Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 7 of 325
Found at i:1970611 original size:30 final size:30
Alignment explanation
Indices: 1970572--1970673 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
1970562 ATTTAGGATT
*
1970572 AAAATGAAATTTAATGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAAGGGTC
* *
1970602 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAAGGGTC
* *
1970632 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAAGGGTC
*
1970662 AAAATGCAATTT
1 AAAATGAAATTT
1970674 TTATTTTTTA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
29 2 0.03
30 61 0.97
ACGTcount: A:0.45, C:0.04, G:0.22, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAAGGGTC
Found at i:1971025 original size:54 final size:52
Alignment explanation
Indices: 1970943--1971250 Score: 435
Period size: 53 Copynumber: 5.8 Consensus size: 52
1970933 CACGTGAGCC
* *
1970943 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAACAGAAATT--AA
* *
1970997 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-ATAGA--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-AAAACAGAAATTAA
* *
1971047 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT--AAAACAGAAATTAA
*
1971101 AAGGCTCAACTCACCTCTCGCAATATG-GTTGATTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TAAAACAGAAATTAA
*
1971153 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TAAAACAGAAATTAA
*
1971206 AAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAAACA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-AAAACA
1971251 AAAACTGAAA
Statistics
Matches: 233, Mismatches: 13, Indels: 17
0.89 0.05 0.06
Matches are distributed among these distances:
50 39 0.17
51 4 0.02
52 43 0.18
53 75 0.32
54 68 0.29
55 4 0.02
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.29
Consensus pattern (52 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAACAGAAATTAA
Found at i:1971123 original size:104 final size:106
Alignment explanation
Indices: 1970943--1971248 Score: 464
Period size: 104 Copynumber: 2.9 Consensus size: 106
1970933 CACGTGAGCC
* * *
1970943 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT--AAAACAGAATTTGCAAAAGGCTCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAACAGAAATT--AAAAGGCTCAA
*
1971006 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG-A-AA
64 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAATAA
*
1971047 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAAAAGGCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAACAGAAATTAAAAGGCTCAACT
1971112 CACCTCTCGCAATATG-GTTGA-TTTTGAAAAACAGAAATTAA
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG-AA-TAA
*
1971153 AAGGCTCAACTCACCTCTCGCAATATGAGTT-GATTTTGAAAAACAGAAATTAAAAGGCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAACAGAAATTAAAAGGCTCAACT
*
1971217 CATCTCTCGCAATATGAGTTGATTTTTGAAAA
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAA
1971249 CAAAAACTGA
Statistics
Matches: 186, Mismatches: 8, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
102 12 0.06
103 5 0.03
104 66 0.35
105 46 0.25
106 48 0.26
107 9 0.05
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (106 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAACAGAAATTAAAAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAATAA
Found at i:1971250 original size:53 final size:54
Alignment explanation
Indices: 1970943--1971248 Score: 477
Period size: 54 Copynumber: 5.8 Consensus size: 54
1970933 CACGTGAGCC
* *
1970943 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT--AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AA
*
1970997 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
1971047 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
1971101 AAGGCTCAACTCACCTCTCGCAATATG-GTTGA-TTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
1971153 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
1971206 AAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
1971249 CAAAAACTGA
Statistics
Matches: 237, Mismatches: 7, Indels: 16
0.91 0.03 0.06
Matches are distributed among these distances:
50 48 0.20
52 47 0.20
53 61 0.26
54 75 0.32
56 6 0.03
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:1971377 original size:13 final size:13
Alignment explanation
Indices: 1971332--1971369 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1971322 TGATTTTTTT
*
1971332 TTAAACACAGAAA
1 TTAAAAACAGAAA
1971345 TTAAAAACAGAAA
1 TTAAAAACAGAAA
1971358 TTAAAAACAGAA
1 TTAAAAACAGAA
1971370 TTTGAAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.66, C:0.11, G:0.08, T:0.16
Consensus pattern (13 bp):
TTAAAAACAGAAA
Found at i:1971605 original size:73 final size:71
Alignment explanation
Indices: 1971450--1971814 Score: 501
Period size: 73 Copynumber: 5.1 Consensus size: 71
1971440 AATTAGTAAG
* *
1971450 CAAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGTT
1 CAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-TT
1971514 TTGAAAA
65 TTGAAAA
* *
1971521 GCAGAAA-TGAAAATACATCAATGTGTCTTGAGGCTCAAACTCATTTCTCCGCAA-ATGAGTTGA
1 -CA-AAATTGAAAATACCTCAACGTGTCTTGAGGCTC-AACTCATTTCT-CGCAATATGAGTTGA
1971584 ATTTTGAAAA
62 ATTTTGAAAA
*
1971594 CAAAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC-CAATATGAG-TGAATT
1 CAAA-ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
1971657 TTGAGAAG
65 TTGA-AAA
1971665 CAGAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CA-AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1971729 TTGAAACA
65 TTGAAA-A
* *
1971737 AAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTCTCGCAATATGAGTTG-AT
1 CA-AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGAAT
1971801 TTTGAAAAA
64 TTTG-AAAA
1971810 CAAAA
1 CAAAA
1971815 AATTAAAGGC
Statistics
Matches: 265, Mismatches: 13, Indels: 30
0.86 0.04 0.10
Matches are distributed among these distances:
70 50 0.19
71 27 0.10
72 65 0.25
73 94 0.35
74 29 0.11
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (71 bp):
CAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
TGAAAA
Found at i:1971697 original size:143 final size:142
Alignment explanation
Indices: 1971450--1971808 Score: 539
Period size: 143 Copynumber: 2.5 Consensus size: 142
1971440 AATTAGTAAG
* * * *
1971450 CAAA-ATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTAAGTT
1 CAAAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTGAA-TT
*
1971514 TTGAAAAGCAGAAATGAAAATACATCAATGTGTCTTGAGGCTCAAACTCATTTCTCCGCAA-ATG
65 TTGAAAAGCAGAAATGAAAATACATCAACGTGTCTTGAGGCTC-AACTCATTTCT-CGCAATATG
1971578 AGTTGAATTTTGAAAA
128 AGTTGAATTTTG-AAA
1971594 CAAAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC-CAATATGAGTGAATTT
1 CAAAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTGAATTT
* *
1971658 TGAGAAGCAGAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TGAAAAGCAGAAA-TGAAAATACATCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
1971722 TTGAATTTTGAAA
130 TTGAATTTTGAAA
1971735 CAAAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTCTCGCAATATGAGTTG-
1 CAAAG--ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA-TTTCTCGCAATATGAG-TGA
1971799 ATTTTGAAAA
62 ATTTTGAAAA
1971809 ACAAAAAATT
Statistics
Matches: 199, Mismatches: 8, Indels: 15
0.90 0.04 0.07
Matches are distributed among these distances:
141 13 0.07
142 26 0.13
143 76 0.38
144 24 0.12
145 58 0.29
146 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (142 bp):
CAAAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTGAATTT
TGAAAAGCAGAAATGAAAATACATCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
TGAATTTTGAAA
Found at i:1972010 original size:72 final size:71
Alignment explanation
Indices: 1971877--1972433 Score: 724
Period size: 72 Copynumber: 8.0 Consensus size: 71
1971867 CTAAAAATAC
*
1971877 CCTCAATGT-TCTTGAGGCTCAACTCATTTCTCGGCAATATGAGTTGAATTTTTGAAACAGAAAT
1 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTC-GCAATATGAGTTGAA-TTTTGAAACAGAAAT
1971941 TGAAATTA
64 TGAAATTA
1971949 CCTCAACGTGTCTTGAGG-TCTAACTCATTTCTCGCAATATGAG-TGAATTTTGAGAAGCAGAAA
1 CCTCAACGTGTCTTGAGGCTC-AACTCATTTCTCGCAATATGAGTTGAATTTTGA-AA-CAGAAA
*
1972012 TTGAAAATA
63 TTGAAATTA
*
1972021 CCTCAACGTGTCTTGAGGTTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
1 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAACAGAAATT
1972086 GAAATTA
65 GAAATTA
1972093 CCTCAA-GTGTCTTGAGGCTC-A-TCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
1 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAACAGAAATT
1972155 GAAATTA
65 GAAATTA
1972162 CCT---CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAA-
1 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAA-CAGAAAT
*
1972223 TGAAAATA
64 TGAAATTA
* *
1972231 CCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATAT-AGTTG-ATTTTGAAACA-AAATTG
1 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAACAGAAATTG
1972293 AAATTA
66 AAATTA
* * * *
1972299 CCTCAGCGTGTCCTGAGGCTC-A-TCATTTCTCGCAATATGAGTTGATTTTTTTAACACA-AAAT
1 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAA-ACAGAAAT
*
1972361 TAAAATTA
64 TGAAATTA
* * *
1972369 CCTCAGCGTGTCCTGAGG-TCAACTCA--TCT-GCAATATGAGTTG-ATTTTGAAAAACATAAAT
1 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG--AAACAGAAAT
1972429 TGAAA
64 TGAAA
1972434 AGGTTAACTC
Statistics
Matches: 448, Mismatches: 13, Indels: 52
0.87 0.03 0.10
Matches are distributed among these distances:
66 20 0.04
67 26 0.06
68 54 0.12
69 108 0.24
70 52 0.12
71 27 0.06
72 127 0.28
73 33 0.07
74 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Consensus pattern (71 bp):
CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAACAGAAATTG
AAATTA
Found at i:1972074 original size:269 final size:276
Alignment explanation
Indices: 1971452--1972348 Score: 1033
Period size: 269 Copynumber: 3.2 Consensus size: 276
1971442 TTAGTAAGCA
* * *
1971452 AAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGTTTT
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-TTTT
* * * *
1971516 GAAAAGCAGAAATGAAAATACATCAATGTGTCTTGAGGCTCAAACTCATTTCTCCGCAA-ATGAG
65 GAAAA-CACAAAT--AAAT-TA-CAA-GTGTCTTGAGACTC--A-TCA-CTCT-CGCAATATGAG
* * * * *
1971580 TTGAATTTTGAAAACA-AAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC-C
119 TTCAATTTTGAAAACAGAA-ACTAAAAATACCTCAATGT-TCTTGAGGCTCAACTCATTTCTCGC
1971643 AATATGAG-TGAATTTTGAGAAGCAGAAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCAT
182 AATATGAGTTGAATTTTGA-AAGCAGAAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCAT
1971707 TTCTCGCAATATGAGTTGAATTTTGAAACAAAG
246 TTCTCGCAATATGAGTTGAATTTTGAAAC--AG
1971740 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTCTCGCAATATGAGTTG-ATTTT
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGAATTTT
1971804 GAAAA-ACAAA-AAATTA-AAG-G-CTT-A-ACTCA-C-CTCTCGCAATAATGAG-TCAA-TTT-
65 GAAAACACAAATAAATTACAAGTGTCTTGAGACTCATCACTCTCGCAAT-ATGAGTTCAATTTTG
*
1971857 AAAACATAAACTAAAAATACCCTCAATGTTCTTGAGGCTCAACTCATTTCTCGGCAATATGAGTT
129 AAAACAGAAACTAAAAATA-CCTCAATGTTCTTGAGGCTCAACTCATTTCTC-GCAATATGAGTT
1971922 GAATTTTTGAAA-CAGAAATTGAAATTACCTCAACGTGTCTTGAGG-TCTAACTCATTTCTCGCA
192 GAA-TTTTGAAAGCAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTC-AACTCATTTCTCGCA
1971985 ATATGAG-TGAATTTTGAGAAGCAG
254 ATATGAGTTGAATTTTGA-AA-CAG
* *
1972009 AAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
* * * *
1972074 AAAACAGAAATTGAAATTACCTCAAGTGTCTTGAGGCTCATCATTTCTCGCAATATGAGTTGAAT
66 AAAACACAAA-T-AAATTA---CAAGTGTCTTGAGACTCATCA-CTCTCGCAATATGAGTTCAAT
* * * *
1972139 TTTGAAAACAGAAATTGAAATTACCTC-GTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAG
125 TTTGAAAACAGAAACTAAAAATACCTCAATGTTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
* *
1972202 TTGAATTTTGAAAAGCAGAAA-TGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGC
190 TTGAATTTTG-AAAGCAGAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
1972266 AATAT-AGTTG-ATTTTGAAACA-
253 AATATGAGTTGAATTTTGAAACAG
* * *
1972287 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTC-A-TCATTTCTCGCAATATGAGTTGATTTTT
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
1972349 TTAACACAAA
Statistics
Matches: 541, Mismatches: 30, Indels: 88
0.82 0.05 0.13
Matches are distributed among these distances:
267 36 0.07
268 37 0.07
269 88 0.16
270 59 0.11
271 8 0.01
273 7 0.01
275 3 0.01
276 28 0.05
277 7 0.01
278 31 0.06
279 6 0.01
280 5 0.01
281 18 0.03
282 61 0.11
283 43 0.08
284 14 0.03
285 7 0.01
286 19 0.04
288 46 0.09
289 18 0.03
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (276 bp):
AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
AAAACACAAATAAATTACAAGTGTCTTGAGACTCATCACTCTCGCAATATGAGTTCAATTTTGAA
AACAGAAACTAAAAATACCTCAATGTTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
TTTGAAAGCAGAAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
TTGAATTTTGAAACAG
Found at i:1972197 original size:138 final size:141
Alignment explanation
Indices: 1971886--1972433 Score: 711
Period size: 138 Copynumber: 3.9 Consensus size: 141
1971876 CCCTCAATGT
1971886 TCTTGAGGCTCAACTCATTTCTCGGCAATATGAGTTGAATTTTTG-AAACAGAAATTGAAATTAC
1 TCTTGAGGCTCAACTCATTTCTC-GCAATATGAGTTGAA-TTTTGAAAACAGAAATTGAAATTAC
* *
1971950 CTCA-ACGTGTCTTGAGG-TCTAACTCATTTCTCGCAATATGAG-TGAATTTTGAGAAGCAGAAA
64 CTCAGA-GTGTCCTGAGGCTC-AACTCATTTCTCGCAATATGAGTTG-ATTTTGA-AAACAGAAA
*
1972012 TTGAAAATACCTCAACGTG
125 TTGAAATTACCT--ACGTG
*
1972031 TCTTGAGGTTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCT
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCT
*
1972096 CA-AGTGTCTTGAGGCTC-A-TCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAA
66 CAGAGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAACAGAAATTGAA
1972158 ATTACCT-CGTG
130 ATTACCTACGTG
*
1972169 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAA-TGAAAATACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACC
*
1972233 TCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATAT-AGTTGATTTTG-AAACA-AAATTGAA
65 TCAGAGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAA
1972295 ATTACCTCAGCGTG
130 ATTACCT-A-CGTG
* * * * *
1972309 TCCTGAGGCTC-A-TCATTTCTCGCAATATGAGTTGATTTTTTTAACACA-AAATTAAAATTACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACC
* *
1972371 TCAGCGTGTCCTGAGG-TCAACTCA--TCT-GCAATATGAGTTGATTTTGAAAAACATAAATTGA
65 TCAGAGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTG-AAAACAGAAATTGA
1972432 AA
129 AA
1972434 AGGTTAACTC
Statistics
Matches: 374, Mismatches: 13, Indels: 39
0.88 0.03 0.09
Matches are distributed among these distances:
134 7 0.02
135 14 0.04
137 31 0.08
138 125 0.33
139 33 0.09
140 20 0.05
141 54 0.14
142 11 0.03
143 16 0.04
144 41 0.11
145 22 0.06
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (141 bp):
TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCT
CAGAGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAA
TTACCTACGTG
Found at i:1972659 original size:121 final size:118
Alignment explanation
Indices: 1972326--1972792 Score: 380
Period size: 121 Copynumber: 3.9 Consensus size: 118
1972316 GCTCATCATT
** *
1972326 TCTCGCAATATGAGTTGATTTTTTTAA-CACAAAATTAAAATTACCTCAGCGTGTCCTGAGG-TC
1 TCTCGCAATATGAGTTGATTTTTAAAATAACAAAATT-AAATTA-C-C-GCGTGTCCTGAGGCTC
1972389 AACTCATCTGCAATATGAGTTGA-TTTTGAAAAACATAAATTGAAAAGGT-T-AACTCACC
62 AACTCAT-TGCAATATGAGTTGATTTTTGAAAAACA-AAATT-AAAAGGTCTCAACTCA-C
* ** * *
1972447 TCTCGCAATATGAG-T-A-ATTTAAACATAA-ATAAA-TACCTT--GGCGTGCCCT-AGGCTCAA
1 TCTCGCAATATGAGTTGATTTTTAAA-ATAACA-AAATTAAATTACCGCGTGTCCTGAGGCTCAA
*
1972504 CTCACTTCTCGAATATGAG-TGATTTTTGAAAAACAGAAATT-AAAGGTCTCAACTCA-
64 CTCA-TT-GC-AATATGAGTTGATTTTTGAAAAACA-AAATTAAAAGGTCTCAACTCAC
1972560 TCTCGCAATATGAGTTGATTTTTGAAAATAACAGAAATTGAAATTACCGCGTGTCCTGAGGCTCA
1 TCTCGCAATATGAGTTGATTTTT-AAAATAACA-AAATT-AAATTACCGCGTGTCCTGAGGCTCA
1972625 ACTCATTAGCAATATGAGTTGATTTTTGAAAAACAAAATTAAAAGG-CTTCAACTCACC
63 ACTCATT-GCAATATGAGTTGATTTTTGAAAAACAAAATTAAAAGGTC-TCAACTCA-C
* * * * * * * *
1972683 TCTCGCAATATGAG-TCA-ATTTAAAA-AATAAACTGAAAATACCTTGGCGTGCCCCGAGGCTCA
1 TCTCGCAATATGAGTTGATTTTTAAAATAACAAAATTAAATTACC---GCGTGTCCTGAGGCTCA
*
1972745 ACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAAAAAATTAAAA
63 ACTCA--T-T-GCAATATGAGTTGATTTTTGAAAA-ACAAAATTAAAA
1972793 ATACCTCAAC
Statistics
Matches: 286, Mismatches: 28, Indels: 61
0.76 0.07 0.16
Matches are distributed among these distances:
112 3 0.01
113 37 0.13
114 7 0.02
115 32 0.11
116 7 0.02
117 14 0.05
118 11 0.04
119 10 0.03
120 43 0.15
121 57 0.20
122 15 0.05
123 39 0.14
124 11 0.04
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (118 bp):
TCTCGCAATATGAGTTGATTTTTAAAATAACAAAATTAAATTACCGCGTGTCCTGAGGCTCAACT
CATTGCAATATGAGTTGATTTTTGAAAAACAAAATTAAAAGGTCTCAACTCAC
Found at i:1972769 original size:123 final size:119
Alignment explanation
Indices: 1972374--1972792 Score: 444
Period size: 121 Copynumber: 3.5 Consensus size: 119
1972364 AATTACCTCA
* *
1972374 GCGTGTCCTGAGG-TCAACTCATCT-GCAATATGAGTTGA-TTTTGAAAAACATAAATTGAAAAG
1 GCGTGTCCCGAGGCTCAACTCATCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AAAAG
*
1972436 GTT-AACTCACCTCTCGCAATATGAGTAATTT-AAACATAAAT--AAATACCTTG
65 GTTCAACTCACCTCTCGCAATATGAGTAATTTAAAAAATAAATGAAAATACCTTG
*
1972487 GCGTG-CCCTAGGCTCAACTCACTTCTCG-AATATGAG-TGATTTTTGAAAAACAGAAATT-AAA
1 GCGTGTCCCGAGGCTCAACTCA--TCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAA
* * *
1972548 GGTCTCAACTCA--TCTCGCAATATGAGTTGATTTTTGAAAATAACAGAAATTGAAATTACC---
64 GGT-TCAACTCACCTCTCGCAATATGAG-T-A-ATTT--AAA-AA-ATAAA-TGAAAATACCTTG
* *
1972608 GCGTGTCCTGAGGCTCAACTCAT-TAGCAATATGAGTTGATTTTTGAAAAACA-AAATTAAAAGG
1 GCGTGTCCCGAGGCTCAACTCATCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGG
1972671 CTTCAACTCACCTCTCGCAATATGAGTCAATTTAAAAAATAAACTGAAAATACCTTG
66 -TTCAACTCACCTCTCGCAATATGAGT-AATTTAAAAAATAAA-TGAAAATACCTTG
* *
1972728 GCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAAAAAATTAAA
1 GCGTGTCCCGAGGCTCAACTCA--TCTCGCAATATGAGTTGATTTTTGAAAAAC-AGAAATTAAA
1972792 A
63 A
1972793 ATACCTCAAC
Statistics
Matches: 255, Mismatches: 18, Indels: 55
0.78 0.05 0.17
Matches are distributed among these distances:
112 5 0.02
113 33 0.13
114 5 0.02
115 35 0.14
116 4 0.02
117 13 0.05
118 2 0.01
119 7 0.03
120 35 0.14
121 41 0.16
122 24 0.09
123 36 0.14
124 15 0.06
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (119 bp):
GCGTGTCCCGAGGCTCAACTCATCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGG
TTCAACTCACCTCTCGCAATATGAGTAATTTAAAAAATAAATGAAAATACCTTG
Found at i:1981173 original size:30 final size:31
Alignment explanation
Indices: 1981139--1981207 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 31
1981129 GCAATGTATG
1981139 AATGAATGCATGAATGAATACATGAATGTC-
1 AATGAATGCATGAATGAATACATGAATGTCA
**
1981169 AATGAATGCATGAATGAATGGATGAATGTCA
1 AATGAATGCATGAATGAATACATGAATGTCA
1981200 AATGAATG
1 AATGAATG
1981208 TCAGTCATGA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 28 0.78
31 8 0.22
ACGTcount: A:0.43, C:0.07, G:0.23, T:0.26
Consensus pattern (31 bp):
AATGAATGCATGAATGAATACATGAATGTCA
Found at i:1981207 original size:4 final size:4
Alignment explanation
Indices: 1981131--1981196 Score: 62
Period size: 4 Copynumber: 16.0 Consensus size: 4
1981121 TGGGATATGC
* * *
1981131 AATG TATG AATG AATG CATG AATG AAT- ACATG AATG TCAATG AATG CATG
1 AATG AATG AATG AATG AATG AATG AATG A-ATG AATG --AATG AATG AATG
*
1981181 AATG AATG GATG AATG
1 AATG AATG AATG AATG
1981197 TCAAATGAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
3 1 0.02
4 44 0.88
5 1 0.02
6 4 0.08
ACGTcount: A:0.42, C:0.06, G:0.24, T:0.27
Consensus pattern (4 bp):
AATG
Found at i:1982748 original size:16 final size:15
Alignment explanation
Indices: 1982727--1982774 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
1982717 GATGTGAATA
1982727 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
1982743 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
1982758 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
1982774 A
1 A
1982775 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:1982750 original size:24 final size:24
Alignment explanation
Indices: 1982723--1982778 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
1982713 TAATGATGTG
*
1982723 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
1982747 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
1982771 AATAATAA
1 AATAATAA
1982779 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:1982757 original size:8 final size:8
Alignment explanation
Indices: 1982723--1982774 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
1982713 TAATGATGTG
*
1982723 AATAATAA
1 AATATTAA
1982731 AATATATAA
1 AATAT-TAA
1982740 AATA-TAA
1 AATATTAA
1982747 AATATTAA
1 AATATTAA
*
1982755 AATATCAA
1 AATATTAA
*
1982763 AATATTAG
1 AATATTAA
1982771 AATA
1 AATA
1982775 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:1982945 original size:20 final size:20
Alignment explanation
Indices: 1982890--1982947 Score: 57
Period size: 22 Copynumber: 2.9 Consensus size: 20
1982880 ATACTACATC
1982890 AATATGTACAT-ATATAAAA
1 AATATGTACATAATATAAAA
* *
1982909 AATAATACGT-GATAATATTAAA
1 AAT-AT--GTACATAATATAAAA
1982931 AATATGTACATAATATA
1 AATATGTACATAATATA
1982948 GTGTTAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 9
0.70 0.09 0.21
Matches are distributed among these distances:
19 5 0.17
20 9 0.30
21 4 0.13
22 12 0.40
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (20 bp):
AATATGTACATAATATAAAA
Found at i:1983009 original size:27 final size:25
Alignment explanation
Indices: 1982976--1983042 Score: 80
Period size: 27 Copynumber: 2.6 Consensus size: 25
1982966 TAATATAGTT
1982976 AAGATATATACATAAGATAACATGTAA
1 AAGATATATACATAAGATAACAT-T-A
* * * *
1983003 AATATATATAAATAATATAATATTA
1 AAGATATATACATAAGATAACATTA
1983028 AAGATATATACATAA
1 AAGATATATACATAA
1983043 AATAGTATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 14 0.41
26 1 0.03
27 19 0.56
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.31
Consensus pattern (25 bp):
AAGATATATACATAAGATAACATTA
Found at i:1983020 original size:74 final size:73
Alignment explanation
Indices: 1982919--1983060 Score: 178
Period size: 74 Copynumber: 1.9 Consensus size: 73
1982909 AATAATACGT
* * * * * * *
1982919 GATAATATTAAAAATATGTACATAATATAGTGTTAAAAATACATACATAATATAGT-TAAGATAT
1 GATAACATTAAAAATATATAAATAATATAATATTAAAAATACATACATAAAATAGTATAAAATAT
1982983 ATACATAA
66 ATACATAA
* *
1982991 GATAACATGTAAAATATATATAAATAATATAATATTAAAGATATATACATAAAATAGTATAAAAT
1 GATAACAT-TAAAA-ATATATAAATAATATAATATTAAAAATACATACATAAAATAGTATAAAAT
1983056 ATATA
64 ATATA
1983061 TATACACGTA
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
72 7 0.12
73 5 0.09
74 36 0.62
75 10 0.17
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (73 bp):
GATAACATTAAAAATATATAAATAATATAATATTAAAAATACATACATAAAATAGTATAAAATAT
ATACATAA
Found at i:1983034 original size:25 final size:25
Alignment explanation
Indices: 1982920--1983135 Score: 128
Period size: 25 Copynumber: 8.7 Consensus size: 25
1982910 ATAATACGTG
*
1982920 ATAATATTAAAAATATGTACATAAT
1 ATAATATTAAAAATATATACATAAT
* * *
1982945 ATAGTGTTAAAAATACATACATAAT
1 ATAATATTAAAAATATATACATAAT
* * *
1982970 AT-A-GTT-AAGATATATACATAAG
1 ATAATATTAAAAATATATACATAAT
* *
1982992 ATAACATGTAAAATATATATAAATAAT
1 ATAATAT-TAAAA-ATATATACATAAT
* *
1983019 ATAATATTAAAGATATATACATAAA
1 ATAATATTAAAAATATATACATAAT
* *
1983044 ATAGTATAAAATATATATATACACGTAAT
1 ATAATATTAAA-A-ATATATACA--TAAT
* * *
1983073 ATAGA-ATT-TAAA-ATGTACCT-A-
1 ATA-ATATTAAAAATATATACATAAT
*
1983094 AT-ATATTAAAAGA-ATATATATAAT
1 ATAATATTAAAA-ATATATACATAAT
1983118 ATAATATTAAGAAATATA
1 ATAATATTAA-AAATATA
1983136 ATAATAACAA
Statistics
Matches: 144, Mismatches: 29, Indels: 35
0.69 0.14 0.17
Matches are distributed among these distances:
19 1 0.01
20 3 0.02
21 4 0.03
22 22 0.15
23 6 0.04
24 3 0.02
25 57 0.40
26 12 0.08
27 27 0.19
28 1 0.01
29 8 0.06
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (25 bp):
ATAATATTAAAAATATATACATAAT
Found at i:1983139 original size:23 final size:25
Alignment explanation
Indices: 1983096--1983141 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
1983086 TGTACCTAAT
1983096 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
1983121 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
1983142 ACAAAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:1983664 original size:30 final size:30
Alignment explanation
Indices: 1983628--1983742 Score: 194
Period size: 30 Copynumber: 3.8 Consensus size: 30
1983618 TAGGTACAAG
* *
1983628 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
1983658 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
1983688 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
1983718 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGT
1983743 TGAGAAAAGT
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 79 1.00
ACGTcount: A:0.22, C:0.03, G:0.50, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
Found at i:1985547 original size:21 final size:21
Alignment explanation
Indices: 1985523--1985562 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1985513 TTTTAATTTA
**
1985523 AAAATCATTTAAATAATAAAT
1 AAAATCATGGAAATAATAAAT
*
1985544 AAAATGATGGAAATAATAA
1 AAAATCATGGAAATAATAA
1985563 TAATAAATAA
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:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (21 bp):
AAAATCATGGAAATAATAAAT
Found at i:1985721 original size:33 final size:31
Alignment explanation
Indices: 1985676--1985755 Score: 83
Period size: 33 Copynumber: 2.5 Consensus size: 31
1985666 AATAGTTAAC
*
1985676 TTTTTTT--ATTTTTATATTATTTTTGTAATT
1 TTTTTTTCCATTTTTA-ATAATTTTTGTAATT
* * *
1985706 TTATTTTTCCTTTTTTCAATAATTTTTTTAGTT
1 TT-TTTTTCCATTTTT-AATAATTTTTGTAATT
1985739 TTTTTTTCCATTTTTAA
1 TTTTTTTCCATTTTTAA
1985756 AGATTATTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
30 2 0.05
31 7 0.17
32 12 0.29
33 19 0.46
34 1 0.02
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.72
Consensus pattern (31 bp):
TTTTTTTCCATTTTTAATAATTTTTGTAATT
Found at i:1985766 original size:33 final size:33
Alignment explanation
Indices: 1985691--1985775 Score: 82
Period size: 33 Copynumber: 2.5 Consensus size: 33
1985681 TTATTTTTAT
* * * *
1985691 ATTATTTTTGTAATTTTATTTTTCCTTTTTTCAAT
1 ATTATTTTT-TAGTTTT-TTTTTCCATTTTTAAAG
*
1985726 AAT-TTTTTTAGTTTTTTTTTCCATTTTTAAAG
1 ATTATTTTTTAGTTTTTTTTTCCATTTTTAAAG
* *
1985758 ATTATTTTTAAGATTTTT
1 ATTATTTTTTAGTTTTTT
1985776 CGAATGATGA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
32 16 0.39
33 18 0.44
34 5 0.12
35 2 0.05
ACGTcount: A:0.22, C:0.06, G:0.05, T:0.67
Consensus pattern (33 bp):
ATTATTTTTTAGTTTTTTTTTCCATTTTTAAAG
Found at i:1989052 original size:210 final size:210
Alignment explanation
Indices: 1988670--1989052 Score: 481
Period size: 210 Copynumber: 1.8 Consensus size: 210
1988660 TTTAATCTTT
* * * * *
1988670 GAAGAGCGGAGAATCCTTCCAAATTTGGAACAGAAGTTAAATTACGACAAAAGGATAGCTCTAAT
1 GAAGAGAGGAAAACCCTTCCAAATTTGGAACAGAAGTTAAATTACGACAAAAGGATAACTCCAAT
* * *
1988735 TCTTTGAGACAAGTGGAGGTATTCAACCCGTCTCCTATCTTGCTTAAATTTTCACAATGAATAAT
66 TCTTTGAGACAAGTGGAGGTATTAAACCCATCTCCTATCTTGCTTAAATTTTCACAACGAATAAT
* * *
1988800 ACTAAGCTTTTCAAGAGATGAACAACTTCCTACTATTGGAACAACATTTAATTTGTCGCATCTAA
131 ACAAAGCTTTTCAAGAGATGAACAACTTCCCACTAGTGGAACAACATTTAATTTGTCGCATCTAA
1988865 AAACCGATAGATTTA
196 AAACCGATAGATTTA
* * **
1988880 GAAGAGAGGAAAACCCTTCCAAATTTGGAATC-G-AGCTTAAATTAGGACAATAGTCTAACTCCA
1 GAAGAGAGGAAAACCCTTCCAAATTTGGAA-CAGAAG-TTAAATTACGACAAAAGGATAACTCCA
* * *
1988943 ATTCTTTGAGACATGTGGATGT-TGTAAACCCATCTCCTATCTTGCTTAATTTTTCAC-ACGCCA
64 ATTCTTTGAGACAAGTGGAGGTAT-TAAACCCATCTCCTATCTTGCTTAAATTTTCACAACG--A
* * *
1989006 A-AATGCAAAGCTTTTTAAGAGATGAAC-ACTGTCCCATTAGTGGAACA
126 ATAATACAAAGCTTTTCAAGAGATGAACAACT-TCCCACTAGTGGAACA
1989053 CTTCTTAAAG
Statistics
Matches: 146, Mismatches: 21, Indels: 12
0.82 0.12 0.07
Matches are distributed among these distances:
209 8 0.05
210 135 0.92
211 3 0.02
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (210 bp):
GAAGAGAGGAAAACCCTTCCAAATTTGGAACAGAAGTTAAATTACGACAAAAGGATAACTCCAAT
TCTTTGAGACAAGTGGAGGTATTAAACCCATCTCCTATCTTGCTTAAATTTTCACAACGAATAAT
ACAAAGCTTTTCAAGAGATGAACAACTTCCCACTAGTGGAACAACATTTAATTTGTCGCATCTAA
AAACCGATAGATTTA
Found at i:1991472 original size:21 final size:21
Alignment explanation
Indices: 1991443--1991484 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1991433 CAAACTCATC
1991443 AAGCACATCATTG-GCCTCGT
1 AAGCACATCATTGAGCCTCGT
*
1991463 AAGCAACATCTTTGAGCCTCGT
1 AAGC-ACATCATTGAGCCTCGT
1991485 CAACCAACGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 8 0.42
22 7 0.37
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (21 bp):
AAGCACATCATTGAGCCTCGT
Found at i:1992504 original size:20 final size:22
Alignment explanation
Indices: 1992479--1992527 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
1992469 TAATTTTTTA
1992479 ATTTTTTTAAAAT-TTAAAT-T
1 ATTTTTTTAAAATGTTAAATAT
* *
1992499 ATTTTTTTACAATGTTATATAT
1 ATTTTTTTAAAATGTTAAATAT
1992521 ATTTTTT
1 ATTTTTT
1992528 AAATTTGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 12 0.48
21 5 0.20
22 8 0.32
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (22 bp):
ATTTTTTTAAAATGTTAAATAT
Found at i:1995469 original size:28 final size:29
Alignment explanation
Indices: 1995437--1995535 Score: 146
Period size: 29 Copynumber: 3.4 Consensus size: 29
1995427 TAGTAAGTCG
* * * *
1995437 GCACACTTAGTGTTATATAA-TCGAACTC
1 GCACACTTAGTGCTATACAACTTGAACCC
1995465 GCACACTTAGTGCTATACAACTTGAACCC
1 GCACACTTAGTGCTATACAACTTGAACCC
*
1995494 GCACACTTAGTGCTATACAATTTGAACCC
1 GCACACTTAGTGCTATACAACTTGAACCC
1995523 GCACACTTAGTGC
1 GCACACTTAGTGC
1995536 CAATTTCATG
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
28 18 0.28
29 47 0.72
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCTATACAACTTGAACCC
Found at i:1998615 original size:18 final size:18
Alignment explanation
Indices: 1998582--1998623 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
1998572 AAAATTGTAA
1998582 AAAAGAATATTTAAAAATT
1 AAAA-AATATTTAAAAATT
1998601 ACAAAAATA-TTAAAAATT
1 A-AAAAATATTTAAAAATT
1998619 AAAAA
1 AAAAA
1998624 TATACAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.18
18 10 0.45
19 5 0.23
20 3 0.14
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (18 bp):
AAAAAATATTTAAAAATT
Found at i:1998624 original size:25 final size:26
Alignment explanation
Indices: 1998592--1998650 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 26
1998582 AAAAGAATAT
*
1998592 TTAAAAAT-TACAAAAATATTAAAA-A
1 TTAAAAATATACAAAAA-AATAAAACA
1998617 TTAAAAATATACAAAAAAATAAAACA
1 TTAAAAATATACAAAAAAATAAAACA
1998643 -TAAAAATA
1 TTAAAAATA
1998651 ATAAATTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 22 0.71
26 9 0.29
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (26 bp):
TTAAAAATATACAAAAAAATAAAACA
Found at i:2001001 original size:17 final size:17
Alignment explanation
Indices: 2000979--2001011 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2000969 TCTCAAATAC
2000979 AAAAGAATAA-AAATTTG
1 AAAAGAA-AAGAAATTTG
2000996 AAAAGAAAAGAAATTT
1 AAAAGAAAAGAAATTT
2001012 CCTAATAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAAGAAAAGAAATTTG
Found at i:2002785 original size:210 final size:208
Alignment explanation
Indices: 2002249--2003039 Score: 1246
Period size: 210 Copynumber: 3.8 Consensus size: 208
2002239 CACAGCCATC
* * * *
2002249 AACTGATAGATTTTCAAGAGATGAAAATCCTTCCAAATTTGGGATCGAACTTAAATTAGGACAAT
1 AACTGACAGATATTGAAGAGAGGAAAATCCTTCCAAATTTGGGATCGAACTTAAATTAGGACAAT
*
2002314 CTTCTAGCTCTAATTCTTTGAGACAAGTGGAGGTAGATAATCCATCTCCAATCTTGCTTAATTTT
66 CTTCTAGATCTAATTCTTTGAGACAAGTGGAGGTAGATAATCCATCTCCAATCTTGCTTAATTTT
*
2002379 TCACAACTGGAAATGCGAAGCCCTTCAAGAGATGAACATCCTCCAGTTATTGGAAGAACTTCCAA
131 TCACAACTGGAAATGCGAAG-CATTCAAGAGATGAACATCCTCCAGTTATTGGAAGAACTTCCAA
**
2002444 -TTGTTGCAACTTTC
195 TTTGTTGCAAC-TAG
* * *
2002458 AACAGACAGAAATTGAAGAGAGGAAAATCCTTCCAAATTTGGGATCGAACTTAAATTAGAACAAT
1 AACTGACAGATATTGAAGAGAGGAAAATCCTTCCAAATTTGGGATCGAACTTAAATTAGGACAAT
*
2002523 CTTTTAGATCTAATTCTTTGAGACAAGTGGAGGTAGATAATCCATCTCCAATCTTGCTTAATTTT
66 CTTCTAGATCTAATTCTTTGAGACAAGTGGAGGTAGATAATCCATCTCCAATCTTGCTTAATTTT
* *
2002588 TTACAACTGGAAATGAGAAGCATTACAAGAGATGAACATCCTCCAGTTATTGGAAGAACTTCCAA
131 TCACAACTGGAAATGCGAAGCATT-CAAGAGATGAACATCCTCCAGTTATTGGAAGAACTTCCAA
2002653 TTTGTTGCAACGTAG
195 TTTGTTGCAAC-TAG
*
2002668 AACTGACAGATCTTGAAGAGAGGAAAATCCTTCCAAATTTGGGATCGAACTTAAATTAGGACAAT
1 AACTGACAGATATTGAAGAGAGGAAAATCCTTCCAAATTTGGGATCGAACTTAAATTAGGACAAT
*
2002733 CTTCTAGATCTAATTCTTCGAGACAAGTGGAGGTAGATAATCCATCTCCAATCTTGCTTAATTTT
66 CTTCTAGATCTAATTCTTTGAGACAAGTGGAGGTAGATAATCCATCTCCAATCTTGCTTAATTTT
* * * *
2002798 TTACAACTGGAAATGCGAAGCTTTTCAAGAGATGAACACCCTCC-GCTTATAGGAAGAACTTCCA
131 TCACAACTGGAAATGCGAAGC-ATTCAAGAGATGAACATCCTCCAG-TTATTGGAAGAACTTCCA
* *
2002862 ATTTGTAGCACACTCG
194 ATTTGTTGCA-ACTAG
*
2002878 AACTGACAGATATTGAAGAGAGGAAAATCCTTCCAAATTTGGGATCGAACTTAAATTAGGACAGT
1 AACTGACAGATATTGAAGAGAGGAAAATCCTTCCAAATTTGGGATCGAACTTAAATTAGGACAAT
*
2002943 CTTCTAGCTCTAATTCTTTGAGACAAGTGGAGGTAGATAATCCATCTCCAATCTTGCTTAATTTT
66 CTTCTAGATCTAATTCTTTGAGACAAGTGGAGGTAGATAATCCATCTCCAATCTTGCTTAATTTT
* *
2003008 TCACAAC-GGAAAATGCTAAGCTTTTCAAGAGA
131 TCACAACTGG-AAATGCGAAGC-ATTCAAGAGA
2003040 ATAACATTGT
Statistics
Matches: 543, Mismatches: 33, Indels: 11
0.93 0.06 0.02
Matches are distributed among these distances:
208 3 0.01
209 182 0.34
210 354 0.65
211 4 0.01
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (208 bp):
AACTGACAGATATTGAAGAGAGGAAAATCCTTCCAAATTTGGGATCGAACTTAAATTAGGACAAT
CTTCTAGATCTAATTCTTTGAGACAAGTGGAGGTAGATAATCCATCTCCAATCTTGCTTAATTTT
TCACAACTGGAAATGCGAAGCATTCAAGAGATGAACATCCTCCAGTTATTGGAAGAACTTCCAAT
TTGTTGCAACTAG
Found at i:2016762 original size:192 final size:192
Alignment explanation
Indices: 2016429--2016932 Score: 846
Period size: 192 Copynumber: 2.6 Consensus size: 192
2016419 TACTACAAAA
* * * *
2016429 CCTTTTATCACACTTTCAATTGTAGGTGATGGTGATGGACTCATGGTTTTTTAGCAAGATACAGG
1 CCTTTTATCACACTTTCATTTGTAGGTGATGGTGATGGACTTATGGTTTTTGAGCAAGATACAGA
*
2016494 TGAGGAAGTTAGTGCCAAAGACTATAAAGTCTACTCAATTTGGGGCCACTAGTGCTATCTTAAAT
66 TGAGGAAGTTAGTGCCAAAGACTATAAAGTCCACTCAATTTGGGGCCACTAGTGCTATCTTAAAT
* * * *
2016559 AAAGCATGGTCAACAATGGCGGGTTTTACGCTTCATTGATTTCACATTAATCCCAAAAGATT
131 AAAGAATGGTCAACAATGGCAGGTTTCAAGCTTCATTGATTTCACATTAATCCCAAAAGATT
* * *
2016621 CCTTTTATCACACTTTCATTTGTAGGTTACGGTGATGGACTTATGGTTTTTGAGCAAAATACAGA
1 CCTTTTATCACACTTTCATTTGTAGGTGATGGTGATGGACTTATGGTTTTTGAGCAAGATACAGA
* *
2016686 TGAGGAAGTTAGTGCCAAAGACTACAAAGTCCACTCAATTTGGGGCAACTAGTGCTATCTTAAAT
66 TGAGGAAGTTAGTGCCAAAGACTATAAAGTCCACTCAATTTGGGGCCACTAGTGCTATCTTAAAT
*
2016751 AAAGAATGGTCAACAATGGTAGGTTTCAAGCTTCATTGATTTCACATTAATCCCAAAAGATT
131 AAAGAATGGTCAACAATGGCAGGTTTCAAGCTTCATTGATTTCACATTAATCCCAAAAGATT
* * *
2016813 CCTTTTATCAGACTTTCATTTGTAGGTGATGGTGATGGACTTACGGTTTTTGAGCAAGATATAGA
1 CCTTTTATCACACTTTCATTTGTAGGTGATGGTGATGGACTTATGGTTTTTGAGCAAGATACAGA
2016878 TGAGGAAGTTAGTGCCAAAGACTATAAAGTCCACTCAATTTGGGGCCACTAGTGC
66 TGAGGAAGTTAGTGCCAAAGACTATAAAGTCCACTCAATTTGGGGCCACTAGTGC
2016933 ATTTCACATT
Statistics
Matches: 289, Mismatches: 23, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
192 289 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (192 bp):
CCTTTTATCACACTTTCATTTGTAGGTGATGGTGATGGACTTATGGTTTTTGAGCAAGATACAGA
TGAGGAAGTTAGTGCCAAAGACTATAAAGTCCACTCAATTTGGGGCCACTAGTGCTATCTTAAAT
AAAGAATGGTCAACAATGGCAGGTTTCAAGCTTCATTGATTTCACATTAATCCCAAAAGATT
Found at i:2020929 original size:29 final size:28
Alignment explanation
Indices: 2020889--2020959 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
2020879 AAGCCGCTAT
*
2020889 TTTACACAAATAATATA-AAAAATTAATTA
1 TTTACAAAAATAAT-TAGAAAAA-TAATTA
* * *
2020918 TTTATAAAAATAGGTTAGAGAAATAATTA
1 TTTACAAAAATA-ATTAGAAAAATAATTA
2020947 TTTACAAAAATAA
1 TTTACAAAAATAA
2020960 GTTGTTTTGA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
29 29 0.85
30 5 0.15
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (28 bp):
TTTACAAAAATAATTAGAAAAATAATTA
Found at i:2022469 original size:13 final size:13
Alignment explanation
Indices: 2022451--2022477 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2022441 TAACTAAACA
2022451 ACCTTGCTGTTAC
1 ACCTTGCTGTTAC
2022464 ACCTTGCTGTTAC
1 ACCTTGCTGTTAC
2022477 A
1 A
2022478 GCAAGCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.19, C:0.30, G:0.15, T:0.37
Consensus pattern (13 bp):
ACCTTGCTGTTAC
Found at i:2028136 original size:50 final size:50
Alignment explanation
Indices: 2028012--2028260 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
2028002 GATAATAACA
* * ** * *
2028012 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
2028063 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
2028113 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
2028163 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
2028218 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
2028261 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:2028190 original size:100 final size:104
Alignment explanation
Indices: 2028011--2028260 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
2028001 TGATAATAAC
**
2028011 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
2028076 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
2028113 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
2028176 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
2028218 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
2028261 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:2028376 original size:13 final size:13
Alignment explanation
Indices: 2028355--2028386 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2028345 GCTTGGATCA
*
2028355 TCATCAAATAAAT
1 TCATAAAATAAAT
2028368 TCATAAAATAAAT
1 TCATAAAATAAAT
2028381 TCATAA
1 TCATAA
2028387 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:2028633 original size:30 final size:30
Alignment explanation
Indices: 2028598--2028655 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
2028588 CCTCGACTCT
*
2028598 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
2028628 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
2028656 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:2046375 original size:15 final size:15
Alignment explanation
Indices: 2046357--2046386 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2046347 TAAATTTCAG
2046357 TTAATTCAATTAATC
1 TTAATTCAATTAATC
*
2046372 TTAATTGAATTAATC
1 TTAATTCAATTAATC
2046387 GAAATATTTC
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:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (15 bp):
TTAATTCAATTAATC
Found at i:2050949 original size:20 final size:20
Alignment explanation
Indices: 2050902--2050949 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
2050892 AGTAAGCTCG
2050902 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
**** *
2050922 AACAAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
2050942 GTTGAGCT
1 GTTGAGCT
2050950 GGACGGTGCT
Statistics
Matches: 19, Mismatches: 9, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:2055383 original size:20 final size:20
Alignment explanation
Indices: 2055336--2055383 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
2055326 AGTAAGCTCG
2055336 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
**** *
2055356 AACAAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
2055376 GTTGAGCT
1 GTTGAGCT
2055384 GGACGGTGCT
Statistics
Matches: 19, Mismatches: 9, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:2056787 original size:39 final size:39
Alignment explanation
Indices: 2056744--2056828 Score: 143
Period size: 39 Copynumber: 2.2 Consensus size: 39
2056734 CGAAATCTAG
*
2056744 CTGAAGCACATAAGTGCTAAATGGAAGCCCAAAGGCTAA
1 CTGAAGCACATAAGTGCTAAATGGAAGCCCAAAGACTAA
*
2056783 CTGAAGCACATAAGTGCTAAATGGAAGCCCGAAGACTAA
1 CTGAAGCACATAAGTGCTAAATGGAAGCCCAAAGACTAA
*
2056822 TTGAAGC
1 CTGAAGC
2056829 TCACCAGAGC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (39 bp):
CTGAAGCACATAAGTGCTAAATGGAAGCCCAAAGACTAA
Found at i:2056810 original size:21 final size:21
Alignment explanation
Indices: 2056746--2056810 Score: 91
Period size: 21 Copynumber: 3.2 Consensus size: 21
2056736 AAATCTAGCT
2056746 GAAGCACATAAGTGCTAAATG
1 GAAGCACATAAGTGCTAAATG
* *
2056767 GAAGCCCA-AAG-GCTAACT-
1 GAAGCACATAAGTGCTAAATG
2056785 GAAGCACATAAGTGCTAAATG
1 GAAGCACATAAGTGCTAAATG
2056806 GAAGC
1 GAAGC
2056811 CCGAAGACTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
18 7 0.19
19 9 0.24
20 9 0.24
21 12 0.32
ACGTcount: A:0.42, C:0.18, G:0.25, T:0.15
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAATG
Found at i:2056841 original size:39 final size:39
Alignment explanation
Indices: 2056744--2056842 Score: 117
Period size: 39 Copynumber: 2.5 Consensus size: 39
2056734 CGAAATCTAG
* * *
2056744 CTGAAGCACATAAGTGCTAAATGGAAGCCCAAAGGCTAA
1 CTGAAGCACACAAGAGCTAAATGGAAGCCCAAAGACTAA
* * *
2056783 CTGAAGCACATAAGTGCTAAATGGAAGCCCGAAGACTAA
1 CTGAAGCACACAAGAGCTAAATGGAAGCCCAAAGACTAA
* * *
2056822 TTGAAGCTCACCAGAGCTAAA
1 CTGAAGCACACAAGAGCTAAA
2056843 CTAAAACCCC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.16
Consensus pattern (39 bp):
CTGAAGCACACAAGAGCTAAATGGAAGCCCAAAGACTAA
Found at i:2059882 original size:11 final size:11
Alignment explanation
Indices: 2059866--2059903 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
2059856 GGGGCTAATT
*
2059866 AAAATTTTTAA
1 AAAATTTTCAA
2059877 AAAA-TTTCAA
1 AAAATTTTCAA
*
2059887 AAAATTTTCCA
1 AAAATTTTCAA
2059898 AAAATT
1 AAAATT
2059904 GGAGGGGTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (11 bp):
AAAATTTTCAA
Found at i:2060106 original size:12 final size:12
Alignment explanation
Indices: 2060089--2060113 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2060079 GAAATCACCC
2060089 ATCATTTAATTA
1 ATCATTTAATTA
2060101 ATCATTTAATTA
1 ATCATTTAATTA
2060113 A
1 A
2060114 AGCTTCTCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (12 bp):
ATCATTTAATTA
Found at i:2061241 original size:23 final size:24
Alignment explanation
Indices: 2061215--2061265 Score: 79
Period size: 22 Copynumber: 2.2 Consensus size: 24
2061205 ATGATTTAGG
2061215 AAATTATAATTTTATTTC-ATCAA
1 AAATTATAATTTTATTTCAATCAA
2061238 AAA-TATAATTTTATTTCAATCAA
1 AAATTATAATTTTATTTCAATCAA
*
2061261 TAATT
1 AAATT
2061266 TTAAAGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 14 0.56
23 10 0.40
24 1 0.04
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (24 bp):
AAATTATAATTTTATTTCAATCAA
Found at i:2062456 original size:17 final size:16
Alignment explanation
Indices: 2062430--2062460 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2062420 CAATTAATTT
2062430 ATTTTTAAAAATTAAG
1 ATTTTTAAAAATTAAG
2062446 ATTTTTAAAAATTAA
1 ATTTTTAAAAATTAA
2062461 AAAAAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
ATTTTTAAAAATTAAG
Found at i:2063891 original size:17 final size:17
Alignment explanation
Indices: 2063864--2063904 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
2063854 ACTTTTTTAA
2063864 TAAAAAT-AATA-AATAT
1 TAAAAATAAATACAA-AT
2063880 TAAAAATAAATACAAAT
1 TAAAAATAAATACAAAT
*
2063897 TACAAATA
1 TAAAAATA
2063905 TACATATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 7 0.32
17 13 0.59
18 2 0.09
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAAAATAAATACAAAT
Found at i:2073939 original size:23 final size:23
Alignment explanation
Indices: 2073910--2073956 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
2073900 ACAAGCTTGA
2073910 TGAGAGATTATTTCCCATACATT
1 TGAGAGATTATTTCCCATACATT
*
2073933 TGAGAGATTATTTCCCATATATT
1 TGAGAGATTATTTCCCATACATT
2073956 T
1 T
2073957 TTACCTACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (23 bp):
TGAGAGATTATTTCCCATACATT
Found at i:2075961 original size:50 final size:50
Alignment explanation
Indices: 2075886--2075985 Score: 175
Period size: 50 Copynumber: 2.0 Consensus size: 50
2075876 AAGCTTGCAA
*
2075886 CACCATTGATAGATAAGTCACTTTTGTTTAAAATTAATGATATTTGTCTT
1 CACCATTGATAGATAAGTCACTTTTGTTTAAAATTAACGATATTTGTCTT
2075936 CACCATTGATAGATTAA-TCACTTTTGTTTAAAATTAACGATATTTGTCTT
1 CACCATTGATAGA-TAAGTCACTTTTGTTTAAAATTAACGATATTTGTCTT
2075986 ACATTCATAC
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
50 45 0.94
51 3 0.06
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (50 bp):
CACCATTGATAGATAAGTCACTTTTGTTTAAAATTAACGATATTTGTCTT
Found at i:2091512 original size:29 final size:29
Alignment explanation
Indices: 2091472--2091527 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
2091462 AATAAATTTC
2091472 TTTTTGGAACTACATAGATCTATGGAACT
1 TTTTTGGAACTACATAGATCTATGGAACT
2091501 TTTTTGGAACTACATAGATCTATGGAA
1 TTTTTGGAACTACATAGATCTATGGAA
2091528 TCGGTTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (29 bp):
TTTTTGGAACTACATAGATCTATGGAACT
Found at i:2099441 original size:29 final size:29
Alignment explanation
Indices: 2099399--2099456 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
2099389 TAAATAAATT
2099399 CTTTTTTGGAACTACATAGATCTATGGAA
1 CTTTTTTGGAACTACATAGATCTATGGAA
2099428 CTTTTTTGGAACTACATAGATCTATGGAA
1 CTTTTTTGGAACTACATAGATCTATGGAA
2099457 TCGGTTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (29 bp):
CTTTTTTGGAACTACATAGATCTATGGAA
Found at i:2100634 original size:14 final size:14
Alignment explanation
Indices: 2100615--2100642 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2100605 TATTTACCTT
2100615 CGATCAATATTATC
1 CGATCAATATTATC
2100629 CGATCAATATTATC
1 CGATCAATATTATC
2100643 TTTATCTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (14 bp):
CGATCAATATTATC
Found at i:2101207 original size:23 final size:23
Alignment explanation
Indices: 2101181--2101226 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
2101171 GGGATATTAG
2101181 ATATTGACTAGTTATATACGAAC
1 ATATTGACTAGTTATATACGAAC
2101204 ATATTGACTAGTTATATACGAAC
1 ATATTGACTAGTTATATACGAAC
2101227 TCAAATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (23 bp):
ATATTGACTAGTTATATACGAAC
Found at i:2106663 original size:132 final size:132
Alignment explanation
Indices: 2106522--2106773 Score: 294
Period size: 131 Copynumber: 1.9 Consensus size: 132
2106512 TTGAACATCA
* * *
2106522 CCTTCGTTTTAAAGTGTTTTCTTA-AAAACATGAGTGAAAACCTAAAGGAATATTCGAATGTTTT
1 CCTTCGTTTTAAAG-GATTT-TTAGAAAACACGAGTGAAAACCTAAAGGAATATTCGAATATTTT
* * *
2106586 GACCAAACGAGAAGTCACAACCCAACACGA-TAGGGCATGATTCC-CGAATTGTCAAACACAAAG
64 GACCAAACGAGAAATCACAACCCAACAC-ATTAGGGCACGATTCCGCGAATTGCCAAACACAAAG
2106649 TATTG
128 TATTG
* * *** * * *
2106654 CCTTTGTTTTAAAGGATTTTTAGAAGACACGAGTGAAATTTTGAAGGGATATTCGATTATTTTGA
1 CCTTCGTTTTAAAGGATTTTTAGAAAACACGAGTGAAAACCTAAAGGAATATTCGAATATTTTGA
* * **
2106719 GCAAACGCGAAATTGCAACCCAACACATTAGGGCACGATTCCGCGAATTGCCAAA
66 CCAAACGAGAAATCACAACCCAACACATTAGGGCACGATTCCGCGAATTGCCAAA
2106774 TATCGAATCT
Statistics
Matches: 99, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
130 4 0.04
131 71 0.72
132 24 0.24
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.27
Consensus pattern (132 bp):
CCTTCGTTTTAAAGGATTTTTAGAAAACACGAGTGAAAACCTAAAGGAATATTCGAATATTTTGA
CCAAACGAGAAATCACAACCCAACACATTAGGGCACGATTCCGCGAATTGCCAAACACAAAGTAT
TG
Found at i:2106806 original size:131 final size:131
Alignment explanation
Indices: 2106566--2106806 Score: 281
Period size: 131 Copynumber: 1.8 Consensus size: 131
2106556 TGAAAACCTA
* * *
2106566 AAGGAATATTCGAATGTTTTGACCAAACGAGAAGTCACAACCCAACACGATAGGGCATGATTCCC
1 AAGGAATATTCGAATATTTTGACCAAACGAGAAATCACAACCCAACACGATAGGGCACGATTCCC
* * * *
2106631 GAATTGTCAAACACAAAGTATTGCCTTTGTTTTAAAGGATTTTTAGAAGACACGAGTGAAATTTT
66 GAATTGCCAAACACAAAGTATCGCCTTCGTTTTAAAGGAATTTTAGAAGACACGAGTGAAATTTT
2106696 G
131 G
* * * * **
2106697 AAGGGATATTCGATTATTTTGAGCAAACGCGAAATTGCAACCCAACAC-ATTAGGGCACGATTCC
1 AAGGAATATTCGAATATTTTGACCAAACGAGAAATCACAACCCAACACGA-TAGGGCACGATTCC
* * * *
2106761 GCGAATTGCCAAATATCGAA-TCTCGTCTTCGTTTTAAA-GAATTTTA
65 -CGAATTGCCAAACA-CAAAGTATCGCCTTCGTTTTAAAGGAATTTTA
2106807 AAAAATTGTG
Statistics
Matches: 90, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
130 1 0.01
131 60 0.67
132 26 0.29
133 3 0.03
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.28
Consensus pattern (131 bp):
AAGGAATATTCGAATATTTTGACCAAACGAGAAATCACAACCCAACACGATAGGGCACGATTCCC
GAATTGCCAAACACAAAGTATCGCCTTCGTTTTAAAGGAATTTTAGAAGACACGAGTGAAATTTT
G
Found at i:2110133 original size:13 final size:14
Alignment explanation
Indices: 2110112--2110143 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
2110102 ATAAAAACTA
2110112 TAAACAAAAGTTAT
1 TAAACAAAAGTTAT
2110126 TAAA-AAAAGTTA-
1 TAAACAAAAGTTAT
2110138 TAAACA
1 TAAACA
2110144 TTTTAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 4 0.24
13 9 0.53
14 4 0.24
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.25
Consensus pattern (14 bp):
TAAACAAAAGTTAT
Found at i:2110157 original size:17 final size:18
Alignment explanation
Indices: 2110130--2110165 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
2110120 AGTTATTAAA
2110130 AAAAGTTATAAACATTTT
1 AAAAGTTATAAACATTTT
*
2110148 AAAA-TTATAAATATTTT
1 AAAAGTTATAAACATTTT
2110165 A
1 A
2110166 TTAAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (18 bp):
AAAAGTTATAAACATTTT
Found at i:2111142 original size:107 final size:107
Alignment explanation
Indices: 2110955--2111175 Score: 293
Period size: 107 Copynumber: 2.1 Consensus size: 107
2110945 ATCCCTACAA
** *
2110955 TGCAAAATTTGGAGGGGGTGAAACATAAAACTTTGGACTTATTTGAATCCGACCAAATTATACTA
1 TGCAAAATTTGGAGGGGGAAAAACATAAAACTTTGGACTTATTTGAATCCGACCAAATTACACTA
* * *
2111020 AAACCCATTTGAAAGCAATTGATGAGGAAAGCTTTGACATTT
66 AAACACATTTAAAAGCAATTGACGAGGAAAGCTTTGACATTT
** * **
2111062 TGCAAAATTTGGAGGGGGAAAAACATAAAACTTTGGACTTATTTGAATTTTG-CTATTTTACACT
1 TGCAAAATTTGGAGGGGGAAAAACATAAAACTTTGGACTTATTTGAA-TCCGACCAAATTACACT
* * *
2111126 AAAACACATTTAAAAGCATTTGGCGAGGAAAGTTTTGACATTT
65 AAAACACATTTAAAAGCAATTGACGAGGAAAGCTTTGACATTT
2111169 T-CAAAAT
1 TGCAAAAT
2111176 AAGATAGCAA
Statistics
Matches: 99, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
106 6 0.06
107 91 0.92
108 2 0.02
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.31
Consensus pattern (107 bp):
TGCAAAATTTGGAGGGGGAAAAACATAAAACTTTGGACTTATTTGAATCCGACCAAATTACACTA
AAACACATTTAAAAGCAATTGACGAGGAAAGCTTTGACATTT
Found at i:2131452 original size:16 final size:17
Alignment explanation
Indices: 2131411--2131455 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
2131401 ATCCTAAATT
*
2131411 CAAAATAAATTAAATCG
1 CAAAATAATTTAAATCG
*
2131428 C-AAAT-ATTTGAATC-
1 CAAAATAATTTAAATCG
2131442 CAAAATAATTTAAA
1 CAAAATAATTTAAA
2131456 CCCGAATAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
14 1 0.04
15 11 0.48
16 10 0.43
17 1 0.04
ACGTcount: A:0.56, C:0.11, G:0.04, T:0.29
Consensus pattern (17 bp):
CAAAATAATTTAAATCG
Found at i:2133047 original size:5 final size:5
Alignment explanation
Indices: 2133037--2133064 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
2133027 GTGCTTAGAT
2133037 TAAAA TAAAA TAAAA TAAAA TAAAA TAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAA
2133065 TTAAGATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:2133286 original size:24 final size:25
Alignment explanation
Indices: 2133259--2133306 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
2133249 TAAATTAACA
* *
2133259 AACTAATTAA-CATCCCACTAAACC
1 AACTAATAAACCACCCCACTAAACC
*
2133283 AACTACTAAACCACCCCACTAAAC
1 AACTAATAAACCACCCCACTAAAC
2133307 TATCCCATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.17
Consensus pattern (25 bp):
AACTAATAAACCACCCCACTAAACC
Found at i:2133844 original size:15 final size:14
Alignment explanation
Indices: 2133788--2133901 Score: 65
Period size: 15 Copynumber: 7.9 Consensus size: 14
2133778 TTATTATGTT
*
2133788 TCTATTTATATTTA
1 TCTATTTTTATTTA
*
2133802 T-T-TTGTTATTCTAA
1 TCTATTTTTATT-T-A
*
2133816 TACTATTATTATTTA
1 T-CTATTTTTATTTA
2133831 TCTAATTTTTATTTA
1 TCT-ATTTTTATTTA
*
2133846 TCTATTTATATTTCA
1 TCTATTTTTATTT-A
* *
2133861 ACTATTATTATATT-
1 TCTATTTTTAT-TTA
2133875 TCTATTTATTATATT-
1 TCTATTT-TTAT-TTA
*
2133890 TCTATTTCTATT
1 TCTATTTTTATT
2133902 AATATACTAA
Statistics
Matches: 80, Mismatches: 11, Indels: 19
0.73 0.10 0.17
Matches are distributed among these distances:
12 6 0.08
13 3 0.04
14 22 0.28
15 38 0.47
16 4 0.05
17 7 0.09
ACGTcount: A:0.27, C:0.09, G:0.01, T:0.63
Consensus pattern (14 bp):
TCTATTTTTATTTA
Found at i:2133865 original size:44 final size:44
Alignment explanation
Indices: 2133817--2133901 Score: 113
Period size: 44 Copynumber: 1.9 Consensus size: 44
2133807 TTATTCTAAT
2133817 ACTATTATTAT-TTATCTAATTT-TTAT-TTATCTATTTATATTTCA
1 ACTATTATTATATT-TCT-ATTTATTATATT-TCTATTTATATTTCA
*
2133861 ACTATTATTATATTTCTATTTATTATATTTCTATTTCTATT
1 ACTATTATTATATTTCTATTTATTATATTTCTATTTATATT
2133902 AATATACTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
43 4 0.11
44 29 0.78
45 4 0.11
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.62
Consensus pattern (44 bp):
ACTATTATTATATTTCTATTTATTATATTTCTATTTATATTTCA
Found at i:2133894 original size:29 final size:29
Alignment explanation
Indices: 2133776--2133895 Score: 88
Period size: 29 Copynumber: 4.1 Consensus size: 29
2133766 TTATTGCTAT
* *
2133776 TATTATTATGTTTCTATTTA-TATTTATTT
1 TATTATTATATTTCTATTTATTATTTA-TC
* * * *
2133805 TGTTATTCTAATACTA-TTATTATTTATC
1 TATTATTATATTTCTATTTATTATTTATC
* *
2133833 TAATTTTTAT-TTATCTATTTA-TATTTCAAC
1 T-ATTATTATATT-TCTATTTATTATTT-ATC
2133863 TATTATTATATTTCTATTTATTATATT-TC
1 TATTATTATATTTCTATTTATTAT-TTATC
2133892 TATT
1 TATT
2133896 TCTATTAATA
Statistics
Matches: 69, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
28 6 0.09
29 50 0.72
30 11 0.16
31 2 0.03
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (29 bp):
TATTATTATATTTCTATTTATTATTTATC
Found at i:2136008 original size:15 final size:15
Alignment explanation
Indices: 2135988--2136039 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
2135978 ACTACAAAAC
2135988 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
2136003 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
2136022 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
2136037 ATT
1 ATT
2136040 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:2136142 original size:22 final size:22
Alignment explanation
Indices: 2136102--2136157 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
2136092 AATAAAATTG
*
2136102 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
2136122 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
2136144 TATTAATAATTTAT
1 AAATAATAAATTAT
2136158 TATATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:2139767 original size:31 final size:32
Alignment explanation
Indices: 2139732--2139793 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 32
2139722 AAAAAGGCTT
2139732 AATAGTCTAATAACTTAAAT-AATTTTTTTTG
1 AATAGTCTAATAACTTAAATGAATTTTTTTTG
* *
2139763 AATAGTTTAGTAACTTAAATGAATTTTTTTT
1 AATAGTCTAATAACTTAAATGAATTTTTTTT
2139794 ATGTAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 18 0.64
32 10 0.36
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (32 bp):
AATAGTCTAATAACTTAAATGAATTTTTTTTG
Found at i:2146030 original size:15 final size:15
Alignment explanation
Indices: 2146010--2146040 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2146000 CTCTGCTAAC
*
2146010 TTAAGTTATTGTATA
1 TTAAGTTATCGTATA
2146025 TTAAGTTATCGTATA
1 TTAAGTTATCGTATA
2146040 T
1 T
2146041 CCTATAGGTT
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:0.32, C:0.03, G:0.13, T:0.52
Consensus pattern (15 bp):
TTAAGTTATCGTATA
Found at i:2147311 original size:17 final size:17
Alignment explanation
Indices: 2147289--2147339 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 17
2147279 ATTGCAAAAT
2147289 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
*
2147306 CATATCATATCTAAGATTG
1 CATATC-T-TCTAAGATTA
*
2147325 CATATCTTCGAAGAT
1 CATATCTTCTAAGAT
2147340 CATGTTTCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 13 0.43
18 2 0.07
19 15 0.50
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:2149046 original size:22 final size:22
Alignment explanation
Indices: 2149018--2149064 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
2149008 AAGTGCGTCA
2149018 GCTACAATGTTGGCACTCCCCG
1 GCTACAATGTTGGCACTCCCCG
2149040 GCTACAATGTTGGCACTCCCCG
1 GCTACAATGTTGGCACTCCCCG
2149062 GCT
1 GCT
2149065 TGTATTCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.17, C:0.36, G:0.23, T:0.23
Consensus pattern (22 bp):
GCTACAATGTTGGCACTCCCCG
Found at i:2152470 original size:23 final size:22
Alignment explanation
Indices: 2152426--2152483 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
2152416 AAAGGGTATC
* *
2152426 TACAAATCAAAT-TTCTAGGAT
1 TACAAATCATATCTTCTAAGAT
*
2152447 TGCAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
2152470 TACATATCATATCT
1 TACAAATCATATCT
2152484 AAGATTGCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 2 0.07
22 18 0.60
23 10 0.33
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:2152477 original size:17 final size:17
Alignment explanation
Indices: 2152455--2152505 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 17
2152445 ATTGCAAAAT
2152455 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
*
2152472 CATATCATATCTAAGATTG
1 CATATC-T-TCTAAGATTA
*
2152491 CATATCTTCGAAGAT
1 CATATCTTCTAAGAT
2152506 CATATTTCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 13 0.43
18 2 0.07
19 15 0.50
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:2154260 original size:43 final size:43
Alignment explanation
Indices: 2154204--2154290 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
2154194 TCATATTTCA
* *
2154204 TTTCTCATTTCATAATAATTTCTCATATTTTCCATTTCAATAT
1 TTTCTCATCTCATAATAATTTCTCATATTTCCCATTTCAATAT
* * * *
2154247 TTTCTCATCTCATATTCATTTCTCATCTTTCCCATTTCATTAT
1 TTTCTCATCTCATAATAATTTCTCATATTTCCCATTTCAATAT
2154290 T
1 T
2154291 AATCACATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (43 bp):
TTTCTCATCTCATAATAATTTCTCATATTTCCCATTTCAATAT
Found at i:2154261 original size:15 final size:14
Alignment explanation
Indices: 2154224--2154262 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
2154214 CATAATAATT
2154224 TCTCATATTTTCCA
1 TCTCATATTTTCCA
*
2154238 TTTCAATATTTTCTCA
1 TCTC-ATATTTTC-CA
2154254 TCTCATATT
1 TCTCATATT
2154263 CATTTCTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 3 0.14
15 13 0.62
16 5 0.24
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (14 bp):
TCTCATATTTTCCA
Found at i:2156424 original size:18 final size:17
Alignment explanation
Indices: 2156394--2156430 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
2156384 TAATAAAAAT
*
2156394 ATAATTTTATCATTTTA
1 ATAATTTTATCATTATA
2156411 ATAATTTATATCATTATA
1 ATAATTT-TATCATTATA
2156429 AT
1 AT
2156431 TTTTAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (17 bp):
ATAATTTTATCATTATA
Found at i:2182397 original size:47 final size:47
Alignment explanation
Indices: 2182291--2182403 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
2182281 AAGAATGAAG
* * *
2182291 AAGTGATAGTTTATCTACAAAAGTGGTGGCTTGTCCATAATATTATA
1 AAGTGATAGTTTATCTGCAAAAGTGGTGGCTTATCCACAATATTATA
*** * *
2182338 AAGTGGCGGTTTATTTGCAAAAGTGGTGGCTTATCCACAATATTATT
1 AAGTGATAGTTTATCTGCAAAAGTGGTGGCTTATCCACAATATTATA
2182385 AAGTGATAGTTTATCTGCA
1 AAGTGATAGTTTATCTGCA
2182404 TTACTGTGAA
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (47 bp):
AAGTGATAGTTTATCTGCAAAAGTGGTGGCTTATCCACAATATTATA
Found at i:2183541 original size:30 final size:30
Alignment explanation
Indices: 2183505--2183566 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
2183495 AGCTAAATAG
2183505 TAAATTTAATGAACTGGCAATTGATCTTCT
1 TAAATTTAATGAACTGGCAATTGATCTTCT
2183535 TAAATTTAATGAACTGGCAATTGATCTTCT
1 TAAATTTAATGAACTGGCAATTGATCTTCT
2183565 TA
1 TA
2183567 CCCTTAGCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (30 bp):
TAAATTTAATGAACTGGCAATTGATCTTCT
Found at i:2194043 original size:21 final size:21
Alignment explanation
Indices: 2194017--2194057 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2194007 ATCTGCTCAA
* *
2194017 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
2194038 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
2194058 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:2200996 original size:5 final size:5
Alignment explanation
Indices: 2200986--2201039 Score: 60
Period size: 5 Copynumber: 11.0 Consensus size: 5
2200976 ATCCTAAATT
*
2200986 AATAA AATAA AA-ATA AATAA AA-AT AATAA AACT-A AATAA AATAA AATAA
1 AATAA AATAA AATA-A AATAA AATAA AATAA AA-TAA AATAA AATAA AATAA
2201035 AATAA
1 AATAA
2201040 TATCTTCTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
4 5 0.12
5 35 0.83
6 2 0.05
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:2201002 original size:19 final size:19
Alignment explanation
Indices: 2200980--2201036 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
2200970 AGCCTAATCC
2200980 TAAATTAATAAAATAAAAA
1 TAAATTAATAAAATAAAAA
* *
2200999 TAAA-TAAAAATAATAAAAC
1 TAAATTAATAA-AATAAAAA
*
2201018 TAAATAAAATAAAATAAAA
1 TAAAT-TAATAAAATAAAA
2201037 TAATATCTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
18 5 0.16
19 15 0.48
20 7 0.23
21 4 0.13
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (19 bp):
TAAATTAATAAAATAAAAA
Found at i:2201012 original size:24 final size:24
Alignment explanation
Indices: 2200985--2201031 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2200975 AATCCTAAAT
2200985 TAATAAAA-TAAAAATAAATAAAAA
1 TAATAAAACTAAAAA-AAATAAAAA
*
2201009 TAATAAAACTAAATAAAATAAAA
1 TAATAAAACTAAAAAAAATAAAA
2201032 TAAAATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (24 bp):
TAATAAAACTAAAAAAAATAAAAA
Found at i:2206296 original size:3 final size:3
Alignment explanation
Indices: 2206270--2206341 Score: 58
Period size: 3 Copynumber: 23.7 Consensus size: 3
2206260 TTCTCATTGC
* * * *
2206270 TAT TTT TAT T-T TATT TAC TAT TAT TAT TAT TAT T-T TAC TAG TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
2206314 TATT TAT TATT TAT TAT TAT TAC TAT TA
1 TA-T TAT TA-T TAT TAT TAT TAT TAT TA
2206342 CTGTCATTAT
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
2 4 0.07
3 42 0.76
4 9 0.16
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:2206505 original size:3 final size:3
Alignment explanation
Indices: 2206497--2206526 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
2206487 TTTTATTTAT
2206497 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2206527 CACTCATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2206730 original size:3 final size:3
Alignment explanation
Indices: 2206724--2206748 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2206714 CCTACTTAAC
2206724 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
2206749 TATTCATATA
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:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:2206923 original size:24 final size:26
Alignment explanation
Indices: 2206895--2206962 Score: 90
Period size: 24 Copynumber: 2.7 Consensus size: 26
2206885 CTATTATCTA
2206895 TTTATTTATTTTATT-TTATT-TTAT
1 TTTATTTATTTTATTATTATTATTAT
2206919 TTTATTTA-TTTATTATTATTATTAT
1 TTTATTTATTTTATTATTATTATTAT
2206944 TATT-TTTATTATTATTATT
1 T-TTATTTATT-TTATTATT
2206963 TTTACATATT
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
23 6 0.15
24 13 0.33
25 9 0.23
26 3 0.08
27 8 0.21
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (26 bp):
TTTATTTATTTTATTATTATTATTAT
Found at i:2206924 original size:28 final size:29
Alignment explanation
Indices: 2206893--2206962 Score: 94
Period size: 28 Copynumber: 2.5 Consensus size: 29
2206883 TTCTATTATC
*
2206893 TATTTATTTATT-TTATT-TTATTTTATTT
1 TATTTATTTATTATTATTATTATTAT-TTT
2206921 TATTTATTTATTATTATTATTATTATTTT
1 TATTTATTTATTATTATTATTATTATTTT
2206950 TA-TTA-TTATTATT
1 TATTTATTTATTATT
2206963 TTTACATATT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 8 0.21
28 15 0.38
29 10 0.26
30 6 0.15
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (29 bp):
TATTTATTTATTATTATTATTATTATTTT
Found at i:2206936 original size:3 final size:3
Alignment explanation
Indices: 2206886--2206962 Score: 72
Period size: 3 Copynumber: 25.3 Consensus size: 3
2206876 TGTGCCCTTC
2206886 TAT TAT CTATT TATT TAT T-T TAT T-T TAT T-T TAT T-T TATT TATT
1 TAT TAT -TA-T TA-T TAT TAT TAT TAT TAT TAT TAT TAT TA-T TA-T
*
2206929 TAT TAT TAT TAT TAT TAT TTT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
2206963 TTTACATATT
Statistics
Matches: 65, Mismatches: 2, Indels: 14
0.80 0.02 0.17
Matches are distributed among these distances:
2 8 0.12
3 41 0.63
4 15 0.23
5 1 0.02
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.73
Consensus pattern (3 bp):
TAT
Found at i:2211405 original size:37 final size:37
Alignment explanation
Indices: 2211350--2211424 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
2211340 TACTACGTAC
*
2211350 GTAGTACAGAGCCGATGGTCTACTTATCTAAAATAAT
1 GTAGTACAGAGCCAATGGTCTACTTATCTAAAATAAT
*
2211387 GTAGTACAGAGCCAATGGTCTACTTTTCTAAAATAAT
1 GTAGTACAGAGCCAATGGTCTACTTATCTAAAATAAT
2211424 G
1 G
2211425 AAGTTCAAGC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.31
Consensus pattern (37 bp):
GTAGTACAGAGCCAATGGTCTACTTATCTAAAATAAT
Found at i:2214041 original size:41 final size:39
Alignment explanation
Indices: 2213979--2214066 Score: 95
Period size: 41 Copynumber: 2.2 Consensus size: 39
2213969 ATATAATCAC
* *
2213979 TTTTTATTATATTTTCAATTTGTGTATTGTTTTAATAATT
1 TTTTTAATATATTTTCAATTTGTGTATTATTTTAAT-ATT
** * *
2214019 TTTTTAATATAATTTTTTATTTGTTTCTTATTTTAATATT
1 TTTTTAATAT-ATTTTCAATTTGTGTATTATTTTAATATT
2214059 TGTTTTAA
1 T-TTTTAA
2214067 ATGTATTTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
40 13 0.32
41 27 0.68
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.67
Consensus pattern (39 bp):
TTTTTAATATATTTTCAATTTGTGTATTATTTTAATATT
Found at i:2221049 original size:19 final size:22
Alignment explanation
Indices: 2221010--2221049 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
2221000 AGAAACCCAA
2221010 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
2221032 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
2221050 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:2221149 original size:27 final size:28
Alignment explanation
Indices: 2221112--2221250 Score: 164
Period size: 27 Copynumber: 5.1 Consensus size: 28
2221102 GCATGGCTGT
* *
2221112 CAGA-ACAGATA-ATGTGACAGAGTCAC
1 CAGATACAGATATATGTGGCAGAGCCAC
*
2221138 CAGATACAGATA-ATCGTGGCAGAACCAC
1 CAGATACAGATATAT-GTGGCAGAGCCAC
2221166 CAGA-ACAGATATATGTGGCAGAGCCAC
1 CAGATACAGATATATGTGGCAGAGCCAC
*
2221193 CAGAT-CAGATATTTGTGGCAGAGCCAC
1 CAGATACAGATATATGTGGCAGAGCCAC
* * *
2221220 CAGAT-CAGATTTTTGTGGCATAGCCAC
1 CAGATACAGATATATGTGGCAGAGCCAC
2221247 CAGA
1 CAGA
2221251 ACGCTTCCTC
Statistics
Matches: 102, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
26 4 0.04
27 82 0.80
28 16 0.16
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (28 bp):
CAGATACAGATATATGTGGCAGAGCCAC
Found at i:2221398 original size:26 final size:26
Alignment explanation
Indices: 2221353--2221428 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 26
2221343 CAAAATTAAC
*
2221353 CCTAGGGGTATAACGATAATTTT-ACA
1 CCTAGGGGTATAAAG-TAATTTTCACA
*
2221379 CCTAGGGGTATAATAGTAATTTTCCATA
1 CCTAGGGGTATAA-AGTAATTTT-CACA
* *
2221407 CATAGGGGTATTACAGTAATTT
1 CCTAGGGGTA-TAAAGTAATTT
2221429 AGCTACTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
26 20 0.48
27 1 0.02
28 19 0.45
29 2 0.05
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (26 bp):
CCTAGGGGTATAAAGTAATTTTCACA
Found at i:2222964 original size:25 final size:26
Alignment explanation
Indices: 2222870--2222978 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
2222860 CATGAAATTC
2222870 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
2222896 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
2222922 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
2222948 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
2222973 TTATCA
1 TTATCA
2222979 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 23 0.28
26 58 0.72
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:2236004 original size:70 final size:70
Alignment explanation
Indices: 2235883--2236057 Score: 212
Period size: 70 Copynumber: 2.5 Consensus size: 70
2235873 CTTTCCAAGG
* **
2235883 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTT-T
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
2235947 -TTTT
66 GTTTT
** * *
2235951 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTT
1 --AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTT
2236016 ATGTTTT
64 ATGTTTT
** * *
2236023 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
2236058 TTTAATTTTT
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
69 31 0.34
70 56 0.61
71 1 0.01
72 4 0.04
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.33
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
GTTTT
Found at i:2236451 original size:193 final size:192
Alignment explanation
Indices: 2235883--2236497 Score: 1122
Period size: 192 Copynumber: 3.2 Consensus size: 192
2235873 CTTTCCAAGG
*
2235883 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
*
2235948 TTTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
2236013 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
2236075 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
*
2236140 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATGTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
*
2236205 TTTATGTTTTAAATTGACTCATGTTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
2236267 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
*
2236332 TTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
66 TT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
* *
2236397 GTTTATGTTTTAAATTGACTCATATTGCGAGAGCTGAGTTAAGCCTTTTAATTTTTTTTTTTC
130 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* **
2236460 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC
1 -AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
2236498 GGCTCACATG
Statistics
Matches: 409, Mismatches: 12, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
192 255 0.62
193 120 0.29
194 34 0.08
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (192 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:2236537 original size:16 final size:17
Alignment explanation
Indices: 2236516--2236549 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
2236506 TGCTGAGGTA
*
2236516 TTTTCAATTTATG-TTT
1 TTTTCAATCTATGCTTT
2236532 TTTTCAATCTATGCTTT
1 TTTTCAATCTATGCTTT
2236549 T
1 T
2236550 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTTCAATCTATGCTTT
Found at i:2236779 original size:177 final size:176
Alignment explanation
Indices: 2236455--2236851 Score: 520
Period size: 177 Copynumber: 2.2 Consensus size: 176
2236445 TAATTTTTTT
*
2236455 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTT
* *
2236520 CAATTTATGTTTTTTTCAATCTATGCTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAG
65 CAATTTATG-TTTTTTCAATCTATGCTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAG
*
2236585 CCTCAAGGCACGCTGAGGTATTTTCAATTTCTGCTTTACTAA-TTCTAC
129 CCTCAAGGCACGCTGAGGTATTTTCAATTTCTACTTTAC-AATTTCTAC
* *
2236633 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGC-CACACGCTGAGGTCTTTT
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCACACGCTGAGGTATTTT
* * *
2236696 CAA-TTCTG-TTTTT-AATTTCTG-TGTTTCAAAAAAAAAATCAACTCATATTGCAAGAGGTGAG
65 CAATTTATGTTTTTTCAATCTATGCT-TTTC-----AAAAATCAACTCATATTGCAAGAGGTGAG
* * **
2236757 TTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTACTTTTCAATTTCTGT
124 TTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTACTTTACAATTTCTAC
*
2236810 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT
2236852 TTTAATTTCT
Statistics
Matches: 194, Mismatches: 15, Indels: 19
0.85 0.07 0.08
Matches are distributed among these distances:
171 1 0.01
172 10 0.05
173 5 0.03
175 4 0.02
176 56 0.29
177 80 0.41
178 5 0.03
179 33 0.17
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (176 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTC
AATTTATGTTTTTTCAATCTATGCTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC
TCAAGGCACGCTGAGGTATTTTCAATTTCTACTTTACAATTTCTAC
Found at i:2236842 original size:87 final size:87
Alignment explanation
Indices: 2236441--2236851 Score: 451
Period size: 87 Copynumber: 4.7 Consensus size: 87
2236431 TGAGTTAAGC
* * *
2236441 CTTTT-AATTTTTTTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCA
1 CTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCGCA
*
2236504 CATGCTGAGGTATTTTCAATTTATGTT
66 C--GCTGAGGTATTTTCAA-TT-T-CT
* * * * * * *
2236531 TTTTTCAATCTATGCTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAG-GCA
1 CTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCGCA
2236595 CGCTGAGGTATTTTCAATTTCT
66 CGCTGAGGTATTTTCAATTTCT
* ** *
2236617 GCTTTACTAA-TTCTACTTTTC--AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCC
1 -CTTTTC-AATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGG-C
* *
2236679 ACACGCTGAGGTCTTTTCAA-TTCT
63 GCACGCTGAGGTATTTTCAATTTCT
* * *
2236703 GTTTTTAATTTCTGTGTTTCAAAAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAG
1 CTTTTCAATTTCTGTTTTTC-----AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAG
2236768 G-GCACGCTGAGGTATTTTCAATTTCT
61 GCGCACGCTGAGGTATTTTCAATTTCT
*
2236794 ACTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 -CTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT
2236852 TTTAATTTCT
Statistics
Matches: 271, Mismatches: 34, Indels: 35
0.80 0.10 0.10
Matches are distributed among these distances:
84 2 0.01
85 46 0.17
86 5 0.02
87 67 0.25
88 4 0.01
89 16 0.06
90 22 0.08
91 53 0.20
92 56 0.21
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (87 bp):
CTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCGCA
CGCTGAGGTATTTTCAATTTCT
Found at i:2236879 original size:54 final size:55
Alignment explanation
Indices: 2236795--2237012 Score: 315
Period size: 54 Copynumber: 4.1 Consensus size: 55
2236785 TCAATTTCTA
*
2236795 CTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
2236850 CTTTT-AATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAG-
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
2236903 -TCTT---TTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * *
2236955 CTTTTGCAAATTCT-GTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
1 CTTTT-CAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
2237010 CTT
1 CTT
2237013 GGCTCACGTG
Statistics
Matches: 148, Mismatches: 8, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
50 12 0.08
51 33 0.22
52 3 0.02
53 3 0.02
54 46 0.31
55 42 0.28
56 5 0.03
57 4 0.03
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (55 bp):
CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
Found at i:2237278 original size:13 final size:15
Alignment explanation
Indices: 2237254--2237287 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
2237244 TTTAATTTTC
2237254 AAAATTTCAAAAA-A
1 AAAATTTCAAAAATA
2237268 AAAATTT-AAAAATA
1 AAAATTTCAAAAATA
2237282 AAAATT
1 AAAATT
2237288 GCATTTTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATTTCAAAAATA
Found at i:2237317 original size:30 final size:31
Alignment explanation
Indices: 2237283--2237384 Score: 122
Period size: 30 Copynumber: 3.4 Consensus size: 31
2237273 TTAAAAATAA
*
2237283 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
2237313 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
2237343 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
2237373 AAATTTCATTTT
1 AAATTTCATTTT
2237385 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.06
30 57 0.92
31 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:2237759 original size:3 final size:3
Alignment explanation
Indices: 2237753--2237784 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
2237743 GTGTAGGAGG
2237753 AGA AGA AGA AGA AGA AGA AGAA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AG-A AGA AGA AGA A
2237785 AGAAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:2237779 original size:19 final size:19
Alignment explanation
Indices: 2237755--2237797 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
2237745 GTAGGAGGAG
*
2237755 AAGAAGAAG-AAGAAGAAGA
1 AAGAAGAAGAAAGAA-AAAA
2237774 AAGAAGAAGAAAGAAAAAA
1 AAGAAGAAGAAAGAAAAAA
2237793 AAGAA
1 AAGAA
2237798 AAAAAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (19 bp):
AAGAAGAAGAAAGAAAAAA
Found at i:2237933 original size:31 final size:31
Alignment explanation
Indices: 2237896--2237969 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 31
2237886 AAATTAATTA
*
2237896 AAAAAAACAACACAAA-AAAAAACAAATCAGCCC
1 AAAAAAA-AAC-CAAAGAAAAAA-AAAGCAGCCC
*
2237929 AAAAAAAAACCAAAGCAAAAAAAAGCAGCCC
1 AAAAAAAAACCAAAGAAAAAAAAAGCAGCCC
2237960 AAAAAGAAAA
1 AAAAA-AAAA
2237970 GGCCCCCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
31 18 0.49
32 12 0.32
33 7 0.19
ACGTcount: A:0.72, C:0.20, G:0.07, T:0.01
Consensus pattern (31 bp):
AAAAAAAAACCAAAGAAAAAAAAAGCAGCCC
Found at i:2238117 original size:7 final size:7
Alignment explanation
Indices: 2238094--2238181 Score: 88
Period size: 7 Copynumber: 11.9 Consensus size: 7
2238084 CAGGCCAGGA
2238094 AAAAAAG
1 AAAAAAG
*
2238101 AGAGAAAG
1 A-AAAAAG
2238109 AAAAAAG
1 AAAAAAG
2238116 AAAAAAAG
1 -AAAAAAG
*
2238124 AAAGAAG
1 AAAAAAG
2238131 AAAAAA-
1 AAAAAAG
*
2238137 AAAAGAG
1 AAAAAAG
2238144 AAAAAAGG
1 AAAAAA-G
2238152 AAAAAAGG
1 AAAAAA-G
2238160 AAAAAGAAG
1 -AAAA-AAG
2238169 AAAAAAG
1 AAAAAAG
2238176 AAAAAA
1 AAAAAA
2238182 AGAGTTTCAA
Statistics
Matches: 69, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
6 5 0.07
7 31 0.45
8 26 0.38
9 5 0.07
10 2 0.03
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:2238120 original size:8 final size:8
Alignment explanation
Indices: 2238092--2238184 Score: 91
Period size: 8 Copynumber: 11.2 Consensus size: 8
2238082 AGCAGGCCAG
2238092 GAAAAAAA
1 GAAAAAAA
* *
2238100 GAGAGAAA
1 GAAAAAAA
2238108 G-AAAAAA
1 GAAAAAAA
2238115 GAAAAAAA
1 GAAAAAAA
2238123 GAAAGAAGAA
1 GAAA-AA-AA
*
2238133 AAAAAAAA
1 GAAAAAAA
2238141 GAGAAAAAA
1 GA-AAAAAA
*
2238150 GGAAAAAAG
1 -GAAAAAAA
2238159 GAAAAAGAA
1 GAAAAA-AA
2238168 G-AAAAAA
1 GAAAAAAA
2238175 GAAAAAAA
1 GAAAAAAA
2238183 GA
1 GA
2238185 GTTTCAATTC
Statistics
Matches: 70, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
7 8 0.11
8 38 0.54
9 17 0.24
10 7 0.10
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (8 bp):
GAAAAAAA
Found at i:2238183 original size:42 final size:42
Alignment explanation
Indices: 2238092--2238185 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
2238082 AGCAGGCCAG
* *
2238092 GAAAAAAAGAGAGAAAGAAAAAAGAAAAAAAGAAAGAAGAAA
1 GAAAAAAAGAGAAAAAGAAAAAAGAAAAAAAGAAAGAAAAAA
*
2238134 -AAAAAAAGAGAAAAAAGGAAAAAAG-GAAAAAG-AAGAAAAAA
1 GAAAAAAAGAG-AAAAA-GAAAAAAGAAAAAAAGAAAGAAAAAA
2238175 GAAAAAAAGAG
1 GAAAAAAAGAG
2238186 TTTCAATTCG
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
41 18 0.39
42 20 0.43
43 8 0.17
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (42 bp):
GAAAAAAAGAGAAAAAGAAAAAAGAAAAAAAGAAAGAAAAAA
Found at i:2238184 original size:15 final size:15
Alignment explanation
Indices: 2238094--2238184 Score: 105
Period size: 15 Copynumber: 6.1 Consensus size: 15
2238084 CAGGCCAGGA
* *
2238094 AAAAAAGAGAGAAAG
1 AAAAAAGAAAAAAAG
2238109 AAAAAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
*
2238124 AAAGAAG-AAAAAA-
1 AAAAAAGAAAAAAAG
* *
2238137 AAAAGAGAAAAAAGG
1 AAAAAAGAAAAAAAG
2238152 AAAAAAGGAAAAAGAAG
1 AAAAAA-GAAAAA-AAG
2238169 AAAAAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
2238184 A
1 A
2238185 GTTTCAATTC
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
13 5 0.08
14 11 0.17
15 28 0.44
16 12 0.19
17 8 0.12
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAAAG
Found at i:2238541 original size:20 final size:21
Alignment explanation
Indices: 2238504--2238542 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2238494 AAAAAATATT
*
2238504 AAAAAAAAGTCTCATATTTAC
1 AAAAAAAAATCTCATATTTAC
*
2238525 AAAAAAAAATTTC-TATTT
1 AAAAAAAAATCTCATATTT
2238543 TTCAAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (21 bp):
AAAAAAAAATCTCATATTTAC
Found at i:2238768 original size:20 final size:22
Alignment explanation
Indices: 2238727--2238769 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
2238717 AATTTTGTGT
*
2238727 AAAAAAATCCAGTGTTTTCAAA
1 AAAAAAATCCAGTGTTTCCAAA
2238749 AAAAAAATCCA-T-TTTCCAAA
1 AAAAAAATCCAGTGTTTCCAAA
2238769 A
1 A
2238770 TTTTTAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 1 0.05
22 11 0.55
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.26
Consensus pattern (22 bp):
AAAAAAATCCAGTGTTTCCAAA
Found at i:2238839 original size:18 final size:17
Alignment explanation
Indices: 2238765--2238927 Score: 150
Period size: 17 Copynumber: 9.4 Consensus size: 17
2238755 ATCCATTTTC
* *
2238765 CAAAATTTTTAGTGTCTT
1 CAAAAATTTTCGTGT-TT
*
2238783 CTAAAAATTTTTGTGTTT
1 C-AAAAATTTTCGTGTTT
2238801 CAAAAATTTTCGT-TTT
1 CAAAAATTTTCGTGTTT
*
2238817 CAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTT
2238834 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
* *
2238852 CAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTT
** *
2238869 CAAAAATCCTCTTGTTTT
1 CAAAAATTTTCGTG-TTT
*
2238887 CTAAAA-TTTCGGTGTTT
1 CAAAAATTTTC-GTGTTT
**
2238904 TGAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
2238922 CAAAAA
1 CAAAAA
2238928 AAAATCTCGT
Statistics
Matches: 118, Mismatches: 20, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
16 15 0.13
17 51 0.43
18 40 0.34
19 12 0.10
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.48
Consensus pattern (17 bp):
CAAAAATTTTCGTGTTT
Found at i:2238870 original size:35 final size:35
Alignment explanation
Indices: 2238786--2238926 Score: 157
Period size: 35 Copynumber: 4.1 Consensus size: 35
2238776 GTGTCTTCTA
2238786 AAAATTTTT-GTGTTTCAAAAATTTTC--GTTTTC
1 AAAATTTTTCGTGTTTCAAAAATTTTCGTGTTTTC
* *
2238818 AAAAATTTCCGTGTTTCAAAAATTTTCGTGTTTTC
1 AAAATTTTTCGTGTTTCAAAAATTTTCGTGTTTTC
* ** *
2238853 AAAATTTTTCGTATTTCAAAAATCCTCTTGTTTTC
1 AAAATTTTTCGTGTTTCAAAAATTTTCGTGTTTTC
**
2238888 TAAAA--TTTCGGTGTTTTGAAAATTTTCGTGTTTTC
1 -AAAATTTTTC-GTGTTTCAAAAATTTTCGTGTTTTC
2238923 AAAA
1 AAAA
2238927 AAAAATCTCG
Statistics
Matches: 90, Mismatches: 14, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
32 7 0.08
33 17 0.19
34 8 0.09
35 54 0.60
36 4 0.04
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (35 bp):
AAAATTTTTCGTGTTTCAAAAATTTTCGTGTTTTC
Found at i:2250801 original size:31 final size:32
Alignment explanation
Indices: 2250766--2250834 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
2250756 AATAAAAATA
*
2250766 AATTTTAATTTGATTTTATATAATTAT-ATT-T
1 AATTTTAATTTGA-TTTAGATAATTATAATTAT
*
2250797 AATTTTTTATTTGATTTAGATAATTATAATTAT
1 AA-TTTTAATTTGATTTAGATAATTATAATTAT
2250830 AATTT
1 AATTT
2250835 CTATTTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
31 14 0.42
32 16 0.48
33 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.59
Consensus pattern (32 bp):
AATTTTAATTTGATTTAGATAATTATAATTAT
Found at i:2251905 original size:17 final size:19
Alignment explanation
Indices: 2251885--2251926 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
2251875 TATTAATTTT
2251885 TTAATATT-TTTAAAA-CA
1 TTAATATTATTTAAAATCA
*
2251902 TTAATTTTTATTTAAAATCA
1 TTAA-TATTATTTAAAATCA
2251922 TTAAT
1 TTAAT
2251927 GAATTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 4 0.19
18 3 0.14
19 8 0.38
20 6 0.29
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (19 bp):
TTAATATTATTTAAAATCA
Found at i:2253072 original size:24 final size:25
Alignment explanation
Indices: 2253022--2253086 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 25
2253012 TTAGTGTAAT
* *
2253022 ATTAAAAAAATTTAAAATTCAAAAA
1 ATTAAAAAAATTAAAAACTCAAAAA
* *
2253047 ATTAAACAAATTAAAAACT-AATAA
1 ATTAAAAAAATTAAAAACTCAAAAA
*
2253071 ATTAAAAAAATGAAAA
1 ATTAAAAAAATTAAAA
2253087 CCAAATTCAC
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 18 0.53
25 16 0.47
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.25
Consensus pattern (25 bp):
ATTAAAAAAATTAAAAACTCAAAAA
Done.