Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 22 of 143
Found at i:6609953 original size:26 final size:25
Alignment explanation
Indices: 6609906--6609963 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
6609896 TAATAATAAA
*
6609906 ATAATACTA-ATTAAATAATTATTT
1 ATAATATTATATTAAATAATTATTT
* *
6609930 ATATTATTATATTATAATATTTATTT
1 ATAATATTATATTA-AATAATTATTT
6609956 ATAATATT
1 ATAATATT
6609964 TTAAATCATG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 7 0.25
25 4 0.14
26 17 0.61
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (25 bp):
ATAATATTATATTAAATAATTATTT
Found at i:6609964 original size:13 final size:13
Alignment explanation
Indices: 6609919--6609964 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
6609909 ATACTAATTA
*
6609919 AATAATTATTTAT
1 AATATTTATTTAT
*
6609932 ATTA-TTATATTAT
1 AATATTTAT-TTAT
6609945 AATATTTATTTAT
1 AATATTTATTTAT
6609958 AATATTT
1 AATATTT
6609965 TAAATCATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 4 0.14
13 21 0.72
14 4 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
AATATTTATTTAT
Found at i:6613181 original size:59 final size:59
Alignment explanation
Indices: 6613115--6613230 Score: 207
Period size: 59 Copynumber: 2.0 Consensus size: 59
6613105 CACGAGTAAA
6613115 AAAAAACTATGTAATATATAGTGATCTTTTCATGA-TTTTTTTAAAAAAATTACCTTTGT
1 AAAAAACTATGTAATATATAGTGATCTTTTCATGATTTTTTTTAAAAAAA-TACCTTTGT
*
6613174 AAAAAACTATGTAATATATAGTGATTTTTTCATGATTTTTTTTAAAAAAATACCTTT
1 AAAAAACTATGTAATATATAGTGATCTTTTCATGATTTTTTTTAAAAAAATACCTTT
6613231 TACAATATAA
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
59 41 0.75
60 14 0.25
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.45
Consensus pattern (59 bp):
AAAAAACTATGTAATATATAGTGATCTTTTCATGATTTTTTTTAAAAAAATACCTTTGT
Found at i:6621632 original size:40 final size:40
Alignment explanation
Indices: 6621569--6621646 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
6621559 TCCAACTAGA
* *
6621569 GTTGGGCTCACTATTTATTTCGTCAGTTTATCTGACTAAT
1 GTTGGGCTCACTATTTATATCGTCAGTTTATCCGACTAAT
* *
6621609 GTTGGGCTCA-TTTTTAATATCGTCGGTTTATCCGACTA
1 GTTGGGCTCACTATTT-ATATCGTCAGTTTATCCGACTA
6621647 GCTCTAGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.19, C:0.18, G:0.19, T:0.44
Consensus pattern (40 bp):
GTTGGGCTCACTATTTATATCGTCAGTTTATCCGACTAAT
Found at i:6627227 original size:6 final size:6
Alignment explanation
Indices: 6627201--6627273 Score: 51
Period size: 6 Copynumber: 12.2 Consensus size: 6
6627191 CCCAATTTTA
* * ** * *
6627201 AAATTT AAAATTT -ATTTT AAATTT AAACTT ATTTTT GAGTTT AAATTT
1 AAATTT -AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
*
6627249 -ATTTT AAATTT AAATTT AAAATTT A
1 AAATTT AAATTT AAATTT -AAATTT A
6627274 TTTAAAAAAA
Statistics
Matches: 50, Mismatches: 13, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
5 8 0.16
6 30 0.60
7 12 0.24
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (6 bp):
AAATTT
Found at i:6627279 original size:17 final size:17
Alignment explanation
Indices: 6627195--6627266 Score: 90
Period size: 17 Copynumber: 4.1 Consensus size: 17
6627185 ATTGAACCCA
6627195 ATTTTAAAATTTAAAATTT
1 ATTTT-AAATTT-AAATTT
*
6627214 ATTTTAAATTTAAACTT
1 ATTTTAAATTTAAATTT
* *
6627231 ATTTTTGAGTTTAAATTT
1 A-TTTTAAATTTAAATTT
6627249 ATTTTAAATTTAAATTT
1 ATTTTAAATTTAAATTT
6627266 A
1 A
6627267 AAATTTATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
17 21 0.46
18 20 0.43
19 5 0.11
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:6627935 original size:13 final size:12
Alignment explanation
Indices: 6627914--6627947 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
6627904 AATAAATACA
*
6627914 TAATTATAATAT
1 TAATAATAATAT
6627926 TAAATAATAATAT
1 T-AATAATAATAT
6627939 TAATAATAA
1 TAATAATAA
6627948 AGCGTACCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAATAATAATAT
Found at i:6628489 original size:13 final size:13
Alignment explanation
Indices: 6628471--6628500 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
6628461 AGAACAGAGA
6628471 AAATATTTTTTTT
1 AAATATTTTTTTT
6628484 AAATATTTTTTTT
1 AAATATTTTTTTT
6628497 AAAT
1 AAAT
6628501 GAAAGGGGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
AAATATTTTTTTT
Found at i:6629060 original size:29 final size:28
Alignment explanation
Indices: 6629010--6629294 Score: 232
Period size: 29 Copynumber: 9.9 Consensus size: 28
6629000 AAAGGTCCCT
* * *
6629010 GAACTTCTAAAAAATCATATTTTTACTTCC
1 GAACTTC-CAAAAATCACATTTTTAC-CCC
6629040 GAACTTCCAAAAATCACATTTTTACCCTC
1 GAACTTCCAAAAATCACATTTTTACCC-C
* *
6629069 AAACTTCCAAAAATCACATTTTAACCCC
1 GAACTTCCAAAAATCACATTTTTACCCC
* * * * *
6629097 TAAATTTCCAAAAATTAAATTTTTGCCCTC
1 -GAACTTCCAAAAATCACATTTTTACCC-C
* * *
6629127 GAATTTCCAAAAATTACATTTTTGCCCTC
1 GAACTTCCAAAAATCACATTTTTACCC-C
* * **
6629156 GAACTTTCAAAAATCACATTTTGACCTTT
1 GAACTTCCAAAAATCACATTTTTACC-CC
*
6629185 GAACTTCTCAAAAATTACA-TTTT-CCCC
1 GAACTTC-CAAAAATCACATTTTTACCCC
* * *
6629212 TAAACTTTCAAAAATTACATTTTTACCCTC
1 -GAACTTCCAAAAATCACATTTTTACCC-C
* *
6629242 GAACTTCTAAAAATCATATTTTTACCCC
1 GAACTTCCAAAAATCACATTTTTACCCC
* *
6629270 GAACTTTCCTAAAATAACATTTTTA
1 GAAC-TTCCAAAAATCACATTTTTA
6629295 TCCCTAAACT
Statistics
Matches: 210, Mismatches: 35, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
27 11 0.05
28 18 0.09
29 162 0.77
30 19 0.09
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (28 bp):
GAACTTCCAAAAATCACATTTTTACCCC
Found at i:6629167 original size:87 final size:87
Alignment explanation
Indices: 6629039--6629293 Score: 277
Period size: 87 Copynumber: 2.9 Consensus size: 87
6629029 TTTTTACTTC
* * * *
6629039 CGAACTTCCAAAAATCACATTTTTACCCTCAAACTTCCAAAAATCACATTTTAACCCCTAAATTT
1 CGAATTTCCAAAAATTACATTTTTACCCTCGAACTTTCAAAAATCACATTTTAACCCCTAAATTT
*
6629104 CCAAAAATTAAATTTTTGCCCT
66 CCAAAAATTAAATTTTTCCCCT
* * ** * *
6629126 CGAATTTCCAAAAATTACATTTTTGCCCTCGAACTTTCAAAAATCACATTTTGACCTTTGAACTT
1 CGAATTTCCAAAAATTACATTTTTACCCTCGAACTTTCAAAAATCACATTTTAACCCCTAAATTT
*
6629191 CTCAAAAATTACA-TTTTCCCCT
66 C-CAAAAATTAAATTTTTCCCCT
* * * * *
6629213 -AAACTTT-CAAAAATTACATTTTTACCCTCGAAC-TTCTAAAAATCATATTTTTACCCCGAACT
1 CGAA-TTTCCAAAAATTACATTTTTACCCTCGAACTTTC-AAAAATCACATTTTAACCCCTAAAT
*
6629275 TTCCTAAAA-TAACATTTTT
64 TTCCAAAAATTAA-ATTTTT
6629294 ATCCCTAAAC
Statistics
Matches: 139, Mismatches: 24, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
84 2 0.01
85 9 0.06
86 51 0.37
87 67 0.48
88 10 0.07
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.36
Consensus pattern (87 bp):
CGAATTTCCAAAAATTACATTTTTACCCTCGAACTTTCAAAAATCACATTTTAACCCCTAAATTT
CCAAAAATTAAATTTTTCCCCT
Found at i:6629305 original size:58 final size:58
Alignment explanation
Indices: 6629006--6629299 Score: 278
Period size: 58 Copynumber: 5.1 Consensus size: 58
6628996 CCCAAAAGGT
* * *
6629006 CCCT-GAACTTCTAAAAAATCATATTTTTACTTCCGAAC-TTCCAAAAATCACATTTTTA
1 CCCTCGAACTTCT-AAAAATCACATTTTTAC-CCCGAACTTTCCAAAAATAACATTTTTA
* * * * * *
6629064 CCCTCAAACTTCCAAAAATCACATTTTAACCCCTAAATTTCCAAAAATTAA-ATTTTTG
1 CCCTCGAACTTCTAAAAATCACATTTTTACCCCGAACTTTCCAAAAA-TAACATTTTTA
* * * * * *
6629122 CCCTCGAATTTCCAAAAATTACATTTTTGCCCTCGAACTTT-CAAAAATCACATTTTGA
1 CCCTCGAACTTCTAAAAATCACATTTTTACCC-CGAACTTTCCAAAAATAACATTTTTA
* * * * *
6629180 CCTTTGAACTTCTCAAAAATTACA-TTTT-CCCCTAAACTTT-CAAAAATTACATTTTTA
1 CCCTCGAACTTCT-AAAAATCACATTTTTACCCC-GAACTTTCCAAAAATAACATTTTTA
* *
6629237 CCCTCGAACTTCTAAAAATCATATTTTTACCCCGAACTTTCCTAAAATAACATTTTTA
1 CCCTCGAACTTCTAAAAATCACATTTTTACCCCGAACTTTCCAAAAATAACATTTTTA
6629295 TCCCT
1 -CCCT
6629300 AAACTTTTCC
Statistics
Matches: 192, Mismatches: 33, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
56 9 0.05
57 51 0.27
58 104 0.54
59 28 0.15
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (58 bp):
CCCTCGAACTTCTAAAAATCACATTTTTACCCCGAACTTTCCAAAAATAACATTTTTA
Found at i:6632196 original size:14 final size:15
Alignment explanation
Indices: 6632177--6632205 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6632167 TATGTTATGT
6632177 ATATTTATA-GTTTA
1 ATATTTATACGTTTA
6632191 ATATTTATACGTTTA
1 ATATTTATACGTTTA
6632206 TTTTTAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.55
Consensus pattern (15 bp):
ATATTTATACGTTTA
Found at i:6632218 original size:29 final size:28
Alignment explanation
Indices: 6632185--6632241 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
6632175 GTATATTTAT
6632185 AGTTTAATA-TTTATACGTTTATTTTTAAA
1 AGTTTAA-ACTTTA-ACGTTTATTTTTAAA
**
6632214 AGTTTAAACTTTAATTTTTATTTTTAAA
1 AGTTTAAACTTTAACGTTTATTTTTAAA
6632242 TTTAAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (28 bp):
AGTTTAAACTTTAACGTTTATTTTTAAA
Found at i:6637121 original size:17 final size:17
Alignment explanation
Indices: 6637095--6637127 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6637085 ATCATTTTGA
*
6637095 ATTTATTTTAAATTTAG
1 ATTTAATTTAAATTTAG
6637112 ATTTAATTTAAATTTA
1 ATTTAATTTAAATTTA
6637128 AAATTATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
ATTTAATTTAAATTTAG
Found at i:6637921 original size:22 final size:24
Alignment explanation
Indices: 6637857--6637921 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 24
6637847 TAGTAAATAA
* *
6637857 TAATAATATCAATAACAGTTGTAT
1 TAATAATATCATTAATAGTTGTAT
*
6637881 TAAATAATAATAATTAATA-TT-TAT
1 T-AATAAT-ATCATTAATAGTTGTAT
6637905 TAATAATATCATTAATA
1 TAATAATATCATTAATA
6637922 ATAAAAACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
22 9 0.26
23 6 0.17
24 5 0.14
25 8 0.23
26 7 0.20
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.42
Consensus pattern (24 bp):
TAATAATATCATTAATAGTTGTAT
Found at i:6639013 original size:30 final size:29
Alignment explanation
Indices: 6638926--6639257 Score: 260
Period size: 30 Copynumber: 11.2 Consensus size: 29
6638916 CCCTAAAAGT
* * *
6638926 CCCTAAACTATCCAAAAATAGTATTTTGAC
1 CCCTAAACTTTCTAAAATTA-TATTTTGAC
* * **
6638956 ACCAAAACTTTCTAAAATTGCATTTTGAC
1 CCCTAAACTTTCTAAAATTATATTTTGAC
6638985 CCCTAAAC-TTCTTAACAATTATATTTTGAC
1 CCCTAAACTTTC-TAA-AATTATATTTTGAC
* *
6639015 CCCAAAACTTTCTAAAAATTACATTTT-AC
1 CCCTAAACTTTCT-AAAATTATATTTTGAC
* ** * * ** *
6639044 CCCCAAGTTTTCCAAATTTCCATTTTAAC
1 CCCTAAACTTTCTAAAATTATATTTTGAC
* *
6639073 CCCTAAACTTTTCCAAAATTATATTTT-AA
1 CCCTAAAC-TTTCTAAAATTATATTTTGAC
* *
6639102 CCCTAAAACTTTCTAAAAATTACATTTTAAC
1 CCCT-AAACTTTCT-AAAATTATATTTTGAC
6639133 CCCTAAACTTTTCTAAAATTATATTTTGA-
1 CCCTAAAC-TTTCTAAAATTATATTTTGAC
*
6639162 CCCTAAAACTTTCTAAAGATTACATTTTGAC
1 CCCT-AAACTTTCTAAA-ATTATATTTTGAC
* * * * * *
6639193 TCTTAAATTTTTCCAAACTTATATTTT-AA
1 CCCTAAA-CTTTCTAAAATTATATTTTGAC
*
6639222 CCCTAAAACTTTCTAAAATTATATTTTTAC
1 CCCT-AAACTTTCTAAAATTATATTTTGAC
6639252 CCCTAA
1 CCCTAA
6639258 GTTTTCCATA
Statistics
Matches: 241, Mismatches: 45, Indels: 33
0.76 0.14 0.10
Matches are distributed among these distances:
28 14 0.06
29 77 0.32
30 126 0.52
31 24 0.10
ACGTcount: A:0.36, C:0.22, G:0.03, T:0.39
Consensus pattern (29 bp):
CCCTAAACTTTCTAAAATTATATTTTGAC
Found at i:6639141 original size:60 final size:60
Alignment explanation
Indices: 6639064--6639283 Score: 300
Period size: 60 Copynumber: 3.7 Consensus size: 60
6639054 TCCAAATTTC
6639064 CATTTTAACCCCTAAACTTTTCCAAAATTATATTTTAACCCTAAAACTTTCTAAAAATTA
1 CATTTTAACCCCTAAACTTTTCCAAAATTATATTTTAACCCTAAAACTTTCTAAAAATTA
* * *
6639124 CATTTTAACCCCTAAACTTTTCTAAAATTATATTTTGACCCTAAAACTTTCTAAAGATTA
1 CATTTTAACCCCTAAACTTTTCCAAAATTATATTTTAACCCTAAAACTTTCTAAAAATTA
* * * * *
6639184 CATTTTGACTCTTAAATTTTTCCAAACTTATATTTTAACCCTAAAACTTTCT-AAAATTA
1 CATTTTAACCCCTAAACTTTTCCAAAATTATATTTTAACCCTAAAACTTTCTAAAAATTA
* * * * *
6639243 TATTTTTACCCCT-AAGTTTTCCATAATTAAATTTTTAACCC
1 CATTTTAACCCCTAAACTTTTCCAAAATTATA-TTTTAACCC
6639284 CGATTTTACC
Statistics
Matches: 140, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
58 14 0.10
59 24 0.17
60 102 0.73
ACGTcount: A:0.36, C:0.20, G:0.02, T:0.42
Consensus pattern (60 bp):
CATTTTAACCCCTAAACTTTTCCAAAATTATATTTTAACCCTAAAACTTTCTAAAAATTA
Found at i:6639263 original size:29 final size:30
Alignment explanation
Indices: 6638959--6639284 Score: 209
Period size: 29 Copynumber: 11.0 Consensus size: 30
6638949 TTTTGACACC
* * *
6638959 AAAACTTTCTAAAATTGCATTTTGACCCCT
1 AAAATTTTCTAAAATTACATTTTTACCCCT
* * * *
6638989 AAACTTCT-TAACAATTATATTTTGACCCC-
1 AAAATTTTCTAA-AATTACATTTTTACCCCT
*
6639018 AAAACTTTCTAAAAATTACA-TTTTACCCC-
1 AAAATTTTCT-AAAATTACATTTTTACCCCT
* * * * * *
6639047 CAAGTTTTCCAAATTTCCATTTTAACCCCT
1 AAAATTTTCTAAAATTACATTTTTACCCCT
* * * *
6639077 AAACTTTTCCAAAATTATA-TTTTAACCCT
1 AAAATTTTCTAAAATTACATTTTTACCCCT
* *
6639106 AAAACTTTCTAAAAATTACATTTTAACCCCT
1 AAAATTTTCT-AAAATTACATTTTTACCCCT
* * *
6639137 AAACTTTTCTAAAATTATATTTTGA-CCCT
1 AAAATTTTCTAAAATTACATTTTTACCCCT
* * * *
6639166 AAAACTTTCTAAAGATTACATTTTGACTCTT
1 AAAATTTTCTAAA-ATTACATTTTTACCCCT
* * * * *
6639197 AAATTTTTCCAAACTTATA-TTTTAACCCT
1 AAAATTTTCTAAAATTACATTTTTACCCCT
* *
6639226 AAAACTTTCTAAAATTATATTTTTACCCCT
1 AAAATTTTCTAAAATTACATTTTTACCCCT
* * * *
6639256 -AAGTTTTCCATAATTAAATTTTTAACCCC
1 AAAATTTTCTAAAATTACATTTTT-ACCCC
6639285 GATTTTACCA
Statistics
Matches: 227, Mismatches: 58, Indels: 22
0.74 0.19 0.07
Matches are distributed among these distances:
28 7 0.03
29 99 0.44
30 91 0.40
31 30 0.13
ACGTcount: A:0.36, C:0.22, G:0.02, T:0.40
Consensus pattern (30 bp):
AAAATTTTCTAAAATTACATTTTTACCCCT
Found at i:6641086 original size:134 final size:134
Alignment explanation
Indices: 6640841--6641111 Score: 497
Period size: 134 Copynumber: 2.0 Consensus size: 134
6640831 AAAAATTCAG
*
6640841 TTACCGATAAGAGAATTGATCATGGAAAACAAGTACCTTGATAAAGTGGAGGACAACATGGTCGT
1 TTACCGATAAGAGAATTGATCATGGAAAACAAGTACCTTGATAAAGTGAAGGACAACATGGTCGT
** *
6640906 GCGCATGTGGTCGGAGGAGACTCAACACCAAAAAAGAGGTAGCATAGTGGAAGGATATGAGTCCG
66 GCGCATGTGGTCGGAGGAGACTCAACACCAAAAAAGAGACAACATAGTGGAAGGATATGAGTCCG
6640971 AACT
131 AACT
6640975 TTACCGATAAGAGAATTGATCATGGAAAACAAGTACCTTGATAAAGTGAAGGACAACATGGTCGT
1 TTACCGATAAGAGAATTGATCATGGAAAACAAGTACCTTGATAAAGTGAAGGACAACATGGTCGT
*
6641040 GCGCATGTGGTCGGAGGAGACTCAACACCAAAAAGGAGACAACATAGTGGAAGGATATGAGTCCG
66 GCGCATGTGGTCGGAGGAGACTCAACACCAAAAAAGAGACAACATAGTGGAAGGATATGAGTCCG
6641105 AACT
131 AACT
6641109 TTA
1 TTA
6641112 GGATTATACC
Statistics
Matches: 132, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
134 132 1.00
ACGTcount: A:0.37, C:0.16, G:0.27, T:0.20
Consensus pattern (134 bp):
TTACCGATAAGAGAATTGATCATGGAAAACAAGTACCTTGATAAAGTGAAGGACAACATGGTCGT
GCGCATGTGGTCGGAGGAGACTCAACACCAAAAAAGAGACAACATAGTGGAAGGATATGAGTCCG
AACT
Found at i:6651491 original size:92 final size:92
Alignment explanation
Indices: 6651347--6652406 Score: 1730
Period size: 92 Copynumber: 11.5 Consensus size: 92
6651337 CAAATAAAAA
* *
6651347 ATAACAAGCCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATTAAATCTT
1 ATAACAAGCCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCTT
6651412 ATCCTCTTGAAGTTGCAGTAAAGTTGG
66 ATCCTCTTGAAGTTGCAGTAAAGTTGG
* * *
6651439 ATAACAAGCCTTTATCTCTCTGAAGTAGTAGTAAGAGCAAGATGAAGATTCAAACATCTAA-ACT
1 ATAACAAGCCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATC-AATTCT
6651503 TATCCTCTTGAAGTTGCAGTAAAGTTGG
65 TATCCTCTTGAAGTTGCAGTAAAGTTGG
* * *
6651531 ATAACAAGCCTTTATCTCTCTGAAGTTGTAGTAGGAGCAAGATGAAGTTTCAAACATCAATTCCT
1 ATAACAAGCCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCTT
*
6651596 ATCC-CATTGAAGTTGTAGTAAAGTTGG
66 ATCCTC-TTGAAGTTGCAGTAAAGTTGG
*
6651623 ATAACAAGCCTTTATCTCTCTGAAGTTGTAGTAAGAGTAAGATGAAGCTTCAAACATCAATTCTT
1 ATAACAAGCCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCTT
6651688 ATCCTCTTGAAGTTGCAGTAAAGTTGG
66 ATCCTCTTGAAGTTGCAGTAAAGTTGG
* * *
6651715 ATAACAAGCCTTTATCTATCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATTAAATCTT
1 ATAACAAGCCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCTT
6651780 ATCCTCTTGAAGTTGCAGTAAAGTTGG
66 ATCCTCTTGAAGTTGCAGTAAAGTTGG
* *
6651807 ATAACAA-CTTTTTATCTCTCTGAAGTTGTAGTAAGAGTAAGATGAAGCTTCAAACATCAATTCT
1 ATAACAAGC-CTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCT
6651871 TATCCTCTTGAAGTTGCAGTAAAGTTGG
65 TATCCTCTTGAAGTTGCAGTAAAGTTGG
* *
6651899 ATAACAAGCCTTTATCTCTCTGAAGTTGTAGTAAGAGTAAGATGAAGCTTCAAACATCAATTATT
1 ATAACAAGCCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCTT
6651964 ATCCTCTTGAAGTTGCAGTAAAGTTGG
66 ATCCTCTTGAAGTTGCAGTAAAGTTGG
* *
6651991 ATAACAAGCCTTTATCTCTTTGAAGTTGTAGTAAGAGTAAGATGAAGCTTCAAACATCAATTCTT
1 ATAACAAGCCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCTT
6652056 ATCCTCTTGAAGTTGCAGTAAAGTTGG
66 ATCCTCTTGAAGTTGCAGTAAAGTTGG
* * * * *
6652083 ATAACAAGCCTTTATCTCTTTGAAGTTATAGTAAGAGCAAGATGAAGCGTCAACCGTCAATTCTT
1 ATAACAAGCCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCTT
6652148 ATCCTCTTGAAGTTGCAGTAAAGTTGG
66 ATCCTCTTGAAGTTGCAGTAAAGTTGG
* **
6652175 ATAACAAGCCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCGTCAAACGCCAATTCTT
1 ATAACAAGCCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCTT
* **
6652240 ATCTTCTTGAAGTTATAGTAAAGTTGG
66 ATCCTCTTGAAGTTGCAGTAAAGTTGG
* * * * *
6652267 ATAACAAACCTTTATCTCTCTGAAGCTATAGTAAGAGCAAGATGAAGTTTCAAACATCGATTCTT
1 ATAACAAGCCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCTT
6652332 ATCCTCTTGAAGTTGCAGTAAAGTTGG
66 ATCCTCTTGAAGTTGCAGTAAAGTTGG
* * *
6652359 ATAGCAAGCCTTTATCTCTCCGAAGTTGTAGTAAGAGCAAGATAAAGC
1 ATAACAAGCCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGC
6652407 CTCGACATCA
Statistics
Matches: 904, Mismatches: 58, Indels: 12
0.93 0.06 0.01
Matches are distributed among these distances:
91 4 0.00
92 896 0.99
93 4 0.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (92 bp):
ATAACAAGCCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCTT
ATCCTCTTGAAGTTGCAGTAAAGTTGG
Found at i:6654622 original size:30 final size:30
Alignment explanation
Indices: 6654564--6654990 Score: 332
Period size: 30 Copynumber: 14.4 Consensus size: 30
6654554 CAAAAATGGT
*
6654564 ATTTTAACCCCAAAACTTTT-TGAAAATTAC
1 ATTTTAACCCCTAAACTTTTCT-AAAATTAC
* *
6654594 ATTTTAACCCCTAAACTTCTC-AATAATTAT
1 ATTTTAACCCCTAAACTTTTCTAA-AATTAC
*
6654624 ATTTTGA-CCCTAAAAC-TTTCTAAAAATTACC
1 ATTTTAACCCCT-AAACTTTTCT-AAAATTA-C
* * *
6654655 ATTTT-AGCCTTAAAC-TTTCTAAAATTAT
1 ATTTTAACCCCTAAACTTTTCTAAAATTAC
6654683 ATTTTAA-CCCTAAAAC-TTTCTAAAAATTAC
1 ATTTTAACCCCT-AAACTTTTCT-AAAATTAC
* * * * *
6654713 ATTTTTATCCCT-AAGTTTTCCAAAATTCC
1 ATTTTAACCCCTAAACTTTTCTAAAATTAC
* * * *
6654742 ATTTTGACCCTTAAACTTTTCCAAAATTAT
1 ATTTTAACCCCTAAACTTTTCTAAAATTAC
6654772 ATTTTAA-CCCTAAAACTTTT-TAAAAATTAC
1 ATTTTAACCCCT-AAACTTTTCT-AAAATTAC
* *
6654802 A-TTTGACCCCTAAACTTTTCTAAAATTAT
1 ATTTTAACCCCTAAACTTTTCTAAAATTAC
6654831 ATTTTAA-CCCTAAAAC-TTTCTAAAAATTAC
1 ATTTTAACCCCT-AAACTTTTCT-AAAATTAC
* * *
6654861 ATTTTAACCCCCAAAGTTTTCTAAAATTAT
1 ATTTTAACCCCTAAACTTTTCTAAAATTAC
* *
6654891 ATTTTAACCTCAAAAC-TTTCTAAAAATTAC
1 ATTTTAACCCCTAAACTTTTCT-AAAATTAC
* ** * * *
6654921 ATTTTGA-CCCTCAATTTTTTCCAAACTTAT
1 ATTTTAACCCCT-AAACTTTTCTAAAATTAC
6654951 ATTTTAA-CCCTAAAAC-TTTCTAAAATTAC
1 ATTTTAACCCCT-AAACTTTTCTAAAATTAC
*
6654980 ATTTTTACCCC
1 ATTTTAACCCC
6654991 CAAGTATTCC
Statistics
Matches: 320, Mismatches: 51, Indels: 52
0.76 0.12 0.12
Matches are distributed among these distances:
28 8 0.03
29 99 0.31
30 187 0.58
31 26 0.08
ACGTcount: A:0.37, C:0.21, G:0.02, T:0.40
Consensus pattern (30 bp):
ATTTTAACCCCTAAACTTTTCTAAAATTAC
Found at i:6654699 original size:89 final size:87
Alignment explanation
Indices: 6654576--6654989 Score: 399
Period size: 89 Copynumber: 4.6 Consensus size: 87
6654566 TTTAACCCCA
* * *
6654576 AAACTTTTTGAAAATTACATTTTAACCCCT-AAAC-TTCTCAATAATTATATTTTGACCCTAAAA
1 AAACTTTCT-AAAATTATATTTTAA-CCCTAAAACTTTCT-AA-AATTACATTTTGACCCT-AAA
*
6654639 CTTTCTAAAAATTACCATTTT-AGCCTT
61 CTTTCTAAAAATTA-CATTTTGACCCTT
* **
6654666 AAACTTTCTAAAATTATATTTTAACCCTAAAACTTTCTAAAAATTACATTTTTATCCCTAAGTTT
1 AAACTTTCTAAAATTATATTTTAACCCTAAAACTTTCT-AAAATTACATTTTGA-CCCTAAACTT
* *
6654731 TC-CAAAATTCCATTTTGACCCTT
64 TCTAAAAATTACATTTTGACCCTT
* *
6654754 AAACTTTTCCAAAATTATATTTTAACCCTAAAACTTTTTAAAAATTACA-TTTGACCCCTAAACT
1 AAAC-TTTCTAAAATTATATTTTAACCCTAAAACTTTCT-AAAATTACATTTTGA-CCCTAAAC-
* * *
6654818 TTTCT-AAAATTATATTTTAACCCTA
62 TTTCTAAAAATTACATTTTGACCCTT
* * ** * * *
6654843 AAACTTTCTAAAAATTACATTTTAACCCCCAAAGTTTTCTAAAATTATATTTTAACCTCAAAACT
1 AAACTTTCT-AAAATTATATTTTAA-CCCTAAAACTTTCTAAAATTACATTTTGACC-CTAAACT
*
6654908 TTCTAAAAATTACATTTTGACCCTC
63 TTCTAAAAATTACATTTTGACCCTT
** * * *
6654933 AATTTTTTCCAAACTTATATTTTAACCCTAAAACTTTCTAAAATTACATTTTTACCC
1 AA-ACTTTCTAAAATTATATTTTAACCCTAAAACTTTCTAAAATTACATTTTGACCC
6654990 CCAAGTATTC
Statistics
Matches: 269, Mismatches: 42, Indels: 28
0.79 0.12 0.08
Matches are distributed among these distances:
87 6 0.02
88 34 0.13
89 156 0.58
90 69 0.26
91 4 0.01
ACGTcount: A:0.37, C:0.20, G:0.02, T:0.41
Consensus pattern (87 bp):
AAACTTTCTAAAATTATATTTTAACCCTAAAACTTTCTAAAATTACATTTTGACCCTAAACTTTC
TAAAAATTACATTTTGACCCTT
Found at i:6654700 original size:59 final size:59
Alignment explanation
Indices: 6654564--6654989 Score: 384
Period size: 59 Copynumber: 7.2 Consensus size: 59
6654554 CAAAAATGGT
* * * *
6654564 ATTTTAACCCCAAAACTTTTTGAAAATTACATTTTAACCCCT-AAAC-TTCTCAATAATTAT
1 ATTTTAACCCTAAAACTTTCT-AAAATTACATTTTAA-CCCTAAAACTTTCT-AAAAATTAC
* * * *
6654624 ATTTTGACCCTAAAACTTTCTAAAAATTACCATTTT-AGCCTTAAACTTTCT-AAAATTAT
1 ATTTTAACCCTAAAACTTTCT-AAAATTA-CATTTTAACCCTAAAACTTTCTAAAAATTAC
* ** * *
6654683 ATTTTAACCCTAAAACTTTCTAAAAATTACATTTTTATCCCT-AAGTTTTC-CAAAATTCC
1 ATTTTAACCCTAAAACTTTCT-AAAATTACA-TTTTAACCCTAAAACTTTCTAAAAATTAC
* * * * *
6654742 ATTTTGACCCTTAAACTTTTCCAAAATTATATTTTAACCCTAAAACTTTTTAAAAATTAC
1 ATTTTAACCCTAAAAC-TTTCTAAAATTACATTTTAACCCTAAAACTTTCTAAAAATTAC
* * *
6654802 ATTTGACCCCT-AAACTTTTCTAAAATTATATTTTAACCCTAAAACTTTCTAAAAATTAC
1 ATTTTAACCCTAAAAC-TTTCTAAAATTACATTTTAACCCTAAAACTTTCTAAAAATTAC
* ** *
6654861 ATTTTAACCCCCAAAGTTTTCTAAAATTATATTTTAA-CCTCAAAACTTTCTAAAAATTAC
1 ATTTTAA-CCCTAAAACTTTCTAAAATTACATTTTAACCCT-AAAACTTTCTAAAAATTAC
* *** * * *
6654921 ATTTTGACCCTCAATTTTTTCCAAACTTATATTTTAACCCTAAAACTTTCT-AAAATTAC
1 ATTTTAACCCT-AAAACTTTCTAAAATTACATTTTAACCCTAAAACTTTCTAAAAATTAC
*
6654980 ATTTTTACCC
1 ATTTTAACCC
6654990 CCAAGTATTC
Statistics
Matches: 312, Mismatches: 40, Indels: 29
0.82 0.10 0.08
Matches are distributed among these distances:
58 11 0.04
59 155 0.50
60 131 0.42
61 15 0.05
ACGTcount: A:0.37, C:0.21, G:0.02, T:0.40
Consensus pattern (59 bp):
ATTTTAACCCTAAAACTTTCTAAAATTACATTTTAACCCTAAAACTTTCTAAAAATTAC
Found at i:6655043 original size:89 final size:87
Alignment explanation
Indices: 6654586--6655065 Score: 332
Period size: 89 Copynumber: 5.4 Consensus size: 87
6654576 AAACTTTTTG
* * * * *
6654586 AAAATTACATTTTAACCCCT-AAAC-TTCTCAATAATTATATTTTGACCCTAAAAC-TTTCTAAA
1 AAAATTATATTTTAA-CCCTAAAACTTTCT-AA-AATTACATTTTTACCC-CAAACTTTTC-CAA
* *
6654648 AATTACCATTTT-AGCCTTAAACTTTCT-
61 AATT-CCATTTTGAACCTT-AATTTTCTA
* * *
6654675 AAAATTATATTTTAACCCTAAAACTTTCTAAAAATTACATTTTTATCCCTAAGTTTTCCAAAATT
1 AAAATTATATTTTAACCCTAAAACTTTCT-AAAATTACATTTTTACCCCAAACTTTTCCAAAATT
* *
6654740 CCATTTTGACCCTTAAACTTTTC-C
65 CCATTTTGAACCTT-AA-TTTTCTA
* * *
6654764 AAAATTATATTTTAACCCTAAAACTTTTTAAAAATTACA-TTTGACCCCTAAACTTTTCTAAAAT
1 AAAATTATATTTTAACCCTAAAACTTTCT-AAAATTACATTTTTACCCC-AAACTTTTCCAAAAT
** * *
6654828 TATATTTT-AACCCTAAAACTTTCTA
64 TCCATTTTGAA-CCT-TAATTTTCTA
* * ** * * * *
6654853 AAAATTACATTTTAACCCCCAAAGTTTTCTAAAATTATATTTTAACCTCAAAAC-TTTCTAAAAA
1 AAAATTATATTTTAA-CCCTAAAACTTTCTAAAATTACATTTTTACC-CCAAACTTTTC-CAAAA
* * * * *
6654917 TTACATTTTGACCCTCAATTTTTTCC
63 TTCCATTTTGAACCTTAATTTTCT-A
* * * * *
6654943 AAACTTATATTTTAACCCTAAAACTTTCTAAAATTACATTTTTACCCCCAAGTATTCCATAATTC
1 AAAATTATATTTTAACCCTAAAACTTTCTAAAATTACATTTTTACCCCAAACTTTTCCAAAATTC
* *
6655008 CATTTTTAACCTTGATTTTACTA
66 CATTTTGAACCTTAATTTT-CTA
** *
6655031 AAAATTACTATTTT-ACCCTCGAACTTTTTAAAATT
1 AAAATTA-TATTTTAACCCTAAAACTTTCTAAAATT
6655066 CCATCTTTGG
Statistics
Matches: 310, Mismatches: 62, Indels: 39
0.75 0.15 0.09
Matches are distributed among these distances:
87 7 0.02
88 79 0.25
89 168 0.54
90 54 0.17
91 2 0.01
ACGTcount: A:0.37, C:0.20, G:0.02, T:0.41
Consensus pattern (87 bp):
AAAATTATATTTTAACCCTAAAACTTTCTAAAATTACATTTTTACCCCAAACTTTTCCAAAATTC
CATTTTGAACCTTAATTTTCTA
Found at i:6655066 original size:59 final size:59
Alignment explanation
Indices: 6655003--6655165 Score: 152
Period size: 59 Copynumber: 2.8 Consensus size: 59
6654993 AGTATTCCAT
* *** * *
6655003 AATTCCATTTTTAACCTTGATTTTACTAAAAATTACTATTTTACCCTCGAACTTTTTAA
1 AATTCCATCTTTAACCCCAATTTTACCAAAAATTACCATTTTACCCTCGAACTTTTTAA
** * **
6655062 AATTCCATCTTTGGCCCCAATTTTACCAAAAATTACCATTTTACCCTCGAGCTTTCCAA
1 AATTCCATCTTTAACCCCAATTTTACCAAAAATTACCATTTTACCCTCGAACTTTTTAA
* * * *
6655121 AA-TCCTGTTTTTGA-CCCAATTTCAACC-AAAATTACCATTTTACCC
1 AATTCC-ATCTTTAACCCCAATTT-TACCAAAAATTACCATTTTACCC
6655166 CCGAGTATCA
Statistics
Matches: 87, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
58 29 0.33
59 58 0.67
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.39
Consensus pattern (59 bp):
AATTCCATCTTTAACCCCAATTTTACCAAAAATTACCATTTTACCCTCGAACTTTTTAA
Found at i:6655164 original size:58 final size:59
Alignment explanation
Indices: 6655030--6655170 Score: 162
Period size: 58 Copynumber: 2.4 Consensus size: 59
6655020 TGATTTTACT
* * ** * *
6655030 AAAAATTACTATTTTACCCTCGAACTTTTTAAAATTCCATCTTTGGCCCCAATTTTACC
1 AAAAATTACCATTTTACCCTCGAGCTTTCCAAAATTCCATCTTTGGACCCAATTTAACC
* *
6655089 AAAAATTACCATTTTACCCTCGAGCTTTCCAAAA-TCC-TGTTTTTGACCCAATTTCAACC
1 AAAAATTACCATTTTACCCTCGAGCTTTCCAAAATTCCAT-CTTTGGACCCAATTT-AACC
*
6655148 -AAAATTACCATTTTACCCCCGAG
1 AAAAATTACCATTTTACCCTCGAG
6655171 TATCAAAGAA
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
57 1 0.01
58 37 0.52
59 33 0.46
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCTCGAGCTTTCCAAAATTCCATCTTTGGACCCAATTTAACC
Found at i:6661406 original size:29 final size:29
Alignment explanation
Indices: 6661372--6661547 Score: 121
Period size: 29 Copynumber: 6.0 Consensus size: 29
6661362 TTTAGAATTC
6661372 AGGGGTTAAAATGCAA-TTTTAAAAAAGTTT
1 AGGGGTTAAAATG-AACTTTT-AAAAAGTTT
6661402 A-GGGTTAAAATGAACTTTTCAAAAAGTTT
1 AGGGGTTAAAATGAACTTTT-AAAAAGTTT
* * * * *
6661431 ATGGG-TCAAATGAAGTTTTTAGAAAGATT
1 AGGGGTTAAAATGAA-CTTTTAAAAAGTTT
* *
6661460 AGGGGTCAAAATGGAA-TTTTAGAAAGTTT
1 AGGGGTTAAAAT-GAACTTTTAAAAAGTTT
* *
6661489 AGGGGTTAAAAATGAAATTCTAGAAAA-TTT
1 AGGGGTT-AAAATGAACTTTTA-AAAAGTTT
* * *
6661519 -GAGGGTAAAAAATGAAGTTTTAGAAAGTT
1 AG-GGGT-TAAAATGAACTTTTAAAAAGTT
6661548 CGGAGGTCAA
Statistics
Matches: 119, Mismatches: 16, Indels: 22
0.76 0.10 0.14
Matches are distributed among these distances:
28 2 0.02
29 69 0.58
30 42 0.35
31 6 0.05
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (29 bp):
AGGGGTTAAAATGAACTTTTAAAAAGTTT
Found at i:6661501 original size:30 final size:29
Alignment explanation
Indices: 6661372--6661575 Score: 150
Period size: 30 Copynumber: 6.9 Consensus size: 29
6661362 TTTAGAATTC
*
6661372 AGGGGTTAAAATGCAA-TTTTAAAAAAGTTT
1 AGGGGTTAAAATG-AAGTTTT-AGAAAGTTT
* *
6661402 A-GGGTTAAAATGAACTTTTCAAAAAGTTT
1 AGGGGTTAAAATGAAGTTTT-AGAAAGTTT
* * *
6661431 ATGGG-TCAAATGAAGTTTTTAGAAAGATT
1 AGGGGTTAAAATGAAG-TTTTAGAAAGTTT
*
6661460 AGGGGTCAAAATGGAA-TTTTAGAAAGTTT
1 AGGGGTTAAAAT-GAAGTTTTAGAAAGTTT
* * *
6661489 AGGGGTTAAAAATGAAATTCTAGAAAATTT
1 AGGGGTT-AAAATGAAGTTTTAGAAAGTTT
*
6661519 -GAGGGTAAAAAATGAAGTTTTAGAAAG-TT
1 AG-GGGT-TAAAATGAAGTTTTAGAAAGTTT
* * *
6661548 CGGAGGTCAAAAATGAATTTTTAGAAAG
1 AGG-GGT-TAAAATGAAGTTTTAGAAAG
6661576 CTCGAGGGTA
Statistics
Matches: 145, Mismatches: 18, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
28 2 0.01
29 69 0.48
30 71 0.49
31 3 0.02
ACGTcount: A:0.42, C:0.04, G:0.23, T:0.31
Consensus pattern (29 bp):
AGGGGTTAAAATGAAGTTTTAGAAAGTTT
Found at i:6661601 original size:60 final size:60
Alignment explanation
Indices: 6661467--6661588 Score: 149
Period size: 60 Copynumber: 2.0 Consensus size: 60
6661457 ATTAGGGGTC
* * *
6661467 AAAATGGAA-TTTTAGAAAGTTTAGGGGTTAAAAATGAAATTCTAGAAAATTTGAGGGTAA
1 AAAAT-GAAGTTTTAGAAAGTTTAGGGGTCAAAAATGAAATTCTAGAAAACTCGAGGGTAA
* * * *
6661527 AAAATGAAGTTTTAGAAAG-TTCGGAGGTCAAAAATGAATTTTTAGAAAGCTCGAGGGTAA
1 AAAATGAAGTTTTAGAAAGTTTAGG-GGTCAAAAATGAAATTCTAGAAAACTCGAGGGTAA
6661587 AA
1 AA
6661589 TTTTAATTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
59 7 0.13
60 46 0.87
ACGTcount: A:0.44, C:0.04, G:0.24, T:0.28
Consensus pattern (60 bp):
AAAATGAAGTTTTAGAAAGTTTAGGGGTCAAAAATGAAATTCTAGAAAACTCGAGGGTAA
Found at i:6662813 original size:18 final size:17
Alignment explanation
Indices: 6662763--6662814 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
6662753 GGTGCTTCGA
*
6662763 GCAGAGGAACCGTCTCAG
1 GCAGA-GAAACGTCTCAG
* *
6662781 GTAGGAAAAACGTCTCAG
1 GCA-GAGAAACGTCTCAG
6662799 GCAGAGAAACGGTCTC
1 GCAGAGAAAC-GTCTC
6662815 GGGAGCTGAG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
17 6 0.22
18 19 0.70
19 2 0.07
ACGTcount: A:0.33, C:0.23, G:0.31, T:0.13
Consensus pattern (17 bp):
GCAGAGAAACGTCTCAG
Found at i:6663351 original size:77 final size:77
Alignment explanation
Indices: 6663254--6663702 Score: 577
Period size: 77 Copynumber: 5.8 Consensus size: 77
6663244 CTACGGTCAG
* * * * *
6663254 GGTAAGAAATTGGGTGTTTCAA-CTTGCCCCATGATTGAGGTAAAAGACTGCATGTCTTCAATCT
1 GGTAAGAGATTGGATTTTTCAATC-TGCCCCATGATCGGGGTAAAAGACTGCATGTCTTCAATCT
6663318 GCCTTCTGATTAA
65 GCCTTCTGATTAA
*
6663331 GGTAAGAGATTGGATTTTTCAATATTG-CCCATGATCGGGGTAAGAA-ACTGCATGTCTTCAATC
1 GGTAAGAGATTGGATTTTTCAAT-CTGCCCCATGATCGGGGTAA-AAGACTGCATGTCTTCAATC
* *
6663394 TTCCTTTTGATTAA
64 TGCCTTCTGATTAA
** * * *
6663408 GACAAGAGATTGTATTCTTCAATCTGCCCCATGATCAGGGTAAAAGACTGCATGTCTTCAATCTG
1 GGTAAGAGATTGGATTTTTCAATCTGCCCCATGATCGGGGTAAAAGACTGCATGTCTTCAATCTG
6663473 CCTTCTGATTAA
66 CCTTCTGATTAA
* * *
6663485 GGTAAGAGATTGGATTCTTT-AATCTGCCCCATGATCGGGGTAAGAGACTGCTTGTCTTCAATTT
1 GGTAAGAGATTGGATT-TTTCAATCTGCCCCATGATCGGGGTAAAAGACTGCATGTCTTCAATCT
6663549 GCCTTCTGATTAA
65 GCCTTCTGATTAA
* * * *
6663562 GGTAAGAGATTGGATTCTTT-AATCTGCCCAATGATCGGGGTAAGAGACTGCATGTATTCAATTT
1 GGTAAGAGATTGGATT-TTTCAATCTGCCCCATGATCGGGGTAAAAGACTGCATGTCTTCAATCT
* *
6663626 TCCTTTTGATTAA
65 GCCTTCTGATTAA
* * * *
6663639 TGTAAGAGATTGGATTCTTCAATCTGCCCCATGATCGGGGTAAAAGATTGAATG-CTTCAATCTG
1 GGTAAGAGATTGGATTTTTCAATCTGCCCCATGATCGGGGTAAAAGACTGCATGTCTTCAATCTG
6663703 TTCCATGATC
Statistics
Matches: 327, Mismatches: 38, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
76 13 0.04
77 308 0.94
78 6 0.02
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.34
Consensus pattern (77 bp):
GGTAAGAGATTGGATTTTTCAATCTGCCCCATGATCGGGGTAAAAGACTGCATGTCTTCAATCTG
CCTTCTGATTAA
Found at i:6663658 original size:231 final size:230
Alignment explanation
Indices: 6663278--6663702 Score: 667
Period size: 231 Copynumber: 1.8 Consensus size: 230
6663268 TGTTTCAACT
*
6663278 TGCCCCATGATTGAGGTAAAAGACTGCATGTCTTCAATCTGCCTTCTGATTAAGGTAAGAGATTG
1 TGCCCCATGATCGAGGTAAAAGACTGCATGTCTTCAATCTGCCTTCTGATTAAGGTAAGAGATTG
* *
6663343 GATTTTTCAATATTGCCCATGATCGGGGTAAGAAACTGCATGTCTTCAATCTTCCTTTTGATTAA
66 GATTTTTCAATACTGCCCATGATCGGGGTAAGAAACTGCATGTATTCAATCTTCCTTTTGATTAA
* *
6663408 GACAAGAGATTGTATTCTTCAATCTGCCCCATGATCAGGGTAAAAGACTGCATGTCTTCAATCTG
131 GACAAGAGATTGGATTCTTCAATCTGCCCCATGATCAGGGTAAAAGACTGAATG-CTTCAATCTG
6663473 CCTTCTGATTAAGGTAAGAGATTGGATTCTTTAATC
195 CCTTCTGATTAAGGTAAGAGATTGGATTCTTTAATC
* * * *
6663509 TGCCCCATGATCGGGGTAAGAGACTGCTTGTCTTCAATTTGCCTTCTGATTAAGGTAAGAGATTG
1 TGCCCCATGATCGAGGTAAAAGACTGCATGTCTTCAATCTGCCTTCTGATTAAGGTAAGAGATTG
* *
6663574 GATTCTTT-AAT-CTGCCCAATGATCGGGGTAAGAGACTGCATGTATTCAATTTTCCTTTTGATT
66 GATT-TTTCAATACTGCCC-ATGATCGGGGTAAGAAACTGCATGTATTCAATCTTCCTTTTGATT
* * *
6663637 AATG-TAAGAGATTGGATTCTTCAATCTGCCCCATGATCGGGGTAAAAGATTGAATGCTTCAATC
129 AA-GACAAGAGATTGGATTCTTCAATCTGCCCCATGATCAGGGTAAAAGACTGAATGCTTCAATC
6663701 TG
193 TG
6663703 TTCCATGATC
Statistics
Matches: 177, Mismatches: 14, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
230 15 0.08
231 158 0.89
232 4 0.02
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (230 bp):
TGCCCCATGATCGAGGTAAAAGACTGCATGTCTTCAATCTGCCTTCTGATTAAGGTAAGAGATTG
GATTTTTCAATACTGCCCATGATCGGGGTAAGAAACTGCATGTATTCAATCTTCCTTTTGATTAA
GACAAGAGATTGGATTCTTCAATCTGCCCCATGATCAGGGTAAAAGACTGAATGCTTCAATCTGC
CTTCTGATTAAGGTAAGAGATTGGATTCTTTAATC
Found at i:6663701 original size:115 final size:115
Alignment explanation
Indices: 6663285--6663820 Score: 422
Period size: 115 Copynumber: 4.6 Consensus size: 115
6663275 ACTTGCCCCA
* * * * * * * * * *
6663285 TGATTGAGGTAAAAGACTGCATGTCTTCAATCTGCCTTC-TGATTAAGGTAAGAGATTGGAT-TT
1 TGATTAAGGTAAGAGATTGGAT-TCTTCAATCTGCC-CCATGATCAGGGTAAAAGATTGCATGTC
* * *
6663348 TTCAATATTGCCCATGATCGGGGTAAGAAACTGCATGTCTTCAATCTTCCTTT
64 TTCAAT-CTGCCCATGATCGGGGTAAGAGACTGCATGTCTTCAATCTGCCTTT
** * *
6663401 TGATTAAGACAAGAGATTGTATTCTTCAATCTGCCCCATGATCAGGGTAAAAGACTGCATGTCTT
1 TGATTAAGGTAAGAGATTGGATTCTTCAATCTGCCCCATGATCAGGGTAAAAGATTGCATGTCTT
*** * * * ***
6663466 CAATCTGCCTTC-TGATTAAGGTAAGAGATTGGAT-TCTTTAATCTGCCCCA
66 CAATCTGCC--CATGATCGGGGTAAGAGACTGCATGTCTTCAATCTGCCTTT
*** * ** * * * * * *
6663516 TGATCGGGGTAAGAGACTGCTTGTCTTCAATTTGCCTTC-TGATTAAGGTAAGAGATTGGAT-TC
1 TGATTAAGGTAAGAGATTGGAT-TCTTCAATCTGCC-CCATGATCAGGGTAAAAGATTGCATGTC
* * * *
6663579 TTTAATCTGCCCAATGATCGGGGTAAGAGACTGCATGTATTCAATTTTCCTTT
64 TTCAATCTGCCC-ATGATCGGGGTAAGAGACTGCATGTCTTCAATCTGCCTTT
* * *
6663632 TGATTAATGTAAGAGATTGGATTCTTCAATCTGCCCCATGATCGGGGTAAAAGATTGAATG-CTT
1 TGATTAAGGTAAGAGATTGGATTCTTCAATCTGCCCCATGATCAGGGTAAAAGATTGCATGTCTT
* * * * * * *
6663696 CAATCTGTTCCATGATCGGAGTAAAAGATTGTC-TATCTTTAATCTGCCTTC
66 CAATCTG-CCCATGATCGGGGTAAGAGACTG-CATGTCTTCAATCTGCCTTT
* * * *
6663747 TGATTAAGGTACGAGATTGGATTCTTCAATCTGCCTCATGATCGGGGTAAAAGATTGCCTGTCTT
1 TGATTAAGGTAAGAGATTGGATTCTTCAATCTGCCCCATGATCAGGGTAAAAGATTGCATGTCTT
6663812 CAATCTGCC
66 CAATCTGCC
6663821 TTCTAATTAA
Statistics
Matches: 322, Mismatches: 84, Indels: 29
0.74 0.19 0.07
Matches are distributed among these distances:
113 1 0.00
114 2 0.01
115 212 0.66
116 105 0.33
117 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (115 bp):
TGATTAAGGTAAGAGATTGGATTCTTCAATCTGCCCCATGATCAGGGTAAAAGATTGCATGTCTT
CAATCTGCCCATGATCGGGGTAAGAGACTGCATGTCTTCAATCTGCCTTT
Found at i:6663765 original size:269 final size:269
Alignment explanation
Indices: 6663414--6663995 Score: 828
Period size: 269 Copynumber: 2.2 Consensus size: 269
6663404 TTAAGACAAG
* * ** * *
6663414 AGATTGTATTCTTCAATCTGCCCCATGATCAGG-GTAAAAGACTGCATGTCTTCAATCTGCCTTC
1 AGATTGAATGCTTCAATCTGTTCCATGATC-GGAGTAAAAGATTGCATATCTTCAATCTGCCTTC
* * *
6663478 TGATTAAGGTAAGAGATTGGATTCTTTAATCTGCCCCATGATCGGGGTAAGAGACTGCTTGTCTT
65 TGATTAAGGTAAGAGATTGGATTCTTCAATCTGCCCCATGATCGGGGTAAAAGACTGCCTGTCTT
* * * *
6663543 CAATTTGCCTTCTGATTAAGGTAAGAGATTGGATTCTTTAATCTGCCCAATGATCGGGGTAAGAG
130 CAATCTGCCTTCTAATTAAGGTAAGAGATTGGATTCTTCAATATGCCCAATGATCGGGGTAAGAG
* * * * *
6663608 ACTGCATGTATTCAATTTTCCTTTTGATTAATGTAAGAGATTGGATTCTTCAATCTGCCCCATGA
195 ACTACATGTATTCAATCTGCCTTTTGATTAAGGTAAGAGATTGGATTCTTCAATCTACCCCATGA
6663673 TCGGGGTAAA
260 TCGGGGTAAA
*
6663683 AGATTGAATGCTTCAATCTGTTCCATGATCGGAGTAAAAGATTGTC-TATCTTTAATCTGCCTTC
1 AGATTGAATGCTTCAATCTGTTCCATGATCGGAGTAAAAGATTG-CATATCTTCAATCTGCCTTC
* * *
6663747 TGATTAAGGTACGAGATTGGATTCTTCAATCTGCCTCATGATCGGGGTAAAAGATTGCCTGTCTT
65 TGATTAAGGTAAGAGATTGGATTCTTCAATCTGCCCCATGATCGGGGTAAAAGACTGCCTGTCTT
* * *
6663812 CAATCTGCCTTCTAATTAAGGTAATAGATTGGATTCTTCAATATGCCCCATGATTGGGGTAAGAG
130 CAATCTGCCTTCTAATTAAGGTAAGAGATTGGATTCTTCAATATGCCCAATGATCGGGGTAAGAG
* *
6663877 ACTACATGTCTTCAATCTGCCTTTTGATTAAGGTGAGAGATTGGATTCTTCAATCTACCCCATGA
195 ACTACATGTATTCAATCTGCCTTTTGATTAAGGTAAGAGATTGGATTCTTCAATCTACCCCATGA
*
6663942 TCGGGGTAAG
260 TCGGGGTAAA
** * *
6663952 AGACGGGATGCTTCAATCTGCTT-CATGATCGGAGTAAGAGATTG
1 AGATTGAATGCTTCAATCTG-TTCCATGATCGGAGTAAAAGATTG
6663996 GTGGGTAGCT
Statistics
Matches: 278, Mismatches: 32, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
268 2 0.01
269 273 0.98
270 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (269 bp):
AGATTGAATGCTTCAATCTGTTCCATGATCGGAGTAAAAGATTGCATATCTTCAATCTGCCTTCT
GATTAAGGTAAGAGATTGGATTCTTCAATCTGCCCCATGATCGGGGTAAAAGACTGCCTGTCTTC
AATCTGCCTTCTAATTAAGGTAAGAGATTGGATTCTTCAATATGCCCAATGATCGGGGTAAGAGA
CTACATGTATTCAATCTGCCTTTTGATTAAGGTAAGAGATTGGATTCTTCAATCTACCCCATGAT
CGGGGTAAA
Found at i:6663790 original size:192 final size:192
Alignment explanation
Indices: 6663485--6663897 Score: 526
Period size: 192 Copynumber: 2.1 Consensus size: 192
6663475 TTCTGATTAA
* * * * * * *
6663485 GGTAAGAGATTGGATTCTTTAATCTGCCCCATGATCGGGGTAAGAGACTGCTTGTCTTCAATTTG
1 GGTAAGAGATTGAATGCTTCAATCTGCCCCATGATCGGAGTAAAAGACTGCTTATCTTCAATCTG
* *
6663550 CCTTCTGATTAAGGTAAGAGATTGGATTCTTTAATCTGCCCAATGATCGGGGTAAGAGACTGCAT
66 CCTTCTGATTAAGGTAAGAGATTGGATTCTTCAATCTGCCCAATGATCGGGGTAAAAGACTGCAT
* * * * * *
6663615 GTATTCAATTTTCCTTTTGATTAATGTAAGAGATTGGATTCTTCAATCTGCCCCATGATCGG
131 GTATTCAATCTGCCTTCTAATTAAGGTAAGAGATTGGATTCTTCAATATGCCCCATGATCGG
* ** * *
6663677 GGTAAAAGATTGAATGCTTCAATCTGTTCCATGATCGGAGTAAAAGATTG-TCTATCTTTAATCT
1 GGTAAGAGATTGAATGCTTCAATCTGCCCCATGATCGGAGTAAAAGACTGCT-TATCTTCAATCT
* *
6663741 GCCTTCTGATTAAGGTACGAGATTGGATTCTTCAATCTGCCTC-ATGATCGGGGTAAAAGATTGC
65 GCCTTCTGATTAAGGTAAGAGATTGGATTCTTCAATCTGCC-CAATGATCGGGGTAAAAGACTGC
* * * *
6663805 CTGTCTTCAATCTGCCTTCTAATTAAGGTAATAGATTGGATTCTTCAATATGCCCCATGATTGG
129 ATGTATTCAATCTGCCTTCTAATTAAGGTAAGAGATTGGATTCTTCAATATGCCCCATGATCGG
*
6663869 GGTAAGAGACT-ACATGTCTTCAATCTGCC
1 GGTAAGAGATTGA-ATG-CTTCAATCTGCC
6663898 TTTTGATTAA
Statistics
Matches: 187, Mismatches: 30, Indels: 7
0.83 0.13 0.03
Matches are distributed among these distances:
191 2 0.01
192 174 0.93
193 11 0.06
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (192 bp):
GGTAAGAGATTGAATGCTTCAATCTGCCCCATGATCGGAGTAAAAGACTGCTTATCTTCAATCTG
CCTTCTGATTAAGGTAAGAGATTGGATTCTTCAATCTGCCCAATGATCGGGGTAAAAGACTGCAT
GTATTCAATCTGCCTTCTAATTAAGGTAAGAGATTGGATTCTTCAATATGCCCCATGATCGG
Found at i:6663812 original size:154 final size:154
Alignment explanation
Indices: 6663654--6663995 Score: 368
Period size: 154 Copynumber: 2.2 Consensus size: 154
6663644 GAGATTGGAT
* * **
6663654 TCTTCAATCTGCCCCATGATCGGGGTAAAAGATTGAATGCTTCAATCTGTTCCATGATCGGAGTA
1 TCTTCAATCTGCCTCATGATCGGGGTAAAAGATTGAATGCTTCAATATGCCCCATGATCGGAGTA
* * * *
6663719 AAAGATTGTC-TATCTTTAATCTGCCTTCTGATTAAGGT-ACGAGATTGGATTCTTCAATCTGCC
66 AAAGACT-ACATATCTTCAATCTGCCTTCTGATTAAGGTGA-GAGATTGGATTCTTCAATCTACC
* ** *
6663782 TCATGATCGGGGTAAAAGATTGCCTG
129 CCATGATCGGGGTAAAAGACGGCATG
* *** * * * * *
6663808 TCTTCAATCTGCCTTC-TAATTAAGGTAATAGATTGGATTCTTCAATATGCCCCATGATTGGGGT
1 TCTTCAATCTGCC-TCATGATCGGGGTAAAAGATTGAATGCTTCAATATGCCCCATGATCGGAGT
* * *
6663872 AAGAGACTACATGTCTTCAATCTGCCTTTTGATTAAGGTGAGAGATTGGATTCTTCAATCTACCC
65 AAAAGACTACATATCTTCAATCTGCCTTCTGATTAAGGTGAGAGATTGGATTCTTCAATCTACCC
* *
6663937 CATGATCGGGGTAAGAGACGGGATG
130 CATGATCGGGGTAAAAGACGGCATG
* * *
6663962 -CTTCAATCTGCTTCATGATCGGAGTAAGAGATTG
1 TCTTCAATCTGCCTCATGATCGGGGTAAAAGATTG
6663996 GTGGGTAGCT
Statistics
Matches: 151, Mismatches: 33, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
152 2 0.01
153 25 0.17
154 122 0.81
155 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (154 bp):
TCTTCAATCTGCCTCATGATCGGGGTAAAAGATTGAATGCTTCAATATGCCCCATGATCGGAGTA
AAAGACTACATATCTTCAATCTGCCTTCTGATTAAGGTGAGAGATTGGATTCTTCAATCTACCCC
ATGATCGGGGTAAAAGACGGCATG
Found at i:6663951 original size:77 final size:76
Alignment explanation
Indices: 6663683--6663980 Score: 332
Period size: 77 Copynumber: 3.9 Consensus size: 76
6663673 TCGGGGTAAA
* * ** * * * * *
6663683 AGATTGAATGCTTCAATCTGTTCCATGATCGGAGTAAAAGATTGTC-TATCTTTAATCTGCCTTC
1 AGATTGGATTCTTCAATCTGCCCCATGATCGGGGTAAGAGACTG-CATGTCTTCAATCTGCCTTC
6663747 TGATTAAGGTACG
65 TGATTAAGGTA-G
* * * *
6663760 AGATTGGATTCTTCAATCTGCCTCATGATCGGGGTAAAAGATTGCCTGTCTTCAATCTGCCTTCT
1 AGATTGGATTCTTCAATCTGCCCCATGATCGGGGTAAGAGACTGCATGTCTTCAATCTGCCTTCT
* *
6663825 AATTAAGGTAAT
66 GATTAAGGT-AG
* * * *
6663837 AGATTGGATTCTTCAATATGCCCCATGATTGGGGTAAGAGACTACATGTCTTCAATCTGCCTTTT
1 AGATTGGATTCTTCAATCTGCCCCATGATCGGGGTAAGAGACTGCATGTCTTCAATCTGCCTTCT
6663902 GATTAAGGTGAG
66 GATTAAGGT-AG
* * *
6663914 AGATTGGATTCTTCAATCTACCCCATGATCGGGGTAAGAGACGGGATG-CTTCAATCTG-CTTCA
1 AGATTGGATTCTTCAATCTGCCCCATGATCGGGGTAAGAGACTGCATGTCTTCAATCTGCCTTC-
6663977 TGAT
65 TGAT
6663981 CGGAGTAAGA
Statistics
Matches: 190, Mismatches: 28, Indels: 7
0.84 0.12 0.03
Matches are distributed among these distances:
75 3 0.02
76 15 0.08
77 171 0.90
78 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (76 bp):
AGATTGGATTCTTCAATCTGCCCCATGATCGGGGTAAGAGACTGCATGTCTTCAATCTGCCTTCT
GATTAAGGTAG
Found at i:6675526 original size:15 final size:16
Alignment explanation
Indices: 6675506--6675535 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6675496 AATGAAAGAT
6675506 AAAAAT-AAACAAAAA
1 AAAAATAAAACAAAAA
6675521 AAAAATAAAACAAAA
1 AAAAATAAAACAAAA
6675536 GGACTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.87, C:0.07, G:0.00, T:0.07
Consensus pattern (16 bp):
AAAAATAAAACAAAAA
Found at i:6675822 original size:30 final size:30
Alignment explanation
Indices: 6675786--6675900 Score: 135
Period size: 30 Copynumber: 3.9 Consensus size: 30
6675776 AATATTTTAG
* *
6675786 AATTTAAGGGTTAAAATGTAATTTTAAAAA
1 AATTTAAGGGTCAAAATGAAATTTTAAAAA
* * *
6675816 AATTTAAGGGTTAAAATAAAATTTTCAAAA
1 AATTTAAGGGTCAAAATGAAATTTTAAAAA
* *
6675846 ATTTTAGGGGTCAAAATGAAATTTCT-AAAA
1 AATTTAAGGGTCAAAATGAAATTT-TAAAAA
*
6675876 AGTTT-AGGGTCAAAATGAAATTTTA
1 AATTTAAGGGTCAAAATGAAATTTTA
6675901 GAAAGTTCGA
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
28 1 0.01
29 17 0.23
30 55 0.74
31 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.15, T:0.35
Consensus pattern (30 bp):
AATTTAAGGGTCAAAATGAAATTTTAAAAA
Found at i:6675831 original size:59 final size:59
Alignment explanation
Indices: 6675753--6675903 Score: 141
Period size: 59 Copynumber: 2.6 Consensus size: 59
6675743 TGAAATCTTG
** * * *
6675753 AAAAAATTTATCGGCTAAAATGTAATATTTTAGAA-TTTAAGGGTTAAAATGTAATTT-T
1 AAAAAATTTAAGGGTTAAAATGTAA-ATTTTAGAATTTTAAGGGTCAAAATGAAATTTCT
* * *
6675811 AAAAAAATTTAAGGGTTAAAAT-AAAATTTTCAAAAATTTTAGGGGTCAAAATGAAATTTCT
1 -AAAAAATTTAAGGGTTAAAATGTAAATTTT--AGAATTTTAAGGGTCAAAATGAAATTTCT
* *
6675872 AAAAAGTTT-AGGGTCAAAATG-AAATTTTAGAA
1 AAAAAATTTAAGGGTTAAAATGTAAATTTTAGAA
6675904 AGTTCGAAGG
Statistics
Matches: 76, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
57 8 0.11
58 2 0.03
59 38 0.50
60 27 0.36
61 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.15, T:0.34
Consensus pattern (59 bp):
AAAAAATTTAAGGGTTAAAATGTAAATTTTAGAATTTTAAGGGTCAAAATGAAATTTCT
Found at i:6675915 original size:29 final size:28
Alignment explanation
Indices: 6675854--6675935 Score: 94
Period size: 29 Copynumber: 2.8 Consensus size: 28
6675844 AAATTTTAGG
* * *
6675854 GGTCAAAATGAAATTTCTAAAAAGTTTAG
1 GGTCAAAATGAAATTT-TAGAAAGTTGAA
6675883 GGTCAAAATGAAATTTTAGAAAGTTCGAA
1 GGTCAAAATGAAATTTTAGAAAGTT-GAA
6675912 GGTCAAAAAT-AAATTTTCAGAAAG
1 GGTC-AAAATGAAATTTT-AGAAAG
6675936 CTCGGGGGTA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
28 8 0.17
29 28 0.60
30 11 0.23
ACGTcount: A:0.46, C:0.07, G:0.18, T:0.28
Consensus pattern (28 bp):
GGTCAAAATGAAATTTTAGAAAGTTGAA
Found at i:6675948 original size:29 final size:29
Alignment explanation
Indices: 6675853--6675948 Score: 79
Period size: 29 Copynumber: 3.3 Consensus size: 29
6675843 AAAATTTTAG
* * **
6675853 GGGTCAAAATGAAATTTCTAAAAAG-TTTA
1 GGGTAAAAATGAAATTT-TAGAAAGCTCGA
* *
6675882 GGGTCAAAATGAAATTTTAGAAAGTTCGA
1 GGGTAAAAATGAAATTTTAGAAAGCTCGA
* *
6675911 AGGTCAAAAAT-AAATTTTCAGAAAGCTCGG
1 GGGT-AAAAATGAAATTTT-AGAAAGCTCGA
6675941 GGGTAAAA
1 GGGTAAAA
6675949 TTTGAATTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
28 6 0.11
29 33 0.59
30 17 0.30
ACGTcount: A:0.44, C:0.08, G:0.22, T:0.26
Consensus pattern (29 bp):
GGGTAAAAATGAAATTTTAGAAAGCTCGA
Found at i:6676640 original size:16 final size:17
Alignment explanation
Indices: 6676591--6676641 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 17
6676581 ATTTTGTATT
*
6676591 TAAAAAAATAGATTTAC
1 TAAAAAAATTGATTTAC
*
6676608 TAAAATAGATCTTGATTT-C
1 TAAAA-A-A-ATTGATTTAC
6676627 TAAAAAAATTGATTT
1 TAAAAAAATTGATTT
6676642 TGATATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
16 7 0.25
17 6 0.21
18 2 0.07
19 7 0.25
20 6 0.21
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (17 bp):
TAAAAAAATTGATTTAC
Found at i:6677083 original size:18 final size:18
Alignment explanation
Indices: 6677060--6677118 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
6677050 GAAGGGTGCT
*
6677060 TTGGGCAGAGGAACCGTC
1 TTGGGCAGAGGAAACGTC
*
6677078 TTGGGCAG-GGAAAATGTC
1 TTGGGCAGAGG-AAACGTC
**
6677096 TTGGGCAGAGGAATGGTC
1 TTGGGCAGAGGAAACGTC
6677114 TTGGG
1 TTGGG
6677119 AGCTAGGAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
17 2 0.06
18 31 0.89
19 2 0.06
ACGTcount: A:0.22, C:0.14, G:0.42, T:0.22
Consensus pattern (18 bp):
TTGGGCAGAGGAAACGTC
Found at i:6681195 original size:39 final size:40
Alignment explanation
Indices: 6681141--6681220 Score: 135
Period size: 39 Copynumber: 2.0 Consensus size: 40
6681131 TATGCACTCA
6681141 ATGGACACCTTTTGAAGAGTCACAACCC-TTTCAAATTGG
1 ATGGACACCTTTTGAAGAGTCACAACCCTTTTCAAATTGG
* *
6681180 ATGGACAGCTTTTGAAGAGTCACAACCCTTTTCATATTGG
1 ATGGACACCTTTTGAAGAGTCACAACCCTTTTCAAATTGG
6681220 A
1 A
6681221 CATACCTCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 27 0.71
40 11 0.29
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (40 bp):
ATGGACACCTTTTGAAGAGTCACAACCCTTTTCAAATTGG
Found at i:6681236 original size:39 final size:38
Alignment explanation
Indices: 6681145--6681237 Score: 98
Period size: 39 Copynumber: 2.4 Consensus size: 38
6681135 CACTCAATGG
* *
6681145 ACACCTTTTGAAGAGTCACAACCCTTTCAAATTGGATGG
1 ACACCTTTGGAAGAGTCACAACCCTTTCAAATTGGA-GC
* * *
6681184 ACAGCTTTTGAAGAGTCACAACCCTTTTCATATTGGA-C
1 ACACCTTTGGAAGAGTCACAACCC-TTTCAAATTGGAGC
*
6681222 ATACCTCTTGGAAGAG
1 ACACCT-TTGGAAGAG
6681238 ACTTGTCCGA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
38 4 0.09
39 31 0.67
40 11 0.24
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (38 bp):
ACACCTTTGGAAGAGTCACAACCCTTTCAAATTGGAGC
Found at i:6684263 original size:28 final size:28
Alignment explanation
Indices: 6684223--6684279 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
6684213 ACCTCTTATT
6684223 AGAGTTCCATTTAATTCACAAACATCTG
1 AGAGTTCCATTTAATTCACAAACATCTG
6684251 AGAGTTCCATTTAATTCACAAACATCTG
1 AGAGTTCCATTTAATTCACAAACATCTG
6684279 A
1 A
6684280 ATGAATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.32
Consensus pattern (28 bp):
AGAGTTCCATTTAATTCACAAACATCTG
Found at i:6686166 original size:39 final size:40
Alignment explanation
Indices: 6686112--6686191 Score: 144
Period size: 39 Copynumber: 2.0 Consensus size: 40
6686102 TATGCACTAA
6686112 ATGGACACCTTTTGAAGAGTCACAACCC-TTTCAAATTGG
1 ATGGACACCTTTTGAAGAGTCACAACCCTTTTCAAATTGG
*
6686151 ATGGACACCTTTTGAAGAGTCACAACCCTTTTCATATTGG
1 ATGGACACCTTTTGAAGAGTCACAACCCTTTTCAAATTGG
6686191 A
1 A
6686192 CATACCTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 28 0.72
40 11 0.28
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (40 bp):
ATGGACACCTTTTGAAGAGTCACAACCCTTTTCAAATTGG
Found at i:6686207 original size:39 final size:38
Alignment explanation
Indices: 6686116--6686208 Score: 107
Period size: 39 Copynumber: 2.4 Consensus size: 38
6686106 CACTAAATGG
* *
6686116 ACACCTTTTGAAGAGTCACAACCCTTTCAAATTGGATGG
1 ACACCTTTGGAAGAGTCACAACCCTTTCAAATTGGA-GC
* *
6686155 ACACCTTTTGAAGAGTCACAACCCTTTTCATATTGGA-C
1 ACACCTTTGGAAGAGTCACAACCC-TTTCAAATTGGAGC
*
6686193 ATACCTCTTGGAAGAG
1 ACACCT-TTGGAAGAG
6686209 ACTTGTCTCA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
38 5 0.10
39 32 0.67
40 11 0.23
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (38 bp):
ACACCTTTGGAAGAGTCACAACCCTTTCAAATTGGAGC
Found at i:6689473 original size:7 final size:7
Alignment explanation
Indices: 6689461--6689487 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
6689451 TATTTTTTTT
6689461 TAATTTG
1 TAATTTG
6689468 TAATTTG
1 TAATTTG
6689475 TAATTTG
1 TAATTTG
6689482 TAATTT
1 TAATTT
6689488 ATGCAGGGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (7 bp):
TAATTTG
Found at i:6689568 original size:20 final size:20
Alignment explanation
Indices: 6689540--6689584 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
6689530 TCTAAAATGG
6689540 AATTTTTTTTAAAAATTTTTA
1 AATTTTTTTTAAAAA-TTTTA
*
6689561 AATTTTTTTTTAAAATTTTA
1 AATTTTTTTTAAAAATTTTA
6689581 AATT
1 AATT
6689585 AATAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
AATTTTTTTTAAAAATTTTA
Found at i:6691320 original size:29 final size:29
Alignment explanation
Indices: 6691237--6691320 Score: 68
Period size: 29 Copynumber: 2.9 Consensus size: 29
6691227 GTGCATTTTG
*
6691237 ATACAT-AAACTTTGA-TTTGATGCAGTT
1 ATACATGAAACTTTGATTTTGATTCAGTT
* * *
6691264 ATACACTTGACAC-TTGAATTGTGGTTCA-TAT
1 ATACA--TGAAACTTTG-ATTTTGATTCAGT-T
6691295 ATACATGAAACTTTGATTTTGATTCA
1 ATACATGAAACTTTGATTTTGATTCA
6691321 ATTGTATACA
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
27 5 0.12
29 18 0.42
30 8 0.19
31 12 0.28
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.40
Consensus pattern (29 bp):
ATACATGAAACTTTGATTTTGATTCAGTT
Found at i:6695108 original size:18 final size:19
Alignment explanation
Indices: 6695077--6695126 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
6695067 TAAAATATAA
*
6695077 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AA-TTTTAAAAATT
6695097 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTTAAAAATT
6695116 ATTTT-AATTTT
1 ATTTTGAATTTT
6695127 TTTTGTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 14 0.50
19 8 0.29
20 6 0.21
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTTGAATTTTAAAAATT
Found at i:6695108 original size:19 final size:20
Alignment explanation
Indices: 6695077--6695127 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
6695067 TAAAATATAA
*
6695077 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AATTTTTAAAAATT
6695097 ATTTTGAA-TTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
6695116 ATTTT-AATTTTT
1 ATTTTGAATTTTT
6695128 TTTGTAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 10 0.36
19 12 0.43
20 6 0.21
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAATT
Found at i:6696901 original size:19 final size:19
Alignment explanation
Indices: 6696820--6696906 Score: 75
Period size: 19 Copynumber: 4.5 Consensus size: 19
6696810 AGTAAGGGTA
** *
6696820 ACTAGCACGTAAAGTGCAT
1 ACTAGCACACAAAGCGCAT
6696839 ACTAGCACACAAAGCGCATT
1 ACTAGCACACAAAGCGCA-T
* * * *
6696859 ACTAGCACACGAGGTGTAT
1 ACTAGCACACAAAGCGCAT
* *
6696878 CCTAGCGCACAAAGCGCAT
1 ACTAGCACACAAAGCGCAT
*
6696897 ACTAGTACAC
1 ACTAGCACAC
6696907 GAATTTCATC
Statistics
Matches: 51, Mismatches: 16, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
19 36 0.71
20 15 0.29
ACGTcount: A:0.36, C:0.28, G:0.20, T:0.17
Consensus pattern (19 bp):
ACTAGCACACAAAGCGCAT
Found at i:6697832 original size:21 final size:21
Alignment explanation
Indices: 6697808--6697855 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
6697798 ACAAGTGACT
6697808 CTTCTATCGAAACAAGTATTA
1 CTTCTATCGAAACAAGTATTA
*
6697829 CTTCTATCGAAATAAGTATTA
1 CTTCTATCGAAACAAGTATTA
6697850 CTTCTA
1 CTTCTA
6697856 CCGATACTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (21 bp):
CTTCTATCGAAACAAGTATTA
Found at i:6699461 original size:15 final size:15
Alignment explanation
Indices: 6699441--6699475 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6699431 ATAAAAATAG
6699441 CAAAAAAAACAGCAA
1 CAAAAAAAACAGCAA
* *
6699456 CAAAAACAACAGCAT
1 CAAAAAAAACAGCAA
6699471 CAAAA
1 CAAAA
6699476 TAGTAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.69, C:0.23, G:0.06, T:0.03
Consensus pattern (15 bp):
CAAAAAAAACAGCAA
Found at i:6702434 original size:23 final size:23
Alignment explanation
Indices: 6702404--6702447 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
6702394 ACCCTTCTTT
*
6702404 ATATATATATATATTTGTTGGAA
1 ATATATATAGATATTTGTTGGAA
*
6702427 ATATATATAGCTATTTGTTGG
1 ATATATATAGATATTTGTTGG
6702448 TGTGAGCTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (23 bp):
ATATATATAGATATTTGTTGGAA
Found at i:6703810 original size:8 final size:8
Alignment explanation
Indices: 6703797--6703825 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
6703787 AATTTTACTA
6703797 TTAAAAAT
1 TTAAAAAT
6703805 TTAAAAAT
1 TTAAAAAT
6703813 TTAAAAAT
1 TTAAAAAT
6703821 TTAAA
1 TTAAA
6703826 GAACCTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TTAAAAAT
Found at i:6707069 original size:18 final size:17
Alignment explanation
Indices: 6707046--6707106 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 17
6707036 GATTTAAATT
6707046 AATTTAAATTAATCTTTA
1 AATTTAAATT-ATCTTTA
6707064 AATTTAAATTTATCTTTTTA
1 AATTTAAA-TTATC--TTTA
6707084 AATTTAAATT-TGCTTTA
1 AATTTAAATTAT-CTTTA
6707101 AATTTA
1 AATTTA
6707107 GTTAAATTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
17 10 0.26
18 12 0.31
19 5 0.13
20 12 0.31
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (17 bp):
AATTTAAATTATCTTTA
Found at i:6707085 original size:20 final size:18
Alignment explanation
Indices: 6707046--6707106 Score: 79
Period size: 20 Copynumber: 3.3 Consensus size: 18
6707036 GATTTAAATT
*
6707046 AATTTAAATTAATCTTTA
1 AATTTAAATTTATCTTTA
6707064 AATTTAAATTTATCTTTTTA
1 AATTTAAATTTATC--TTTA
*
6707084 AATTTAAATTT-GCTTTA
1 AATTTAAATTTATCTTTA
6707101 AATTTA
1 AATTTA
6707107 GTTAAATTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
17 10 0.26
18 13 0.33
19 1 0.03
20 15 0.38
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (18 bp):
AATTTAAATTTATCTTTA
Found at i:6728721 original size:38 final size:38
Alignment explanation
Indices: 6728609--6728723 Score: 151
Period size: 38 Copynumber: 3.0 Consensus size: 38
6728599 ACAAAAACAA
* * * *
6728609 TAGACATGCTTAACATGTAATCAGTTCAATAGTAGCAA
1 TAGACATGCTTAACATGTATTCAGTTCAACAGTCGCAG
*
6728647 TAGACATGTTTAACATGTATTCAGTTCAACAGTCGCAG
1 TAGACATGCTTAACATGTATTCAGTTCAACAGTCGCAG
* *
6728685 TAGACATGCTTCACATGCT-TTCAGTTCAACAATCGCAG
1 TAGACATGCTTAACATG-TATTCAGTTCAACAGTCGCAG
6728723 T
1 T
6728724 GTTAGCAGTA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 67 0.99
39 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (38 bp):
TAGACATGCTTAACATGTATTCAGTTCAACAGTCGCAG
Found at i:6728847 original size:6 final size:6
Alignment explanation
Indices: 6728827--6728913 Score: 60
Period size: 6 Copynumber: 15.0 Consensus size: 6
6728817 TTCAACTCAT
*
6728827 TTTAAA TTT-AT TTTAAA TTTAAA TTT--A TTCTAAAA TTTAAA TTT-AA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-T-AAA TTTAAA TTTAAA
* * * *
6728873 TTCAAG TTTAAA TTTATA TTTAAA ATT--A TTATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA
6728914 AAGAAAGTCC
Statistics
Matches: 62, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
4 5 0.08
5 10 0.16
6 40 0.65
7 4 0.06
8 3 0.05
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:6728847 original size:17 final size:17
Alignment explanation
Indices: 6728827--6728896 Score: 86
Period size: 17 Copynumber: 4.0 Consensus size: 17
6728817 TTCAACTCAT
6728827 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
6728844 TTTAAATTTATTCTAAAA
1 TTTAAATTTATT-TTAAA
* * *
6728862 TTTAAATTTAATTCAAG
1 TTTAAATTTATTTTAAA
6728879 TTTAAATTTATATTTAAA
1 TTTAAATTTAT-TTTAAA
6728897 ATTATTATAA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
17 25 0.57
18 19 0.43
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:6728868 original size:35 final size:36
Alignment explanation
Indices: 6728827--6728899 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 36
6728817 TTCAACTCAT
* *
6728827 TTTAAATTTATTTTAAATTTAAATTTAT-TCTAAAA
1 TTTAAATTTAATTCAAATTTAAATTTATATCTAAAA
* *
6728862 TTTAAATTTAATTCAAGTTTAAATTTATATTTAAAA
1 TTTAAATTTAATTCAAATTTAAATTTATATCTAAAA
6728898 TT
1 TT
6728900 ATTATAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
35 25 0.76
36 8 0.24
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.53
Consensus pattern (36 bp):
TTTAAATTTAATTCAAATTTAAATTTATATCTAAAA
Found at i:6728912 original size:17 final size:17
Alignment explanation
Indices: 6728827--6728914 Score: 53
Period size: 17 Copynumber: 5.4 Consensus size: 17
6728817 TTCAACTCAT
* *
6728827 TTTAAATTTATTTTAAA
1 TTTAAAATTATTATAAA
* *
6728844 TTTAAATTTATTCTAAAA
1 TTTAAAATTATTAT-AAA
* * *
6728862 TTTAAATTTAATT-CAAG
1 TTTAAAATT-ATTATAAA
6728879 TTT-AAA-T-TTAT--A
1 TTTAAAATTATTATAAA
6728891 TTTAAAATTATTATAAA
1 TTTAAAATTATTATAAA
6728908 TTTAAAA
1 TTTAAAA
6728915 AGAAAGTCCA
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
12 3 0.05
13 5 0.09
14 1 0.02
15 5 0.09
16 2 0.04
17 26 0.46
18 12 0.21
19 3 0.05
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.51
Consensus pattern (17 bp):
TTTAAAATTATTATAAA
Found at i:6730666 original size:29 final size:28
Alignment explanation
Indices: 6730623--6730706 Score: 96
Period size: 29 Copynumber: 2.9 Consensus size: 28
6730613 CTCTAAATTA
* *
6730623 CCAAAAACTATATTTTGACCTCGAAACTT
1 CCAAAAATTACATTTTGACCTC-AAACTT
*
6730652 CCAAAAATTACATTTTTACCCTCAAACTT
1 CCAAAAATTACATTTTGA-CCTCAAACTT
* *
6730681 CCAAAAATTTCATTTTTGACCCCAAA
1 CCAAAAATTACA-TTTTGACCTCAAA
6730707 ATTTTAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 38 0.81
30 9 0.19
ACGTcount: A:0.38, C:0.26, G:0.04, T:0.32
Consensus pattern (28 bp):
CCAAAAATTACATTTTGACCTCAAACTT
Found at i:6730715 original size:29 final size:29
Alignment explanation
Indices: 6730617--6730727 Score: 91
Period size: 29 Copynumber: 3.7 Consensus size: 29
6730607 GAAGGTCTCT
* * *
6730617 AAATTACCAAAAACTATATTTTGA-CCTCGA
1 AAATT-CCAAAAATTACATTTTTACCCTC-A
*
6730647 AACTTCCAAAAATTACATTTTTACCCTCA
1 AAATTCCAAAAATTACATTTTTACCCTCA
* *
6730676 AACTTCCAAAAATTTCATTTTTGACCC-CA
1 AAATTCCAAAAATTACATTTTT-ACCCTCA
**
6730705 AAATTTTAAAAAATTACCATTTT
1 AAA-TTCCAAAAATTA-CATTTT
6730728 ATCCCCAAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
29 41 0.60
30 21 0.31
31 6 0.09
ACGTcount: A:0.41, C:0.22, G:0.03, T:0.35
Consensus pattern (29 bp):
AAATTCCAAAAATTACATTTTTACCCTCA
Found at i:6730728 original size:59 final size:57
Alignment explanation
Indices: 6730623--6730812 Score: 163
Period size: 59 Copynumber: 3.3 Consensus size: 57
6730613 CTCTAAATTA
* * * **
6730623 CCAAAAACTATATTTTGACCTCGAAACTTCCAAAAATTA-CATTTTTACCCTCAAACT-T
1 CCAAAAACTCTATTTTGACCCCAAAACTTTAAAAAATTACCA-TTTTACCC-CAAA-TGT
* *
6730681 CCAAAAA-TTTCATTTTTGACCCCAAAATTTTAAAAAATTACCATTTTATCCCCAAATGT
1 CCAAAAACTCT-A-TTTTGACCCCAAAACTTTAAAAAATTACCATTTTA-CCCCAAATGT
* * * **
6730740 CCCAAAACTCTATTTTGACCCTAAAACTTTCAAAAA-TACCATTTTACCCCTGGATGT
1 CCAAAAACTCTATTTTGACCCCAAAACTTTAAAAAATTACCATTTTACCCC-AAATGT
* *
6730797 CCAAAAATTTTATTTT
1 CCAAAAACTCTATTTT
6730813 TAATCCTGAT
Statistics
Matches: 109, Mismatches: 16, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
56 4 0.04
57 29 0.27
58 30 0.28
59 39 0.36
60 7 0.06
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35
Consensus pattern (57 bp):
CCAAAAACTCTATTTTGACCCCAAAACTTTAAAAAATTACCATTTTACCCCAAATGT
Found at i:6730783 original size:29 final size:28
Alignment explanation
Indices: 6730646--6730789 Score: 87
Period size: 29 Copynumber: 5.0 Consensus size: 28
6730636 TTTGACCTCG
6730646 AAACTTCCAAAAATTA-CATTTTTACCCTC-
1 AAACTTCCAAAAA-TACCA-TTTTACCC-CA
**
6730675 AAACTTCCAAAAATTTCATTTTTGACCCCA
1 AAACTTCCAAAAATACCA-TTTT-ACCCCA
* **
6730705 AAATTTTAAAAAATTACCATTTTATCCCCA
1 AAACTTCCAAAAA-TACCATTTTA-CCCCA
** * * * *
6730735 AATGTCCCAAAACT-CTATTTTGACCCTA
1 AAACTTCCAAAAATACCATTTT-ACCCCA
*
6730763 AAACTTTCAAAAATACCATTTTACCCC
1 AAACTTCCAAAAATACCATTTTACCCC
6730790 TGGATGTCCA
Statistics
Matches: 87, Mismatches: 21, Indels: 15
0.71 0.17 0.12
Matches are distributed among these distances:
28 24 0.28
29 30 0.34
30 30 0.34
31 3 0.03
ACGTcount: A:0.38, C:0.26, G:0.02, T:0.33
Consensus pattern (28 bp):
AAACTTCCAAAAATACCATTTTACCCCA
Found at i:6730859 original size:29 final size:29
Alignment explanation
Indices: 6730781--6730861 Score: 74
Period size: 30 Copynumber: 2.8 Consensus size: 29
6730771 AAAAATACCA
* * *
6730781 TTTTACCCCTGGATGTCCAAAAATTTTAT
1 TTTTACCCCTGGATGTCTAAAAATTATAG
** * *
6730810 TTTTAATCCT-GATTTTTCTAAAAATTATCG
1 TTTTACCCCTGGA--TGTCTAAAAATTATAG
6730840 TTTTACCCCTGGATGTCTAAAA
1 TTTTACCCCTGGATGTCTAAAA
6730862 TGTCATTTTT
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
28 2 0.05
29 16 0.41
30 19 0.49
31 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.10, T:0.43
Consensus pattern (29 bp):
TTTTACCCCTGGATGTCTAAAAATTATAG
Found at i:6730885 original size:58 final size:59
Alignment explanation
Indices: 6730770--6730919 Score: 155
Period size: 58 Copynumber: 2.6 Consensus size: 59
6730760 CTAAAACTTT
* * * * *
6730770 CAAAAA-TACCATTTTACCCCTGGATGTCCAAAAATTTTATTTTTAATCCTGATTTTTC
1 CAAAAATTATCATTTTACCCCTGGATGTCCAAAAATGTCATTTTTAATCCTAAATTTTC
* * *
6730828 TAAAAATTATCGTTTTACCCCTGGATGT-CTAAAATGTCATTTTTAACTCC-AAATTTTC
1 CAAAAATTATCATTTTACCCCTGGATGTCCAAAAATGTCATTTTTAA-TCCTAAATTTTC
* * *
6730886 CCAAAATTATCATTTTTCCCCCGAGA-GTCCAAAA
1 CAAAAATTATCATTTTACCCCTG-GATGTCCAAAA
6730920 TTACCATTTT
Statistics
Matches: 74, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
58 46 0.62
59 28 0.38
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (59 bp):
CAAAAATTATCATTTTACCCCTGGATGTCCAAAAATGTCATTTTTAATCCTAAATTTTC
Found at i:6730921 original size:28 final size:28
Alignment explanation
Indices: 6730886--6730946 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
6730876 CCAAATTTTC
* *
6730886 CCAAAATTATCATTTTTCCCCCGAG-AGT
1 CCAAAATTACCATTTTGCCCCCGAGCA-T
6730914 CCAAAATTACCATTTTGCCCCCGAGCAT
1 CCAAAATTACCATTTTGCCCCCGAGCAT
6730942 CCAAA
1 CCAAA
6730947 GTCTCATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 29 0.97
29 1 0.03
ACGTcount: A:0.31, C:0.33, G:0.10, T:0.26
Consensus pattern (28 bp):
CCAAAATTACCATTTTGCCCCCGAGCAT
Found at i:6735704 original size:19 final size:19
Alignment explanation
Indices: 6735665--6735722 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
6735655 TATTTAAGCG
* *
6735665 TAAAAATTATTACAATATTA
1 TAAAAATTATAAAAAT-TTA
*
6735685 TAAAAAATT-TAGAAATTTA
1 T-AAAAATTATAAAAATTTA
6735704 TAAAAATTATAAAAATTTA
1 TAAAAATTATAAAAATTTA
6735723 AATTTTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
18 7 0.22
19 13 0.41
20 5 0.16
21 7 0.22
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (19 bp):
TAAAAATTATAAAAATTTA
Found at i:6735724 original size:8 final size:9
Alignment explanation
Indices: 6735665--6735724 Score: 52
Period size: 9 Copynumber: 6.4 Consensus size: 9
6735655 TATTTAAGCG
6735665 TAAAAATTA
1 TAAAAATTA
*
6735674 TTACAATATTA
1 -TA-AAAATTA
6735685 TAAAAAATT-
1 T-AAAAATTA
*
6735694 TAGAAATTTA
1 TA-AAAATTA
6735704 TAAAAATTA
1 TAAAAATTA
6735713 TAAAAATT-
1 TAAAAATTA
6735721 TAAA
1 TAAA
6735725 TTTTTTATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
8 5 0.12
9 20 0.48
10 10 0.24
11 7 0.17
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (9 bp):
TAAAAATTA
Found at i:6736468 original size:20 final size:20
Alignment explanation
Indices: 6736435--6736478 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 20
6736425 TCTTTTTATC
6736435 TTTTTAATATTTTTCATATAA
1 TTTTTAATATTTTTC-TATAA
6736456 TTTTTAATATTTTTCTATAA
1 TTTTTAATATTTTTCTATAA
6736476 TTT
1 TTT
6736479 CTAAAAATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTTAATATTTTTCTATAA
Found at i:6740480 original size:14 final size:14
Alignment explanation
Indices: 6740463--6740517 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
6740453 TTTTAAAATT
6740463 TAAAATATAAAAAA
1 TAAAATATAAAAAA
* *
6740477 TAAAATTTTTAAAAA
1 TAAAA-TATAAAAAA
*
6740492 TAAAATATAAAAAC
1 TAAAATATAAAAAA
*
6740506 TAAAATTTAAAA
1 TAAAATATAAAA
6740518 GTTTGAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAAATATAAAAAA
Found at i:6740483 original size:29 final size:29
Alignment explanation
Indices: 6740451--6740526 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 29
6740441 ATTAAGTTTG
6740451 AATTTTAAAATTTAAAATATAAAAAATAA
1 AATTTTAAAATTTAAAATATAAAAAATAA
* *
6740480 AATTTTTAAAA-ATAAAATATAAAAACTAA
1 AA-TTTTAAAATTTAAAATATAAAAAATAA
6740509 AA-TTTAAAAGTTTGAAAA
1 AATTTTAAAA-TTT-AAAA
6740527 ATACTTGACG
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
27 7 0.17
29 21 0.52
30 12 0.30
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (29 bp):
AATTTTAAAATTTAAAATATAAAAAATAA
Found at i:6740496 original size:36 final size:36
Alignment explanation
Indices: 6740456--6740529 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 36
6740446 GTTTGAATTT
* * *
6740456 TAAAATTTAAAATA-TAAAAAATAAAATTTTTAAAAA
1 TAAAATATAAAA-ACTAAAAAATAAAAGTTTGAAAAA
**
6740492 TAAAATATAAAAACTAAAATTTAAAAGTTTGAAAAA
1 TAAAATATAAAAACTAAAAAATAAAAGTTTGAAAAA
6740528 TA
1 TA
6740530 CTTGACGTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
35 1 0.03
36 31 0.97
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (36 bp):
TAAAATATAAAAACTAAAAAATAAAAGTTTGAAAAA
Found at i:6740501 original size:22 final size:23
Alignment explanation
Indices: 6740461--6740503 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
6740451 AATTTTAAAA
6740461 TTTAAAATATAAAAAATAAAATT
1 TTTAAAATATAAAAAATAAAATT
*
6740484 TTTAAAA-ATAAAATATAAAA
1 TTTAAAATATAAAAAATAAAA
6740504 ACTAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
TTTAAAATATAAAAAATAAAATT
Found at i:6743837 original size:18 final size:17
Alignment explanation
Indices: 6743807--6743868 Score: 55
Period size: 18 Copynumber: 3.9 Consensus size: 17
6743797 ATATTTTAAA
*
6743807 TTTAATTTCAAATTTCG
1 TTTAATTTTAAATTTCG
6743824 TTTATATTTTAAA-----
1 TTTA-ATTTTAAATTTCG
6743837 TTTAATTTT-AATTTCG
1 TTTAATTTTAAATTTCG
6743853 TTTATATTTTAAATTT
1 TTTA-ATTTTAAATTT
6743869 AATTTCTAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 15
0.69 0.02 0.29
Matches are distributed among these distances:
11 2 0.06
12 5 0.14
13 4 0.11
16 4 0.11
17 9 0.25
18 12 0.33
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (17 bp):
TTTAATTTTAAATTTCG
Found at i:6743859 original size:29 final size:30
Alignment explanation
Indices: 6743758--6743879 Score: 201
Period size: 30 Copynumber: 4.1 Consensus size: 30
6743748 TTTTGATTTT
* *
6743758 ATTTCGTTTATTTTTTAAATTTAATTTGTA
1 ATTTCGTTTATATTTTAAATTTAATTTCTA
* *
6743788 ATTTTGTTTATATTTTAAATTTAATTTCAA
1 ATTTCGTTTATATTTTAAATTTAATTTCTA
6743818 ATTTCGTTTATATTTTAAATTTAATTT-TA
1 ATTTCGTTTATATTTTAAATTTAATTTCTA
6743847 ATTTCGTTTATATTTTAAATTTAATTTCTA
1 ATTTCGTTTATATTTTAAATTTAATTTCTA
6743877 ATT
1 ATT
6743880 ATTATTTTTT
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
29 28 0.33
30 57 0.67
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.61
Consensus pattern (30 bp):
ATTTCGTTTATATTTTAAATTTAATTTCTA
Found at i:6743859 original size:59 final size:60
Alignment explanation
Indices: 6743758--6743879 Score: 210
Period size: 59 Copynumber: 2.0 Consensus size: 60
6743748 TTTTGATTTT
* *
6743758 ATTTCGTTTATTTTTTAAATTTAATTTGTAATTTTGTTTATATTTTAAATTTAATTTCAA
1 ATTTCGTTTATATTTTAAATTTAATTTGTAATTTCGTTTATATTTTAAATTTAATTTCAA
*
6743818 ATTTCGTTTATATTTTAAATTTAATTT-TAATTTCGTTTATATTTTAAATTTAATTTCTA
1 ATTTCGTTTATATTTTAAATTTAATTTGTAATTTCGTTTATATTTTAAATTTAATTTCAA
6743877 ATT
1 ATT
6743880 ATTATTTTTT
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
59 33 0.56
60 26 0.44
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.61
Consensus pattern (60 bp):
ATTTCGTTTATATTTTAAATTTAATTTGTAATTTCGTTTATATTTTAAATTTAATTTCAA
Found at i:6744858 original size:55 final size:56
Alignment explanation
Indices: 6744779--6745048 Score: 261
Period size: 55 Copynumber: 4.9 Consensus size: 56
6744769 TTTAAGGGTT
* * * *
6744779 TCGACCAAGGCATGAGCGACACCAAAAAAATA-TTTTTTATCAGATAAATGAGGTG
1 TCGACCATGGCATGGGCAACACCAAAAAAATATTTTTTTATCAGATAAAGGAGGTG
* * * *
6744834 TCGACCATGGCATTGGCAATACC-AAAAAATATTTTTTTATCAAATAAAGAAGGTG
1 TCGACCATGGCATGGGCAACACCAAAAAAATATTTTTTTATCAGATAAAGGAGGTG
* * * *
6744889 CCGACAATGGCATGGGCGACACC-----AAT-TTTTTTTATTAGATAAAGGAGGTG
1 TCGACCATGGCATGGGCAACACCAAAAAAATATTTTTTTATCAGATAAAGGAGGTG
*** * * *
6744939 TC-AGCCATGGCATGGATGACACTAAAAAAAATATTTTTTTATCTGATAAAGGTGGTG
1 TCGA-CCATGGCATGGGCAACAC-CAAAAAAATATTTTTTTATCAGATAAAGGAGGTG
* *
6744996 TCAGCCCATGGCATGGGCAACACTAAAAAAATATTTTTTTTATCAGATAAAGG
1 TC-GACCATGGCATGGGCAACACCAAAAAAATA-TTTTTTTATCAGATAAAGG
6745049 TGCATGGGCG
Statistics
Matches: 173, Mismatches: 30, Indels: 21
0.77 0.13 0.09
Matches are distributed among these distances:
49 1 0.01
50 37 0.21
51 3 0.02
54 8 0.05
55 56 0.32
56 3 0.02
57 32 0.18
58 33 0.19
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (56 bp):
TCGACCATGGCATGGGCAACACCAAAAAAATATTTTTTTATCAGATAAAGGAGGTG
Found at i:6745010 original size:58 final size:57
Alignment explanation
Indices: 6744913--6745050 Score: 190
Period size: 58 Copynumber: 2.4 Consensus size: 57
6744903 GGCGACACCA
* **
6744913 ATTTTTTTTAT-TAGATAAAGGAGGTGTCAGCCATGGCATGGATGACACTAAAAAAA-
1 ATTTTTTTTATCT-GATAAAGGTGGTGTCAGCCATGGCATGGACAACACTAAAAAAAT
*
6744969 ATATTTTTTTATCTGATAAAGGTGGTGTCAGCCCATGGCATGGGCAACACTAAAAAAAT
1 AT-TTTTTTTATCTGATAAAGGTGGTGTCAG-CCATGGCATGGACAACACTAAAAAAAT
*
6745028 ATTTTTTTTATCAGATAAAGGTG
1 ATTTTTTTTATCTGATAAAGGTG
6745051 CATGGGCGAC
Statistics
Matches: 73, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
56 2 0.03
57 25 0.34
58 44 0.60
59 2 0.03
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (57 bp):
ATTTTTTTTATCTGATAAAGGTGGTGTCAGCCATGGCATGGACAACACTAAAAAAAT
Found at i:6745069 original size:44 final size:44
Alignment explanation
Indices: 6745006--6745094 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 44
6744996 TCAGCCCATG
* *
6745006 GCATGGGCAACACTAAAAAAATATTTTTTTTATCAGATAAAGGT
1 GCATGGGCAACACCAAAAAAATAATTTTTTTATCAGATAAAGGT
* **
6745050 GCATGGGCGACACCAAAAAAATAATTTTTTTATTTGATAAAGGT
1 GCATGGGCAACACCAAAAAAATAATTTTTTTATCAGATAAAGGT
6745094 G
1 G
6745095 GTGTCGATCA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.31
Consensus pattern (44 bp):
GCATGGGCAACACCAAAAAAATAATTTTTTTATCAGATAAAGGT
Found at i:6745088 original size:102 final size:99
Alignment explanation
Indices: 6744963--6745195 Score: 296
Period size: 101 Copynumber: 2.4 Consensus size: 99
6744953 GATGACACTA
* *
6744963 AAAAAAATATTTTTTTATCTGATAAAGGTGGTGTCAGCCCATGGCATGGGCAACACTAAAAAAAT
1 AAAAAAATATTTTTTTATCTGATAAAGGTGGTGTC-GACCATGGCATGGGCAACACCAAAAAAAT
* *
6745028 ATTTTTTTTATCA-GATAAAGGTGCATGGGCGACACC
65 ATATTTTTTAT-ATGATAAAGG-CCATGGGCGACACC
* * * *
6745064 AAAAAAATAATTTTTTTATTTGATAAAGGTGGTGTCGATCATGGCATGGGCGACACCAAAAATAT
1 AAAAAAAT-ATTTTTTTATCTGATAAAGGTGGTGTCGACCATGGCATGGGCAACACCAAAAAAAT
* *
6745129 ATATTTTTTATATGATAAAGGCCATTGTCGACACC
65 ATATTTTTTATATGATAAAGGCCATGGGCGACACC
*
6745164 ---AAAA-ATTTTTTTATCTGATAAAGTTGGTGTCG
1 AAAAAAATATTTTTTTATCTGATAAAGGTGGTGTCG
6745196 GTTATGGCAT
Statistics
Matches: 118, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
95 26 0.22
97 4 0.03
100 12 0.10
101 50 0.42
102 26 0.22
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (99 bp):
AAAAAAATATTTTTTTATCTGATAAAGGTGGTGTCGACCATGGCATGGGCAACACCAAAAAAATA
TATTTTTTATATGATAAAGGCCATGGGCGACACC
Found at i:6759071 original size:29 final size:29
Alignment explanation
Indices: 6759030--6759085 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
6759020 CTGAGCTATA
*
6759030 AAAAATAATAAAAATTTAACTTAATTTTT
1 AAAAATAATAAAAATATAACTTAATTTTT
* *
6759059 AAAAATTATAAAAATATAATTTAATTT
1 AAAAATAATAAAAATATAACTTAATTT
6759086 CCGCCTTCTT
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:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (29 bp):
AAAAATAATAAAAATATAACTTAATTTTT
Found at i:6773131 original size:29 final size:28
Alignment explanation
Indices: 6773021--6773184 Score: 156
Period size: 28 Copynumber: 5.9 Consensus size: 28
6773011 CACAAGGGAT
*
6773021 TTCCTTTCTAGAGTTTGCCACAAAGGCT
1 TTCCTTTCTAGAGTTTGCCACAAAGGCA
* * * *
6773049 TTCCTTTCCAGAGTTTTCCACATAGGCT
1 TTCCTTTCTAGAGTTTGCCACAAAGGCA
* *
6773077 TTCGTTT-TAGAGGTTTGTCACAAAGGCA
1 TTCCTTTCTAGA-GTTTGCCACAAAGGCA
* *
6773105 TTCCTTTCTAGAGATTCGCCACTAAGGCA
1 TTCCTTTCTAGAG-TTTGCCACAAAGGCA
* *
6773134 TT-TTTTC-AGAGTTTTGCCACAAAGGTA
1 TTCCTTTCTAGAG-TTTGCCACAAAGGCA
*
6773161 TT-CTTACTAGAGTTTTGCCACAAA
1 TTCCTTTCTAGAG-TTTGCCACAAA
6773185 TTCTTTCCTT
Statistics
Matches: 112, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
27 24 0.21
28 70 0.62
29 18 0.16
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.37
Consensus pattern (28 bp):
TTCCTTTCTAGAGTTTGCCACAAAGGCA
Found at i:6773193 original size:84 final size:83
Alignment explanation
Indices: 6773009--6773195 Score: 193
Period size: 84 Copynumber: 2.2 Consensus size: 83
6772999 TACCTAATTA
* * * *
6773009 GCCACAAGGGATTTCCTTTCTAGAGTTTGCCACAAAGGCTTTCCTTTCCAGAGTTTTCCACATAG
1 GCCACAAAGGCTTTCCTTTCTAGAGTTCGCCACAAAGGCTTT-CTTTCCAGAGTTTTCCACAAAG
*
6773074 GCTTTCGTTTTAGAGGTTT
65 GCTTTCGTTCTAGAGGTTT
* * *
6773093 GTCACAAAGGCATTCCTTTCTAGAGATTCGCCACTAAGGCATTT-TTT-CAGAGTTTTGCCACAA
1 GCCACAAAGGCTTTCCTTTCTAGAG-TTCGCCACAAAGGC-TTTCTTTCCAGAGTTTT-CCACAA
*
6773156 AGG-TATTC-TTACTAGAGTTTT
63 AGGCT-TTCGTT-CTAGAGGTTT
**
6773177 GCCACAAATTCTTTCCTTT
1 GCCACAAAGGCTTTCCTTT
6773196 AATAATGATC
Statistics
Matches: 85, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
83 12 0.14
84 58 0.68
85 12 0.14
86 3 0.04
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (83 bp):
GCCACAAAGGCTTTCCTTTCTAGAGTTCGCCACAAAGGCTTTCTTTCCAGAGTTTTCCACAAAGG
CTTTCGTTCTAGAGGTTT
Found at i:6773238 original size:29 final size:29
Alignment explanation
Indices: 6773175--6773240 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
6773165 TACTAGAGTT
* * * **
6773175 TTGCCACAAATTCTTTCCTTTAATAATGA
1 TTGCCATAAATACTTTCCTTTAACAAAAA
*
6773204 TCGCCATAAATACTTTCCTTTAACAAAAA
1 TTGCCATAAATACTTTCCTTTAACAAAAA
6773233 TTGCCATA
1 TTGCCATA
6773241 GAGGCTTTCT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.36
Consensus pattern (29 bp):
TTGCCATAAATACTTTCCTTTAACAAAAA
Found at i:6774526 original size:2 final size:2
Alignment explanation
Indices: 6774519--6774553 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
6774509 ACCATGTATC
*
6774519 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6774554 CCATTATTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:6783408 original size:2 final size:2
Alignment explanation
Indices: 6783403--6783429 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6783393 TCTTTTTTTT
6783403 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
6783430 TCCAGAGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:6793406 original size:30 final size:30
Alignment explanation
Indices: 6793350--6793408 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
6793340 TAATTTTAAG
*
6793350 GGGAGGAAGGCTTTTGCTAGGCGACACCAA
1 GGGAGGAAGGCTTTTGCTAGACGACACCAA
* *
6793380 GGGAGGAGGGCTTTTG-TCAGATGACACCA
1 GGGAGGAAGGCTTTTGCT-AGACGACACCA
6793409 CTGTTAGTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.25, C:0.19, G:0.37, T:0.19
Consensus pattern (30 bp):
GGGAGGAAGGCTTTTGCTAGACGACACCAA
Found at i:6793826 original size:16 final size:18
Alignment explanation
Indices: 6793807--6793839 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6793797 ATTTTCAACA
6793807 TTAA-ATTTTTT-TGTTT
1 TTAATATTTTTTGTGTTT
6793823 TTAATATTTTTTGTGTT
1 TTAATATTTTTTGTGTT
6793840 GAAAATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 7 0.47
18 4 0.27
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (18 bp):
TTAATATTTTTTGTGTTT
Found at i:6794677 original size:17 final size:17
Alignment explanation
Indices: 6794655--6794688 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6794645 AGGCTGATAC
6794655 TTAAATTGAGTTTCTTT
1 TTAAATTGAGTTTCTTT
* *
6794672 TTAAATTTATTTTCTTT
1 TTAAATTGAGTTTCTTT
6794689 AAATTCTTAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.65
Consensus pattern (17 bp):
TTAAATTGAGTTTCTTT
Found at i:6796264 original size:29 final size:28
Alignment explanation
Indices: 6796232--6796517 Score: 110
Period size: 29 Copynumber: 9.7 Consensus size: 28
6796222 TAACTTTCGA
6796232 GGGTAAAAATGTAATTTTTGGTGAAATCG
1 GGGTAAAAATGTAA-TTTTGGTGAAATCG
* * *
6796261 GGGTTGAAAACG-AGATTTTAG-GAAATTCG
1 GGG-TAAAAATGTA-ATTTTGGTGAAA-TCG
6796290 AGGAGT-AAAATGGTAATTTTGGTGAAATCG
1 -GG-GTAAAAAT-GTAATTTTGGTGAAATCG
** *
6796320 GGGTTAAAAATGGGATTTT--AGAAAGTTCG
1 GGG-TAAAAATGTAATTTTGGTGAAA--TCG
* *
6796349 AGGGTAAAAATGGTAATTTTTGATGAAACCG
1 -GGGTAAAAAT-GTAA-TTTTGGTGAAATCG
* **
6796380 GGGTTAAAATGGGATTTT-G-GAAAGTTCAG
1 GGGTAAAAATGTAATTTTGGTGAAA--TC-G
*
6796409 GGGT-AAAATGGTAATTTTTGGTGAAATTG
1 GGGTAAAAAT-GTAA-TTTTGGTGAAATCG
* ** *
6796438 GGATTAAAAATGGGATTTT-G-GAAAGTTTAG
1 GG-GTAAAAATGTAATTTTGGTGAAA---TCG
6796468 GGGT-AAAATGGTAATTTTTGGTGAAATCG
1 GGGTAAAAAT-GTAA-TTTTGGTGAAATCG
6796497 GGGTTAAAAATG-AGATTTTGG
1 GGG-TAAAAATGTA-ATTTTGG
6796518 AAAGTTTAAG
Statistics
Matches: 193, Mismatches: 28, Indels: 72
0.66 0.10 0.25
Matches are distributed among these distances:
26 4 0.02
27 8 0.04
28 21 0.11
29 66 0.34
30 58 0.30
31 24 0.12
32 8 0.04
33 4 0.02
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.32
Consensus pattern (28 bp):
GGGTAAAAATGTAATTTTGGTGAAATCG
Found at i:6796310 original size:59 final size:59
Alignment explanation
Indices: 6796227--6796547 Score: 429
Period size: 59 Copynumber: 5.4 Consensus size: 59
6796217 ATTTTTAACT
* * *
6796227 TTCGAGGGTAAAAAT-GTAATTTTTGGTGAAATCGGGGTTGAAAACGAGATTTTAGGAAA-
1 TTCGAGGGT-AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTT-GGAAAG
*
6796286 TTCGAGGAGTAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGGATTTTAGAAAG
1 TTCGAGG-GTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAG
* *
6796345 TTCGAGGGTAAAAATGGTAATTTTTGATGAAACCGGGGTT-AAAATGGGATTTTGGAAAG
1 TTCGAGGGT-AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAG
* *
6796404 TTC-AGGGGTAAAATGGTAATTTTTGGTGAAATTGGGATTAAAAATGGGATTTTGGAAAG
1 TTCGA-GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAG
* *
6796463 TT-TAGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGAGATTTTGGAAAG
1 TTCGA-GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAG
** *
6796522 TTTAAGGGTAAAATTGTAATTTTTGG
1 TTCGAGGGTAAAATGGTAATTTTTGG
6796548 ACAGTTCAAG
Statistics
Matches: 237, Mismatches: 16, Indels: 18
0.87 0.06 0.07
Matches are distributed among these distances:
58 33 0.14
59 180 0.76
60 24 0.10
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.33
Consensus pattern (59 bp):
TTCGAGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAG
Found at i:6796515 original size:30 final size:29
Alignment explanation
Indices: 6796235--6796515 Score: 105
Period size: 30 Copynumber: 9.5 Consensus size: 29
6796225 CTTTCGAGGG
*
6796235 TAAAAATGTAATTTTTGGTGAAATCGGGGT
1 TAAAAATG-GATTTTTGGTGAAATCGGGGT
* * *
6796265 TGAAAACGAGA-TTTTAG-GAAATTCGAGGAG-
1 TAAAAATG-GATTTTTGGTGAAA-TCG-GG-GT
*
6796295 T-AAAATGGTAATTTTGGTGAAATCGGGGT
1 TAAAAATGG-ATTTTTGGTGAAATCGGGGT
*
6796324 TAAAAATGGGA-TTTT--AGAAAGTTCGAGGG-
1 TAAAAAT-GGATTTTTGGTGAAA--TCG-GGGT
* *
6796353 TAAAAATGGTAATTTTTGATGAAACCGGGGT
1 TAAAAATGG--ATTTTTGGTGAAATCGGGGT
6796384 T-AAAATGGGA-TTTT-G-GAAAGTTCAGGGG-
1 TAAAAAT-GGATTTTTGGTGAAA--TC-GGGGT
* *
6796412 T-AAAATGGTAATTTTTGGTGAAATTGGGAT
1 TAAAAATGG--ATTTTTGGTGAAATCGGGGT
*
6796442 TAAAAATGGGA-TTTT-G-GAAAGTTTAGGGG-
1 TAAAAAT-GGATTTTTGGTGAAA---TCGGGGT
6796471 T-AAAATGGTAATTTTTGGTGAAATCGGGGT
1 TAAAAATGG--ATTTTTGGTGAAATCGGGGT
6796501 TAAAAATGAGATTTT
1 TAAAAATG-GATTTT
6796516 GGAAAGTTTA
Statistics
Matches: 193, Mismatches: 17, Indels: 82
0.66 0.06 0.28
Matches are distributed among these distances:
26 4 0.02
27 12 0.06
28 25 0.13
29 51 0.26
30 57 0.30
31 29 0.15
32 11 0.06
33 4 0.02
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (29 bp):
TAAAAATGGATTTTTGGTGAAATCGGGGT
Found at i:6796548 original size:30 final size:30
Alignment explanation
Indices: 6796453--6796558 Score: 78
Period size: 30 Copynumber: 3.6 Consensus size: 30
6796443 AAAAATGGGA
* *
6796453 TTTTGGAAAGTTTAGGGGTAAAATGGTAAT
1 TTTTGGAAAGTTTAAGGGTAAAATTGTAAT
** *
6796483 TTTTGGTGAAA---TCGGGGTTAAAAATG-AGA-
1 TTTT-G-GAAAGTTTAAGGG-TAAAATTGTA-AT
6796512 TTTTGGAAAGTTTAAGGGTAAAATTGTAAT
1 TTTTGGAAAGTTTAAGGGTAAAATTGTAAT
* *
6796542 TTTTGGACAGTTCAAGG
1 TTTTGGAAAGTTTAAGG
6796559 ACCTATAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 18
0.69 0.09 0.21
Matches are distributed among these distances:
27 4 0.07
28 1 0.02
29 18 0.31
30 31 0.53
31 1 0.02
32 4 0.07
ACGTcount: A:0.33, C:0.03, G:0.28, T:0.36
Consensus pattern (30 bp):
TTTTGGAAAGTTTAAGGGTAAAATTGTAAT
Found at i:6797634 original size:3 final size:3
Alignment explanation
Indices: 6797626--6797668 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
6797616 TAATGCTGTA
6797626 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
6797669 ATGTCATTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:6798120 original size:25 final size:22
Alignment explanation
Indices: 6798092--6798143 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 22
6798082 CAAGCAATGG
6798092 CGGTGACAGCAACAGTTGGAGCAGC
1 CGGTGACAGC-A-A-TTGGAGCAGC
**
6798117 CGGTGGTAGCAATTGGAGCAGC
1 CGGTGACAGCAATTGGAGCAGC
6798139 CGGTG
1 CGGTG
6798144 GTGGCAGTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 15 0.60
23 1 0.04
24 1 0.04
25 8 0.32
ACGTcount: A:0.23, C:0.21, G:0.40, T:0.15
Consensus pattern (22 bp):
CGGTGACAGCAATTGGAGCAGC
Found at i:6798369 original size:31 final size:32
Alignment explanation
Indices: 6798303--6798383 Score: 92
Period size: 31 Copynumber: 2.5 Consensus size: 32
6798293 TAATTTTTAG
* * *
6798303 TTTAATATCATTTTAAATTTGATTAAACTTAAA
1 TTTAAAATAATTTTAAA-TTGAGTAAACTTAAA
* *
6798336 TTTAAAGTAATTTTAAA-TGAGTAAATTTAAA
1 TTTAAAATAATTTTAAATTGAGTAAACTTAAA
*
6798367 TTTAAAATAAATTTAAA
1 TTTAAAATAATTTTAAA
6798384 ACCCATTTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 27 0.66
33 14 0.34
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.44
Consensus pattern (32 bp):
TTTAAAATAATTTTAAATTGAGTAAACTTAAA
Found at i:6805826 original size:52 final size:52
Alignment explanation
Indices: 6805743--6806035 Score: 444
Period size: 52 Copynumber: 5.7 Consensus size: 52
6805733 GTAAATAAAG
* *
6805743 AAAAGGTCCAATGACTATGTGTCATCTTGAGTATATGAATCCTTTATGGATT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
6805795 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* * *
6805847 AAAAAGTTCGATGACTATGTGTCATCGTGAGTATATTAATCCTTTATGGATT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
*
6805899 AAAAGGTCCGATGACTATGGGTCATCGTGAGTATATGAATCC-TTATGGATT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* * * * * * *
6805950 AAAAGGTCCGATGACTATGTGTAATCATGAGTATCTGATTCCTTCACGGTTT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* *
6806002 AAGAGGTCCGATGATTATGTGTCATCGTGAGTAT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTAT
6806036 TAAATGGAAT
Statistics
Matches: 219, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
51 46 0.21
52 173 0.79
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.35
Consensus pattern (52 bp):
AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
Found at i:6806026 original size:155 final size:156
Alignment explanation
Indices: 6805743--6806035 Score: 453
Period size: 155 Copynumber: 1.9 Consensus size: 156
6805733 GTAAATAAAG
* *
6805743 AAAAGGTCCAATGACTATGTGTCATCTTGAGTATATGAATCCTTTATGGATTAAAAGGTCCGATG
1 AAAAGGTCCAATGACTATGGGTCATCGTGAGTATATGAATCCTTTATGGATTAAAAGGTCCGATG
* * * * *
6805808 ACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTAAAAAGTTCGATGACTATGTGTCATC
66 ACTATGTGTAATCATGAGTATATGAATCCTTCACGGATTAAAAAGTCCGATGACTATGTGTCATC
6805873 GTGAGTATATTAATCCTTTATGGATT
131 GTGAGTATATTAATCCTTTATGGATT
*
6805899 AAAAGGTCCGATGACTATGGGTCATCGTGAGTATATGAATCC-TTATGGATTAAAAGGTCCGATG
1 AAAAGGTCCAATGACTATGGGTCATCGTGAGTATATGAATCCTTTATGGATTAAAAGGTCCGATG
* * * * * *
6805963 ACTATGTGTAATCATGAGTATCTGATTCCTTCACGGTTTAAGAGGTCCGATGATTATGTGTCATC
66 ACTATGTGTAATCATGAGTATATGAATCCTTCACGGATTAAAAAGTCCGATGACTATGTGTCATC
6806028 GTGAGTAT
131 GTGAGTAT
6806036 TAAATGGAAT
Statistics
Matches: 123, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
155 84 0.68
156 39 0.32
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.35
Consensus pattern (156 bp):
AAAAGGTCCAATGACTATGGGTCATCGTGAGTATATGAATCCTTTATGGATTAAAAGGTCCGATG
ACTATGTGTAATCATGAGTATATGAATCCTTCACGGATTAAAAAGTCCGATGACTATGTGTCATC
GTGAGTATATTAATCCTTTATGGATT
Found at i:6819368 original size:13 final size:13
Alignment explanation
Indices: 6819350--6819374 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6819340 GTATAATCGT
6819350 ATAAAAATTTTAA
1 ATAAAAATTTTAA
6819363 ATAAAAATTTTA
1 ATAAAAATTTTA
6819375 CGGCTTTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAAAAATTTTAA
Found at i:6825167 original size:38 final size:37
Alignment explanation
Indices: 6825122--6825200 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
6825112 GTGTCATTAT
** *
6825122 TTTACTTCGGATAGATTCGATGAGGTACTGGGTACCAC
1 TTTACTTCGGATAG-GCCGATGAGATACTGGGTACCAC
* **
6825160 TTTACTTCGGCTAGGCCGATGAGATACTGGGTGTCAC
1 TTTACTTCGGATAGGCCGATGAGATACTGGGTACCAC
6825197 TTTA
1 TTTA
6825201 TTGCTTCGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
37 22 0.63
38 13 0.37
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.33
Consensus pattern (37 bp):
TTTACTTCGGATAGGCCGATGAGATACTGGGTACCAC
Found at i:6826182 original size:17 final size:19
Alignment explanation
Indices: 6826149--6826185 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
6826139 TTCACAAGTA
6826149 TTTTGAGGATAAAAAATAT
1 TTTTGAGGATAAAAAATAT
6826168 TTTTGA-GAT-AAAAATAT
1 TTTTGAGGATAAAAAATAT
6826185 T
1 T
6826186 ATTAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
18 3 0.17
19 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.41
Consensus pattern (19 bp):
TTTTGAGGATAAAAAATAT
Found at i:6826250 original size:53 final size:53
Alignment explanation
Indices: 6826160--6826261 Score: 127
Period size: 53 Copynumber: 1.9 Consensus size: 53
6826150 TTTGAGGATA
* *
6826160 AAAAATATTTTTGAGATAAAAATATTATTAAATAAAATACTTTTAAAATTTTC
1 AAAAATATTTTTGAGATAAAAATATGATTAAAAAAAATACTTTTAAAATTTTC
* * *
6826213 AAAAATATTTTTTG-GATAAAAA-ATGCTTGAAAAAAAATATTTTTTAAAT
1 AAAAATA-TTTTTGAGATAAAAATATGATT-AAAAAAAATACTTTTAAAAT
6826262 CAAAAGCTGA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
52 4 0.10
53 32 0.76
54 6 0.14
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (53 bp):
AAAAATATTTTTGAGATAAAAATATGATTAAAAAAAATACTTTTAAAATTTTC
Found at i:6827218 original size:17 final size:18
Alignment explanation
Indices: 6827198--6827231 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6827188 TTATGTATGA
6827198 TTTAAA-AAATTAATTAT
1 TTTAAATAAATTAATTAT
*
6827215 TTTAAATAATTTAATTA
1 TTTAAATAAATTAATTA
6827232 CAATTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTAAATAAATTAATTAT
Found at i:6832168 original size:31 final size:32
Alignment explanation
Indices: 6832119--6832179 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
6832109 AATTTAATCC
6832119 ATTTTAATTTCATATTTTT-TCAAATTTTAAA
1 ATTTTAATTTCATATTTTTATCAAATTTTAAA
* *
6832150 ATTTTAA-TTCTATTTTTTTATTAAATTTTA
1 ATTTTAATTTC-ATATTTTTATCAAATTTTA
6832180 TTATTAGACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 3 0.12
31 14 0.54
32 9 0.35
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (32 bp):
ATTTTAATTTCATATTTTTATCAAATTTTAAA
Found at i:6832321 original size:6 final size:6
Alignment explanation
Indices: 6832310--6832337 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
6832300 GCTCATGAAC
6832310 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
6832338 GAAAACCCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:6832485 original size:26 final size:27
Alignment explanation
Indices: 6832431--6832486 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
6832421 TCAAATGAAG
6832431 CTTTACTTCCCACTTCTCCTTTTGTCT
1 CTTTACTTCCCACTTCTCCTTTTGTCT
* *
6832458 CTTTACTTCCGATTTCT-CTTTTGTCT
1 CTTTACTTCCCACTTCTCCTTTTGTCT
6832484 CTT
1 CTT
6832487 CACCTCTCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 12 0.44
27 15 0.56
ACGTcount: A:0.07, C:0.32, G:0.05, T:0.55
Consensus pattern (27 bp):
CTTTACTTCCCACTTCTCCTTTTGTCT
Found at i:6833077 original size:6 final size:6
Alignment explanation
Indices: 6833068--6833114 Score: 94
Period size: 6 Copynumber: 7.8 Consensus size: 6
6833058 CCTAACCCTG
6833068 CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT CATTT
1 CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT CATTT
6833115 CACTGAGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (6 bp):
CATTTT
Found at i:6834370 original size:21 final size:22
Alignment explanation
Indices: 6834324--6834373 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
6834314 TTTATATTTT
*
6834324 TTAAAAAATTATATAAAAAATT
1 TTAAAAAATTATATAAAAAATG
*
6834346 TTAAAGAA-TATATAAAGAAA-G
1 TTAAAAAATTATATAAA-AAATG
6834367 TTAAAAA
1 TTAAAAA
6834374 TTTCTAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (22 bp):
TTAAAAAATTATATAAAAAATG
Found at i:6834393 original size:9 final size:10
Alignment explanation
Indices: 6834368--6834392 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
6834358 TAAAGAAAGT
6834368 TAAAAATTTC
1 TAAAAATTTC
6834378 TAAAAATTTC
1 TAAAAATTTC
6834388 TAAAA
1 TAAAA
6834393 TAATAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (10 bp):
TAAAAATTTC
Found at i:6835808 original size:14 final size:14
Alignment explanation
Indices: 6835772--6835809 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
6835762 TATTCATTTC
6835772 TTTTAATTTTTTAT
1 TTTTAATTTTTTAT
*
6835786 ATTTAATTTTTT-T
1 TTTTAATTTTTTAT
6835799 TTTTATATTTT
1 TTTTA-ATTTT
6835810 GGTTTTCTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 5 0.24
14 16 0.76
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTAATTTTTTAT
Found at i:6836562 original size:13 final size:13
Alignment explanation
Indices: 6836525--6836564 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 13
6836515 AATTTTACTT
6836525 TCAATTAAAATTA
1 TCAATTAAAATTA
*
6836538 TAAATTTAAAAATTA
1 TCAA-TT-AAAATTA
6836553 TCAATTAAAATT
1 TCAATTAAAATT
6836565 TATTATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.39
14 4 0.17
15 10 0.43
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (13 bp):
TCAATTAAAATTA
Found at i:6836567 original size:14 final size:14
Alignment explanation
Indices: 6836525--6836580 Score: 53
Period size: 14 Copynumber: 4.0 Consensus size: 14
6836515 AATTTTACTT
6836525 TCAATTAAAA-TTA
1 TCAATTAAAATTTA
* *
6836538 TAAATTTAAAAATTA
1 TCAA-TTAAAATTTA
6836553 TCAATTAAAATTTA
1 TCAATTAAAATTTA
*
6836567 T-TATTAAATATTTA
1 TCAATTAAA-ATTTA
6836581 ATTTAAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
13 9 0.25
14 21 0.58
15 6 0.17
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TCAATTAAAATTTA
Found at i:6836586 original size:13 final size:14
Alignment explanation
Indices: 6836556--6836592 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
6836546 AAAATTATCA
*
6836556 ATTAAA-ATTTATT
1 ATTAAATATTTAAT
6836569 ATTAAATATTTAAT
1 ATTAAATATTTAAT
6836583 -TTAAATATTT
1 ATTAAATATTT
6836593 GTTAAGAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
ATTAAATATTTAAT
Done.