Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 11 of 77
Found at i:1653578 original size:20 final size:20
Alignment explanation
Indices: 1653533--1653592 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
1653523 CCTCTTGTTC
1653533 TGAGATCTGGCTGTAGGATA
1 TGAGATCTGGCTGTAGGATA
1653553 -GAGATCTGGCTGTAGGATA
1 TGAGATCTGGCTGTAGGATA
1653572 TGAGATCTGGCTGTAGGATA
1 TGAGATCTGGCTGTAGGATA
1653592 T
1 T
1653593 TCCCATGAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.49
20 20 0.51
ACGTcount: A:0.25, C:0.10, G:0.35, T:0.30
Consensus pattern (20 bp):
TGAGATCTGGCTGTAGGATA
Found at i:1659275 original size:17 final size:18
Alignment explanation
Indices: 1659255--1659289 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1659245 TTTTTTTATT
1659255 ATTATTAT-TTTTCAGCA
1 ATTATTATGTTTTCAGCA
*
1659272 ATTATTTTGTTTTCAGCA
1 ATTATTATGTTTTCAGCA
1659290 CTTTCACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.54
Consensus pattern (18 bp):
ATTATTATGTTTTCAGCA
Found at i:1660524 original size:64 final size:66
Alignment explanation
Indices: 1660445--1660572 Score: 179
Period size: 64 Copynumber: 2.0 Consensus size: 66
1660435 TTTAATAAAT
* * *
1660445 TTAAAATTCAAATTTTAATATTTACAAATTT-TTTATTTTTAAATTA-TATTTTTTTATAAAAAA
1 TTAAAATTCAAATTTTAATACTTACAAATTTGTTTATTTTCAAATTACAATTTTTTTATAAAAAA
1660508 A
66 A
** * *
1660509 TTAAAATTTTAATTTTAATACTTATAATTTTGTTTATTTTCAAATTACAATTTTTTTATAAAAA
1 TTAAAATTCAAATTTTAATACTTACAAATTTGTTTATTTTCAAATTACAATTTTTTTATAAAAA
1660573 TAATATAATT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
64 26 0.47
65 14 0.25
66 15 0.27
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (66 bp):
TTAAAATTCAAATTTTAATACTTACAAATTTGTTTATTTTCAAATTACAATTTTTTTATAAAAAA
A
Found at i:1661834 original size:21 final size:20
Alignment explanation
Indices: 1661805--1661845 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
1661795 TGCAATAAAC
* *
1661805 TTTTTAAAATTTTTATTTAA
1 TTTTTAAAATTATTAATTAA
1661825 TTTTTAAAAATTATTAATTAA
1 TTTTT-AAAATTATTAATTAA
1661846 AAGTGTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTAAAATTATTAATTAA
Found at i:1662148 original size:19 final size:19
Alignment explanation
Indices: 1662103--1662148 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
1662093 AAAATATTTT
*
1662103 ATTAATTAAAATTTTAAAA
1 ATTAATTAAAATTATAAAA
1662122 A-TATATTAAAA-TATAAAA
1 ATTA-ATTAAAATTATAAAA
1662140 ACTTAATTA
1 A-TTAATTA
1662149 GGTTCGAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
18 9 0.39
19 12 0.52
20 2 0.09
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTAATTAAAATTATAAAA
Found at i:1662337 original size:91 final size:89
Alignment explanation
Indices: 1662233--1662404 Score: 245
Period size: 91 Copynumber: 1.9 Consensus size: 89
1662223 CAACTTAATA
* * * *
1662233 ATAATTTTGTCGAATTCGAGTTTTATTTAAATCAAATCTTATTTGAGTTCGAATTTGAATAACTT
1 ATAATTTTATCGAATTCGAATTTTATTTAAATCAAATCTTA-TTGAGTT-AAATTTAAATAACTT
1662298 ATGAGTATTAATGTATTAATGTATTT
64 ATGAGTATTAATGTATTAATGTATTT
* * * *
1662324 ATAATTTTATCGAATTCGAATTTTATTTGAATCGAATCTTATTGAGTTAAATTTAAATGATTTAT
1 ATAATTTTATCGAATTCGAATTTTATTTAAATCAAATCTTATTGAGTTAAATTTAAATAACTTAT
*
1662389 GAGTATTATTGTATTA
66 GAGTATTAATGTATTA
1662405 TTTATATCCC
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
89 28 0.39
90 7 0.10
91 37 0.51
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.48
Consensus pattern (89 bp):
ATAATTTTATCGAATTCGAATTTTATTTAAATCAAATCTTATTGAGTTAAATTTAAATAACTTAT
GAGTATTAATGTATTAATGTATTT
Found at i:1662358 original size:16 final size:17
Alignment explanation
Indices: 1662326--1662366 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
1662316 ATGTATTTAT
1662326 AATTTTA-TCGAATTCG
1 AATTTTATTCGAATTCG
*
1662342 AATTTTATTTGAA-TCG
1 AATTTTATTCGAATTCG
*
1662358 AATCTTATT
1 AATTTTATT
1662367 GAGTTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.49
Consensus pattern (17 bp):
AATTTTATTCGAATTCG
Found at i:1662921 original size:32 final size:32
Alignment explanation
Indices: 1662876--1662965 Score: 92
Period size: 32 Copynumber: 2.8 Consensus size: 32
1662866 TTATATTGAT
* * * *
1662876 ATAAATTAT-AATATGTAATTTTTTATATAAA
1 ATAAAATATAAATATATAAATTTTAATATAAA
* ***
1662907 ATATAATATAAATATATAAATTTTAATATTTT
1 ATAAAATATAAATATATAAATTTTAATATAAA
1662939 ATAAAATATAAATATATAAATTATTAA
1 ATAAAATATAAATATATAAATT-TTAA
1662966 ATCTAATTTA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
31 7 0.15
32 37 0.77
33 4 0.08
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (32 bp):
ATAAAATATAAATATATAAATTTTAATATAAA
Found at i:1666991 original size:12 final size:12
Alignment explanation
Indices: 1666974--1667017 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
1666964 GTTAGTGGAG
1666974 GAAAAGAAAGAA
1 GAAAAGAAAGAA
1666986 GAAAAGAAGGAGGAA
1 GAAAAGAA--A-GAA
*
1667001 GAGAAGAAAGAA
1 GAAAAGAAAGAA
1667013 GAAAA
1 GAAAA
1667018 AGAGGAAGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
12 15 0.56
13 1 0.04
14 1 0.04
15 10 0.37
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (12 bp):
GAAAAGAAAGAA
Found at i:1671301 original size:16 final size:17
Alignment explanation
Indices: 1671272--1671306 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
1671262 TTTATTATAT
*
1671272 ATTATCATTTAAAATTA
1 ATTATCATTAAAAATTA
1671289 ATTA-CATTAAAAATTA
1 ATTATCATTAAAAATTA
1671305 AT
1 AT
1671307 ATTATATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (17 bp):
ATTATCATTAAAAATTA
Found at i:1671369 original size:29 final size:29
Alignment explanation
Indices: 1671330--1671385 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
1671320 ATAAATTTAT
1671330 AATTAAAATATCAAATTAAAAATTTTAAA
1 AATTAAAATATCAAATTAAAAATTTTAAA
* * *
1671359 AATTTAAATATCATATTAAATATTTTA
1 AATTAAAATATCAAATTAAAAATTTTA
1671386 TTATAATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (29 bp):
AATTAAAATATCAAATTAAAAATTTTAAA
Found at i:1675273 original size:20 final size:21
Alignment explanation
Indices: 1675237--1675280 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
1675227 TAAAAATAAA
* *
1675237 AAATTATATATATATAAAATT
1 AAATTAAATATATATAAAAAT
1675258 AAATTAAATA-ATATAAAAAT
1 AAATTAAATATATATAAAAAT
1675278 AAA
1 AAA
1675281 AATTAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
AAATTAAATATATATAAAAAT
Found at i:1675283 original size:22 final size:21
Alignment explanation
Indices: 1675236--1675288 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
1675226 TTAAAAATAA
*
1675236 AAAATTATATATATATAAAAT
1 AAAATTAAATATATATAAAAT
*
1675257 TAAATTAAATA-ATATAAAAAT
1 AAAATTAAATATATAT-AAAAT
1675278 AAAAATTAAAT
1 -AAAATTAAAT
1675289 TTAGTAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.15
21 14 0.52
22 9 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAATTAAATATATATAAAAT
Found at i:1675296 original size:22 final size:21
Alignment explanation
Indices: 1675227--1675297 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 21
1675217 GTATAAAAAT
*
1675227 TAAAAATAAAAAATTATATATA
1 TAAAAAT-AAAAATTAAATATA
*
1675249 TATAAAAT-TAAATTAAATAATA
1 TA-AAAATAAAAATTAAAT-ATA
*
1675271 TAAAAATAAAAATTAAATTTA
1 TAAAAATAAAAATTAAATATA
1675292 GTAAAA
1 -TAAAA
1675298 TATATATAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
21 15 0.37
22 21 0.51
23 5 0.12
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (21 bp):
TAAAAATAAAAATTAAATATA
Found at i:1675306 original size:27 final size:27
Alignment explanation
Indices: 1675218--1675306 Score: 81
Period size: 27 Copynumber: 3.2 Consensus size: 27
1675208 AAATTTAATG
*
1675218 TATAAAAATTAAAAATAAA-AAATTATATA
1 TATAAAAATT-AAATTAAATAAA--ATATA
* *
1675247 TATATAAAATTAAATTAAATAATATAAA
1 TATA-AAAATTAAATTAAATAAAATATA
* * *
1675275 AATAAAAATTAAATTTAGTAAAATATA
1 TATAAAAATTAAATTAAATAAAATATA
1675302 TATAA
1 TATAA
1675307 TTTTTATTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
27 23 0.47
28 7 0.14
29 11 0.22
30 8 0.16
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (27 bp):
TATAAAAATTAAATTAAATAAAATATA
Found at i:1676702 original size:45 final size:45
Alignment explanation
Indices: 1676639--1676728 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 45
1676629 ATCTGTTTAT
*
1676639 TATCAAACGAAAGTACTGATTCA-AGATTATCATCTAAAATATTAA
1 TATCAAACGAAAGTACTGATTCAGA-ATCATCATCTAAAATATTAA
* * *
1676684 TATCAAAGGAAAAG-ACTGATTCAGAATCCTCATCTGAAATATTAA
1 TATCAAACG-AAAGTACTGATTCAGAATCATCATCTAAAATATTAA
1676729 AGCAGGAGTC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
45 34 0.87
46 5 0.13
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (45 bp):
TATCAAACGAAAGTACTGATTCAGAATCATCATCTAAAATATTAA
Found at i:1676933 original size:68 final size:70
Alignment explanation
Indices: 1676808--1676950 Score: 200
Period size: 68 Copynumber: 2.1 Consensus size: 70
1676798 AATCCCATTA
* **
1676808 AAAAAATATATGTATAGGTTTTTCAAAAATTGTTTCAAGACTAGAAAATTATATCAAACAAATAT
1 AAAAAATATATGTATAGATTTTTCAAAAATCATTTCAAGACTAGAAAATTATATCAAACAAATAT
*
1676873 TTATT
66 TTATC
* * * *
1676878 AAAAAA-ATATGTATAGATTTTTC-AAAATCATTTCAAGATTAGAAAATTTTGTCAAATAAATAT
1 AAAAAATATATGTATAGATTTTTCAAAAATCATTTCAAGACTAGAAAATTATATCAAACAAATAT
1676941 TTATC
66 TTATC
1676946 AAAAA
1 AAAAA
1676951 TAATTTTGTT
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
68 43 0.66
69 16 0.25
70 6 0.09
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.36
Consensus pattern (70 bp):
AAAAAATATATGTATAGATTTTTCAAAAATCATTTCAAGACTAGAAAATTATATCAAACAAATAT
TTATC
Found at i:1682929 original size:7 final size:6
Alignment explanation
Indices: 1682914--1682994 Score: 55
Period size: 6 Copynumber: 13.8 Consensus size: 6
1682904 TTTCATAAAC
** *
1682914 TTTTTA TTTTTCA TTTTT- TGCTTA TTTTT- TATTTA TTTTTA TTATTTAA
1 TTTTTA TTTTT-A TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TT-TTT-A
* *
1682963 TTTTT- TATTT- TTTTAA TTTTTA -TTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
1682995 GTATAAACTT
Statistics
Matches: 58, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
5 19 0.33
6 24 0.41
7 12 0.21
8 3 0.05
ACGTcount: A:0.17, C:0.02, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:1682938 original size:18 final size:16
Alignment explanation
Indices: 1682914--1682994 Score: 74
Period size: 18 Copynumber: 4.7 Consensus size: 16
1682904 TTTCATAAAC
*
1682914 TTTTTATTTTTCATTT
1 TTTTTATTTTTAATTT
*
1682930 TTTGCTTATTTTTTATTT
1 TTT--TTATTTTTAATTT
1682948 ATTTTTATTATTTAATTT
1 -TTTTTATT-TTTAATTT
1682966 TTTATT-TTTTTAATTTT
1 TTT-TTATTTTTAA-TTT
1682983 TATTTTATTTTT
1 T-TTTTATTTTT
1682995 GTATAAACTT
Statistics
Matches: 55, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
16 8 0.15
17 16 0.29
18 28 0.51
19 3 0.05
ACGTcount: A:0.17, C:0.02, G:0.01, T:0.79
Consensus pattern (16 bp):
TTTTTATTTTTAATTT
Found at i:1682952 original size:20 final size:19
Alignment explanation
Indices: 1682917--1682993 Score: 59
Period size: 20 Copynumber: 3.9 Consensus size: 19
1682907 CATAAACTTT
* **
1682917 TTATTTTTCATTT-TTTGC
1 TTATTTTTTATTTATTTTA
1682935 TTATTTTTTATTTATTTTTA
1 TTATTTTTTATTTA-TTTTA
*
1682955 TTATTTAATTT-TTTATTTTT
1 TTATTT--TTTATTTATTTTA
*
1682975 TTAATTTTTATTTTATTTT
1 TTATTTTTTA-TTTATTTT
1682994 TGTATAAACT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
18 15 0.31
20 26 0.54
21 4 0.08
22 3 0.06
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.78
Consensus pattern (19 bp):
TTATTTTTTATTTATTTTA
Found at i:1682969 original size:21 final size:20
Alignment explanation
Indices: 1682939--1682994 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
1682929 TTTTGCTTAT
1682939 TTTTTA-TTTATTTTTATT-A
1 TTTTTATTTTATTTTT-TTAA
1682958 TTTAATT-TTTTATTTTTTTAA
1 TTT--TTATTTTATTTTTTTAA
1682979 TTTTTATTTTATTTTT
1 TTTTTATTTTATTTTT
1682995 GTATAAACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
19 5 0.16
20 12 0.38
21 15 0.47
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTATTTTATTTTTTTAA
Found at i:1682977 original size:16 final size:15
Alignment explanation
Indices: 1682948--1682988 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
1682938 TTTTTTATTT
*
1682948 ATTTTTA-TTATTTA
1 ATTTTTATTTTTTTA
1682962 ATTTTTTATTTTTTTA
1 A-TTTTTATTTTTTTA
1682978 ATTTTTATTTT
1 ATTTTTATTTT
1682989 ATTTTTGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 1 0.04
15 16 0.67
16 7 0.29
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
ATTTTTATTTTTTTA
Found at i:1682989 original size:35 final size:35
Alignment explanation
Indices: 1682914--1682994 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 35
1682904 TTTCATAAAC
* * *
1682914 TTTTTATTTTTCATTTTTTGCTTATTTTTTATTTA
1 TTTTTATTTTTAATTTTTTGATTATTTTTAATTTA
*
1682949 TTTTTATTATTTAATTTTTT-ATT-TTTTTAATTTT
1 TTTTTATT-TTTAATTTTTTGATTATTTTTAATTTA
1682983 TATTTTATTTTT
1 T-TTTTATTTTT
1682995 GTATAAACTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
34 13 0.32
35 17 0.43
36 10 0.25
ACGTcount: A:0.17, C:0.02, G:0.01, T:0.79
Consensus pattern (35 bp):
TTTTTATTTTTAATTTTTTGATTATTTTTAATTTA
Found at i:1683314 original size:131 final size:125
Alignment explanation
Indices: 1683160--1683557 Score: 440
Period size: 131 Copynumber: 3.2 Consensus size: 125
1683150 AAAATTTGAT
* *
1683160 AAAATAAAAATAAAATCACAAGTGGTGATTTTATTTAAAATATTTACATAAAGAAATTTTCTAAA
1 AAAAT-AAAATAAAATCACAAGTGGTGATTTTATTAAAAATATTTACACAAAGAAATTTTCTAAA
*
1683225 ATATTTTTAAAAGTGTTAGAAATATTTTAGAATTTTTTTTTCAAACATCAAAAAAATATTATTAA
65 ATA-TTTTAAAAGTGTTAGAAATATTTTAGAA----TTTTTCAAACAT-AAAAAAATATTAATAA
1683290 CA
124 CA
* *
1683292 AAAATAAAATAAAATCACAAGTGGTGATTTTATAAAAAAATATTTATACAAAGAAATTTTCTAAA
1 AAAATAAAATAAAATCACAAGTGGTGATTTTAT-TAAAAATATTTACACAAAGAAATTTTCTAAA
* * * * * *
1683357 ATGTTCTAAAAATGTTAGCAATATTTTAG-ATTTTTCAAACAT--AAAAACATTAATAGC-
65 ATATTTTAAAAGTGTTAGAAATATTTTAGAATTTTTCAAACATAAAAAAATATTAATAACA
* * * *
1683414 -------AATAAAGTCACAAGTGATGATTTTATTAAAAATATTCACACAAAGAAATTTTTTAAAA
1 AAAATAAAATAAAATCACAAGTGGTGATTTTATTAAAAATATTTACACAAAGAAATTTTCTAAAA
* * * * * *
1683472 TATTTCAAAAGTGTTAGAAATATTTTAAAATTTTTCAAGCATAAAAAATTAATAATAATA
66 TATTTTAAAAGTGTTAGAAATATTTTAGAATTTTTCAAACATAAAAAAATATTAATAACA
*
1683532 ATAATAATAATAAAATCACAAGTGGT
1 AAAATAA-AATAAAATCACAAGTGGT
1683558 AATTCTTAAA
Statistics
Matches: 222, Mismatches: 31, Indels: 32
0.78 0.11 0.11
Matches are distributed among these distances:
114 50 0.23
115 36 0.16
117 10 0.05
123 12 0.05
126 28 0.13
130 1 0.00
131 51 0.23
132 34 0.15
ACGTcount: A:0.50, C:0.07, G:0.08, T:0.35
Consensus pattern (125 bp):
AAAATAAAATAAAATCACAAGTGGTGATTTTATTAAAAATATTTACACAAAGAAATTTTCTAAAA
TATTTTAAAAGTGTTAGAAATATTTTAGAATTTTTCAAACATAAAAAAATATTAATAACA
Found at i:1683523 original size:114 final size:115
Alignment explanation
Indices: 1683299--1683525 Score: 316
Period size: 114 Copynumber: 2.0 Consensus size: 115
1683289 ACAAAAATAA
* * *
1683299 AATAAAATCACAAGTGGTGATTTTATAAAAAAATATTTATACAAAGAAATTTTCTAAAATGTTCT
1 AATAAAATCACAAGTGATGATTTTATAAAAAAATATTCACACAAAGAAATTTTCTAAAATGTTCT
* *
1683364 AAAAATGTTAGCAATATTTTAGATTTTTCAAACATAAAAACATTAATAGC
66 AAAAATGTTAGAAATATTTTAAATTTTTCAAACATAAAAACATTAATAGC
* * * *
1683414 AATAAAGTCACAAGTGATGATTTTAT-TAAAAATATTCACACAAAGAAATTTTTTAAAATATT-T
1 AATAAAATCACAAGTGATGATTTTATAAAAAAATATTCACACAAAGAAATTTTCTAAAATGTTCT
* *
1683477 CAAAAGTGTTAGAAATATTTTAAAATTTTTCAAGCATAAAAA-ATTAATA
66 -AAAAATGTTAGAAATATTTT-AAATTTTTCAAACATAAAAACATTAATA
1683526 ATAATAATAA
Statistics
Matches: 99, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
113 1 0.01
114 56 0.57
115 42 0.42
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.35
Consensus pattern (115 bp):
AATAAAATCACAAGTGATGATTTTATAAAAAAATATTCACACAAAGAAATTTTCTAAAATGTTCT
AAAAATGTTAGAAATATTTTAAATTTTTCAAACATAAAAACATTAATAGC
Found at i:1686467 original size:17 final size:16
Alignment explanation
Indices: 1686442--1686516 Score: 63
Period size: 16 Copynumber: 4.8 Consensus size: 16
1686432 TCACTCAACA
1686442 AAAATAAATAAATAAT
1 AAAATAAATAAATAAT
1686458 AAAATGAAATAAATAA-
1 AAAAT-AAATAAATAAT
1686474 AACTAA-AAATAAA-ATAT
1 AA--AATAAATAAATA-AT
*
1686491 AAAAT-CA-AAAT-AT
1 AAAATAAATAAATAAT
1686504 AAAATAAATAAAT
1 AAAATAAATAAAT
1686517 CAAATCAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 19
0.70 0.03 0.28
Matches are distributed among these distances:
13 7 0.15
14 4 0.08
15 8 0.17
16 15 0.31
17 12 0.25
18 2 0.04
ACGTcount: A:0.73, C:0.03, G:0.01, T:0.23
Consensus pattern (16 bp):
AAAATAAATAAATAAT
Found at i:1686487 original size:26 final size:23
Alignment explanation
Indices: 1686441--1686552 Score: 75
Period size: 25 Copynumber: 4.4 Consensus size: 23
1686431 ATCACTCAAC
1686441 AAAAAT-AAATAAATAATAAAATGA
1 AAAAATAAAATAAA-AATAAAAT-A
1686465 AATAAATAAAACTAAAAATAAAATA
1 AA-AAATAAAA-TAAAAATAAAATA
*
1686490 TAAAATCAAAATATAAAAT-AAATA
1 AAAAAT-AAAATA-AAAATAAAATA
*
1686514 AATCAAATCAAAAATTAAAATTAAAATA
1 AA--AAAT--AAAA-TAAAAATAAAATA
*
1686542 GAAAAAAAAAA
1 -AAAAATAAAA
1686553 CCTGCGATTT
Statistics
Matches: 72, Mismatches: 5, Indels: 21
0.73 0.05 0.21
Matches are distributed among these distances:
24 14 0.19
25 19 0.26
26 15 0.21
27 15 0.21
28 7 0.10
29 2 0.03
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.21
Consensus pattern (23 bp):
AAAAATAAAATAAAAATAAAATA
Found at i:1686500 original size:13 final size:12
Alignment explanation
Indices: 1686442--1686550 Score: 66
Period size: 13 Copynumber: 8.8 Consensus size: 12
1686432 TCACTCAACA
1686442 AAAAT-AAATA-
1 AAAATAAAATAT
*
1686452 AATAATAAAATGAA
1 AA-AATAAAAT-AT
1686466 ATAAATAAAACTA-
1 A-AAATAAAA-TAT
1686479 AAAATAAAATAT
1 AAAATAAAATAT
1686491 AAAATCAAAATAT
1 AAAAT-AAAATAT
*
1686504 AAAATAAATAAAT
1 AAAATAAA-ATAT
*
1686517 CAAATCAAAA-ATT
1 AAAAT-AAAATA-T
*
1686530 AAAATTAAAATAG
1 AAAA-TAAAATAT
1686543 AAAA-AAAA
1 AAAATAAAA
1686551 AACCTGCGAT
Statistics
Matches: 82, Mismatches: 4, Indels: 25
0.74 0.04 0.23
Matches are distributed among these distances:
10 2 0.02
11 9 0.11
12 21 0.26
13 34 0.41
14 14 0.17
15 2 0.02
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (12 bp):
AAAATAAAATAT
Found at i:1686518 original size:21 final size:20
Alignment explanation
Indices: 1686442--1686520 Score: 88
Period size: 21 Copynumber: 3.9 Consensus size: 20
1686432 TCACTCAACA
*
1686442 AAAATAAATAAATAATAAAAT
1 AAAATAAATAAATCA-AAAAT
* *
1686463 GAAATAAATAAAACTAAAAAT
1 AAAATAAATAAATC-AAAAAT
*
1686484 AAAATATA-AAATCAAAATAT
1 AAAATAAATAAATCAAAA-AT
1686504 AAAATAAATAAATCAAA
1 AAAATAAATAAATCAAA
1686521 TCAAAAATTA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
19 4 0.08
20 13 0.27
21 30 0.62
22 1 0.02
ACGTcount: A:0.73, C:0.04, G:0.01, T:0.22
Consensus pattern (20 bp):
AAAATAAATAAATCAAAAAT
Found at i:1687348 original size:27 final size:29
Alignment explanation
Indices: 1687303--1687359 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 29
1687293 AATACTAATG
1687303 TAATATAACATATAATAATA-ACAAAATAA
1 TAATATAACATATAATAATACA-AAAATAA
*
1687332 TAATAT-A-ATATAGTAATACAAAAATAA
1 TAATATAACATATAATAATACAAAAATAA
1687359 T
1 T
1687360 GATCATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 18 0.69
28 2 0.08
29 6 0.23
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (29 bp):
TAATATAACATATAATAATACAAAAATAA
Found at i:1688064 original size:27 final size:28
Alignment explanation
Indices: 1688034--1688087 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
1688024 AACAATTTAT
*
1688034 TGAGATGAGCT-TTTTGATCAAGGTGAC
1 TGAGATGAGCTCTTTTGACCAAGGTGAC
*
1688061 TGAGATGAGTTCTTTTGACCAAGGTGA
1 TGAGATGAGCTCTTTTGACCAAGGTGA
1688088 GCTCTTTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.26, C:0.11, G:0.30, T:0.33
Consensus pattern (28 bp):
TGAGATGAGCTCTTTTGACCAAGGTGAC
Found at i:1688210 original size:19 final size:19
Alignment explanation
Indices: 1688186--1688245 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 19
1688176 AAACAAGCTA
*
1688186 TTTGATCGAGATAAACTCT
1 TTTGATCAAGATAAACTCT
* * *
1688205 TTTGATCAAGGTGAGCTCT
1 TTTGATCAAGATAAACTCT
* *
1688224 TTTGATCAAGCTAAATTCT
1 TTTGATCAAGATAAACTCT
1688243 TTT
1 TTT
1688246 TGTTTAGCTA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.42
Consensus pattern (19 bp):
TTTGATCAAGATAAACTCT
Found at i:1688321 original size:131 final size:131
Alignment explanation
Indices: 1688071--1688325 Score: 289
Period size: 131 Copynumber: 1.9 Consensus size: 131
1688061 TGAGATGAGT
* * * *
1688071 TCTTTTGACCAAGGTGAGCTCTTTTGGCATAGTTGAGCTATTTTGGTTTAGCTAATCATTTTGAT
1 TCTTTTGACCAAGGTGAGCTCTTTTGGCATAGCTAAACTATTTTGGTTTAGCTAATCATTTAGAT
* * * * *
1688136 CGAGGTAGCCCAGCCAAGCTTTTATGTAGGCAATTTATTGAAACAAGCTATTTGATCGAGATAAA
66 CGAGGTAGCCCAACCAAACCTTTATGTAAGCAATTTATCGAAACAAGCTATTTGATCGAGATAAA
1688201 C
131 C
* * * * *
1688202 TCTTTTGATCAAGGTGAGCTCTTTTGATCA-AGCTAAATTCTTTTTGTTTAGCTAATCACTTTAG
1 TCTTTTGACCAAGGTGAGCTCTTTTG-GCATAGCTAAACTATTTTGGTTTAGCTAATCA-TTTAG
* * * * ** *
1688266 CT-GAGGTGGCCCAACTAAACCTTTATGTAAGCAATTTATCGAGATGAGCTCTTTGATCGA
64 ATCGAGGTAGCCCAACCAAACCTTTATGTAAGCAATTTATCGAAACAAGCTATTTGATCGA
1688326 AGTGACCAAT
Statistics
Matches: 101, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
131 94 0.93
132 7 0.07
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (131 bp):
TCTTTTGACCAAGGTGAGCTCTTTTGGCATAGCTAAACTATTTTGGTTTAGCTAATCATTTAGAT
CGAGGTAGCCCAACCAAACCTTTATGTAAGCAATTTATCGAAACAAGCTATTTGATCGAGATAAA
C
Found at i:1688706 original size:170 final size:171
Alignment explanation
Indices: 1688337--1688706 Score: 390
Period size: 170 Copynumber: 2.2 Consensus size: 171
1688327 GTGACCAATA
* *
1688337 TGAGCTCTTTTGATCGAGCTATTTTGTCAAATTGTGCCTTTATGAAGGTATTTTATAGATTCAAG
1 TGAGCTC-TTTGATCGAGCTATTTTGTCAAATTGTGCCTTTATGAAGATATTTTATAGATCCAAG
* * * * * * * * * *
1688402 CTCTTTTGATCGAGTTGAGTTCGAGCTCTTTTTGGACTAGTTGTTTTGTTGAATTGGGCTTTTAT
65 CTCTTTTGAGCCAGATGAATTCGAGC-ATTTTTGGACTAGCTATTTTGTCGAATTAGGCCTTTAT
* * *
1688467 GAAGGCATTTCGTAAATCTGAGTTTTTTTTGTCAAGATAAGTC
129 AAAGGCATTTCGTAAATCTGAGCTTTTTTTATCAAGATAAGTC
** * * * * *
1688510 CAAGCTCTTTGATCAAACTTTTTTGTCAAATTG-GATCTTTATGAAGATATTTTGTAGATCCGAA
1 TGAGCTCTTTGATCGAGCTATTTTGTCAAATTGTG-CCTTTATGAAGATATTTTATAGATCC-AA
*
1688574 -CTCTTTT-AGCCATGATGAATTCGAG-ATTTTT-GACTGAGCTATTTTGTCGAGTTAGGCCTTT
64 GCTCTTTTGAGCCA-GATGAATTCGAGCATTTTTGGACT-AGCTATTTTGTCGAATTAGGCCTTT
* * * * *
1688635 ATAAAGGTATTTTGTAGATCTGAGCTTTTTTTATCGAGCTAAGTC
127 ATAAAGGCATTTCGTAAATCTGAGCTTTTTTTATCAAGATAAGTC
*
1688680 TGAGCTCTTTGATCGAGCTGTTTTGTC
1 TGAGCTCTTTGATCGAGCTATTTTGTC
1688707 GCTTAGACTT
Statistics
Matches: 160, Mismatches: 33, Indels: 11
0.78 0.16 0.05
Matches are distributed among these distances:
169 4 0.03
170 83 0.52
171 4 0.03
172 62 0.39
173 7 0.04
ACGTcount: A:0.22, C:0.14, G:0.21, T:0.43
Consensus pattern (171 bp):
TGAGCTCTTTGATCGAGCTATTTTGTCAAATTGTGCCTTTATGAAGATATTTTATAGATCCAAGC
TCTTTTGAGCCAGATGAATTCGAGCATTTTTGGACTAGCTATTTTGTCGAATTAGGCCTTTATAA
AGGCATTTCGTAAATCTGAGCTTTTTTTATCAAGATAAGTC
Found at i:1688848 original size:86 final size:86
Alignment explanation
Indices: 1688757--1688945 Score: 220
Period size: 86 Copynumber: 2.2 Consensus size: 86
1688747 TTTGGTCAAA
* * * * * *
1688757 CTAAGTTTGAGCTCTTTTGG-TCGAGTTATTTTATCGAATTTAATCTTTATGAAAGTA-TTCTGT
1 CTAAGTCTAAGCTCTTTTGGCT-GAGCTATTTTATCGAATTGAACCTTTATGAAAGCATTTC-GT
*
1688820 AGATCCAAGCTTTTTTGACTGAG
64 AGATCCAAGCTCTTTTGACTGAG
* * * * * *
1688843 TTAAGTCTAAGTTCTTTTGGCTGAGCTATTTTGTCGAATTGAGCCTTTATGAAGGCATTTCGTGG
1 CTAAGTCTAAGCTCTTTTGGCTGAGCTATTTTATCGAATTGAACCTTTATGAAAGCATTTCGTAG
*
1688908 ATCCAAGCTCTTTTGATTGAG
66 ATCCAAGCTCTTTTGACTGAG
1688929 CTAAGTCTAAGCTCTTT
1 CTAAGTCTAAGCTCTTT
1688946 AGTTGAGTAA
Statistics
Matches: 85, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
86 81 0.95
87 4 0.05
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (86 bp):
CTAAGTCTAAGCTCTTTTGGCTGAGCTATTTTATCGAATTGAACCTTTATGAAAGCATTTCGTAG
ATCCAAGCTCTTTTGACTGAG
Found at i:1689063 original size:19 final size:19
Alignment explanation
Indices: 1689039--1689098 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 19
1689029 AAACAAGCTA
*
1689039 TTTGATCGAGATAAACTCT
1 TTTGATCAAGATAAACTCT
* * *
1689058 TTTGATCAAGGTGAGCTCT
1 TTTGATCAAGATAAACTCT
* *
1689077 TTTGATCAAGCTAAATTCT
1 TTTGATCAAGATAAACTCT
1689096 TTT
1 TTT
1689099 TGTTTAGCTA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.42
Consensus pattern (19 bp):
TTTGATCAAGATAAACTCT
Found at i:1689691 original size:86 final size:85
Alignment explanation
Indices: 1689570--1689799 Score: 214
Period size: 86 Copynumber: 2.7 Consensus size: 85
1689560 CGCTTAGACT
* * * * * *
1689570 TTTATGAAGGCATTTCGAAGATTCAAGTTTTTTTGG-TCAAACTAAGTTTGAGCTCTTTTGG-TC
1 TTTATGAAAG-ATTTCGTAGATCCAAGCTTTTTTGGCT-AAACTAAGTCTAAGCTCTTTTGGCT-
* *
1689633 GAGTTATTTTATCGAATTGAATC
63 GAGCTATTTTATCGAATTGAACC
* **
1689656 TTTATGAAAG-TGTTCTGTAGATCCAAGCTTTTTTGGCTGAGTTAAGTCTAAGCTCTTTTGGCTG
1 TTTATGAAAGAT-TTC-GTAGATCCAAGCTTTTTTGGCTAAACTAAGTCTAAGCTCTTTTGGCTG
* *
1689720 AGCTATTTTGTCGAATTGAGCC
64 AGCTATTTTATCGAATTGAACC
* * ** * *
1689742 TTTATGAAGGCATTTCGTAGATCCAAGCTCTTTTGATTGAGCTAAGTCTAAGCTCTTT
1 TTTATGAAAG-ATTTCGTAGATCCAAGCTTTTTTGGCTAAACTAAGTCTAAGCTCTTT
1689800 AGTTGAGTAA
Statistics
Matches: 120, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
84 1 0.01
85 3 0.03
86 110 0.92
87 5 0.04
88 1 0.01
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.41
Consensus pattern (85 bp):
TTTATGAAAGATTTCGTAGATCCAAGCTTTTTTGGCTAAACTAAGTCTAAGCTCTTTTGGCTGAG
CTATTTTATCGAATTGAACC
Found at i:1689759 original size:854 final size:853
Alignment explanation
Indices: 1688113--1689823 Score: 3323
Period size: 854 Copynumber: 2.0 Consensus size: 853
1688103 TTGAGCTATT
1688113 TTGGTTTAGCTAATCATTTTGATCGAGGTAGCCCAGCCAAGCTTTTATGTAGGCAATTTATTGAA
1 TTGGTTTAGCTAATCATTTTGATCGAGGTAGCCCAGCCAAGCTTTTATGTAGGCAATTTATTGAA
1688178 ACAAGCTATTTGATCGAGATAAACTCTTTTGATCAAGGTGAGCTCTTTTGATCAAGCTAAATTCT
66 ACAAGCTATTTGATCGAGATAAACTCTTTTGATCAAGGTGAGCTCTTTTGATCAAGCTAAATTCT
1688243 TTTTGTTTAGCTAATCACTTTAGCTGAGGTGGCCCAACTAAACCTTTATGTAAGCAATTTATCGA
131 TTTTGTTTAGCTAATCACTTTAGCTGAGGTGGCCCAACTAAACCTTTATGTAAGCAATTTATCGA
1688308 GATGAGCTCTTTGATCGAAGTGACCAATATGAGCTCTTTTGATCGAGCTATTTTGTCAAATTGTG
196 GATGAGCTCTTTGATCGAAGTGACCAATATGAGCTCTTTTGATCGAGCTATTTTGTCAAATTGTG
* *
1688373 CCTTTATGAAGGTATTTTATAGATTCAAGCTCTTTTGATCGAGTTGAGTTCGAGCTCTTTTTGGA
261 CCTTTATAAAGGTATTTTATAAATTCAAGCTCTTTTGATCGAGTTGAGTTCGAGCTCTTTTTGGA
*
1688438 CTAGTTGTTTTGTTGAATTGGGCTTTTATGAAGGCATTTCGTAAATCTGAGTTTTTTTTGTCAAG
326 CTAGTTGTTTTGTTGAATTGGACTTTTATGAAGGCATTTCGTAAATCTGAGTTTTTTTTGTCAAG
1688503 ATAAGTCCAAGCTCTTTGATCAAACTTTTTTGTCAAATTGGATCTTTATGAAGATATTTTGTAGA
391 ATAAGTCCAAGCTCTTTGATCAAACTTTTTTGTCAAATTGGATCTTTATGAAGATATTTTGTAGA
* *
1688568 TCCGAACTCTTTTAGCCATGATGAATTCGAGATTTTTGACTGAGCTATTTTGTCGAGTTAGGCCT
456 TCCAAACTCTTTTAGCCATGATGAATTCGAGATCTTTGACTGAGCTATTTTGTCGAGTTAGGCCT
1688633 TTATAAAGGTATTTTGTAGATCTGAGCTTTTTTTATCGAGCTAAGTCTGAGCTCTTTGATCGAGC
521 TTATAAAGGTATTTTGTAGATCTGAGCTTTTTTTATCGAGCTAAGTCTGAGCTCTTTGATCGAGC
1688698 TGTTTTGTCGCTTAGACTTTTATGAAGGCATTTCGAAGATTCAAGTTTTTTTGGTCAAACTAAGT
586 TGTTTTGTCGCTTAGACTTTTATGAAGGCATTTCGAAGATTCAAGTTTTTTTGGTCAAACTAAGT
*
1688763 TTGAGCTCTTTTGGTCGAGTTATTTTATCGAATTTAATCTTTATGAAAGTATTCTGTAGATCCAA
651 TTGAGCTCTTTTGGTCGAGTTATTTTATCGAATTGAATCTTTATGAAAGTATTCTGTAGATCCAA
*
1688828 GCTTTTTTGACTGAGTTAAGTCTAAGTTCTTTTGGCTGAGCTATTTTGTCGAATTGAGCCTTTAT
716 GCTTTTTTGACTGAGTTAAGTCTAAGCTCTTTTGGCTGAGCTATTTTGTCGAATTGAGCCTTTAT
*
1688893 GAAGGCATTTCGTGGATCCAAGCTCTTTTGATTGAGCTAAGTCTAAGCTCTTTAGTTGAGTAATT
781 GAAGGCATTTCGTAGATCCAAGCTCTTTTGATTGAGCTAAGTCTAAGCTCTTTAGTTGAGTAATT
1688958 TTGCTAAA
846 TTGCTAAA
1688966 TTGGTTTAGCTAATCATTTTGATCGAGGTAGCCCAGCCAAGCTTTTATGTAGGCAATTTATTGAA
1 TTGGTTTAGCTAATCATTTTGATCGAGGTAGCCCAGCCAAGCTTTTATGTAGGCAATTTATTGAA
1689031 ACAAGCTATTTGATCGAGATAAACTCTTTTGATCAAGGTGAGCTCTTTTGATCAAGCTAAATTCT
66 ACAAGCTATTTGATCGAGATAAACTCTTTTGATCAAGGTGAGCTCTTTTGATCAAGCTAAATTCT
1689096 TTTTGTTTAGCTAATCACTTTAGCTGAGGTGGCCCAACTAAACCTTTATGTAAGCAATTTATCGA
131 TTTTGTTTAGCTAATCACTTTAGCTGAGGTGGCCCAACTAAACCTTTATGTAAGCAATTTATCGA
1689161 GATGAGCTCTTTGATCGAAGTGACCAATATGAGCTCTTTTGATCGAGCTATTTTGTCAAATTGTG
196 GATGAGCTCTTTGATCGAAGTGACCAATATGAGCTCTTTTGATCGAGCTATTTTGTCAAATTGTG
1689226 CCTTTATAAAGGTATTTTATAAATTCAAGCTCTTTTGATCGAGTTGAGTTCGAGCTCTTTTTGGA
261 CCTTTATAAAGGTATTTTATAAATTCAAGCTCTTTTGATCGAGTTGAGTTCGAGCTCTTTTTGGA
1689291 CTAGTTGTTTTGTTGAATTGGACTTTTATGAAGGCATTTCGTAAATCTGAGTTTTTTTTTGTCAA
326 CTAGTTGTTTTGTTGAATTGGACTTTTATGAAGGCATTTCGTAAATCTGAG-TTTTTTTTGTCAA
1689356 GATAAGTCCAAGCTCTTTGATCAAACTTTTTTGTCAAATTGGATCTTTATGAAGATATTTTGTAG
390 GATAAGTCCAAGCTCTTTGATCAAACTTTTTTGTCAAATTGGATCTTTATGAAGATATTTTGTAG
1689421 ATCCAAACTCTTTTAGCCATGATGAATTCGAGATCTTTGACTGAGCTATTTTGTCGAGTTAGGCC
455 ATCCAAACTCTTTTAGCCATGATGAATTCGAGATCTTTGACTGAGCTATTTTGTCGAGTTAGGCC
1689486 TTTATAAAGGTATTTTGTAGATCTGAGCTTTTTTTATCGAGCTAAGTCTGAGCTCTTTGATCGAG
520 TTTATAAAGGTATTTTGTAGATCTGAGCTTTTTTTATCGAGCTAAGTCTGAGCTCTTTGATCGAG
1689551 CTGTTTTGTCGCTTAGACTTTTATGAAGGCATTTCGAAGATTCAAGTTTTTTTGGTCAAACTAAG
585 CTGTTTTGTCGCTTAGACTTTTATGAAGGCATTTCGAAGATTCAAGTTTTTTTGGTCAAACTAAG
*
1689616 TTTGAGCTCTTTTGGTCGAGTTATTTTATCGAATTGAATCTTTATGAAAGTGTTCTGTAGATCCA
650 TTTGAGCTCTTTTGGTCGAGTTATTTTATCGAATTGAATCTTTATGAAAGTATTCTGTAGATCCA
*
1689681 AGCTTTTTTGGCTGAGTTAAGTCTAAGCTCTTTTGGCTGAGCTATTTTGTCGAATTGAGCCTTTA
715 AGCTTTTTTGACTGAGTTAAGTCTAAGCTCTTTTGGCTGAGCTATTTTGTCGAATTGAGCCTTTA
1689746 TGAAGGCATTTCGTAGATCCAAGCTCTTTTGATTGAGCTAAGTCTAAGCTCTTTAGTTGAGTAAT
780 TGAAGGCATTTCGTAGATCCAAGCTCTTTTGATTGAGCTAAGTCTAAGCTCTTTAGTTGAGTAAT
1689811 TTTGCTAAA
845 TTTGCTAAA
1689820 TTGG
1 TTGG
1689824 GCCTTTATGA
Statistics
Matches: 847, Mismatches: 10, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
853 373 0.44
854 474 0.56
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (853 bp):
TTGGTTTAGCTAATCATTTTGATCGAGGTAGCCCAGCCAAGCTTTTATGTAGGCAATTTATTGAA
ACAAGCTATTTGATCGAGATAAACTCTTTTGATCAAGGTGAGCTCTTTTGATCAAGCTAAATTCT
TTTTGTTTAGCTAATCACTTTAGCTGAGGTGGCCCAACTAAACCTTTATGTAAGCAATTTATCGA
GATGAGCTCTTTGATCGAAGTGACCAATATGAGCTCTTTTGATCGAGCTATTTTGTCAAATTGTG
CCTTTATAAAGGTATTTTATAAATTCAAGCTCTTTTGATCGAGTTGAGTTCGAGCTCTTTTTGGA
CTAGTTGTTTTGTTGAATTGGACTTTTATGAAGGCATTTCGTAAATCTGAGTTTTTTTTGTCAAG
ATAAGTCCAAGCTCTTTGATCAAACTTTTTTGTCAAATTGGATCTTTATGAAGATATTTTGTAGA
TCCAAACTCTTTTAGCCATGATGAATTCGAGATCTTTGACTGAGCTATTTTGTCGAGTTAGGCCT
TTATAAAGGTATTTTGTAGATCTGAGCTTTTTTTATCGAGCTAAGTCTGAGCTCTTTGATCGAGC
TGTTTTGTCGCTTAGACTTTTATGAAGGCATTTCGAAGATTCAAGTTTTTTTGGTCAAACTAAGT
TTGAGCTCTTTTGGTCGAGTTATTTTATCGAATTGAATCTTTATGAAAGTATTCTGTAGATCCAA
GCTTTTTTGACTGAGTTAAGTCTAAGCTCTTTTGGCTGAGCTATTTTGTCGAATTGAGCCTTTAT
GAAGGCATTTCGTAGATCCAAGCTCTTTTGATTGAGCTAAGTCTAAGCTCTTTAGTTGAGTAATT
TTGCTAAA
Found at i:1691262 original size:4 final size:4
Alignment explanation
Indices: 1691253--1691301 Score: 62
Period size: 4 Copynumber: 11.5 Consensus size: 4
1691243 CATTTTTTTG
*
1691253 TTTA TTTA TTCTA TTTA TTTA TTTA TTTT TGCTTA TTTA TTTA TTTA TT
1 TTTA TTTA TT-TA TTTA TTTA TTTA TTTA T--TTA TTTA TTTA TTTA TT
1691302 GGTTAAATTG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
4 33 0.82
5 4 0.10
6 3 0.08
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:1691461 original size:54 final size:53
Alignment explanation
Indices: 1691380--1691481 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 53
1691370 AAAATAACAA
*
1691380 AAAAATTATTTTTTAAGAAACATTGAAAGTATCAATTTTTCTTAAAAAATTTC
1 AAAAATTATTTTTTAACAAACATTGAAAGTATCAATTTTTCTTAAAAAATTTC
* *
1691433 AAAAATATATTTTTTTACAAA-AGTTGAAAGTATCAATTTTTCTTGAAAA
1 AAAAAT-TATTTTTTAACAAACA-TTGAAAGTATCAATTTTTCTTAAAAA
1691482 CGAAAATTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
53 7 0.16
54 37 0.84
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (53 bp):
AAAAATTATTTTTTAACAAACATTGAAAGTATCAATTTTTCTTAAAAAATTTC
Found at i:1691471 original size:27 final size:28
Alignment explanation
Indices: 1691402--1691481 Score: 85
Period size: 27 Copynumber: 2.9 Consensus size: 28
1691392 TTAAGAAACA
*
1691402 TTGAAAGTATCAATTTTTCTTAAAAAAT
1 TTGAAAGTATCAATTTTTCTTAAAAAAG
* * *
1691430 TTCAAA-AAT-ATATTTTT-TTACAAAAG
1 TTGAAAGTATCA-ATTTTTCTTAAAAAAG
*
1691456 TTGAAAGTATCAATTTTTCTTGAAAA
1 TTGAAAGTATCAATTTTTCTTAAAAA
1691482 CGAAAATTTC
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
26 13 0.32
27 16 0.40
28 11 0.28
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.42
Consensus pattern (28 bp):
TTGAAAGTATCAATTTTTCTTAAAAAAG
Found at i:1692696 original size:29 final size:28
Alignment explanation
Indices: 1692645--1692716 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
1692635 ATTATATCTT
1692645 AATTATATATAAATATAATATTTTTTAA
1 AATTATATATAAATATAATATTTTTTAA
*
1692673 AATTAATATATTAA-ATAATAATTTTTT--
1 AATT-ATATATAAATATAAT-ATTTTTTAA
*
1692700 AA-TAAATATAAATATAA
1 AATTATATATAAATATAA
1692717 AATTAAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
25 7 0.18
26 5 0.13
27 2 0.05
28 9 0.24
29 15 0.39
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (28 bp):
AATTATATATAAATATAATATTTTTTAA
Found at i:1694334 original size:20 final size:20
Alignment explanation
Indices: 1694305--1694344 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1694295 TGAAATCATA
1694305 TATAAGATATA-ATATTATAT
1 TATAAGATATATATA-TATAT
*
1694325 TATAATATATATATATATAT
1 TATAAGATATATATATATAT
1694345 AAATTTGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
TATAAGATATATATATATAT
Found at i:1694376 original size:26 final size:27
Alignment explanation
Indices: 1694339--1694390 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 27
1694329 ATATATATAT
1694339 ATATATAAATTT-GAT-AA-AATTTAC
1 ATATATAAATTTAGATGAACAATTTAC
1694363 ATATATGAATATTTAGATGAACAATTTA
1 ATATAT-AA-ATTTAGATGAACAATTTA
1694391 TATTATCGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
24 6 0.26
25 2 0.09
26 4 0.17
27 3 0.13
28 2 0.09
29 6 0.26
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (27 bp):
ATATATAAATTTAGATGAACAATTTAC
Found at i:1694469 original size:16 final size:16
Alignment explanation
Indices: 1694450--1694502 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
1694440 TTAATTTTTA
1694450 AAATTTTTATTTATCT
1 AAATTTTTATTTATCT
*
1694466 AAA--TCT-TTT-T-T
1 AAATTTTTATTTATCT
1694477 AAATTTTTATTTATCT
1 AAATTTTTATTTATCT
1694493 AAATCTTTTA
1 AAAT-TTTTA
1694503 AAATATATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 11
0.69 0.05 0.26
Matches are distributed among these distances:
11 4 0.14
12 1 0.03
13 5 0.17
14 5 0.17
15 1 0.03
16 8 0.28
17 5 0.17
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (16 bp):
AAATTTTTATTTATCT
Found at i:1694482 original size:27 final size:27
Alignment explanation
Indices: 1694444--1694506 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
1694434 AATTATTTAA
1694444 TTTTTAAAATTTTTATTTATCTAAATC
1 TTTTTAAAATTTTTATTTATCTAAATC
*
1694471 TTTTTTAAATTTTTATTTATCTAAATC
1 TTTTTAAAATTTTTATTTATCTAAATC
1694498 -TTTTAAAAT
1 TTTTTAAAAT
1694507 ATATAAATGT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 8 0.24
27 26 0.76
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.60
Consensus pattern (27 bp):
TTTTTAAAATTTTTATTTATCTAAATC
Found at i:1696808 original size:23 final size:23
Alignment explanation
Indices: 1696775--1696828 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
1696765 ATTTATGTTC
**
1696775 ATTTATATATTTATAAATATTTTT
1 ATTTA-ATATTTATAAATAAATTT
*
1696799 ATTTAATATTTATGAATAAATTT
1 ATTTAATATTTATAAATAAATTT
1696822 ATTTAAT
1 ATTTAAT
1696829 TTAAATGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 22 0.81
24 5 0.19
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
ATTTAATATTTATAAATAAATTT
Found at i:1696836 original size:23 final size:23
Alignment explanation
Indices: 1696796--1696843 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
1696786 TATAAATATT
*
1696796 TTTATTTAATATTTATGAATAAA
1 TTTATTTAATATTAATGAATAAA
*
1696819 TTTATTTAAT-TTAAATGAATTAA
1 TTTATTTAATATT-AATGAATAAA
1696842 TT
1 TT
1696844 CAAATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (23 bp):
TTTATTTAATATTAATGAATAAA
Found at i:1699407 original size:13 final size:13
Alignment explanation
Indices: 1699389--1699414 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1699379 AAAACTATAG
1699389 TGAAATATTCAAT
1 TGAAATATTCAAT
1699402 TGAAATATTCAAT
1 TGAAATATTCAAT
1699415 GTGATATTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
TGAAATATTCAAT
Found at i:1701295 original size:16 final size:16
Alignment explanation
Indices: 1701276--1701325 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
1701266 ATTATTAAAA
*
1701276 TTTTAAATTATATTATT
1 TTTTATATTATATTA-T
*
1701293 TTTTATTTTATATTAT
1 TTTTATATTATATTAT
*
1701309 ATTTATATTATATTAT
1 TTTTATATTATATTAT
1701325 T
1 T
1701326 ACATCATAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
16 15 0.54
17 13 0.46
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTATATTATATTAT
Found at i:1702100 original size:25 final size:24
Alignment explanation
Indices: 1702049--1702098 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
1702039 TGAATTATCG
*
1702049 AAAGTGATTAAATTATTATTTTAA
1 AAAGTGATTAAATTATAATTTTAA
*
1702073 AAAGTGATTTAATT-TAATTTTAA
1 AAAGTGATTAAATTATAATTTTAA
1702096 AAA
1 AAA
1702099 AATAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (24 bp):
AAAGTGATTAAATTATAATTTTAA
Found at i:1709244 original size:7 final size:8
Alignment explanation
Indices: 1709227--1709254 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
1709217 CCTTTCCTTG
1709227 TTTTCATT
1 TTTTCATT
1709235 TTTTCATT
1 TTTTCATT
1709243 TTTTCATT
1 TTTTCATT
1709251 TTTT
1 TTTT
1709255 TTTTCTTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTCATT
Found at i:1709479 original size:2 final size:2
Alignment explanation
Indices: 1709472--1709504 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1709462 TGCTGCCAGC
1709472 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1709505 CCGTTGTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:1711648 original size:23 final size:23
Alignment explanation
Indices: 1711604--1711648 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
1711594 TTTGAAATGA
**
1711604 TCTAAACCCAAATAACTTAAAAG
1 TCTAAACCCAAATAACCCAAAAG
* *
1711627 TCTAAACCTAAATGACCCAAAA
1 TCTAAACCCAAATAACCCAAAA
1711649 TTAAATTGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.51, C:0.24, G:0.04, T:0.20
Consensus pattern (23 bp):
TCTAAACCCAAATAACCCAAAAG
Found at i:1737481 original size:22 final size:22
Alignment explanation
Indices: 1737441--1737484 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1737431 TGTATATTTA
*
1737441 TATTTGTATATCTAGAATTAAG
1 TATTTGTATACCTAGAATTAAG
* *
1737463 TATTTGTATCCCTATAATTAAG
1 TATTTGTATACCTAGAATTAAG
1737485 GACAAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.45
Consensus pattern (22 bp):
TATTTGTATACCTAGAATTAAG
Found at i:1739826 original size:22 final size:22
Alignment explanation
Indices: 1739787--1739828 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1739777 AGTGAAGTAT
*
1739787 GAAAATAAATAAAATTTCATGA
1 GAAAATAAACAAAATTTCATGA
* *
1739809 GAAAATAGACAAAGTTTCAT
1 GAAAATAAACAAAATTTCAT
1739829 TTGGATCCCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.26
Consensus pattern (22 bp):
GAAAATAAACAAAATTTCATGA
Found at i:1751869 original size:13 final size:13
Alignment explanation
Indices: 1751851--1751883 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
1751841 TTATTTTTTC
*
1751851 TTTATCATCCACA
1 TTTATCATCAACA
1751864 TTTATCATCAACA
1 TTTATCATCAACA
1751877 TTTATCA
1 TTTATCA
1751884 AACAGGACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.42
Consensus pattern (13 bp):
TTTATCATCAACA
Found at i:1768067 original size:11 final size:11
Alignment explanation
Indices: 1768051--1768082 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
1768041 TAATAGACAA
1768051 AAAAGTAAAAT
1 AAAAGTAAAAT
1768062 AAAAGTAAAAT
1 AAAAGTAAAAT
*
1768073 AAAATTAAAA
1 AAAAGTAAAA
1768083 GATTTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (11 bp):
AAAAGTAAAAT
Found at i:1779956 original size:3 final size:3
Alignment explanation
Indices: 1779948--1779984 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
1779938 GTGCTTTTAC
1779948 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1779985 CGTTTCTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1780500 original size:13 final size:13
Alignment explanation
Indices: 1780482--1780507 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1780472 TCTGAAGAAC
1780482 ATTGAATTTTTCA
1 ATTGAATTTTTCA
1780495 ATTGAATTTTTCA
1 ATTGAATTTTTCA
1780508 GGGAAAGTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (13 bp):
ATTGAATTTTTCA
Found at i:1780876 original size:19 final size:20
Alignment explanation
Indices: 1780854--1780903 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
1780844 TAGGTTTTCC
* *
1780854 TTTTTTATTTT-CTTTTTAT
1 TTTTTTATTTTGATTTTAAT
*
1780873 TTTTTGATTTTGATTTTAAT
1 TTTTTTATTTTGATTTTAAT
*
1780893 TTATTTATTTT
1 TTTTTTATTTT
1780904 TACCCATATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (20 bp):
TTTTTTATTTTGATTTTAAT
Found at i:1781004 original size:13 final size:13
Alignment explanation
Indices: 1780985--1781017 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
1780975 TTTTTAAAAA
1780985 AAAAAAAATTT-T
1 AAAAAAAATTTCT
*
1780997 ACAAAAAATTTCT
1 AAAAAAAATTTCT
1781010 AAAAAAAA
1 AAAAAAAA
1781018 CAATAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAAAAAATTTCT
Found at i:1792065 original size:56 final size:56
Alignment explanation
Indices: 1791998--1792188 Score: 181
Period size: 56 Copynumber: 3.3 Consensus size: 56
1791988 ATTTTGGCCT
*
1791998 GTGGTTTCATCCCGGTCACTTGGTCTTGGCTCAGTCTAGATCATTTTTCATGATTC
1 GTGGTTTCATCCCGATCACTTGGTCTTGGCTCAGTCTAGATCATTTTTCATGATTC
* * ** * **
1792054 GTGGTTCCATCCCGATCATTTATTTTTGACCTCGACTCAGTCCTAG-TCATTTTATTTTGGCA-T
1 GTGGTTTCATCCCGATCACTTGGTCTTG-----G-CTCAGT-CTAGATCATTTT-TCAT-G-ATT
1792117 -
56 C
*
1792117 GTGGTTTCATCTCGATCACTTGGTCTTGGCTCAGTCTAGATCATTTTTCATGATTC
1 GTGGTTTCATCCCGATCACTTGGTCTTGGCTCAGTCTAGATCATTTTTCATGATTC
*
1792173 GTGGTTTCATGCCGAT
1 GTGGTTTCATCCCGAT
1792189 TATTATTTTC
Statistics
Matches: 104, Mismatches: 18, Indels: 26
0.70 0.12 0.18
Matches are distributed among these distances:
54 1 0.01
55 2 0.02
56 42 0.40
57 13 0.12
58 1 0.01
61 1 0.01
62 13 0.12
63 28 0.27
64 2 0.02
65 1 0.01
ACGTcount: A:0.16, C:0.23, G:0.20, T:0.42
Consensus pattern (56 bp):
GTGGTTTCATCCCGATCACTTGGTCTTGGCTCAGTCTAGATCATTTTTCATGATTC
Found at i:1792108 original size:119 final size:119
Alignment explanation
Indices: 1791894--1792223 Score: 448
Period size: 119 Copynumber: 2.8 Consensus size: 119
1791884 ATTACCTTAC
* * * * * *
1791894 TCACTTGATCTTAGCTCAGCCTAGATCACTTCTT-ATGATTCATGGTTCCATCCTGATCATTTAT
1 TCACTTGGTCTTGGCTCAGTCTAGATCA-TTTTTCATGATTCGTGGTTCCATCCCGATCATTTAT
* * * * * *
1791958 TTTTTACCTCGACTCAATTCTAGTCACTTTATTTTGGCCTGTGGTTTCATCCCGG
65 TTTTAACCTCGACTCAGTCCTAGTCATTTTATTTTGGCATGTGGTTTCATCCCGA
1792013 TCACTTGGTCTTGGCTCAGTCTAGATCATTTTTCATGATTCGTGGTTCCATCCCGATCATTTATT
1 TCACTTGGTCTTGGCTCAGTCTAGATCATTTTTCATGATTCGTGGTTCCATCCCGATCATTTATT
* *
1792078 TTTGACCTCGACTCAGTCCTAGTCATTTTATTTTGGCATGTGGTTTCATCTCGA
66 TTTAACCTCGACTCAGTCCTAGTCATTTTATTTTGGCATGTGGTTTCATCCCGA
* * *
1792132 TCACTTGGTCTTGGCTCAGTCTAGATCATTTTTCATGATTCGTGGTTTCATGCCGATTA-TTATT
1 TCACTTGGTCTTGGCTCAGTCTAGATCATTTTTCATGATTCGTGGTTCCATCCCGATCATTTATT
* * * *
1792196 TTCAACCTCGACTTAGTCTTGGTCATTT
66 TTTAACCTCGACTCAGTCCTAGTCATTT
1792224 CATTGGATTC
Statistics
Matches: 189, Mismatches: 21, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
118 32 0.17
119 157 0.83
ACGTcount: A:0.18, C:0.23, G:0.16, T:0.43
Consensus pattern (119 bp):
TCACTTGGTCTTGGCTCAGTCTAGATCATTTTTCATGATTCGTGGTTCCATCCCGATCATTTATT
TTTAACCTCGACTCAGTCCTAGTCATTTTATTTTGGCATGTGGTTTCATCCCGA
Found at i:1792498 original size:26 final size:26
Alignment explanation
Indices: 1792439--1792501 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
1792429 CCACTTTGAT
**
1792439 CCATTCTGGTCTGAGCCCAATTAGGT
1 CCATTCTGGTCTGAGCCCAATTAGAC
*
1792465 CC-TATCTGG-CTTGAGCCCAGTTAGAC
1 CCAT-TCTGGTC-TGAGCCCAATTAGAC
1792491 CCATTCTGGTC
1 CCATTCTGGTC
1792502 AAGTCCATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
25 2 0.07
26 26 0.87
27 2 0.07
ACGTcount: A:0.17, C:0.30, G:0.22, T:0.30
Consensus pattern (26 bp):
CCATTCTGGTCTGAGCCCAATTAGAC
Found at i:1792614 original size:3 final size:3
Alignment explanation
Indices: 1792559--1792595 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
1792549 GTGCTTTTAC
1792559 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1792596 CATTTTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1793481 original size:19 final size:18
Alignment explanation
Indices: 1793453--1793509 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 18
1793443 CGACCGAATA
*
1793453 TTTTTCTTTTTTCATTTTC
1 TTTTTATTTTTT-ATTTTC
1793472 TTTTTATTTTTTGA-TTTC
1 TTTTTATTTTTT-ATTTTC
1793490 TATTTTAATTTATTTATTTT
1 T-TTTT-ATTT-TTTATTTT
1793510 TACCCATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 5 0.16
19 16 0.50
20 5 0.16
21 6 0.19
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.77
Consensus pattern (18 bp):
TTTTTATTTTTTATTTTC
Found at i:1812712 original size:17 final size:17
Alignment explanation
Indices: 1812690--1812730 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
1812680 ATTTTCTTGG
1812690 CATGGAAATAGCTTACT
1 CATGGAAATAGCTTACT
*
1812707 CATGGAGATAGCTTACT
1 CATGGAAATAGCTTACT
*
1812724 CAAGGAA
1 CATGGAA
1812731 TGGCATCTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (17 bp):
CATGGAAATAGCTTACT
Found at i:1814291 original size:22 final size:22
Alignment explanation
Indices: 1814265--1814307 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1814255 TGTATATTTA
1814265 TATTTGTATCTC-TAGAATTAAG
1 TATTTGTATC-CATAGAATTAAG
1814287 TATTTGTATCCATAGAATTAA
1 TATTTGTATCCATAGAATTAA
1814308 TGACAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (22 bp):
TATTTGTATCCATAGAATTAAG
Found at i:1822502 original size:11 final size:11
Alignment explanation
Indices: 1822474--1822532 Score: 55
Period size: 11 Copynumber: 5.1 Consensus size: 11
1822464 ATAAAATATA
* *
1822474 TTAATTAATTA
1 TTAATTTATTT
*
1822485 TTGATTTATTT
1 TTAATTTATTT
*
1822496 TTAATTTTATGT
1 TTAA-TTTATTT
1822508 TTAATTTAATTTT
1 TTAATTT-A-TTT
1822521 TTAATTTATTT
1 TTAATTTATTT
1822532 T
1 T
1822533 GACAATAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
11 18 0.46
12 12 0.31
13 9 0.23
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (11 bp):
TTAATTTATTT
Found at i:1823156 original size:64 final size:64
Alignment explanation
Indices: 1823055--1823187 Score: 266
Period size: 64 Copynumber: 2.1 Consensus size: 64
1823045 TTTTCCAAGA
1823055 TAAAAGACATTAATAAAATAAAAGATAAAATATACTTCAAAACTCTTTCGGTCCAATTTTATAT
1 TAAAAGACATTAATAAAATAAAAGATAAAATATACTTCAAAACTCTTTCGGTCCAATTTTATAT
1823119 TAAAAGACATTAATAAAATAAAAGATAAAATATACTTCAAAACTCTTTCGGTCCAATTTTATAT
1 TAAAAGACATTAATAAAATAAAAGATAAAATATACTTCAAAACTCTTTCGGTCCAATTTTATAT
1823183 TAAAA
1 TAAAA
1823188 AAAAAATCTA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 69 1.00
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.32
Consensus pattern (64 bp):
TAAAAGACATTAATAAAATAAAAGATAAAATATACTTCAAAACTCTTTCGGTCCAATTTTATAT
Found at i:1824431 original size:20 final size:21
Alignment explanation
Indices: 1824395--1824446 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
1824385 TTCGAAATTA
1824395 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
*
1824417 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
1824438 AT-AAATATT
1 ATAAAATATT
1824447 TAAAAATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:1824437 original size:21 final size:22
Alignment explanation
Indices: 1824395--1824446 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
1824385 TTCGAAATTA
1824395 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
1824417 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
1824438 AT-AAATATT
1 ATAAAATATT
1824447 TAAAAATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:1824448 original size:14 final size:14
Alignment explanation
Indices: 1824431--1824482 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
1824421 AATATTATTT
1824431 TTTAAATATAAATA
1 TTTAAATATAAATA
*
1824445 TTTAAAAATATAATTA
1 TTT--AAATATAAATA
* *
1824461 TATAAATATATATA
1 TTTAAATATAAATA
*
1824475 ATTAAATA
1 TTTAAATA
1824483 ATTAATTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
14 18 0.60
16 12 0.40
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TTTAAATATAAATA
Found at i:1824454 original size:30 final size:30
Alignment explanation
Indices: 1824419--1824490 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
1824409 TTTAAAATAT
* * * *
1824419 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATAATTATATAAATATAAATAATTA
*
1824449 AAAATATAATTATATAAATATATATAATTA
1 AAAATATAATTATATAAATATAAATAATTA
1824479 AATAAT-TAATTA
1 AA-AATATAATTA
1824491 AAAAATAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 33 0.92
31 3 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (30 bp):
AAAATATAATTATATAAATATAAATAATTA
Found at i:1824455 original size:16 final size:16
Alignment explanation
Indices: 1824434--1824472 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1824424 ATTATTTTTT
*
1824434 AAATATAAATATTTAA
1 AAATATAAATATATAA
*
1824450 AAATATAATTATATAA
1 AAATATAAATATATAA
*
1824466 ATATATA
1 AAATATA
1824473 TAATTAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATATAAATATATAA
Found at i:1825493 original size:7 final size:7
Alignment explanation
Indices: 1825483--1825507 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1825473 ATAAATAAAA
1825483 TTATATT
1 TTATATT
1825490 TTATATT
1 TTATATT
1825497 TTATATT
1 TTATATT
1825504 TTAT
1 TTAT
1825508 TTGTTAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTATATT
Found at i:1838261 original size:25 final size:25
Alignment explanation
Indices: 1838227--1838276 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
1838217 TGAAATATAA
1838227 CCTCTATCCAGACAGATTTCTTTCT
1 CCTCTATCCAGACAGATTTCTTTCT
1838252 CCTCTATCCAGACAGATTTCTTTCT
1 CCTCTATCCAGACAGATTTCTTTCT
1838277 TACTAAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.32, G:0.08, T:0.40
Consensus pattern (25 bp):
CCTCTATCCAGACAGATTTCTTTCT
Found at i:1843364 original size:21 final size:20
Alignment explanation
Indices: 1843340--1843389 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
1843330 ATTCACAATT
1843340 ATAACAAAAAAAAATATTATA
1 ATAACAAAAAAAAATA-TATA
* * *
1843361 ATAAGAACAAATAATATATA
1 ATAACAAAAAAAAATATATA
1843381 ATAAGCAAA
1 ATAA-CAAA
1843390 TACTCACATA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.68, C:0.06, G:0.04, T:0.22
Consensus pattern (20 bp):
ATAACAAAAAAAAATATATA
Found at i:1843372 original size:18 final size:19
Alignment explanation
Indices: 1843336--1843385 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
1843326 TAAAATTCAC
* *
1843336 AATTATAACAAAAAAAAAT
1 AATTATAATAAGAAAAAAT
*
1843355 -ATTATAATAAGAACAAAT
1 AATTATAATAAGAAAAAAT
1843373 AATATATAATAAG
1 AAT-TATAATAAG
1843386 CAAATACTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 15 0.58
19 2 0.08
20 9 0.35
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (19 bp):
AATTATAATAAGAAAAAAT
Found at i:1843389 original size:18 final size:20
Alignment explanation
Indices: 1843352--1843391 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
1843342 AACAAAAAAA
1843352 AATATTATAATAAGAACAAAT
1 AATATTATAATAAG-ACAAAT
1843373 AATA-TATAATAAG-CAAAT
1 AATATTATAATAAGACAAAT
1843391 A
1 A
1843392 CTCACATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
20 9 0.47
21 4 0.21
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (20 bp):
AATATTATAATAAGACAAAT
Found at i:1844514 original size:21 final size:22
Alignment explanation
Indices: 1844472--1844514 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
1844462 ATTTTAGATG
* *
1844472 AAAATTTTTAAGTGAAATTAAT
1 AAAATTTTTAAGTAAAAATAAT
*
1844494 AAAATTTTT-ATTAAAAATAAT
1 AAAATTTTTAAGTAAAAATAAT
1844515 TAACTTAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (22 bp):
AAAATTTTTAAGTAAAAATAAT
Found at i:1845764 original size:16 final size:16
Alignment explanation
Indices: 1845738--1845795 Score: 77
Period size: 16 Copynumber: 3.7 Consensus size: 16
1845728 ATATTATTTT
1845738 TTAATATAAATATAAAA
1 TTAA-ATAAATATAAAA
1845755 TTAAATAAATAT-AAA
1 TTAAATAAATATAAAA
1845770 --AAATATAATATAAAA
1 TTAAATA-AATATAAAA
1845785 TTAAATAAATA
1 TTAAATAAATA
1845796 ATTAAAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
13 5 0.14
14 5 0.14
15 6 0.16
16 12 0.32
17 9 0.24
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TTAAATAAATATAAAA
Found at i:1845782 original size:30 final size:32
Alignment explanation
Indices: 1845740--1845805 Score: 109
Period size: 30 Copynumber: 2.1 Consensus size: 32
1845730 ATTATTTTTT
1845740 AATATAAATATAAAATTAAATAAAT-ATAAAA
1 AATATAAATATAAAATTAAATAAATAATAAAA
*
1845771 AATAT-AATATAAAATTAAATAAATAATTAAA
1 AATATAAATATAAAATTAAATAAATAATAAAA
1845802 AATA
1 AATA
1845806 ATTTTTTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
30 19 0.58
31 14 0.42
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (32 bp):
AATATAAATATAAAATTAAATAAATAATAAAA
Found at i:1845794 original size:9 final size:10
Alignment explanation
Indices: 1845740--1845795 Score: 53
Period size: 11 Copynumber: 5.4 Consensus size: 10
1845730 ATTATTTTTT
1845740 AATATAAATA
1 AATATAAATA
*
1845750 TAAAATTAAATA
1 -AATA-TAAATA
1845762 AATATAAA-A
1 AATATAAATA
1845771 AATATAATATA
1 AATATAA-ATA
1845782 AA-ATTAAATA
1 AATA-TAAATA
1845792 AATA
1 AATA
1845796 ATTAAAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
9 8 0.21
10 11 0.29
11 13 0.34
12 6 0.16
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
AATATAAATA
Found at i:1845796 original size:14 final size:14
Alignment explanation
Indices: 1845749--1845796 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
1845739 TAATATAAAT
1845749 ATAAAATTAAATAA
1 ATAAAATTAAATAA
*
1845763 ATATAAA-AAATATAA
1 ATA-AAATTAA-ATAA
1845778 TATAAAATTAAATAA
1 -ATAAAATTAAATAA
1845793 ATAA
1 ATAA
1845797 TTAAAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 9 0.32
15 14 0.50
16 5 0.18
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
ATAAAATTAAATAA
Found at i:1847461 original size:20 final size:21
Alignment explanation
Indices: 1847425--1847476 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
1847415 TTCGAAATTA
1847425 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
*
1847447 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
1847468 AT-AAATATT
1 ATAAAATATT
1847477 TAAAAATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:1847467 original size:21 final size:22
Alignment explanation
Indices: 1847425--1847476 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
1847415 TTCGAAATTA
1847425 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
1847447 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
1847468 AT-AAATATT
1 ATAAAATATT
1847477 TAAAAATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:1847478 original size:14 final size:14
Alignment explanation
Indices: 1847461--1847512 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
1847451 AATATTATTT
1847461 TTTAAATATAAATA
1 TTTAAATATAAATA
*
1847475 TTTAAAAATATAATTA
1 TTT--AAATATAAATA
* *
1847491 TATAAATATATATA
1 TTTAAATATAAATA
*
1847505 ATTAAATA
1 TTTAAATA
1847513 ATTAATTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
14 18 0.60
16 12 0.40
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TTTAAATATAAATA
Found at i:1847484 original size:30 final size:30
Alignment explanation
Indices: 1847449--1847520 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
1847439 TTTAAAATAT
* * * *
1847449 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATAATTATATAAATATAAATAATTA
*
1847479 AAAATATAATTATATAAATATATATAATTA
1 AAAATATAATTATATAAATATAAATAATTA
1847509 AATAAT-TAATTA
1 AA-AATATAATTA
1847521 AAAAATAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 33 0.92
31 3 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (30 bp):
AAAATATAATTATATAAATATAAATAATTA
Found at i:1847485 original size:16 final size:16
Alignment explanation
Indices: 1847464--1847502 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1847454 ATTATTTTTT
*
1847464 AAATATAAATATTTAA
1 AAATATAAATATATAA
*
1847480 AAATATAATTATATAA
1 AAATATAAATATATAA
*
1847496 ATATATA
1 AAATATA
1847503 TAATTAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATATAAATATATAA
Found at i:1848517 original size:7 final size:7
Alignment explanation
Indices: 1848507--1848531 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1848497 ATAAATAAAA
1848507 TTATATT
1 TTATATT
1848514 TTATATT
1 TTATATT
1848521 TTATATT
1 TTATATT
1848528 TTAT
1 TTAT
1848532 TTGTTAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTATATT
Found at i:1861278 original size:25 final size:24
Alignment explanation
Indices: 1861244--1861291 Score: 87
Period size: 25 Copynumber: 2.0 Consensus size: 24
1861234 ATGAATATAA
1861244 CTCTATCCAGACAGATTTCTTTCTC
1 CTCTATCCAGACAGA-TTCTTTCTC
1861269 CTCTATCCAGACAGATTCTTTCT
1 CTCTATCCAGACAGATTCTTTCT
1861292 TACAAAATCG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.21, C:0.31, G:0.08, T:0.40
Consensus pattern (24 bp):
CTCTATCCAGACAGATTCTTTCTC
Found at i:1866384 original size:21 final size:20
Alignment explanation
Indices: 1866360--1866409 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
1866350 ATTCACAATT
1866360 ATAACAAAAAAAAATATTATA
1 ATAACAAAAAAAAATA-TATA
* * *
1866381 ATAAGAACAAATAATATATA
1 ATAACAAAAAAAAATATATA
1866401 ATAAGCAAA
1 ATAA-CAAA
1866410 TACTCACATA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.68, C:0.06, G:0.04, T:0.22
Consensus pattern (20 bp):
ATAACAAAAAAAAATATATA
Found at i:1866392 original size:18 final size:19
Alignment explanation
Indices: 1866356--1866405 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
1866346 TAAAATTCAC
* *
1866356 AATTATAACAAAAAAAAAT
1 AATTATAATAAGAAAAAAT
*
1866375 -ATTATAATAAGAACAAAT
1 AATTATAATAAGAAAAAAT
1866393 AATATATAATAAG
1 AAT-TATAATAAG
1866406 CAAATACTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 15 0.58
19 2 0.08
20 9 0.35
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (19 bp):
AATTATAATAAGAAAAAAT
Found at i:1866409 original size:18 final size:20
Alignment explanation
Indices: 1866372--1866411 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
1866362 AACAAAAAAA
1866372 AATATTATAATAAGAACAAAT
1 AATATTATAATAAG-ACAAAT
1866393 AATA-TATAATAAG-CAAAT
1 AATATTATAATAAGACAAAT
1866411 A
1 A
1866412 CTCACATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
20 9 0.47
21 4 0.21
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (20 bp):
AATATTATAATAAGACAAAT
Found at i:1867519 original size:21 final size:22
Alignment explanation
Indices: 1867477--1867519 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
1867467 ATTTTAGATG
* *
1867477 AAAATTTTTAAGTGAAATTAAT
1 AAAATTTTTAAGTAAAAATAAT
*
1867499 AAAATTTTT-ATTAAAAATAAT
1 AAAATTTTTAAGTAAAAATAAT
1867520 TAACTTAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (22 bp):
AAAATTTTTAAGTAAAAATAAT
Found at i:1868767 original size:16 final size:16
Alignment explanation
Indices: 1868741--1868798 Score: 77
Period size: 16 Copynumber: 3.7 Consensus size: 16
1868731 ATATTATTTT
1868741 TTAATATAAATATAAAA
1 TTAA-ATAAATATAAAA
1868758 TTAAATAAATAT-AAA
1 TTAAATAAATATAAAA
1868773 --AAATATAATATAAAA
1 TTAAATA-AATATAAAA
1868788 TTAAATAAATA
1 TTAAATAAATA
1868799 ATTAAAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
13 5 0.14
14 5 0.14
15 6 0.16
16 12 0.32
17 9 0.24
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TTAAATAAATATAAAA
Found at i:1868785 original size:30 final size:32
Alignment explanation
Indices: 1868743--1868808 Score: 109
Period size: 30 Copynumber: 2.1 Consensus size: 32
1868733 ATTATTTTTT
1868743 AATATAAATATAAAATTAAATAAAT-ATAAAA
1 AATATAAATATAAAATTAAATAAATAATAAAA
*
1868774 AATAT-AATATAAAATTAAATAAATAATTAAA
1 AATATAAATATAAAATTAAATAAATAATAAAA
1868805 AATA
1 AATA
1868809 ATTTTTTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
30 19 0.58
31 14 0.42
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (32 bp):
AATATAAATATAAAATTAAATAAATAATAAAA
Found at i:1868797 original size:9 final size:10
Alignment explanation
Indices: 1868743--1868798 Score: 53
Period size: 11 Copynumber: 5.4 Consensus size: 10
1868733 ATTATTTTTT
1868743 AATATAAATA
1 AATATAAATA
*
1868753 TAAAATTAAATA
1 -AATA-TAAATA
1868765 AATATAAA-A
1 AATATAAATA
1868774 AATATAATATA
1 AATATAA-ATA
1868785 AA-ATTAAATA
1 AATA-TAAATA
1868795 AATA
1 AATA
1868799 ATTAAAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
9 8 0.21
10 11 0.29
11 13 0.34
12 6 0.16
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
AATATAAATA
Found at i:1868799 original size:14 final size:14
Alignment explanation
Indices: 1868752--1868799 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
1868742 TAATATAAAT
1868752 ATAAAATTAAATAA
1 ATAAAATTAAATAA
*
1868766 ATATAAA-AAATATAA
1 ATA-AAATTAA-ATAA
1868781 TATAAAATTAAATAA
1 -ATAAAATTAAATAA
1868796 ATAA
1 ATAA
1868800 TTAAAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 9 0.32
15 14 0.50
16 5 0.18
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
ATAAAATTAAATAA
Found at i:1871061 original size:24 final size:25
Alignment explanation
Indices: 1871019--1871067 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
1871009 CTCCCTACTC
* * *
1871019 ATTTTTTTTTTCT-TTTTTCCTTTT
1 ATTTTTTTTATCTACTTTCCCTTTT
1871043 ATTTTTTTTATCTACTTTCCCTTTT
1 ATTTTTTTTATCTACTTTCCCTTTT
1871068 CAACAAAAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (25 bp):
ATTTTTTTTATCTACTTTCCCTTTT
Found at i:1871599 original size:12 final size:12
Alignment explanation
Indices: 1871582--1871608 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1871572 AATCAAATTA
1871582 TAATATAATATT
1 TAATATAATATT
1871594 TAATATAATATT
1 TAATATAATATT
1871606 TAA
1 TAA
1871609 ATTTAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
TAATATAATATT
Found at i:1871674 original size:18 final size:18
Alignment explanation
Indices: 1871630--1871680 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
1871620 TTAAAATATA
1871630 ATTTTTAATTATAA-ATTT
1 ATTTTTAA-TATAATATTT
*
1871648 ATTAATTAATATAATATTT
1 ATT-TTTAATATAATATTT
*
1871667 ATTTTTAATTTAAT
1 ATTTTTAATATAAT
1871681 TAGTTCGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 17 0.61
19 11 0.39
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTTTAATATAATATTT
Found at i:1872217 original size:20 final size:19
Alignment explanation
Indices: 1872186--1872260 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 19
1872176 ATAGTGAATG
1872186 ATTTTTAAATTATAATAAA
1 ATTTTTAAATTATAATAAA
* *
1872205 ATTTTTAATATTATATTTAA
1 ATTTTTAA-ATTATAATAAA
* * *
1872225 ATTTTAAAAATTTTAAAAATA
1 ATTTT-TAAATTATAATAA-A
*
1872246 ATATTTAAATTATAA
1 ATTTTTAAATTATAA
1872261 AATTTTAAAC
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
19 8 0.19
20 28 0.65
21 7 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTTTAAATTATAATAAA
Found at i:1872238 original size:28 final size:28
Alignment explanation
Indices: 1872189--1872269 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 28
1872179 GTGAATGATT
* *
1872189 TTTAAATTATAATAAAATTTTTAATATTATA
1 TTTAAATTAT-A-AAAA-TTTTAAAATAATA
*
1872220 TTTAAATTTTAAAAATTTTAAAAATAATA
1 TTTAAATTATAAAAATTTT-AAAATAATA
1872249 TTTAAATTAT-AAAATTTTAAA
1 TTTAAATTATAAAAATTTTAAA
1872270 CTGATCCTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
27 3 0.07
28 12 0.27
29 20 0.44
30 1 0.02
31 9 0.20
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
TTTAAATTATAAAAATTTTAAAATAATA
Found at i:1872249 original size:29 final size:28
Alignment explanation
Indices: 1872200--1872269 Score: 95
Period size: 29 Copynumber: 2.5 Consensus size: 28
1872190 TTAAATTATA
* * *
1872200 ATAAAATTTTTAATATTATATTTAAATT
1 ATAAAATTTTAAAAATAATATTTAAATT
*
1872228 TTAAAAATTTTAAAAATAATATTTAAATT
1 AT-AAAATTTTAAAAATAATATTTAAATT
1872257 ATAAAATTTTAAA
1 ATAAAATTTTAAA
1872270 CTGATCCTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
28 12 0.33
29 24 0.67
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
ATAAAATTTTAAAAATAATATTTAAATT
Found at i:1872359 original size:32 final size:29
Alignment explanation
Indices: 1872322--1872422 Score: 105
Period size: 30 Copynumber: 3.3 Consensus size: 29
1872312 ACGTTAAAAA
1872322 TAAATATTATTTTAATTAATAAA-TTTATAATT
1 TAAATATTATTTTAA--AA-AAATTTTA-AATT
* *
1872354 TAAATATCATATTAAAAAAATTTTAAATT
1 TAAATATTATTTTAAAAAAATTTTAAATT
*
1872383 TAAATATTATTTAACAAAAAATTTTAAATAT
1 TAAATATTATTTTA-AAAAAATTTTAAAT-T
1872414 TAAAATATT
1 T-AAATATT
1872423 TCACGATAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
29 18 0.30
30 20 0.33
31 2 0.03
32 20 0.33
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (29 bp):
TAAATATTATTTTAAAAAAATTTTAAATT
Found at i:1872423 original size:29 final size:31
Alignment explanation
Indices: 1872322--1872422 Score: 95
Period size: 29 Copynumber: 3.3 Consensus size: 31
1872312 ACGTTAAAAA
* *
1872322 TAAATATTATTTTAATTAATAAA-TTTATAAT-T
1 TAAATATTA-TTTAA-CAAAAAATTTTA-AATAT
*
1872354 TAAATATCATATT-A-AAAAAATTTTAAAT-T
1 TAAATATTAT-TTAACAAAAAATTTTAAATAT
1872383 TAAATATTATTTAACAAAAAATTTTAAATAT
1 TAAATATTATTTAACAAAAAATTTTAAATAT
1872414 TAAAATATT
1 T-AAATATT
1872423 TCACGATAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
28 2 0.03
29 19 0.32
30 18 0.30
31 4 0.07
32 17 0.28
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (31 bp):
TAAATATTATTTAACAAAAAATTTTAAATAT
Found at i:1873879 original size:21 final size:21
Alignment explanation
Indices: 1873854--1873914 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
1873844 CACTTACAGA
1873854 TAAAATATATGTATATTTAGTC
1 TAAAATATATGTATATTTA-TC
* *
1873876 -AAAATATATGTAAAATTATC
1 TAAAATATATGTATATTTATC
*
1873896 TTATAATATATGTATATTT
1 -TAAAATATATGTATATTT
1873915 TTTATATTCT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
20 2 0.06
21 16 0.50
22 14 0.44
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (21 bp):
TAAAATATATGTATATTTATC
Found at i:1875804 original size:23 final size:23
Alignment explanation
Indices: 1875755--1875985 Score: 128
Period size: 24 Copynumber: 10.0 Consensus size: 23
1875745 CAAAGCTCCA
* *
1875755 ATCTTA-ATTATATTTTA-TTTC
1 ATCTTATATTTTATTTTATTTTT
1875776 AT-TTATATTTTATTT-ATTTTT
1 ATCTTATATTTTATTTTATTTTT
* * *
1875797 ATCCTTATA-TTTATAATTGTTTTC
1 AT-CTTATATTTTAT-TTTATTTTT
** *
1875821 ATCATTAT-TAATATTTTATATTCCAT
1 ATC-TTATATTTTATTTTAT-TT--TT
1875847 AT-TTAT-TTTTATTTTATTTTT
1 ATCTTATATTTTATTTTATTTTT
*
1875868 ATTTTA-ATTTTATTTATCATTTTT
1 ATCTTATATTTTATTT-T-ATTTTT
*
1875892 ATCTTTATTTTTTAATTTTATTTATTT
1 ATC-TTATATTTT-ATTTTA-TT-TTT
*
1875919 ATCTT-TATTTTATTTTTATTGTT
1 ATCTTATATTTTA-TTTTATTTTT
1875942 ATCTT-TATTTTA-TTTATTTGTTT
1 ATCTTATATTTTATTTTA-TT-TTT
*
1875965 ATCTT-CATTTTATTTTATTTT
1 ATCTTATATTTTATTTTATTTT
1875986 ATTTCATTTA
Statistics
Matches: 166, Mismatches: 20, Indels: 47
0.71 0.09 0.20
Matches are distributed among these distances:
20 4 0.02
21 22 0.13
22 20 0.12
23 42 0.25
24 43 0.26
25 14 0.08
26 11 0.07
27 10 0.06
ACGTcount: A:0.23, C:0.06, G:0.01, T:0.69
Consensus pattern (23 bp):
ATCTTATATTTTATTTTATTTTT
Found at i:1875863 original size:5 final size:5
Alignment explanation
Indices: 1875848--1876004 Score: 108
Period size: 5 Copynumber: 29.6 Consensus size: 5
1875838 ATATTCCATA
1875848 TTTATT TTTAT TTTATT TTTAT TTTAAT TTTAT TTATCATT TTTAT CTTTA-
1 TTTA-T TTTAT TTTA-T TTTAT TTT-AT TTTAT TT-T-A-T TTTAT -TTTAT
*
1875899 TTT-T TTAAT TTTA- TTTA- TTTAT CTTTAT TTTATT TTTAT TGTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT -TTTAT TTTA-T TTTAT T-TTAT
* * *
1875944 CTTTAT TTTAT TTATTT GTTTAT CTTCAT TTTAT TTTAT TTTAT TTCA-
1 -TTTAT TTTAT TT-TAT -TTTAT -TTTAT TTTAT TTTAT TTTAT TTTAT
*
1875992 TTTAT CTTAT TTT
1 TTTAT TTTAT TTT
1876005 TATTCTTGTT
Statistics
Matches: 124, Mismatches: 11, Indels: 33
0.74 0.07 0.20
Matches are distributed among these distances:
4 16 0.13
5 54 0.44
6 46 0.37
7 5 0.04
8 3 0.02
ACGTcount: A:0.20, C:0.05, G:0.01, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:1875882 original size:46 final size:47
Alignment explanation
Indices: 1875855--1876017 Score: 129
Period size: 51 Copynumber: 3.3 Consensus size: 47
1875845 ATATTTATTT
1875855 TTATTTTA-TT-TTTATTTTAATTTTA-TTTATCATTTTTATCTTTATTTT
1 TTATTTTATTTATTTATTTT-ATTTTATTTTAT-ATTT-TATCTTTA-TTT
1875903 TTAATTTTATTTATTTATCTTTATTTTATTTT-TATTGTTATCTTTATTT
1 TT-ATTTTATTTATTTAT-TTTATTTTATTTTATATT-TTATCTTTATTT
* * *
1875952 TATTTATTTGTTTATCTTCATTTTATTTTATTTTATTTCATTTATC-TTATTT
1 T-TAT-TTTATTTAT-TT-ATTTTATTTTATTTTATAT--TTTATCTTTATTT
*
1876004 TTATTCTTGTTTAT
1 TTATT-TTATTTAT
1876018 GTTTAAAAAA
Statistics
Matches: 97, Mismatches: 4, Indels: 25
0.77 0.03 0.20
Matches are distributed among these distances:
48 2 0.02
49 11 0.11
50 23 0.24
51 38 0.39
52 17 0.18
53 5 0.05
54 1 0.01
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.73
Consensus pattern (47 bp):
TTATTTTATTTATTTATTTTATTTTATTTTATATTTTATCTTTATTT
Found at i:1875905 original size:32 final size:32
Alignment explanation
Indices: 1875848--1875935 Score: 105
Period size: 32 Copynumber: 2.9 Consensus size: 32
1875838 ATATTCCATA
*
1875848 TTTATTT-TT-AT-TTTATTTT-TATTTTAAT
1 TTTATTTATTCATCTTTATTTTATTTTTTAAT
*
1875876 TTTATTTA-TCATTTTTATCTTTATTTTTTAAT
1 TTTATTTATTCATCTTTAT-TTTATTTTTTAAT
*
1875908 TTTATTTATTTATCTTTATTTTATTTTT
1 TTTATTTATTCATCTTTATTTTATTTTT
1875936 ATTGTTATCT
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
28 8 0.16
29 2 0.04
30 5 0.10
31 3 0.06
32 25 0.49
33 8 0.16
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.76
Consensus pattern (32 bp):
TTTATTTATTCATCTTTATTTTATTTTTTAAT
Found at i:1876810 original size:143 final size:143
Alignment explanation
Indices: 1876552--1876955 Score: 431
Period size: 144 Copynumber: 2.8 Consensus size: 143
1876542 TTGTATTGAA
* * * * * * *
1876552 AAAAGTGTGAAATTACCAAAATATTCTTATAAGGGTATTTTCATAATTTGACTTTTTGGGTTTAG
1 AAAAGTGTGAAATTA-CAAAATATCCCTATAAAGGTATTTTCATAATTTAACTTTTCGAGCTTAG
* * * *
1876617 ATTTTTATAAAATTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGATACATTTAAAATC
65 ATTTTCATGAAACTTTTCAGATCTTAATTTCATAATATTTCATAATTTTTGATACATTTAAAATC
* * *
1876682 ATAGCAGTAT-TCG
130 ACAACAGCATCTCG
* * *
1876695 AAAAGTGTGAAATTATCAAAATACCCCTATAAAGGTATTTTCATAAATTAACATTCTCGAGCTTA
1 AAAAGTGTGAAATTA-CAAAATATCCCTATAAAGGTATTTTCATAATTTAAC-TTTTCGAGCTTA
* * * *
1876760 GATTTTCATGAAACCTTTT-AGATCTTAATATCATAATATTTCAT-ATTTTTGGTGCATTTGAAA
64 GATTTTCATGAAA-CTTTTCAGATCTTAATTTCATAATATTTCATAATTTTTGATACATTTAAAA
*
1876823 TCACAATAGCATCTCG
128 TCACAACAGCATCTCG
* * * ** *
1876839 AGAAA-TATAAAATTACTAAAATATCCCTATAAAAGTATTTTTGTAATTTGATCTTTTCGAGCTC
1 A-AAAGTGTGAAATTAC-AAAATATCCCTATAAAGGTATTTTCATAATTT-AACTTTTCGAGCT-
* *
1876903 TA-ATTTTCATGAAACTTTTCAAATCTTAATTTTATAATATTTCATAATTTTTG
62 TAGATTTTCATGAAACTTTTCAGATCTTAATTTCATAATATTTCATAATTTTTG
1876956 GTGTTTTAAA
Statistics
Matches: 218, Mismatches: 34, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
143 75 0.34
144 125 0.57
145 18 0.08
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (143 bp):
AAAAGTGTGAAATTACAAAATATCCCTATAAAGGTATTTTCATAATTTAACTTTTCGAGCTTAGA
TTTTCATGAAACTTTTCAGATCTTAATTTCATAATATTTCATAATTTTTGATACATTTAAAATCA
CAACAGCATCTCG
Found at i:1890596 original size:17 final size:17
Alignment explanation
Indices: 1890558--1890596 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
1890548 GATCATAAAA
*
1890558 GTGATTTTATCACCATT
1 GTGATTTTATCACCATG
* *
1890575 TTGATTTTATCACTATG
1 GTGATTTTATCACCATG
1890592 GTGAT
1 GTGAT
1890597 CTAGAAATGT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.13, G:0.15, T:0.49
Consensus pattern (17 bp):
GTGATTTTATCACCATG
Found at i:1891970 original size:19 final size:19
Alignment explanation
Indices: 1891911--1891961 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
1891901 AAAATTGGTA
*
1891911 TTTTTATT-TTTTTTCTC-T
1 TTTTTATTATTTATTC-CAT
1891929 TTTTTATTATTTATTCCAT
1 TTTTTATTATTTATTCCAT
*
1891948 TTTTTATTGTTTAT
1 TTTTTATTATTTAT
1891962 GTTATTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 9 0.31
19 20 0.69
ACGTcount: A:0.14, C:0.08, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTTATTATTTATTCCAT
Found at i:1892325 original size:117 final size:121
Alignment explanation
Indices: 1892080--1892323 Score: 318
Period size: 117 Copynumber: 2.0 Consensus size: 121
1892070 AAAAATAAGT
*
1892080 AAAATATGATAAAAAAATAATAATGTCACAAGTAGTGATTTTATTAAAAACATTCACACAAAAAA
1 AAAATATGATAAAAAAATAATAAAGTCACAAGTAGTGATTTTATTAAAAACATTCACAC-AAAAA
* *
1892145 ATTTTTTTAAAAATATTCTAGAAGTGTTAAAAATATTTTAGAATTTTTTAAACATAAA
65 ATTTTTTTAAAAATATTCTAAAAATGTTAAAAATATTTTAGAATTTTTTAAACAT-AA
* * * * * *
1892203 AAAATATTATTAACAAA-AATAAAGTTACAAGTGGTGATTTTATTAAAAA-ATTTACAC-AAAAA
1 AAAATATGATAAAAAAATAATAAAGTCACAAGTAGTGATTTTATTAAAAACATTCACACAAAAAA
* *
1892265 -TTTTTT-AAAATATTTTAAAAATGTTGAAAATATTTTAGAATTTTTTTCAAACATAA
66 TTTTTTTAAAAATATTCTAAAAATGTTAAAAATATTTTAGAA-TTTTTT-AAACATAA
1892321 AAA
1 AAA
1892324 TAACAACAAT
Statistics
Matches: 108, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
117 30 0.28
118 17 0.16
119 11 0.10
121 7 0.06
122 29 0.27
123 14 0.13
ACGTcount: A:0.51, C:0.06, G:0.07, T:0.36
Consensus pattern (121 bp):
AAAATATGATAAAAAAATAATAAAGTCACAAGTAGTGATTTTATTAAAAACATTCACACAAAAAA
TTTTTTTAAAAATATTCTAAAAATGTTAAAAATATTTTAGAATTTTTTAAACATAA
Found at i:1894899 original size:2 final size:2
Alignment explanation
Indices: 1894892--1894917 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1894882 CAAATTAAGA
1894892 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1894918 TGTGTGCGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1906421 original size:20 final size:21
Alignment explanation
Indices: 1906379--1906423 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1906369 TGCACAACCC
1906379 TGAATTAAGTTGTTTAGGGGG
1 TGAATTAAGTTGTTTAGGGGG
* *
1906400 TGAATTAATTTGTTT-TGGGG
1 TGAATTAAGTTGTTTAGGGGG
1906420 TGAA
1 TGAA
1906424 ATCAACTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.42
Consensus pattern (21 bp):
TGAATTAAGTTGTTTAGGGGG
Done.