17248814--17248842 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
17248804 AGCAAAGCAA
17248814 CAGCAGATGCAT
1 CAGCAGATGCAT
17248826 CAGCAGATGCAT
1 CAGCAGATGCAT
17248838 CAGCA
1 CAGCA
17248843 TCAGCTAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.34, C:0.28, G:0.24, T:0.14
Consensus pattern (12 bp):
CAGCAGATGCAT
Found at i:17249588 original size:26 final size:25
Alignment explanation
Indices: 17249529--17249590 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 25
17249519 AAATTCTCTA
* *
17249529 TAAAA-AA-TTTTTTTAATCGTAAT
1 TAAAATAATTTTTTTTAATCATAAC
*
17249552 TACAATAAATTTTTTTTCAATCATAAC
1 TAAAAT-AATTTTTTTT-AATCATAAC
17249579 TAAAATAATTTT
1 TAAAATAATTTT
17249591 ATTACTATGA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
23 4 0.13
25 2 0.06
26 13 0.42
27 12 0.39
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.47
Consensus pattern (25 bp):
TAAAATAATTTTTTTTAATCATAAC
Found at i:17254286 original size:25 final size:23
Alignment explanation
Indices: 17254248--17254294 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
17254238 TTCCGAATAA
*
17254248 TAATATAAATAAAATAATAAAAAAC
1 TAATATAAACAAAA-AA-AAAAAAC
17254273 TAATATAAACAAAAAAAAAAAA
1 TAATATAAACAAAAAAAAAAAA
17254295 GTAGAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
24 2 0.10
25 13 0.62
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (23 bp):
TAATATAAACAAAAAAAAAAAAC
Found at i:17254786 original size:13 final size:13
Alignment explanation
Indices: 17254768--17254792 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17254758 TTCTTGAATA
17254768 TATTTATAATTTG
1 TATTTATAATTTG
17254781 TATTTATAATTT
1 TATTTATAATTT
17254793 TCAAAAATAA
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:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TATTTATAATTTG
Found at i:17256498 original size:21 final size:22
Alignment explanation
Indices: 17256468--17256520 Score: 83
Period size: 23 Copynumber: 2.5 Consensus size: 22
17256458 GATATTTTAA
17256468 AATA-TTTATA-TTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
17256488 AATATTTTATATTTTTAAAAAAT
1 AATATTTTATA-TTTTAAAAAAT
17256511 AATATTTTAT
1 AATATTTTAT
17256521 TAATTTTGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
23 20 0.67
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:17256527 original size:24 final size:23
Alignment explanation
Indices: 17256478--17256527 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 23
17256468 AATATTTATA
*
17256478 TTTAAAAAATAATATTTTATATT
1 TTTAAAAAATAATATTTTATAAT
17256501 TTTAAAAAATAATATTTTATTAAT
1 TTTAAAAAATAATATTTTA-TAAT
17256525 TTT
1 TTT
17256528 GAGTCAAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTAAAAAATAATATTTTATAAT
Found at i:17256919 original size:19 final size:19
Alignment explanation
Indices: 17256897--17256938 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
17256887 TTTTTTTTCC
*
17256897 AAATTATCAAAATA-AAACA
1 AAATT-TCAAAAAACAAACA
*
17256916 AAATTTGAAAAAACAAACA
1 AAATTTCAAAAAACAAACA
17256935 AAAT
1 AAAT
17256939 AAAACAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.69, C:0.10, G:0.02, T:0.19
Consensus pattern (19 bp):
AAATTTCAAAAAACAAACA
Found at i:17257623 original size:6 final size:6
Alignment explanation
Indices: 17257612--17257636 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
17257602 CGAGCCGAGT
17257612 AGCTCG AGCTCG AGCTCG AGCTCG A
1 AGCTCG AGCTCG AGCTCG AGCTCG A
17257637 CTCACAACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.32, G:0.32, T:0.16
Consensus pattern (6 bp):
AGCTCG
Found at i:17263326 original size:12 final size:12
Alignment explanation
Indices: 17263286--17263333 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
17263276 TTTTAGACTA
17263286 ATTT-GATATTG
1 ATTTAGATATTG
* *
17263297 ATTTAGAGAAT-
1 ATTTAGATATTG
17263308 A-TTAGATATTG
1 ATTTAGATATTG
17263319 ATTTAGATATTG
1 ATTTAGATATTG
17263331 ATT
1 ATT
17263334 AAGTGATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
10 7 0.23
11 6 0.20
12 17 0.57
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (12 bp):
ATTTAGATATTG
Found at i:17270720 original size:18 final size:18
Alignment explanation
Indices: 17270697--17270731 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17270687 CAATATGATT
*
17270697 TCAACTAAAGGGGACAAA
1 TCAACTAAAAGGGACAAA
17270715 TCAACTAAAAGGGACAA
1 TCAACTAAAAGGGACAA
17270732 TACTTCAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.17, G:0.20, T:0.11
Consensus pattern (18 bp):
TCAACTAAAAGGGACAAA
Found at i:17273779 original size:23 final size:23
Alignment explanation
Indices: 17273748--17273810 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 23
17273738 ATCAAATGGG
* * *
17273748 AAATGTTTAATATG-AAATATTA
1 AAATTTTTTATATGAAAATAATA
17273770 AAATTTTTTATATGAAAATAATA
1 AAATTTTTTATATGAAAATAATA
* * *
17273793 CAATTTTTTTTAAGAAAA
1 AAATTTTTTATATGAAAA
17273811 AAAGAAATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
22 12 0.35
23 22 0.65
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (23 bp):
AAATTTTTTATATGAAAATAATA
Found at i:17275436 original size:13 final size:13
Alignment explanation
Indices: 17275418--17275446 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
17275408 TTATTTAATT
17275418 TCTCCTGTATTAG
1 TCTCCTGTATTAG
17275431 TCTCCTGTATTAG
1 TCTCCTGTATTAG
17275444 TCT
1 TCT
17275447 ATTTATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.24, G:0.14, T:0.48
Consensus pattern (13 bp):
TCTCCTGTATTAG
Found at i:17276106 original size:6 final size:6
Alignment explanation
Indices: 17276095--17276134 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
17276085 TAATAAAAAT
17276095 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGG
1 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGG
17276135 TTAGTGATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.33, C:0.00, G:0.68, T:0.00
Consensus pattern (6 bp):
GAGGGA
Found at i:17276153 original size:9 final size:9
Alignment explanation
Indices: 17276139--17276170 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
17276129 GAGAGGTTAG
17276139 TGATGAAGA
1 TGATGAAGA
17276148 TGATGAAGA
1 TGATGAAGA
17276157 TGATGAAGA
1 TGATGAAGA
17276166 TGATG
1 TGATG
17276171 CTCTGAAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.34, T:0.25
Consensus pattern (9 bp):
TGATGAAGA
Found at i:17282609 original size:9 final size:9
Alignment explanation
Indices: 17282592--17282633 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
17282582 AATTTAATTA
*
17282592 TATATTTTT
1 TATAATTTT
17282601 TATAATTTT
1 TATAATTTT
17282610 TATATATCTTT
1 TATA-AT-TTT
17282621 TA-AATTTT
1 TATAATTTT
17282629 TATAA
1 TATAA
17282634 AATAAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
8 5 0.17
9 16 0.55
10 3 0.10
11 5 0.17
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (9 bp):
TATAATTTT
Found at i:17282614 original size:20 final size:19
Alignment explanation
Indices: 17282589--17282632 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
17282579 CCGAATTTAA
*
17282589 TTATATATTTTTTATAATTT
1 TTATATATCTTTTA-AATTT
17282609 TTATATATCTTTTAAATTT
1 TTATATATCTTTTAAATTT
17282628 TTATA
1 TTATA
17282633 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (19 bp):
TTATATATCTTTTAAATTT
Found at i:17283860 original size:11 final size:11
Alignment explanation
Indices: 17283844--17283885 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
17283834 GCAATATCTG
17283844 ACAAATCTCAA
1 ACAAATCTCAA
17283855 ACAAATCTCAA
1 ACAAATCTCAA
17283866 ACAAATCTCAA
1 ACAAATCTCAA
*
17283877 ATAAATCTC
1 ACAAATCTC
17283886 TTATGAGATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.21
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:17284277 original size:14 final size:14
Alignment explanation
Indices: 17284258--17284331 Score: 60
Period size: 14 Copynumber: 5.1 Consensus size: 14
17284248 TTATCCGAAT
17284258 TTAAATAATTCAAA
1 TTAAATAATTCAAA
* **
17284272 TTAAATAAATCATC
1 TTAAATAATTCAAA
*
17284286 TTAGATAATT-AAA
1 TTAAATAATTCAAA
*
17284299 CTTGAAATAATTTAAA
1 -TT-AAATAATTCAAA
*
17284315 TCTAAATAATTTAAA
1 T-TAAATAATTCAAA
17284330 TT
1 TT
17284332 CAGAAAATAA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
13 1 0.02
14 22 0.46
15 21 0.44
16 4 0.08
ACGTcount: A:0.51, C:0.07, G:0.03, T:0.39
Consensus pattern (14 bp):
TTAAATAATTCAAA
Found at i:17284561 original size:36 final size:36
Alignment explanation
Indices: 17284521--17284591 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
17284511 AGAAAAGTAA
*
17284521 GTTTAAAAGTATGATAAGAAA-ATTGTGGTTAGAAAC
1 GTTTAAAAGAATGATAAGAAATA-TGTGGTTAGAAAC
17284557 GTTTAAAAGAATGATAAGAAATATGTGGTTAGAAA
1 GTTTAAAAGAATGATAAGAAATATGTGGTTAGAAA
17284592 TTGTAAGTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
36 32 0.97
37 1 0.03
ACGTcount: A:0.46, C:0.01, G:0.23, T:0.30
Consensus pattern (36 bp):
GTTTAAAAGAATGATAAGAAATATGTGGTTAGAAAC
Found at i:17284825 original size:26 final size:26
Alignment explanation
Indices: 17284774--17284825 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
17284764 TTACAAATCA
*
17284774 TATTTTTAAATTAAAAAATCATTTTT
1 TATTTTTAAATTAAAAAATCACTTTT
17284800 TATTATTTAAA-TAAAAAA-CAACTTTT
1 TATT-TTTAAATTAAAAAATC-ACTTTT
17284826 AAATTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 1 0.04
26 16 0.70
27 6 0.26
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (26 bp):
TATTTTTAAATTAAAAAATCACTTTT
Found at i:17289936 original size:17 final size:17
Alignment explanation
Indices: 17289888--17289938 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 17
17289878 AAATTATATC
17289888 AATAATTTTAATTATATA
1 AATAATTTTAATTA-ATA
17289906 AAT--TTTT-A--AA-A
1 AATAATTTTAATTAATA
17289917 AATAATTTTAATTAATA
1 AATAATTTTAATTAATA
17289934 AATAA
1 AATAA
17289939 ATTATTCTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 13
0.68 0.00 0.32
Matches are distributed among these distances:
11 4 0.15
12 1 0.04
13 5 0.19
14 1 0.04
15 1 0.04
16 6 0.22
17 6 0.22
18 3 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATAATTTTAATTAATA
Found at i:17300720 original size:20 final size:22
Alignment explanation
Indices: 17300694--17300746 Score: 74
Period size: 20 Copynumber: 2.5 Consensus size: 22
17300684 AAACAATGAT
*
17300694 TGACTTGCATT-TATTGTTCAA
1 TGACTTGCATTCAATTGTTCAA
17300715 -GACTTGCATTGCAATTGTTCAA
1 TGACTTGCATT-CAATTGTTCAA
17300737 TGACTTGCAT
1 TGACTTGCAT
17300747 GAGGAGATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 10 0.36
22 9 0.32
23 9 0.32
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (22 bp):
TGACTTGCATTCAATTGTTCAA
Found at i:17301582 original size:21 final size:21
Alignment explanation
Indices: 17301545--17301605 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
17301535 AAAATTCTAC
* *
17301545 AAAATATTAAAAATTTTTTCAA
1 AAAATATT-AAATTTTTTTAAA
* *
17301567 AAAATATTATATTTTTTAAAA
1 AAAATATTAAATTTTTTTAAA
*
17301588 AAAATTTTAAATTTTTTT
1 AAAATATTAAATTTTTTT
17301606 TGAAAATTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 24 0.75
22 8 0.25
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
AAAATATTAAATTTTTTTAAA
Found at i:17301666 original size:19 final size:19
Alignment explanation
Indices: 17301652--17301792 Score: 71
Period size: 19 Copynumber: 7.3 Consensus size: 19
17301642 TCCAAAAACA
17301652 TTAAAAAACTTCAAAAAAT
1 TTAAAAAACTTCAAAAAAT
* *
17301671 TTTAAAAACTT-ATAAAAT
1 TTAAAAAACTTCAAAAAAT
17301689 TTCAAAATAA-TTCTAAAAAAT
1 TT-AAAA-AACTTC-AAAAAAT
17301710 ATTAAAAAA-TTCTGAAAAAAT
1 -TTAAAAAACTTC--AAAAAAT
* **
17301731 TT-TAAAA-TTCAAAATTTT
1 TTAAAAAACTTCAAAA-AAT
* **
17301749 TTTAAAATTTATCAAAAAA-
1 TTAAAAAACT-TCAAAAAAT
17301768 TTAAAAAA-TTCTAAAAAAT
1 TTAAAAAACTTC-AAAAAAT
17301787 TGTAAA
1 T-TAAA
17301793 CCTTTTTGAA
Statistics
Matches: 95, Mismatches: 14, Indels: 25
0.71 0.10 0.19
Matches are distributed among these distances:
17 6 0.06
18 18 0.19
19 32 0.34
20 14 0.15
21 23 0.24
22 2 0.02
ACGTcount: A:0.57, C:0.06, G:0.01, T:0.35
Consensus pattern (19 bp):
TTAAAAAACTTCAAAAAAT
Found at i:17301675 original size:20 final size:20
Alignment explanation
Indices: 17301652--17301840 Score: 105
Period size: 20 Copynumber: 9.8 Consensus size: 20
17301642 TCCAAAAACA
17301652 TTAAAAAACTTC-AAAAAATT
1 TTAAAAAA-TTCTAAAAAATT
* *
17301672 TT-AAAAACT-TATAAAATT
1 TTAAAAAATTCTAAAAAATT
* *
17301690 TCAAAATAATTCTAAAAAATA
1 TTAAAA-AATTCTAAAAAATT
17301711 TTAAAAAATTCTGAAAAAATT
1 TTAAAAAATTCT-AAAAAATT
**
17301732 TT--AAAATTC-AAAATTTT
1 TTAAAAAATTCTAAAAAATT
* * *
17301749 TTTAAAATTTATCAAAAAA--
1 TTAAAAAATTCT-AAAAAATT
17301768 TTAAAAAATTCTAAAAAATT
1 TTAAAAAATTCTAAAAAATT
* *** * *
17301788 GTAAACCTTTTTGAAAAATT
1 TTAAAAAATTCTAAAAAATT
*
17301808 ATAAAAAATT-T--AAAATT
1 TTAAAAAATTCTAAAAAATT
17301825 TATAAAAAATT-TAAAA
1 T-TAAAAAATTCTAAAA
17301841 TATGAAATAT
Statistics
Matches: 127, Mismatches: 28, Indels: 28
0.69 0.15 0.15
Matches are distributed among these distances:
17 14 0.11
18 25 0.20
19 30 0.24
20 33 0.26
21 25 0.20
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (20 bp):
TTAAAAAATTCTAAAAAATT
Found at i:17301717 original size:10 final size:9
Alignment explanation
Indices: 17301652--17301944 Score: 96
Period size: 9 Copynumber: 31.1 Consensus size: 9
17301642 TCCAAAAACA
17301652 TTAAAAAACT
1 TTAAAAAA-T
*
17301662 TCAAAAAAT
1 TTAAAAAAT
* *
17301671 TTTAAAAAC
1 TTAAAAAAT
*
17301680 TTATAAAAT
1 TTAAAAAAT
17301689 TTCAAAATAAT
1 TT-AAAA-AAT
17301700 TCTAAAAAAT
1 T-TAAAAAAT
17301710 ATTAAAAAAT
1 -TTAAAAAAT
17301720 TCTGAAAAAAT
1 T-T-AAAAAAT
*
17301731 TT-TAAAAT
1 TTAAAAAAT
* **
17301739 TCAAAATTT
1 TTAAAAAAT
**
17301748 TTTTAAAAT
1 TTAAAAAAT
*
17301757 TTATCAAAAAA
1 TTA--AAAAAT
17301768 TTAAAAAAT
1 TTAAAAAAT
17301777 TCTAAAAAAT
1 T-TAAAAAAT
***
17301787 TGTAAACCTTT
1 T-TAAA-AAAT
*
17301798 TTGAAAAAT
1 TTAAAAAAT
17301807 TATAAAAAAT
1 T-TAAAAAAT
*
17301817 TT-AAAATT
1 TTAAAAAAT
17301825 TATAAAAAAT
1 T-TAAAAAAT
*
17301835 TTAAAATA-
1 TTAAAAAAT
* * *
17301843 TGAAATATT
1 TTAAAAAAT
* *
17301852 TTTATAAA-
1 TTAAAAAAT
17301860 TTATAAAAA-
1 TTA-AAAAAT
* *
17301869 TTATCATAAT
1 TTA-AAAAAT
*
17301879 TTAAAAAGT
1 TTAAAAAAT
*
17301888 TTTAAAAAT
1 TTAAAAAAT
**
17301897 TATGAAAATTT
1 T-T-AAAAAAT
17301908 TTAGAAAAA-
1 TTA-AAAAAT
17301917 TTAAAAAAT
1 TTAAAAAAT
*
17301926 TT-TAAAAT
1 TTAAAAAAT
17301934 TTATAAAAAT
1 TTA-AAAAAT
17301944 T
1 T
17301945 AATTTTTCTT
Statistics
Matches: 201, Mismatches: 59, Indels: 46
0.66 0.19 0.15
Matches are distributed among these distances:
8 30 0.15
9 72 0.36
10 67 0.33
11 31 0.15
12 1 0.00
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (9 bp):
TTAAAAAAT
Found at i:17301755 original size:49 final size:49
Alignment explanation
Indices: 17301653--17301783 Score: 126
Period size: 49 Copynumber: 2.7 Consensus size: 49
17301643 CCAAAAACAT
* *
17301653 TAAAAAACT-TCAAAAAATTTTAAAAACTTATAAAATTTCAAAATAATTC
1 TAAAAAA-TATCAAAAAATTTGAAAAAATTATAAAATTTCAAAATAATTC
* * ** *
17301702 TAAAAAATATTAAAAAATTCTGAAAAAATTTTAAAA-TTCAAAATTTTTT
1 TAAAAAATATCAAAAAATT-TGAAAAAATTATAAAATTTCAAAATAATTC
** *
17301751 TAAAATTTATCAAAAAA-TT-AAAAAATTCTAAAA
1 TAAAAAATATCAAAAAATTTGAAAAAATTATAAAA
17301784 AATTGTAAAC
Statistics
Matches: 69, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
46 13 0.19
47 1 0.01
48 2 0.03
49 40 0.58
50 13 0.19
ACGTcount: A:0.58, C:0.07, G:0.01, T:0.34
Consensus pattern (49 bp):
TAAAAAATATCAAAAAATTTGAAAAAATTATAAAATTTCAAAATAATTC
Found at i:17301799 original size:48 final size:47
Alignment explanation
Indices: 17301746--17301839 Score: 125
Period size: 48 Copynumber: 2.0 Consensus size: 47
17301736 AATTCAAAAT
* * *
17301746 TTTTTTAAAATTTATCAAAAAATTAAAAAATTCTAAAAAATTGTAAACC
1 TTTTTGAAAAATTAT-AAAAAATTAAAAAATTATAAAAAATT-TAAACC
* *
17301795 TTTTTGAAAAATTATAAAAAATTTAAAATTTATAAAAAATTTAAA
1 TTTTTGAAAAATTATAAAAAATTAAAAAATTATAAAAAATTTAAA
17301840 ATATGAAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 4 0.10
48 23 0.57
49 13 0.32
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (47 bp):
TTTTTGAAAAATTATAAAAAATTAAAAAATTATAAAAAATTTAAACC
Found at i:17301833 original size:11 final size:10
Alignment explanation
Indices: 17301664--17301840 Score: 54
Period size: 10 Copynumber: 18.4 Consensus size: 10
17301654 AAAAAACTTC
*
17301664 AAAAAATTTT
1 AAAAAATTAT
*
17301674 AAAAACTTAT
1 AAAAAATTAT
17301684 --AAAATT-T
1 AAAAAATTAT
*
17301691 CAAAATAATTCT
1 -AAAA-AATTAT
17301703 AAAAAA-TATT
1 AAAAAATTA-T
*
17301713 AAAAAATTCT
1 AAAAAATTAT
17301723 GAAAAAATT-T
1 -AAAAAATTAT
* *
17301733 -TAAAATT-C
1 AAAAAATTAT
** *
17301741 AAAATTTTTT
1 AAAAAATTAT
* *
17301751 TAAAATTTAT
1 AAAAAATTAT
17301761 CAAAAAA-T-T
1 -AAAAAATTAT
*
17301770 AAAAAATTCT
1 AAAAAATTAT
*
17301780 AAAAAATTGT
1 AAAAAATTAT
*** *
17301790 AAACCTTTTT
1 AAAAAATTAT
*
17301800 GAAAAATTAT
1 AAAAAATTAT
17301810 AAAAAATT-T
1 AAAAAATTAT
*
17301819 -AAAATTTAT
1 AAAAAATTAT
17301828 AAAAAATT-T
1 AAAAAATTAT
17301837 AAAA
1 AAAA
17301841 TATGAAATAT
Statistics
Matches: 123, Mismatches: 29, Indels: 31
0.67 0.16 0.17
Matches are distributed among these distances:
7 1 0.01
8 23 0.19
9 14 0.11
10 63 0.51
11 21 0.17
12 1 0.01
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.36
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:17301915 original size:20 final size:19
Alignment explanation
Indices: 17301876--17301932 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
17301866 AAATTATCAT
* *
17301876 AATTTAAAAAGTTTT-AAA
1 AATTAAAAAATTTTTAAAA
*
17301894 AATTATGAAAATTTTTAGAAA
1 AATTA-AAAAATTTTTA-AAA
17301915 AATTAAAAAA-TTTTAAAA
1 AATTAAAAAATTTTTAAAA
17301933 TTTATAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
18 7 0.22
19 13 0.41
20 4 0.12
21 8 0.25
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (19 bp):
AATTAAAAAATTTTTAAAA
Found at i:17301943 original size:18 final size:18
Alignment explanation
Indices: 17301763--17301944 Score: 122
Period size: 18 Copynumber: 9.9 Consensus size: 18
17301753 AAATTTATCA
*
17301763 AAAAATTA-AAAAATTCTA
1 AAAAATTATAAAAATT-TT
* **
17301781 AAAAATTGTAAACCTTTTT
1 AAAAATTATAAA-AATTTT
*
17301800 GAAAAATTATAAAAAATTT
1 -AAAAATTATAAAAATTTT
* *
17301819 AAAATTTATAAAAAATTT
1 AAAAATTATAAAAATTTT
*
17301837 -AAAA-TATGAAATATTTTT
1 AAAAATTAT-AAA-AATTTT
* *
17301855 ATAAATTATAAAAATTAT
1 AAAAATTATAAAAATTTT
* *
17301873 CATAATT-TAAAAAGTTTT
1 AAAAATTATAAAAA-TTTT
*
17301891 AAAAATTATGAAAATTTTT
1 AAAAATTAT-AAAAATTTT
17301910 AGAAAAATTA-AAAAATTTT
1 --AAAAATTATAAAAATTTT
*
17301929 AAAATTTATAAAAATT
1 AAAAATTATAAAAATT
17301945 AATTTTTCTT
Statistics
Matches: 127, Mismatches: 24, Indels: 26
0.72 0.14 0.15
Matches are distributed among these distances:
16 3 0.02
17 19 0.15
18 51 0.40
19 26 0.20
20 20 0.16
21 8 0.06
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (18 bp):
AAAAATTATAAAAATTTT
Found at i:17302327 original size:10 final size:10
Alignment explanation
Indices: 17302314--17302555 Score: 112
Period size: 10 Copynumber: 24.6 Consensus size: 10
17302304 TTTTGAAATT
17302314 TTTTTTAAAA
1 TTTTTTAAAA
* *
17302324 TTTTCTAGAA
1 TTTTTTAAAA
* * *
17302334 TGTTTGAGAA
1 TTTTTTAAAA
17302344 -TTTTTAAAA
1 TTTTTTAAAA
*
17302353 GTTTTTAGAAA
1 TTTTTTA-AAA
17302364 -TTTTTAAAA
1 TTTTTTAAAA
17302373 -TTTTT--AA
1 TTTTTTAAAA
*
17302380 TTTTTT-GAA
1 TTTTTTAAAA
* *
17302389 TTCTCTAAAAA
1 TT-TTTTAAAA
*
17302400 TTTTTTGAAA
1 TTTTTTAAAA
*
17302410 TTATTTTAGAA
1 TT-TTTTAAAA
*
17302421 TTTTTGAAAA
1 TTTTTTAAAA
* *
17302431 ATTGTTAGAAA
1 TTTTTTA-AAA
17302442 --TTTT-AAA
1 TTTTTTAAAA
*
17302449 TTTTTTCATAA
1 TTTTTT-AAAA
*
17302460 TTTTTTAAGA
1 TTTTTTAAAA
* *
17302470 TTTTTTATAG
1 TTTTTTAAAA
*
17302480 TTTTTTAAAG
1 TTTTTTAAAA
*
17302490 TTTTTAAAAA
1 TTTTTTAAAA
* *
17302500 GTTTTTAGAA
1 TTTTTTAAAA
17302510 TTTTTT---A
1 TTTTTTAAAA
*
17302517 TTTTTTAGAA
1 TTTTTTAAAA
*
17302527 TTTTTTATTTGAA
1 TTTTTTA---AAA
17302540 TTTTTTAAAA
1 TTTTTTAAAA
17302550 TTTTTT
1 TTTTTT
17302556 TGAATTGCAA
Statistics
Matches: 178, Mismatches: 36, Indels: 36
0.71 0.14 0.14
Matches are distributed among these distances:
7 12 0.07
8 5 0.03
9 25 0.14
10 100 0.56
11 26 0.15
13 10 0.06
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (10 bp):
TTTTTTAAAA
Found at i:17302361 original size:29 final size:29
Alignment explanation
Indices: 17302315--17302379 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
17302305 TTTGAAATTT
*
17302315 TTTTTAAAATTTTCTAG-AATGTTTGAGAA
1 TTTTTAAAATTTTCTAGAAAT-TTTGAAAA
*
17302344 TTTTTAAAAGTTTT-TAGAAATTTTTAAAA
1 TTTTTAAAA-TTTTCTAGAAATTTTGAAAA
17302373 TTTTTAA
1 TTTTTAA
17302380 TTTTTTGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 25 0.78
30 7 0.22
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.52
Consensus pattern (29 bp):
TTTTTAAAATTTTCTAGAAATTTTGAAAA
Found at i:17302523 original size:17 final size:17
Alignment explanation
Indices: 17302501--17302536 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
17302491 TTTTAAAAAG
17302501 TTTTTAGAATTTTTTAT
1 TTTTTAGAATTTTTTAT
17302518 TTTTTAGAATTTTTTAT
1 TTTTTAGAATTTTTTAT
17302535 TT
1 TT
17302537 GAATTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (17 bp):
TTTTTAGAATTTTTTAT
Found at i:17302602 original size:33 final size:30
Alignment explanation
Indices: 17302538--17302639 Score: 91
Period size: 33 Copynumber: 3.3 Consensus size: 30
17302528 TTTTTATTTG
**
17302538 AATTTTTTAAAATTTTTTT-GAA-TTGCAA
1 AATTTTTTAAAATTTTTTTAGAATTTATAA
17302566 AATTTTTTGAAAATTTATTTTAGAATTTATAGA
1 AATTTTTT-AAAATTT-TTTTAGAATTTATA-A
* * *
17302599 AATTTCTTAGAATTTTTTTTTAGAATTTGTTAA
1 AATTTTTTA-AA-ATTTTTTTAGAATTT-ATAA
17302632 AATTTTTT
1 AATTTTTT
17302640 TAATGGTTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
28 8 0.13
29 7 0.12
30 4 0.07
31 3 0.05
32 4 0.07
33 29 0.48
34 5 0.08
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.56
Consensus pattern (30 bp):
AATTTTTTAAAATTTTTTTAGAATTTATAA
Found at i:17305914 original size:13 final size:13
Alignment explanation
Indices: 17305896--17305921 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17305886 GAGGTGAAAT
17305896 GAGCCAAATATTA
1 GAGCCAAATATTA
17305909 GAGCCAAATATTA
1 GAGCCAAATATTA
17305922 TGCTCTTCAA
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):
GAGCCAAATATTA
Found at i:17307195 original size:251 final size:250
Alignment explanation
Indices: 17306751--17307252 Score: 932
Period size: 251 Copynumber: 2.0 Consensus size: 250
17306741 TCTTAGTCTC
* ** *
17306751 CATATTTTGATTGATTTTATCTTCATGCATAGTCTCAAGACGTGGGAGGCGGAGACGAAGTATTT
1 CATATTTTGATTGACTTTATCTTCATGCATAGTCTCAAGACGCAGGAGGCGAAGACGAAGTATTT
17306816 ACACCTCCCGAGAGGCGAGGTGTAAGCCTGGAATAGTTAGGCGTATGCATGGTAATTATCAGTTA
66 ACACCTCCCGAGAGGCGAGGTGTAAGCCTGGAATAGTTAGGCGTATGCATGGTAATTATCAGTTA
* *
17306881 TTTACAACTATATAAAAAACCCTGAAATTTACTGTAGTTGCATGTAAACGTGATAAGACCAGAGT
131 TTTACAACTATATAAAAAACCCTGAAATTTACTGAAGTTGCATGTAAACGTGATAAAACCAGAGT
*
17306946 TCTTTTTGGAAATCATTAGGACTTTAAATTGCAGCCTCACCATAGTGCAGCCTCCA
196 TCTTTTTGGAAATCATTAGGACTTTAAATTGCACCCTC-CCATAGTGCAGCCTCCA
17307002 CATATTTTGATTGACTTTATCTTCATGCATAGTCTCAAGACGCAGGAGGCGAAGACGAAGTATTT
1 CATATTTTGATTGACTTTATCTTCATGCATAGTCTCAAGACGCAGGAGGCGAAGACGAAGTATTT
17307067 ACACCTCCCGAGAGGCGAGGTGTAAGCCTGGAATAGTTAGGCGTATGCATGGTAATTATCAGTTA
66 ACACCTCCCGAGAGGCGAGGTGTAAGCCTGGAATAGTTAGGCGTATGCATGGTAATTATCAGTTA
17307132 TTTACAACTATATAAAAAACCCTGAAATTTACTGAAGTTGCATGTAAACGTGATAAAACCAGAGT
131 TTTACAACTATATAAAAAACCCTGAAATTTACTGAAGTTGCATGTAAACGTGATAAAACCAGAGT
17307197 TCTTTTTGGAAATCATTAGGACTTTAAATTGCACCCTCCCATAGTGCAGCCTCCA
196 TCTTTTTGGAAATCATTAGGACTTTAAATTGCACCCTCCCATAGTGCAGCCTCCA
17307252 C
1 C
17307253 TTTGGTAGAG
Statistics
Matches: 244, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
250 18 0.07
251 226 0.93
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.30
Consensus pattern (250 bp):
CATATTTTGATTGACTTTATCTTCATGCATAGTCTCAAGACGCAGGAGGCGAAGACGAAGTATTT
ACACCTCCCGAGAGGCGAGGTGTAAGCCTGGAATAGTTAGGCGTATGCATGGTAATTATCAGTTA
TTTACAACTATATAAAAAACCCTGAAATTTACTGAAGTTGCATGTAAACGTGATAAAACCAGAGT
TCTTTTTGGAAATCATTAGGACTTTAAATTGCACCCTCCCATAGTGCAGCCTCCA
Found at i:17316102 original size:4 final size:4
Alignment explanation
Indices: 17316093--17316119 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
17316083 TTTCTAGTTT
17316093 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
17316120 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:17316248 original size:17 final size:17
Alignment explanation
Indices: 17316216--17316247 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17316206 TCAAAGAAAT
17316216 TTATTTTTTAAATTTTC
1 TTATTTTTTAAATTTTC
17316233 TTATTTTTT-AATTTT
1 TTATTTTTTAAATTTT
17316248 TTTTAAGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (17 bp):
TTATTTTTTAAATTTTC
Found at i:17320124 original size:23 final size:23
Alignment explanation
Indices: 17320096--17320139 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
17320086 TATAGCTAGG
17320096 TTTTCTTGGATTAAATTGAGGGT
1 TTTTCTTGGATTAAATTGAGGGT
*
17320119 TTTTCTTGGATTACATTGAGG
1 TTTTCTTGGATTAAATTGAGG
17320140 TATGTCCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.20, C:0.07, G:0.25, T:0.48
Consensus pattern (23 bp):
TTTTCTTGGATTAAATTGAGGGT
Found at i:17321346 original size:25 final size:26
Alignment explanation
Indices: 17321289--17321346 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 26
17321279 TATGTGTTTT
17321289 TTTAATTTTTTAATATTTTATATATAA
1 TTTAATTTTTT-ATATTTTATATATAA
* *
17321316 TATAATTTTTT-TCTTTTAT-TATCAA
1 TTTAATTTTTTATATTTTATATAT-AA
17321341 TTTAAT
1 TTTAAT
17321347 AGATTAGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 3 0.11
25 14 0.52
27 10 0.37
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (26 bp):
TTTAATTTTTTATATTTTATATATAA
Found at i:17321709 original size:105 final size:105
Alignment explanation
Indices: 17321597--17321807 Score: 377
Period size: 105 Copynumber: 2.0 Consensus size: 105
17321587 TAATGATATC
17321597 AAACACAATGATCTTTAATTTTTATAAATTAATGATTGTTAATCAAATAAAATAATTTCAAATCA
1 AAACACAATGATCTTTAATTTTTATAAATTAATGATTGTTAATCAAATAAAATAATTTCAAATCA
* * *
17321662 TGAGTGTTGAGATCATTTTGGTAAAAAGATCATTTCGGTT
66 TGAATGTTGAGATCACTTTGATAAAAAGATCATTTCGGTT
*
17321702 AAACACAATGATCTTTAATTTTTATAAATTAATGATTGTTAATCAAATAAAGTAATTTCAAATCA
1 AAACACAATGATCTTTAATTTTTATAAATTAATGATTGTTAATCAAATAAAATAATTTCAAATCA
*
17321767 TGAATGTTGAGATCACTTTGATAACAAGATCATTTCGGTT
66 TGAATGTTGAGATCACTTTGATAAAAAGATCATTTCGGTT
17321807 A
1 A
17321808 TTATATTACC
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
105 101 1.00
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.38
Consensus pattern (105 bp):
AAACACAATGATCTTTAATTTTTATAAATTAATGATTGTTAATCAAATAAAATAATTTCAAATCA
TGAATGTTGAGATCACTTTGATAAAAAGATCATTTCGGTT
Found at i:17325760 original size:327 final size:328
Alignment explanation
Indices: 17325155--17325805 Score: 898
Period size: 327 Copynumber: 2.0 Consensus size: 328
17325145 ACATAGCAAT
* * *
17325155 GTTTGGATTTAAAAACACTATTAAAAATATATTTTTGTGGCATTTATTGACCTAACCGTCACTAT
1 GTTTGGATTTAAAAACACTACTAAAAATATATTTTTGTGGCATTTATTGACCTAAACGCCACTAT
* *
17325220 ATACTTTGACTTTTAATTAAAGAAAATTATTCAATGTATTTTTGATCAAAAACGCTTTGAAAACA
66 ATACTTTAACTTTTAATTAAAGAAAATTATTCAATGTATTTTTG-------A-GC-TTAAAAACA
* * *
17325285 CCTTGAATAACCTCATTAAATTTTTTTGTAAGAGATTATTCAAGATATTTTTTAGTCAAAACTGT
122 CCTTGAATAACCTCATTAAATTTTTTTATAAGAGATTATTCAAGATATTTTTTAGCCAAAAATGT
* * * * *
17325350 ATTGAATAATCTCAAAAAAAAAGTTGAAGGGAATTATTGAAGATGTTTTTGGTCAAAAACGCCTT
187 ATTGAATAATCACAAAAAAAAAGTTGAAGGAAATTATTGAAGATGTTTTTAGCCAAAAACGCATT
*
17325415 GAATAATCCCCTCCAATTTTTAATTAAAAGCGATTATTCAAGACACTTTTAGCCAAAAACGCTTT
252 GAATAATCCCCTCCAA-TTTTAATTAAAAGAGATTATTCAAGACACTTTTAGCCAAAAACGCTTT
17325480 ATTTTTATAAAGC
316 ATTTTTATAAAGC
* * *
17325493 GTTTGGATTTAAAAACATTACTAAAAATATTTTTTTGTGGCATTTGTTGACCTAAACGCCACTAT
1 GTTTGGATTTAAAAACACTACTAAAAATATATTTTTGTGGCATTTATTGACCTAAACGCCACTAT
** *
17325558 ATACTTTAACTTTTAATTAAAGGGAATTATTCAATGTGTTTTTG-GC-TAAAAACACCTTGAATA
66 ATACTTTAACTTTTAATTAAAGAAAATTATTCAATGTATTTTTGAGCTTAAAAACACCTTGAATA
* * *
17325621 ACCTCATTAAATTTTTTTATAAGGGATTATTCAATG-TGTTTTTTAGCCAAAAATGTATTGACTA
131 ACCTCATTAAATTTTTTTATAAGAGATTATTCAA-GATATTTTTTAGCCAAAAATGTATTGAATA
* * *
17325685 ATCAGAAAAGAAAAA-TT-AGAGGAAATTATTGAAGGTGTTTTTAGCCAAAAATGCATTGAATAA
195 ATCACAAAA-AAAAAGTTGA-AGGAAATTATTGAAGATGTTTTTAGCCAAAAACGCATTGAATAA
* *
17325748 TCCCCTCCAATTTTAATTAAAAGAGATTATTCAAGATATTTTTAGCCAAAAACGCTTT
258 TCCCCTCCAATTTTAATTAAAAGAGATTATTCAAGACACTTTTAGCCAAAAACGCTTT
17325806 GAATAACCCC
Statistics
Matches: 282, Mismatches: 28, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
326 46 0.16
327 129 0.46
328 6 0.02
329 2 0.01
338 99 0.35
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (328 bp):
GTTTGGATTTAAAAACACTACTAAAAATATATTTTTGTGGCATTTATTGACCTAAACGCCACTAT
ATACTTTAACTTTTAATTAAAGAAAATTATTCAATGTATTTTTGAGCTTAAAAACACCTTGAATA
ACCTCATTAAATTTTTTTATAAGAGATTATTCAAGATATTTTTTAGCCAAAAATGTATTGAATAA
TCACAAAAAAAAAGTTGAAGGAAATTATTGAAGATGTTTTTAGCCAAAAACGCATTGAATAATCC
CCTCCAATTTTAATTAAAAGAGATTATTCAAGACACTTTTAGCCAAAAACGCTTTATTTTTATAA
AGC
Found at i:17328437 original size:21 final size:21
Alignment explanation
Indices: 17328406--17328458 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
17328396 AAAATAGACC
*
17328406 ATAAAAT-AAAAA-TAAAAATG
1 ATAAAATAAAAAATTAAAAA-T
*
17328426 ATAAAATAAAAAATTTAAAAT
1 ATAAAATAAAAAATTAAAAAT
*
17328447 TTAAAATAAAAA
1 ATAAAATAAAAA
17328459 TCCCTACAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 7 0.25
21 16 0.57
22 5 0.18
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (21 bp):
ATAAAATAAAAAATTAAAAAT
Found at i:17328879 original size:87 final size:84
Alignment explanation
Indices: 17328685--17329021 Score: 244
Period size: 87 Copynumber: 3.9 Consensus size: 84
17328675 ACAATAGAGA
* * *
17328685 CTCAACAACTTTGAGAAAATAAACAAAGACTCTTCTAAGCGGAGGCTCAACGACTTTGAAAAAAT
1 CTCAACAACTTTG-GAAAATAAACAAAG-CTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAAT
* *
17328750 AAATTGCTCTTCTAAACAGAGG
64 AAA-TGCTCCTCTAAACAGAAG
*** *
17328772 CTCAACAACTTAAAAAAAAATAAACAAAGCTCCTATAAACAGAGGCTCAACGACTTTG-AAAAAT
1 CTCAACAACTT--TGGAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAAT
*
17328836 AAATGACTCCTCTAATCAGAAG
64 AAATG-CTCCTCTAAACAGAAG
** * *
17328858 CATC-ACAATGACTTTGGAAAAT-AA-ATGGCTACTCTAATCAGAGGCTCAACGACTTTTGAAAA
1 C-TCAAC-A--ACTTTGGAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAACGAC-TTTGAAAA
*
17328920 AATAAATAAAGCTCCT-TAAACAGAGG
61 AATAAAT---GCTCCTCTAAACAGAAG
* * * ** * * *
17328946 CACCACAACTTT-GAAAATTAA-ATTGCTTCTCTAAACAGA-G--CAACTTAACTTTTAAAAAAT
1 CTCAACAACTTTGGAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAAC--GACTTTGAAAAAAT
17329006 AAATGGCTCCTCTAAA
64 AAAT-GCTCCTCTAAA
17329022 TATAGGCAAC
Statistics
Matches: 206, Mismatches: 27, Indels: 39
0.76 0.10 0.14
Matches are distributed among these distances:
81 6 0.03
82 8 0.04
83 14 0.07
84 9 0.04
85 48 0.23
86 31 0.15
87 56 0.27
88 24 0.12
89 9 0.04
90 1 0.00
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.24
Consensus pattern (84 bp):
CTCAACAACTTTGGAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAA
ATGCTCCTCTAAACAGAAG
Done.