Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 189 of 255
Found at i:62778031 original size:37 final size:37
Alignment explanation
Indices: 62777981--62778095 Score: 185
Period size: 37 Copynumber: 3.1 Consensus size: 37
62777971 GGAAATATAT
*
62777981 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
62778018 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
62778055 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTACG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
62778092 TCCG
1 TCCG
62778096 AGCTAAAGGT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:62779490 original size:80 final size:80
Alignment explanation
Indices: 62779379--62779708 Score: 552
Period size: 80 Copynumber: 4.1 Consensus size: 80
62779369 GGGCTAAATC
* * * *
62779379 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 CCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATG
62779444 TATCCGGACTAAGTT
66 TATCCGGACTAAGTT
62779459 CCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATG
1 CCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATG
62779524 TATCCGGACTAAGTT
66 TATCCGGACTAAGTT
62779539 CCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATG
1 CCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATG
62779604 TATCCGGACTAAGTT
66 TATCCGGACTAAGTT
* * * * *
62779619 CCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTA
1 CCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATG
* * *
62779684 TATCCGGGCTAGGTC
66 TATCCGGACTAAGTT
62779699 CCGAAGAGCA
1 CCGAAGAGCA
62779709 ATCATGCTGG
Statistics
Matches: 238, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 238 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATG
TATCCGGACTAAGTT
Found at i:62779720 original size:40 final size:40
Alignment explanation
Indices: 62779357--62779708 Score: 497
Period size: 40 Copynumber: 8.8 Consensus size: 40
62779347 GAGAATTGAG
* * *
62779357 AGTGAAATGTCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
62779397 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
62779437 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
62779477 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
62779517 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
62779557 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
62779597 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* **
62779637 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
62779677 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
62779709 ATCATGCTGG
Statistics
Matches: 278, Mismatches: 34, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 278 1.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:62818660 original size:296 final size:296
Alignment explanation
Indices: 62818126--62818698 Score: 952
Period size: 296 Copynumber: 1.9 Consensus size: 296
62818116 TAGCATATCG
*
62818126 TACCATGCAATGCTAAACTTGGTCTTCCACTGTCTACACTCTTATCACTATTTATCCCTTCTTGA
1 TACCATGCAATGCTAAACTTGGTCTTCCACTGTCTACACTCTTATCACTATTTATCCCATCTTGA
*
62818191 AAGCTAGAAGTTGGATACATAACAAGACTATTCCAATTATTAGCATCAAAGTATTGGTCCATACT
66 AAGCTAAAAGTTGGATACATAACAAGACTATTCCAATTATTAGCATCAAAGTATTGGTCCATACT
*
62818256 CTGACTATTACTACCTTCGATGATGTTAGTAGAATTCACTTAATTTAGGTTTGCTAATTCATTCC
131 CTGACTATTACTACCTTCGATGATGTTAGTAGAATTCACTTAATTCAGGTTTGCTAATTCATTCC
* * * *** * *
62818321 AATTTAGAGTAAAATTTATTCTTACAGCCTCTATTTTGAGTCTACGAGACCCTAAAAATAGTCTA
196 AATTCAGAATAAAACTTACAATTACAGCCTCTATTTCGAGTCTACAAGACCCTAAAAATAGTCTA
62818386 AAAACT-GGCAAGGACTAGTAACCAAATAGTGTACCA
261 AAAA-TAGGCAAGGACTAGTAACCAAATAGTGTACCA
* *
62818422 TACCATGCAATGCTAAACTTGGTTTTCCACTGTCTACACTCTTCTCACTATTTATCCCATCTTGA
1 TACCATGCAATGCTAAACTTGGTCTTCCACTGTCTACACTCTTATCACTATTTATCCCATCTTGA
* * *
62818487 AAGCTAAAAGTTGGATGCATAACAATACTATTCCAATTATTAGCATCAGAGTATTGGTCCATACT
66 AAGCTAAAAGTTGGATACATAACAAGACTATTCCAATTATTAGCATCAAAGTATTGGTCCATACT
*
62818552 -TCGACTATTACTACCTTCGATGATTTTAGTAGAATTCACTTAATTCAGGTTTGCTAATTCATTC
131 CT-GACTATTACTACCTTCGATGATGTTAGTAGAATTCACTTAATTCAGGTTTGCTAATTCATTC
*
62818616 CAATTCAGAATAAAACTTACAATTATAGCCTCTATTTCGAGTCTACAAGACCCTAAAAATAGTCT
195 CAATTCAGAATAAAACTTACAATTACAGCCTCTATTTCGAGTCTACAAGACCCTAAAAATAGTCT
62818681 AAAAATAGGCAAGGACTA
260 AAAAATAGGCAAGGACTA
62818699 ATTTGGAGCA
Statistics
Matches: 257, Mismatches: 18, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
295 2 0.01
296 255 0.99
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.34
Consensus pattern (296 bp):
TACCATGCAATGCTAAACTTGGTCTTCCACTGTCTACACTCTTATCACTATTTATCCCATCTTGA
AAGCTAAAAGTTGGATACATAACAAGACTATTCCAATTATTAGCATCAAAGTATTGGTCCATACT
CTGACTATTACTACCTTCGATGATGTTAGTAGAATTCACTTAATTCAGGTTTGCTAATTCATTCC
AATTCAGAATAAAACTTACAATTACAGCCTCTATTTCGAGTCTACAAGACCCTAAAAATAGTCTA
AAAATAGGCAAGGACTAGTAACCAAATAGTGTACCA
Found at i:62824265 original size:25 final size:25
Alignment explanation
Indices: 62824193--62824259 Score: 116
Period size: 25 Copynumber: 2.7 Consensus size: 25
62824183 TCTTGATCCA
*
62824193 TATAACGGGGAGCTGATGTGAGCTG
1 TATAACGGGGAGCTCATGTGAGCTG
62824218 TATAACGGGGAGCTCATGTGAGCTG
1 TATAACGGGGAGCTCATGTGAGCTG
*
62824243 TATAACGGGAAGCTCAT
1 TATAACGGGGAGCTCAT
62824260 AAGAGCCATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.27, C:0.15, G:0.34, T:0.24
Consensus pattern (25 bp):
TATAACGGGGAGCTCATGTGAGCTG
Found at i:62824285 original size:49 final size:49
Alignment explanation
Indices: 62824228--62824330 Score: 131
Period size: 49 Copynumber: 2.1 Consensus size: 49
62824218 TATAACGGGG
* *
62824228 AGCTCATGTGAGCTGTATAACGGGAAGC-TCATAAGAGCCA-TA-TCCAGGA
1 AGCTCATGTGAGCT-AATAACAGGAAGCTTCA-AAGAGCCATTAGT-CAGGA
*
62824277 AGCTCATGTGAGCTAATAACAGGTAGCTTCAAAGAGCCATTAGTCAGGA
1 AGCTCATGTGAGCTAATAACAGGAAGCTTCAAAGAGCCATTAGTCAGGA
62824326 AGCTC
1 AGCTC
62824331 CAGATAGCCA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
48 18 0.38
49 29 0.60
50 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.21
Consensus pattern (49 bp):
AGCTCATGTGAGCTAATAACAGGAAGCTTCAAAGAGCCATTAGTCAGGA
Found at i:62824304 original size:24 final size:25
Alignment explanation
Indices: 62824193--62824290 Score: 108
Period size: 25 Copynumber: 4.0 Consensus size: 25
62824183 TCTTGATCCA
* *
62824193 TATAACGGGGAGCTGATGTGAGCTG
1 TATAACGGGAAGCTCATGTGAGCTG
*
62824218 TATAACGGGGAGCTCATGTGAGCTG
1 TATAACGGGAAGCTCATGTGAGCTG
** **
62824243 TATAACGGGAAGCTCATAAGAGCCA
1 TATAACGGGAAGCTCATGTGAGCTG
* *
62824268 TAT-CCAGGAAGCTCATGTGAGCT
1 TATAACGGGAAGCTCATGTGAGCT
62824291 AATAACAGGT
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
24 15 0.24
25 47 0.76
ACGTcount: A:0.29, C:0.17, G:0.32, T:0.22
Consensus pattern (25 bp):
TATAACGGGAAGCTCATGTGAGCTG
Found at i:62824340 original size:73 final size:72
Alignment explanation
Indices: 62824263--62824403 Score: 158
Period size: 73 Copynumber: 1.9 Consensus size: 72
62824253 AGCTCATAAG
* * * * *
62824263 AGCCA-TATCCAGGAAGCTCATGTGAGCTAATAACAGGTAGCTTCAAAGAGCCATTAGTCAGGAA
1 AGCCATTATCCA-GAAGCTCAAGTGAGC-AATAACAGGAAGCTCCAAAGAGCCATTAATCAGAAA
62824327 GCTCCAGAT
64 GCTCCAGAT
* * * * *
62824336 AGCCATTTATCGAGAAGTTCAAGTGAGCCATATCAGGAAGCTCCGAAGAGCCATTAATCAGAAAG
1 AGCCA-TTATCCAGAAGCTCAAGTGAGCAATAACAGGAAGCTCCAAAGAGCCATTAATCAGAAAG
62824401 CTC
65 CTC
62824404 ACAAAGAGCT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
73 38 0.68
74 13 0.23
75 5 0.09
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.21
Consensus pattern (72 bp):
AGCCATTATCCAGAAGCTCAAGTGAGCAATAACAGGAAGCTCCAAAGAGCCATTAATCAGAAAGC
TCCAGAT
Found at i:62824418 original size:26 final size:26
Alignment explanation
Indices: 62824308--62824441 Score: 102
Period size: 25 Copynumber: 5.3 Consensus size: 26
62824298 GGTAGCTTCA
*
62824308 AAGAGCCATTAGTCAGGAAGCTC-C-
1 AAGAGCCATTAATCAGGAAGCTCACG
* * * *
62824332 AGATAGCCATTTATC-GAGAAGTTCAAG
1 A-AGAGCCATTAATCAG-GAAGCTCACG
*
62824359 -TGAGCCA-T-ATCAGGAAGCTC-CG
1 AAGAGCCATTAATCAGGAAGCTCACG
* *
62824381 AAGAGCCATTAATCAGAAAGCTCACA
1 AAGAGCCATTAATCAGGAAGCTCACG
** *
62824407 AAGAGCTTTTAATCGGGAAGCTCACG
1 AAGAGCCATTAATCAGGAAGCTCACG
62824433 AAGAGCCAT
1 AAGAGCCAT
62824442 ATATAGGGAA
Statistics
Matches: 82, Mismatches: 19, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
22 1 0.01
23 15 0.18
24 5 0.06
25 32 0.39
26 29 0.35
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
AAGAGCCATTAATCAGGAAGCTCACG
Found at i:62824450 original size:26 final size:26
Alignment explanation
Indices: 62824371--62824452 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 26
62824361 AGCCATATCA
62824371 GGAAGCTC-CGAAGAGCCATTAATCA-
1 GGAAGCTCACGAAGAGCCATTAAT-AG
* * ** *
62824396 GAAAGCTCACAAAGAGCTTTTAATCG
1 GGAAGCTCACGAAGAGCCATTAATAG
62824422 GGAAGCTCACGAAGAGCCA-TATATAG
1 GGAAGCTCACGAAGAGCCATTA-ATAG
62824448 GGAAG
1 GGAAG
62824453 TTCATTAGCG
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
25 9 0.20
26 35 0.80
ACGTcount: A:0.38, C:0.20, G:0.26, T:0.17
Consensus pattern (26 bp):
GGAAGCTCACGAAGAGCCATTAATAG
Found at i:62829671 original size:21 final size:22
Alignment explanation
Indices: 62829630--62829671 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
62829620 AAAATATAAA
*
62829630 TTATAACTTATAAATATTTTTT
1 TTATAACTTATAAATAATTTTT
*
62829652 TTATAATTTAT-AATAATTTT
1 TTATAACTTATAAATAATTTT
62829672 CTCAAATTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TTATAACTTATAAATAATTTTT
Found at i:62830373 original size:50 final size:50
Alignment explanation
Indices: 62830311--62830445 Score: 218
Period size: 50 Copynumber: 2.7 Consensus size: 50
62830301 CACATAGTAA
* *
62830311 GATGCCAATGCCATATCCCAGATATGGTCTTACAT-GGATTCACACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-TCACACATATC
62830361 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATATC
* *
62830411 GATTCCAATGCCATGTACCAGACATGGTCTTACAT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACAT
62830446 TAGATCTCAT
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
50 77 0.96
51 3 0.04
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (50 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATATC
Found at i:62831908 original size:74 final size:74
Alignment explanation
Indices: 62831787--62831933 Score: 285
Period size: 74 Copynumber: 2.0 Consensus size: 74
62831777 TCAGATACAT
62831787 AGTTCGGCCAAATCTACCGAATAATACATCTGCACATACAAAAATAATCATACGGACTTTCATCA
1 AGTTCGGCCAAATCTACCGAATAATACATCTGCACATACAAAAATAATCATACGGACTTTCATCA
62831852 TCAATCTAC
66 TCAATCTAC
*
62831861 AGTTCGGCCAAATCTACCGAATAATACATCTGTACATACAAAAATAATCATACGGACTTTCATCA
1 AGTTCGGCCAAATCTACCGAATAATACATCTGCACATACAAAAATAATCATACGGACTTTCATCA
62831926 TCAATCTA
66 TCAATCTA
62831934 TCACAATCCA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (74 bp):
AGTTCGGCCAAATCTACCGAATAATACATCTGCACATACAAAAATAATCATACGGACTTTCATCA
TCAATCTAC
Found at i:62837262 original size:22 final size:22
Alignment explanation
Indices: 62837237--62837291 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
62837227 ATAAAGGATG
*
62837237 AATAAAAGAGAG-ATAAAATTAA
1 AATAAAAGAAAGAATAAAA-TAA
*
62837259 AATAAAATAAAGAATAAAATAA
1 AATAAAAGAAAGAATAAAATAA
62837281 AATAAAAGAAA
1 AATAAAAGAAA
62837292 AAGAAAACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 23 0.79
23 6 0.21
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (22 bp):
AATAAAAGAAAGAATAAAATAA
Found at i:62837266 original size:5 final size:5
Alignment explanation
Indices: 62837249--62837292 Score: 52
Period size: 5 Copynumber: 8.2 Consensus size: 5
62837239 TAAAAGAGAG
*
62837249 ATAAA ATTAAA ATAAA ATAAAGA ATAAA ATAAA ATAAA AGAAA A
1 ATAAA A-TAAA ATAAA AT-AA-A ATAAA ATAAA ATAAA ATAAA A
62837293 AGAAAACAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
5 23 0.66
6 9 0.26
7 3 0.09
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (5 bp):
ATAAA
Found at i:62837311 original size:17 final size:17
Alignment explanation
Indices: 62837257--62837312 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 17
62837247 AGATAAAATT
* *
62837257 AAAATAAAATAAAGAAT
1 AAAAGAAAATAAAGAAA
* *
62837274 AAAATAAAATAAA-AGA
1 AAAAGAAAATAAAGAAA
*
62837290 AAAAGAAAACAAAGAAA
1 AAAAGAAAATAAAGAAA
62837307 AAAAGA
1 AAAAGA
62837313 GGAGGATATA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
16 12 0.36
17 21 0.64
ACGTcount: A:0.80, C:0.02, G:0.09, T:0.09
Consensus pattern (17 bp):
AAAAGAAAATAAAGAAA
Found at i:62839128 original size:36 final size:36
Alignment explanation
Indices: 62839081--62839153 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
62839071 ACCTGTTTTC
62839081 ACTTACAAGCTTGAGATCAAAGTTTAGAAACTTTAT
1 ACTTACAAGCTTGAGATCAAAGTTTAGAAACTTTAT
62839117 ACTTACAAGCTTGAGATCAAAGTTTAGAAACTTTAT
1 ACTTACAAGCTTGAGATCAAAGTTTAGAAACTTTAT
62839153 A
1 A
62839154 GCCTAGAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (36 bp):
ACTTACAAGCTTGAGATCAAAGTTTAGAAACTTTAT
Found at i:62844210 original size:94 final size:93
Alignment explanation
Indices: 62844056--62844238 Score: 212
Period size: 94 Copynumber: 1.9 Consensus size: 93
62844046 CAGATATTAA
* *
62844056 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCACGATGTGGCTGATGCATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCACAAAGT-GCTGATGCATGT-CCAG
*
62844121 ACCTGTCTTACACTAGCACACATATCTCGAG
64 ACAT-TCTTACACTAGCACACATATCTCGAG
* *
62844152 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCGTCTCAAAGT-C-GATGCATGTCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-T--TCACAAAGTGCTGATGCATGTCCA
* * *
62844213 GACATTCTTACATTGGCGCACATATC
63 GACATTCTTACACTAGCACACATATC
62844239 ACCTGCACTG
Statistics
Matches: 76, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
92 18 0.24
93 7 0.09
94 22 0.29
95 16 0.21
96 7 0.09
97 6 0.08
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (93 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCACAAAGTGCTGATGCATGTCCAGAC
ATTCTTACACTAGCACACATATCTCGAG
Found at i:62848482 original size:6 final size:6
Alignment explanation
Indices: 62848471--62848520 Score: 100
Period size: 6 Copynumber: 8.3 Consensus size: 6
62848461 GATTTATTTA
62848471 TTATGT TTATGT TTATGT TTATGT TTATGT TTATGT TTATGT TTATGT
1 TTATGT TTATGT TTATGT TTATGT TTATGT TTATGT TTATGT TTATGT
62848519 TT
1 TT
62848521 TATATTGATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (6 bp):
TTATGT
Found at i:62851402 original size:25 final size:25
Alignment explanation
Indices: 62851365--62851434 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
62851355 CTCTTTTAAT
*
62851365 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
62851390 AATTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
62851415 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
62851435 GCACTTCCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:62851493 original size:10 final size:10
Alignment explanation
Indices: 62851480--62851519 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
62851470 CATATATGAA
62851480 CATATCATGG
1 CATATCATGG
* *
62851490 CATATTAGGTG
1 CATATCATG-G
62851501 CATATCATGG
1 CATATCATGG
62851511 CATATCATG
1 CATATCATG
62851520 TACAAAACTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (10 bp):
CATATCATGG
Found at i:62851587 original size:25 final size:25
Alignment explanation
Indices: 62851559--62851609 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
62851549 ATCACATATC
* *
62851559 CCTAGGGGTATAATGGTCATTTTCA
1 CCTAGGGGCAAAATGGTCATTTTCA
62851584 CCTAGGGGCAAAATGGTCATTTTCA
1 CCTAGGGGCAAAATGGTCATTTTCA
62851609 C
1 C
62851610 ATTATGAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTCA
Found at i:62852723 original size:5 final size:5
Alignment explanation
Indices: 62852713--62852749 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
62852703 AGAGAAGAAG
*
62852713 AAAGA AAAGA AAAGA AAAAA AAAGAA AAAGA AAAGA A
1 AAAGA AAAGA AAAGA AAAGA AAAG-A AAAGA AAAGA A
62852750 TAATCCTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:62852735 original size:15 final size:17
Alignment explanation
Indices: 62852707--62852746 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
62852697 TCGAGTAGAG
62852707 AAGAAGAAAGAAAAG-AA
1 AAGAA-AAAGAAAAGAAA
62852724 AAGAAAAA-AAAAGAAA
1 AAGAAAAAGAAAAGAAA
62852740 AAGAAAA
1 AAGAAAA
62852747 GAATAATCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.23
16 12 0.55
17 5 0.23
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAGAAAAAGAAAAGAAA
Found at i:62859292 original size:11 final size:11
Alignment explanation
Indices: 62859266--62859304 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
62859256 TCGGCTAGAG
62859266 AAGAAGAAAGAA
1 AAGAA-AAAGAA
62859278 AAG-AAAAGAAA
1 AAGAAAAAG-AA
62859289 AAGAAAAAGAA
1 AAGAAAAAGAA
62859300 AAGAA
1 AAGAA
62859305 TAATCCTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 4 0.16
11 13 0.52
12 8 0.32
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
AAGAAAAAGAA
Found at i:62859296 original size:17 final size:17
Alignment explanation
Indices: 62859266--62859304 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
62859256 TCGGCTAGAG
62859266 AAGAAGAAAGAAAAGAA
1 AAGAAGAAAGAAAAGAA
62859283 AAGAA-AAAGAAAAAGAA
1 AAGAAGAAAG-AAAAGAA
62859300 AAGAA
1 AAGAA
62859305 TAATCCTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
AAGAAGAAAGAAAAGAA
Found at i:62862203 original size:24 final size:25
Alignment explanation
Indices: 62862167--62862219 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 25
62862157 AGAATGTTGA
*
62862167 AAAATATTTTAATGAATTTCAAGAG
1 AAAATATTTTAATAAATTTCAAGAG
62862192 AAAA-ATTTTAATAAATTTCAAGAG
1 AAAATATTTTAATAAATTTCAAGAG
62862216 AAAA
1 AAAA
62862220 CATTCATTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.55, C:0.04, G:0.09, T:0.32
Consensus pattern (25 bp):
AAAATATTTTAATAAATTTCAAGAG
Found at i:62864687 original size:46 final size:44
Alignment explanation
Indices: 62864634--62864780 Score: 147
Period size: 46 Copynumber: 3.2 Consensus size: 44
62864624 CTAGAGCATG
*
62864634 GCATCGGCATTGAGACTAGTACTAGTGTAAGACATGTTTGGGACAT
1 GCATCGGCATTGAGACTAGT-C-AGTGTAAGACATGTATGGGACAT
* * *
62864680 GCATCGGCCTCGAGACGTAAGTCAGTGTAAGACATGTCTGGGACAT
1 GCATCGGCATTGAGAC-T-AGTCAGTGTAAGACATGTATGGGACAT
*
62864726 GCATCGGC-TATGAGA-T-GTGCAAGTGTAAGATCATGTATGGGATAT
1 GCATCGGCAT-TGAGACTAGT-C-AGTGTAAGA-CATGTATGGGACAT
62864771 GACATCGGCA
1 G-CATCGGCA
62864781 CAGATATGCT
Statistics
Matches: 87, Mismatches: 6, Indels: 15
0.81 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 10 0.11
45 14 0.16
46 55 0.63
47 2 0.02
48 3 0.03
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (44 bp):
GCATCGGCATTGAGACTAGTCAGTGTAAGACATGTATGGGACAT
Found at i:62868365 original size:25 final size:25
Alignment explanation
Indices: 62868319--62868367 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
62868309 CTGTTTTTGA
*
62868319 TAGTATATCCTGAAACTGCTATAGG
1 TAGTATATCCTGAAACTACTATAGG
* * *
62868344 TAGTATATGCTTAGACTACTATAG
1 TAGTATATCCTGAAACTACTATAG
62868368 ATAGACTGTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (25 bp):
TAGTATATCCTGAAACTACTATAGG
Found at i:62870381 original size:16 final size:16
Alignment explanation
Indices: 62870360--62870398 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
62870350 GTTTGGGATT
62870360 CAGCTCCTTCCTAGTA
1 CAGCTCCTTCCTAGTA
*
62870376 CAGCTCCTTCCTGGTA
1 CAGCTCCTTCCTAGTA
62870392 CAGCTCC
1 CAGCTCC
62870399 AGTGTCCACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.15, C:0.41, G:0.15, T:0.28
Consensus pattern (16 bp):
CAGCTCCTTCCTAGTA
Found at i:62874153 original size:21 final size:21
Alignment explanation
Indices: 62874128--62874176 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
62874118 GACGATACAC
62874128 GGGCGTGTAATCAACGAGCCA
1 GGGCGTGTAATCAACGAGCCA
* *
62874149 GGGCGTGTGATCAATGAGCCA
1 GGGCGTGTAATCAACGAGCCA
*
62874170 GGCCGTG
1 GGGCGTG
62874177 CGAGCATGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.22, C:0.22, G:0.39, T:0.16
Consensus pattern (21 bp):
GGGCGTGTAATCAACGAGCCA
Found at i:62874341 original size:65 final size:65
Alignment explanation
Indices: 62874237--62874364 Score: 175
Period size: 65 Copynumber: 2.0 Consensus size: 65
62874227 GAGCTCGGCC
* * * * * *
62874237 ATTTTAGGCCATGTGGGCCACACAAGTGTGTGGGCCCACACGGGTAAACCACACGGGCGTGTGGG
1 ATTTTAGGCCATGTGAGCCACACAAGCGTATGGACCCACACGGGCAAACAACACGGGCGTGTGGG
* * *
62874302 ATTTTGGGCCATGTGAGCCACACAAGCGTATGGACCCACACGGGCAGACAACATGGGCGTGTG
1 ATTTTAGGCCATGTGAGCCACACAAGCGTATGGACCCACACGGGCAAACAACACGGGCGTGTG
62874365 AGCCCATTTT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
65 54 1.00
ACGTcount: A:0.23, C:0.25, G:0.34, T:0.18
Consensus pattern (65 bp):
ATTTTAGGCCATGTGAGCCACACAAGCGTATGGACCCACACGGGCAAACAACACGGGCGTGTGGG
Found at i:62883972 original size:29 final size:28
Alignment explanation
Indices: 62883936--62884013 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
62883926 TCATGAGATT
62883936 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
62883966 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
62883993 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
62884014 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:62884231 original size:174 final size:174
Alignment explanation
Indices: 62883966--62884293 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
62883956 AAATTGTACA
*
62883966 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
62884031 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
62884096 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
62884140 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
62884205 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
62884270 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
62884294 ACCTTGAGTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:62890835 original size:109 final size:108
Alignment explanation
Indices: 62890644--62890881 Score: 361
Period size: 109 Copynumber: 2.2 Consensus size: 108
62890634 TTATACATAG
* * *
62890644 ATTCATGTATTGTGATCTGCTAATTTGATTTACACATTTTGAAGGCTACACCATGAACATTCAAA
1 ATTCATGTATTGTGATCTGC-AATTTGATTAACAAATTTCGAAGGCTACACCATGAACATTCAAA
*
62890709 TAGACATATTTTGCCATGGGTCTTAACCACATGATCTTACACAC
65 TAGACATATTTTGCCATGGGTCGTAACCACATGATCTTACACAC
* *
62890753 ATTCATGTATCGTGATCTGTCAATTTGATTAACAAATTTCGAAGGCTACACCATGAACATTCATA
1 ATTCATGTATTGTGATCTG-CAATTTGATTAACAAATTTCGAAGGCTACACCATGAACATTCAAA
* *
62890818 TAGACATATCTTT-CCATGGGTCGTAACTACATGGTCTTACACAC
65 TAGACATAT-TTTGCCATGGGTCGTAACCACATGATCTTACACAC
*
62890862 ATTCATGTATTATGATCTGC
1 ATTCATGTATTGTGATCTGC
62890882 CAATCCAACC
Statistics
Matches: 117, Mismatches: 10, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
108 1 0.01
109 112 0.96
110 4 0.03
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (108 bp):
ATTCATGTATTGTGATCTGCAATTTGATTAACAAATTTCGAAGGCTACACCATGAACATTCAAAT
AGACATATTTTGCCATGGGTCGTAACCACATGATCTTACACAC
Found at i:62892777 original size:17 final size:18
Alignment explanation
Indices: 62892752--62892790 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
62892742 TAAAAATAAA
62892752 ATATGTTAAAACA-TTTT
1 ATATGTTAAAACATTTTT
* *
62892769 ATATTTTAAAATATTTTT
1 ATATGTTAAAACATTTTT
62892787 ATAT
1 ATAT
62892791 AATTTTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (18 bp):
ATATGTTAAAACATTTTT
Found at i:62894607 original size:27 final size:27
Alignment explanation
Indices: 62894527--62894641 Score: 101
Period size: 27 Copynumber: 4.2 Consensus size: 27
62894517 ATAACAGTCG
* * * *
62894527 TTCTTTCAGAGTACACCACAAAGGC-A
1 TTCTTTCAGAATTCGCCACGAAGGCTA
*
62894553 TTTCTTTCA-AATTATCGCCACGAGGGCTA
1 -TTCTTTCAGAA-T-TCGCCACGAAGGCTA
62894582 TTCTTTCAGAGATT-GCCACGAAGGCTA
1 TTCTTTCAGA-ATTCGCCACGAAGGCTA
* * *
62894609 TTCTTTCATAATTCGCCACAAAGGTTA
1 TTCTTTCAGAATTCGCCACGAAGGCTA
62894636 TTCTTT
1 TTCTTT
62894642 TATGTCGTGT
Statistics
Matches: 73, Mismatches: 9, Indels: 12
0.78 0.10 0.13
Matches are distributed among these distances:
26 4 0.05
27 47 0.64
28 18 0.25
29 3 0.04
30 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (27 bp):
TTCTTTCAGAATTCGCCACGAAGGCTA
Found at i:62896509 original size:43 final size:43
Alignment explanation
Indices: 62896448--62896569 Score: 190
Period size: 43 Copynumber: 2.8 Consensus size: 43
62896438 CTCCGATATG
*
62896448 TGATTTCATGTAAGACCACGTCTGGGACGTTGGCATAGATACT
1 TGATTACATGTAAGACCACGTCTGGGACGTTGGCATAGATACT
* * * *
62896491 TGATTACATGTAAGACCACGTCTGGGACATTGGCTTCGATAGT
1 TGATTACATGTAAGACCACGTCTGGGACGTTGGCATAGATACT
*
62896534 TGATTACATGTAAGACTACGTCTGGGACGTTGGCAT
1 TGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
62896570 TGTACGAGTT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 71 1.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
TGATTACATGTAAGACCACGTCTGGGACGTTGGCATAGATACT
Found at i:62906054 original size:40 final size:40
Alignment explanation
Indices: 62906017--62906199 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
62906007 GCTACTCGTT
*
62906017 CAAATGCCTTCGGAACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGAACTTAGCCCGGTTATAGTAACTCGCA
* * *
62906057 CAATTGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGAACTTAGCCCGG-TTATAGTAACTCGCA
* * *
62906097 CAAATGCCTTCGG-GCTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGAACTTAGCCCGGTTA-TAGTAACTCGCA
* * * *
62906136 CAAATGCCTTCGGATCTTAGTCCGGATATAGTAACTTAGCA
1 CAAATGCCTTCGGAACTTAGCCCGGTTATAGTAAC-TCGCA
62906177 CAAA-GCCTTCAGG-ACTTAGCCCG
1 CAAATGCCTTC-GGAACTTAGCCCG
62906200 AACATCATTC
Statistics
Matches: 120, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
39 33 0.28
40 74 0.62
41 13 0.11
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGAACTTAGCCCGGTTATAGTAACTCGCA
Found at i:62906128 original size:79 final size:80
Alignment explanation
Indices: 62906017--62906199 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 80
62906007 GCTACTCGTT
* * *
62906017 CAAATGCCTTCGGAACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGG-ACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
62906081 GATTTAGTAAC-TCGCA
64 GATATAGTAACTTAGCA
* * **
62906097 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
62906161 ATATAGTAACTTAGCA
65 ATATAGTAACTTAGCA
62906177 CAAA-GCCTTCAGGACTTAGCCCG
1 CAAATGCCTTC-GGACTTAGCCCG
62906200 AACATCATTC
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 4 0.04
79 53 0.60
80 32 0.36
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCA
Found at i:62913889 original size:79 final size:82
Alignment explanation
Indices: 62913778--62913962 Score: 247
Period size: 79 Copynumber: 2.3 Consensus size: 82
62913768 GCTACTCGTT
* * *
62913778 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
62913841 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
62913858 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
62913921 GATATAGTAACTTAGCA
66 GATATAGTAACTTAGCA
62913938 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
62913963 CATCATTCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 56 0.60
80 34 0.37
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:62913962 original size:40 final size:40
Alignment explanation
Indices: 62913759--62913962 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
62913749 CGGAATTTAA
** *
62913759 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
62913799 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
62913839 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
62913878 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
*
62913918 CCGGATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
62913958 CCGGA
1 CCGGA
62913963 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:62917723 original size:2 final size:2
Alignment explanation
Indices: 62917713--62917749 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
62917703 TTTTGGTTTG
*
62917713 TA TA T- TA TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
62917750 CGTCAATGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:62923429 original size:16 final size:16
Alignment explanation
Indices: 62923408--62923448 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
62923398 GTTGTTATAC
62923408 CATTCTTCCTTTCTAA
1 CATTCTTCCTTTCTAA
62923424 CATTCTTCCTTTCTAA
1 CATTCTTCCTTTCTAA
*
62923440 CCTTCTTCC
1 CATTCTTCC
62923449 CGCCACTTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.15, C:0.37, G:0.00, T:0.49
Consensus pattern (16 bp):
CATTCTTCCTTTCTAA
Found at i:62925845 original size:23 final size:23
Alignment explanation
Indices: 62925818--62925870 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
62925808 TACTTGATTT
*
62925818 ATTTAAATT-ATTCGAATTTAAAA
1 ATTTAAATTGATTCAAATTT-AAA
* *
62925841 ATTTAACTTGATTTAAATTTAAA
1 ATTTAAATTGATTCAAATTTAAA
62925864 ATTTAAA
1 ATTTAAA
62925871 AAAAAATGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 17 0.68
24 8 0.32
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (23 bp):
ATTTAAATTGATTCAAATTTAAA
Found at i:62928866 original size:23 final size:23
Alignment explanation
Indices: 62928839--62928884 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
62928829 GTTGGTTTGA
*
62928839 AAATTTTAAGATTTGTTATATTT
1 AAATTGTAAGATTTGTTATATTT
62928862 AAATTGTAAGATTTGTTATATTT
1 AAATTGTAAGATTTGTTATATTT
62928885 GTTTTTCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (23 bp):
AAATTGTAAGATTTGTTATATTT
Found at i:62929690 original size:10 final size:10
Alignment explanation
Indices: 62929675--62929705 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
62929665 CACAATACTT
62929675 TATATATGTG
1 TATATATGTG
*
62929685 TATATATGTA
1 TATATATGTG
62929695 TATATATGTG
1 TATATATGTG
62929705 T
1 T
62929706 GGGGGGAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (10 bp):
TATATATGTG
Found at i:62931235 original size:46 final size:46
Alignment explanation
Indices: 62931185--62931360 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
62931175 TGGTTGAGCA
62931185 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62931231 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
62931276 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62931324 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62931361 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:62931341 original size:93 final size:93
Alignment explanation
Indices: 62931182--62931353 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
62931172 GGATGGTTGA
* * *
62931182 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
62931247 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
62931275 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
62931340 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
62931354 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:62938325 original size:29 final size:30
Alignment explanation
Indices: 62938281--62938340 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
62938271 AATCCCAGCC
62938281 TAGGGGCAAAAATGTAAATATG-CAAAATT
1 TAGGGGCAAAAATGTAAATATGCCAAAATT
* * * *
62938310 TAGGGGTAAAATTGTAATTTTGCCAAAATT
1 TAGGGGCAAAAATGTAAATATGCCAAAATT
62938340 T
1 T
62938341 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.32
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAAATATGCCAAAATT
Found at i:62938808 original size:46 final size:46
Alignment explanation
Indices: 62938758--62938933 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
62938748 TGGTTGAGCA
62938758 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62938804 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
62938849 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62938897 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62938934 GTGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:62938914 original size:93 final size:93
Alignment explanation
Indices: 62938755--62938926 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
62938745 GGATGGTTGA
* *
62938755 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
62938820 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
62938848 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
62938913 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
62938927 CTTATGGGTG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:62946045 original size:46 final size:45
Alignment explanation
Indices: 62945995--62946167 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 45
62945985 TGGTTGAGCA
62945995 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
62946041 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG--CGAAG
62946085 CATCCGAACTCGTTGAG-TGAGTCCGAGTTCACTTATGGATGCGAAG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
* * *
62946131 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62946168 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 11, Indels: 17
0.79 0.08 0.12
Matches are distributed among these distances:
43 4 0.04
44 14 0.13
45 37 0.34
46 49 0.45
48 4 0.04
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:62946424 original size:20 final size:20
Alignment explanation
Indices: 62946401--62946438 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
62946391 TAAAATGTAT
62946401 ATTT-TTGTATTGTAATGTTG
1 ATTTATTGT-TTGTAATGTTG
*
62946421 ATTTATTGTTTGTTATGT
1 ATTTATTGTTTGTAATGT
62946439 ATTAATGATG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.63
Consensus pattern (20 bp):
ATTTATTGTTTGTAATGTTG
Found at i:62963929 original size:54 final size:53
Alignment explanation
Indices: 62963847--62963980 Score: 178
Period size: 54 Copynumber: 2.5 Consensus size: 53
62963837 TCGTTAAAAA
* * * *
62963847 GGGATTTATCCTGGACTGGCAATCCCGACATTACTCTATTAGTTACTACTACGG
1 GGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATAAGTTACTACTAC-G
* *
62963901 GGGATTTAGCCTGAACTGGTAATCCCGACAATGCTCTATAAGTTACTACTACG
1 GGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATAAGTTACTACTACG
* * *
62963954 TGAATTTAGCCTGGACTAGTAATCCCG
1 GGGATTTAGCCTGGACTGGTAATCCCG
62963981 TTGTAAGATA
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
53 24 0.34
54 46 0.66
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (53 bp):
GGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATAAGTTACTACTACG
Found at i:62967361 original size:42 final size:42
Alignment explanation
Indices: 62967178--62967371 Score: 201
Period size: 42 Copynumber: 4.6 Consensus size: 42
62967168 AAAGCTGAAT
* * *
62967178 AGAAGCTCATGAA-AGCTAAATAGAAACCCATAAGGGTTGAAC
1 AGAAGCTCAT-AAGAGCTGAATGGAAACCCATAAGGGTTAAAC
* * * *
62967220 ATAAGCTCGTAAGAACTGAACGGAAACCCATAAGGGTTAAAC
1 AGAAGCTCATAAGAGCTGAATGGAAACCCATAAGGGTTAAAC
* * *
62967262 AGAAGCTCAAAAGAGTTGAATGGAAACCCATAAGGGTCAAAC
1 AGAAGCTCATAAGAGCTGAATGGAAACCCATAAGGGTTAAAC
* * * * *
62967304 AGAAGCTTAAAAGAGCTGAATGGAAACTCATATGAGTTAAAC
1 AGAAGCTCATAAGAGCTGAATGGAAACCCATAAGGGTTAAAC
* * * *
62967346 AGAAGCTCGTGAGAGCTAAAAGGAAA
1 AGAAGCTCATAAGAGCTGAATGGAAA
62967372 GTAAACACAA
Statistics
Matches: 125, Mismatches: 26, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
41 2 0.02
42 123 0.98
ACGTcount: A:0.45, C:0.15, G:0.23, T:0.16
Consensus pattern (42 bp):
AGAAGCTCATAAGAGCTGAATGGAAACCCATAAGGGTTAAAC
Found at i:62972971 original size:22 final size:21
Alignment explanation
Indices: 62972921--62972971 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
62972911 TTACTTTTCA
62972921 TTTAATTT-TGTTTATGAATTC
1 TTTAATTTCT-TTTATGAATTC
62972942 TTTAATTTCTTTTATAGAATT-
1 TTTAATTTCTTTTAT-GAATTC
62972963 TTTAGATTT
1 TTTA-ATTT
62972972 TAAAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.25, C:0.04, G:0.08, T:0.63
Consensus pattern (21 bp):
TTTAATTTCTTTTATGAATTC
Found at i:62979570 original size:71 final size:71
Alignment explanation
Indices: 62979454--62979605 Score: 286
Period size: 71 Copynumber: 2.1 Consensus size: 71
62979444 ATACCATCTT
*
62979454 ATACATACACAAGACATTCATAAACATTCAATCATCAATAACCATAGGCCATATCATAATAGAAT
1 ATACATACATAAGACATTCATAAACATTCAATCATCAATAACCATAGGCCATATCATAATAGAAT
62979519 TGACAC
66 TGACAC
62979525 ATACATACATAAGACATTCATAAACATTCAATCATCAATAACCATAGGCCATATCATAATAGAAT
1 ATACATACATAAGACATTCATAAACATTCAATCATCAATAACCATAGGCCATATCATAATAGAAT
*
62979590 TGGCAC
66 TGACAC
62979596 ATACATACAT
1 ATACATACAT
62979606 GGATGAATAG
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 79 1.00
ACGTcount: A:0.46, C:0.22, G:0.07, T:0.25
Consensus pattern (71 bp):
ATACATACATAAGACATTCATAAACATTCAATCATCAATAACCATAGGCCATATCATAATAGAAT
TGACAC
Found at i:62982321 original size:37 final size:37
Alignment explanation
Indices: 62982271--62982342 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
62982261 TAGTATGCTG
*
62982271 TGGCAATCGACATGACCTCTTCGCTTGAATTTGCCTA
1 TGGCAATCGACATGACCTATTCGCTTGAATTTGCCTA
*
62982308 TGGCAGTCGACATGACCTATTCGCTTGAATTTGCC
1 TGGCAATCGACATGACCTATTCGCTTGAATTTGCC
62982343 AACTCTTCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (37 bp):
TGGCAATCGACATGACCTATTCGCTTGAATTTGCCTA
Found at i:63000857 original size:40 final size:40
Alignment explanation
Indices: 63000808--63000946 Score: 115
Period size: 40 Copynumber: 3.5 Consensus size: 40
63000798 AACACACCAG
* *
63000808 TTTGGCACCCACTGCCTCATCGGA-TAATTCAAAGTAATAA
1 TTTGACACCCAGTGCCTCATC-GACTAATTCAAAGTAATAA
* * ** *
63000848 TTTGACACCCAATGTCTCATCGACTAAACCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGACTAATTCAAAGTAATAA
* * * *
63000886 -TTGGCACCCAGTGCCTCATCAAATTAATTCAAAGTAGTAA
1 TTTGACACCCAGTGCCTCATC-GACTAATTCAAAGTAATAA
* *
63000926 ATTGACACCCAGTGTCTCATC
1 TTTGACACCCAGTGCCTCATC
63000947 AACTCGAAGT
Statistics
Matches: 77, Mismatches: 17, Indels: 9
0.75 0.17 0.09
Matches are distributed among these distances:
37 17 0.22
38 11 0.14
39 3 0.04
40 28 0.36
41 18 0.23
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGACTAATTCAAAGTAATAA
Found at i:63001821 original size:4 final size:4
Alignment explanation
Indices: 63001805--63001910 Score: 83
Period size: 4 Copynumber: 26.2 Consensus size: 4
63001795 AGCCTTCGTC
* *
63001805 TCTT TCGT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TTTT TCTT TCTT
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT
* * * * * *
63001853 TCCCTT TCTG T-TT TGTT T-TT GCTTT TGTT TCTT TCTAT T-TC TATT
1 T--CTT TCTT TCTT TCTT TCTT TC-TT TCTT TCTT TCT-T TCTT TCTT
63001898 TCTT TCTT TCTT T
1 TCTT TCTT TCTT T
63001911 ATTATGATAT
Statistics
Matches: 82, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
3 5 0.06
4 69 0.84
5 4 0.05
6 4 0.05
ACGTcount: A:0.02, C:0.21, G:0.05, T:0.73
Consensus pattern (4 bp):
TCTT
Found at i:63001927 original size:5 final size:5
Alignment explanation
Indices: 63001917--63001953 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
63001907 CTTTATTATG
63001917 ATATA ATATA ATATA ATAT- ATATA ATATA ATATA ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATA
63001954 ATATATATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:63001949 original size:24 final size:22
Alignment explanation
Indices: 63001917--63001961 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
63001907 CTTTATTATG
63001917 ATATAATATAATATAATATATATA
1 ATATAATAT-A-ATAATATATATA
63001941 ATATAATATAATAATATATAT
1 ATATAATATAATAATATATAT
63001962 TCTTAACACT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 11 0.52
23 1 0.05
24 9 0.43
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
ATATAATATAATAATATATATA
Found at i:63002383 original size:22 final size:22
Alignment explanation
Indices: 63002356--63002406 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
63002346 GATGAATATG
* *
63002356 GAAATTTATTTAGAACTTAT-A
1 GAAAATTATTTAGAAATTATAA
63002377 GAAAATTATTTAGAAATTATAA
1 GAAAATTATTTAGAAATTATAA
63002399 G-AAATTAT
1 GAAAATTAT
63002407 AAAAAAGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (22 bp):
GAAAATTATTTAGAAATTATAA
Found at i:63002427 original size:10 final size:10
Alignment explanation
Indices: 63002378--63002433 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
63002368 GAACTTATAG
63002378 AAAATTATTTA
1 AAAATTA-TTA
*
63002389 GAAATTA-TA
1 AAAATTATTA
*
63002398 AGAAATTATAA
1 A-AAATTATTA
*
63002409 AAAAGTATTA
1 AAAATTATTA
*
63002419 CAAATTATTA
1 AAAATTATTA
63002429 AAAAT
1 AAAAT
63002434 AACGTTTAGA
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
9 2 0.06
10 25 0.71
11 8 0.23
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (10 bp):
AAAATTATTA
Found at i:63005581 original size:18 final size:17
Alignment explanation
Indices: 63005548--63005582 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
63005538 GCCTGCAAAA
*
63005548 AAAAATTATTGGGTTGG
1 AAAAATTATTGAGTTGG
63005565 AAAAATTATATGAGTTGG
1 AAAAATTAT-TGAGTTGG
63005583 TTTAGAGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.40, C:0.00, G:0.26, T:0.34
Consensus pattern (17 bp):
AAAAATTATTGAGTTGG
Found at i:63008160 original size:47 final size:48
Alignment explanation
Indices: 63008069--63008171 Score: 156
Period size: 47 Copynumber: 2.2 Consensus size: 48
63008059 TGGGTAAGGT
*
63008069 GCCGATGCCATGTTCCAGACATGGTCTTACAATGGCTCATATCTC-AA
1 GCCGATGCCATGTTCCAGACATGGTCTTACAATGACTCATATCTCGAA
* *
63008116 GCCGATGCCATGTTCCAGACATGGTCTTACATTGACT-ATCATCTCGTA
1 GCCGATGCCATGTTCCAGACATGGTCTTACAATGACTCAT-ATCTCGAA
63008164 GCCGATGC
1 GCCGATGC
63008172 ACACGACTAA
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
46 2 0.04
47 40 0.78
48 9 0.18
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTTCCAGACATGGTCTTACAATGACTCATATCTCGAA
Found at i:63030283 original size:47 final size:44
Alignment explanation
Indices: 63030212--63030383 Score: 173
Period size: 47 Copynumber: 3.7 Consensus size: 44
63030202 TAGGTAGGGT
63030212 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-ATATCTCAA
* * **
63030259 GTCGATGCCATGTTCCAGACATGGTCTTACACTGAATATCATCTCATA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTAT-ATCTCA-A
* * * * * *
63030307 CCCGATGCATGTCCCAAACATGTCTTACATTGGCTTACATCTTGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-TATATC-TCAA
63030353 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
63030384 AGCACACACA
Statistics
Matches: 104, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
46 43 0.41
47 55 0.53
48 6 0.06
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATATCTCAA
Found at i:63030370 original size:93 final size:94
Alignment explanation
Indices: 63030213--63030383 Score: 231
Period size: 93 Copynumber: 1.8 Consensus size: 94
63030203 AGGTAGGGTG
* * * *
63030213 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTTCCAGA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATCTCAAGCCGATGCCATGTCCCAGA
63030278 CATGGTCTTACACTGAATATCATCTCATAC
66 CAT-GTCTTACACTGAATATCATCTCATAC
* * * *
63030308 CCGATG-CATGTCCCAAACAT-GTCTTACATTGGCTTACATCTTGAGGCCGATG-CATGTCCCAG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATC-TCAAGCCGATGCCATGTCCCAG
63030370 ACATGTCTTACACT
65 ACATGTCTTACACT
63030384 AGCACACACA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
92 10 0.15
93 30 0.45
94 21 0.31
95 6 0.09
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (94 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATCTCAAGCCGATGCCATGTCCCAGA
CATGTCTTACACTGAATATCATCTCATAC
Found at i:63047402 original size:29 final size:30
Alignment explanation
Indices: 63047370--63047432 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
63047360 TACATACTTT
* *
63047370 ATAGTTCAAGA-GAACTTTCCACATATAAG
1 ATAGTTCAAGACAAACTTCCCACATATAAG
**
63047399 ATAG-TCTTGACAAACTTCCCACATATAAG
1 ATAGTTCAAGACAAACTTCCCACATATAAG
63047428 ATAGT
1 ATAGT
63047433 CCTAGCGGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
28 4 0.14
29 24 0.86
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.29
Consensus pattern (30 bp):
ATAGTTCAAGACAAACTTCCCACATATAAG
Found at i:63047447 original size:57 final size:57
Alignment explanation
Indices: 63047386--63047603 Score: 258
Period size: 57 Copynumber: 3.8 Consensus size: 57
63047376 CAAGAGAACT
* *
63047386 TTCCACATATAAGATAGTCTTGACAAACTTCCCACATATAAGATAGTCCTAGCGGAC
1 TTCCACATATACGATAGTCCTGACAAACTTCCCACATATAAGATAGTCCTAGCGGAC
* * * * * *
63047443 TTCCACATAGACGATAGTCCTGACGAACTTCTCGCATAAAAGATAGTCTTAGCGGAC
1 TTCCACATATACGATAGTCCTGACAAACTTCCCACATATAAGATAGTCCTAGCGGAC
* * * * * *
63047500 TTCCACATTTACGATAGTCCTAACATACTTCCTATATATAAGATAGTCCTAGCAGAC
1 TTCCACATATACGATAGTCCTGACAAACTTCCCACATATAAGATAGTCCTAGCGGAC
* * * **
63047557 TTCCACATTTATGATAGCCCTGACAGGCTT-CCACATATAAGATAGTC
1 TTCCACATATACGATAGTCCTGACAAACTTCCCACATATAAGATAGTC
63047604 TTGGAAGACT
Statistics
Matches: 134, Mismatches: 27, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
56 15 0.11
57 119 0.89
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (57 bp):
TTCCACATATACGATAGTCCTGACAAACTTCCCACATATAAGATAGTCCTAGCGGAC
Found at i:63047539 original size:114 final size:113
Alignment explanation
Indices: 63047386--63047623 Score: 289
Period size: 114 Copynumber: 2.1 Consensus size: 113
63047376 CAAGAGAACT
* * * *
63047386 TTCCACATATAAGATAGTCTTGACAAACTTCCCACATATAAGATAGTCCTAGCGGACTTCCACAT
1 TTCCACATTTAAGATAGTCCTAACAAACTTCCCACATATAAGATAGTCCTAGCAGACTTCCACAT
* * **
63047451 AGACGATAGTCCTGAC-GAACTTCTCGCATAAAAGATAGTCTTAGCGGAC
66 AGACGATAGCCCTGACAG-ACTTC-CACATAAAAGATAGTCTTAGAAGAC
* * * *
63047500 TTCCACATTTACGATAGTCCTAACATACTTCCTATATATAAGATAGTCCTAGCAGACTTCCACAT
1 TTCCACATTTAAGATAGTCCTAACAAACTTCCCACATATAAGATAGTCCTAGCAGACTTCCACAT
** * * * *
63047565 TTATGATAGCCCTGACAGGCTTCCACATATAAGATAGTCTTGGAAGAC
66 AGACGATAGCCCTGACAGACTTCCACATAAAAGATAGTCTTAGAAGAC
63047613 TTCCACATTTA
1 TTCCACATTTA
63047624 TGATCTTTCA
Statistics
Matches: 105, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
113 31 0.30
114 73 0.70
115 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (113 bp):
TTCCACATTTAAGATAGTCCTAACAAACTTCCCACATATAAGATAGTCCTAGCAGACTTCCACAT
AGACGATAGCCCTGACAGACTTCCACATAAAAGATAGTCTTAGAAGAC
Found at i:63047587 original size:28 final size:28
Alignment explanation
Indices: 63047553--63047627 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 28
63047543 TAGTCCTAGC
63047553 AGACTTCCACATTTATGATAGCCCT-GA
1 AGACTTCCACATTTATGATAGCCCTGGA
* * * * *
63047580 CAGGCTTCCACATATAAGATAGTCTTGGA
1 -AGACTTCCACATTTATGATAGCCCTGGA
63047609 AGACTTCCACATTTATGAT
1 AGACTTCCACATTTATGAT
63047628 CTTTCATTCA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 36 0.95
29 2 0.05
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (28 bp):
AGACTTCCACATTTATGATAGCCCTGGA
Found at i:63054165 original size:15 final size:15
Alignment explanation
Indices: 63054145--63054209 Score: 64
Period size: 15 Copynumber: 4.4 Consensus size: 15
63054135 GTATATTTGG
63054145 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
63054160 TTTCTTTACTCTGGG
1 TTTCTTTATTCTGGA
63054175 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
*
63054190 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
63054204 TTTCTT
1 TTTCTT
63054210 GTTATCTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
14 12 0.29
15 26 0.62
16 4 0.10
ACGTcount: A:0.09, C:0.15, G:0.14, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:63056306 original size:22 final size:22
Alignment explanation
Indices: 63056276--63056347 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
63056266 TAGTCTAAAT
*
63056276 TAGATATTATAGATGAAGGAAA
1 TAGAGATTATAGATGAAGGAAA
63056298 TAGAGATTAT---T--AGGCTAAA
1 TAGAGATTATAGATGAAGG--AAA
*
63056317 TTAGATATTATAGATGAAGGAAA
1 -TAGAGATTATAGATGAAGGAAA
63056340 TAGAGATT
1 TAGAGATT
63056348 CGGGCTTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 16
0.67 0.05 0.28
Matches are distributed among these distances:
17 3 0.08
19 4 0.10
20 9 0.23
22 16 0.41
23 4 0.10
25 3 0.08
ACGTcount: A:0.46, C:0.01, G:0.22, T:0.31
Consensus pattern (22 bp):
TAGAGATTATAGATGAAGGAAA
Found at i:63056308 original size:42 final size:42
Alignment explanation
Indices: 63056261--63056347 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
63056251 AGTGTGACTA
*
63056261 ATTATTAGTCTAAATTAGATATTATAGATGAAGGAAATAGAG
1 ATTATTAGGCTAAATTAGATATTATAGATGAAGGAAATAGAG
63056303 ATTATTAGGCTAAATTAGATATTATAGATGAAGGAAATAGAG
1 ATTATTAGGCTAAATTAGATATTATAGATGAAGGAAATAGAG
63056345 ATT
1 ATT
63056348 CGGGCTTAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.45, C:0.02, G:0.20, T:0.33
Consensus pattern (42 bp):
ATTATTAGGCTAAATTAGATATTATAGATGAAGGAAATAGAG
Found at i:63056997 original size:50 final size:49
Alignment explanation
Indices: 63056878--63057067 Score: 211
Period size: 50 Copynumber: 3.8 Consensus size: 49
63056868 TGAGGTCGCA
* * *
63056878 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-ATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATAA-TT-GGTCACG
* * * **
63056929 TGTGTAGTACTAAGTGCAGTCTACTGCGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* * *
63056979 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
63057028 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
63057068 CCTTGTCTAC
Statistics
Matches: 117, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 41 0.35
50 46 0.39
51 30 0.26
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:63059603 original size:20 final size:19
Alignment explanation
Indices: 63059578--63059628 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
63059568 TAAATTAAAT
63059578 TTAAAATATTTATAAAAAA
1 TTAAAATATTTATAAAAAA
* **
63059597 TTCAAAATATATATTTAAAA
1 TT-AAAATATTTATAAAAAA
*
63059617 TTAAAAAATTTA
1 TTAAAATATTTA
63059629 AAATTTTAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
TTAAAATATTTATAAAAAA
Found at i:63059629 original size:15 final size:16
Alignment explanation
Indices: 63059609--63059644 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
63059599 CAAAATATAT
63059609 ATTTAAAA-TTAAAAA
1 ATTTAAAATTTAAAAA
63059624 ATTTAAAATTTTAAAAA
1 ATTTAAAA-TTTAAAAA
63059641 ATTT
1 ATTT
63059645 CTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.42
17 11 0.58
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTTAAAATTTAAAAA
Found at i:63065561 original size:27 final size:28
Alignment explanation
Indices: 63065524--63065576 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
63065514 ATGTTCTAAT
63065524 ATTTGTGTATAATTTTTAT-ATTTTTATG
1 ATTTGTGTAT-ATTTTTATGATTTTTATG
63065552 ATTT-TGTATATTTTTATGATTTTTA
1 ATTTGTGTATATTTTTATGATTTTTA
63065577 ATGTTTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 8 0.33
27 12 0.50
28 4 0.17
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (28 bp):
ATTTGTGTATATTTTTATGATTTTTATG
Found at i:63065583 original size:9 final size:9
Alignment explanation
Indices: 63065535--63065576 Score: 61
Period size: 9 Copynumber: 4.8 Consensus size: 9
63065525 TTTGTGTATA
63065535 ATTTTTAT-
1 ATTTTTATG
63065543 ATTTTTATG
1 ATTTTTATG
63065552 ATTTTGTAT-
1 ATTTT-TATG
63065561 ATTTTTATG
1 ATTTTTATG
63065570 ATTTTTA
1 ATTTTTA
63065577 ATGTTTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 11 0.35
9 17 0.55
10 3 0.10
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (9 bp):
ATTTTTATG
Found at i:63065583 original size:18 final size:17
Alignment explanation
Indices: 63065535--63065576 Score: 75
Period size: 18 Copynumber: 2.4 Consensus size: 17
63065525 TTTGTGTATA
63065535 ATTTTTATATTTTTATG
1 ATTTTTATATTTTTATG
63065552 ATTTTGTATATTTTTATG
1 ATTTT-TATATTTTTATG
63065570 ATTTTTA
1 ATTTTTA
63065577 ATGTTTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 7 0.29
18 17 0.71
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (17 bp):
ATTTTTATATTTTTATG
Found at i:63065583 original size:27 final size:27
Alignment explanation
Indices: 63065520--63065583 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 27
63065510 TGTAATGTTC
*
63065520 TAATATTTGTGTATAATTTTTATATTTT
1 TAATGTTT-TGTATAATTTTTATATTTT
63065548 T-ATGATTTTGTAT-ATTTTTATGATTTT
1 TAATG-TTTTGTATAATTTTTAT-ATTTT
63065575 TAATGTTTT
1 TAATGTTTT
63065584 AAAATATCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
26 8 0.25
27 17 0.53
28 7 0.22
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (27 bp):
TAATGTTTTGTATAATTTTTATATTTT
Found at i:63078580 original size:26 final size:26
Alignment explanation
Indices: 63078544--63078593 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
63078534 CTGACATTAT
63078544 AGGGCTGCTAACACTAGATTCAGATC
1 AGGGCTGCTAACACTAGATTCAGATC
* *
63078570 AGGGTTGCTAACACTAGCTTCAGA
1 AGGGCTGCTAACACTAGATTCAGA
63078594 GAATCCACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (26 bp):
AGGGCTGCTAACACTAGATTCAGATC
Found at i:63079072 original size:19 final size:20
Alignment explanation
Indices: 63079017--63079079 Score: 69
Period size: 19 Copynumber: 3.2 Consensus size: 20
63079007 TCACATGTAT
63079017 ATAAATTAATAAATATAATC
1 ATAAATTAATAAATATAATC
* *
63079037 ATACAATT--CAAACATAAT-
1 ATA-AATTAATAAATATAATC
*
63079055 ATAAGTTAATAAATATAATC
1 ATAAATTAATAAATATAATC
63079075 ATAAA
1 ATAAA
63079080 ATTCCATATG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
17 3 0.09
18 3 0.09
19 16 0.48
20 7 0.21
21 4 0.12
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.32
Consensus pattern (20 bp):
ATAAATTAATAAATATAATC
Found at i:63079979 original size:62 final size:62
Alignment explanation
Indices: 63079904--63080023 Score: 186
Period size: 62 Copynumber: 1.9 Consensus size: 62
63079894 ACCTGACTAG
*
63079904 TGCATGGTGAACCTTGGGGCGAAAATGACTCACTACGCAGAAAGGCATGGTTTAGAGAGAAC
1 TGCATGGTGAACCTTGGGGCGAAAATGACTCACTACGCAGAAAAGCATGGTTTAGAGAGAAC
* ** * *
63079966 TGCATGGTGAACCTTGGGTCGGCAATGACTTACTACGCTGAAAAGCATGGTTTAGAGA
1 TGCATGGTGAACCTTGGGGCGAAAATGACTCACTACGCAGAAAAGCATGGTTTAGAGA
63080024 TGCTTTCGTG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 52 1.00
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (62 bp):
TGCATGGTGAACCTTGGGGCGAAAATGACTCACTACGCAGAAAAGCATGGTTTAGAGAGAAC
Found at i:63080303 original size:36 final size:35
Alignment explanation
Indices: 63080263--63080338 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 35
63080253 CAACACGGAC
63080263 GAGTTCAATGATGATTATTTTACTAACATTTGATGG
1 GAGTTCAATGATGATTATTTTACTAACATTTGAT-G
63080299 GAGTTCAATGATGATTATTTTACTAACATTTGATG
1 GAGTTCAATGATGATTATTTTACTAACATTTGATG
63080334 GAGTT
1 GAGTT
63080339 TTACTTAATC
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 6 0.15
36 34 0.85
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (35 bp):
GAGTTCAATGATGATTATTTTACTAACATTTGATG
Found at i:63080659 original size:17 final size:18
Alignment explanation
Indices: 63080627--63080671 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
63080617 GTATATAGAT
*
63080627 TTTTAGTTTGTTTGTT-TG
1 TTTTA-TTTTTTTGTTATG
*
63080645 TTTTATTTTTTTGTTATT
1 TTTTATTTTTTTGTTATG
63080663 TTTTATTTT
1 TTTTATTTT
63080672 ATATACCCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.09, C:0.00, G:0.11, T:0.80
Consensus pattern (18 bp):
TTTTATTTTTTTGTTATG
Found at i:63081231 original size:26 final size:27
Alignment explanation
Indices: 63081182--63081233 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
63081172 TTGAAACAAA
*
63081182 ACTAATTGACTAAGATATTTCTAATTT
1 ACTAATTGACTAAGATATTCCTAATTT
63081209 ACTAATT-ACTAATGA-ATTCCTAATT
1 ACTAATTGACTAA-GATATTCCTAATT
63081234 CCCAATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.42
Consensus pattern (27 bp):
ACTAATTGACTAAGATATTCCTAATTT
Found at i:63085006 original size:49 final size:50
Alignment explanation
Indices: 63084945--63085085 Score: 194
Period size: 51 Copynumber: 2.8 Consensus size: 50
63084935 AAAGCTATTT
*
63084945 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA-TTATCC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAGTTATCC
* * * * * *
63084994 GGTACACGTAGTAGCCTGCACTTAGTACTACAGACGTGATCGAAGTTATCG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAAGTTATCC
*
63085045 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC
63085086 TCACAATAGA
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
49 34 0.44
50 4 0.05
51 39 0.51
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (50 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAGTTATCC
Found at i:63086750 original size:26 final size:24
Alignment explanation
Indices: 63086706--63086755 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
63086696 ATTTGTTTTA
*
63086706 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
63086730 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
63086756 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:63088556 original size:21 final size:21
Alignment explanation
Indices: 63088530--63088584 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
63088520 ATTCTTCAGT
63088530 GGTATCACGATATCCACTTTA
1 GGTATCACGATATCCACTTTA
* *
63088551 GGTATCACAATATCCACTTTG
1 GGTATCACGATATCCACTTTA
63088572 GGTATCACGATAT
1 GGTATCACGATAT
63088585 TTGTAACACC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (21 bp):
GGTATCACGATATCCACTTTA
Found at i:63093622 original size:26 final size:27
Alignment explanation
Indices: 63093593--63093657 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
63093583 TTAGCTCTTA
* *
63093593 TGAGCATCCCGATATA-TGGCTCCTTG
1 TGAGCTTCCCGATAAATTGGCTCCTTG
* * *
63093619 TGAGCTTCCCGTTAAATTGGCTCTTTT
1 TGAGCTTCCCGATAAATTGGCTCCTTG
63093646 TGAGCTTCCCGA
1 TGAGCTTCCCGA
63093658 CAGTGCTCGC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 13 0.41
27 19 0.59
ACGTcount: A:0.17, C:0.26, G:0.22, T:0.35
Consensus pattern (27 bp):
TGAGCTTCCCGATAAATTGGCTCCTTG
Found at i:63107476 original size:19 final size:19
Alignment explanation
Indices: 63107442--63107478 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
63107432 TTGAACTAGT
**
63107442 ACTTTTTCTACTCTTTTTA
1 ACTTTTTCTAAACTTTTTA
63107461 ACTTTTTCTAAACTTTTT
1 ACTTTTTCTAAACTTTTT
63107479 TTTTGTTTCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (19 bp):
ACTTTTTCTAAACTTTTTA
Found at i:63115305 original size:26 final size:26
Alignment explanation
Indices: 63115245--63115307 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
63115235 TTTTTTATTG
* *
63115245 GTGAACCCCAGTTCACAACTCAACTG
1 GTGAACCCTAGTTCACAACTCAACTA
* *
63115271 GTGAACCCTAGTTCACAACTTACCTA
1 GTGAACCCTAGTTCACAACTCAACTA
63115297 GTGAACCCTAG
1 GTGAACCCTAG
63115308 CTCGCCAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.22
Consensus pattern (26 bp):
GTGAACCCTAGTTCACAACTCAACTA
Found at i:63120246 original size:17 final size:17
Alignment explanation
Indices: 63120224--63120257 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
63120214 TAAAAAATTC
* *
63120224 ATTTATATATTTTTAAA
1 ATTTATAAAATTTTAAA
63120241 ATTTATAAAATTTTAAA
1 ATTTATAAAATTTTAAA
63120258 TTAATAATGA
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTATAAAATTTTAAA
Found at i:63120341 original size:15 final size:16
Alignment explanation
Indices: 63120321--63120354 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
63120311 TATCCTTTAA
63120321 AAATTATAAAAAT-AT
1 AAATTATAAAAATAAT
*
63120336 AAATTATTAAAATAAT
1 AAATTATAAAAATAAT
63120352 AAA
1 AAA
63120355 AATACATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTATAAAAATAAT
Found at i:63122801 original size:29 final size:29
Alignment explanation
Indices: 63122755--63122818 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
63122745 TAAGAAATTA
*
63122755 ATATTA-TATATATGAAATATATAAACTT
1 ATATTATTATATATAAAATATATAAACTT
63122783 ATATTATTATATATAAAATATATAAACTT
1 ATATTATTATATATAAAATATATAAACTT
*
63122812 AAATTAT
1 ATATTAT
63122819 AATAAAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
28 6 0.18
29 27 0.82
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (29 bp):
ATATTATTATATATAAAATATATAAACTT
Found at i:63125902 original size:27 final size:27
Alignment explanation
Indices: 63125871--63126048 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
63125861 TAAATTGTAC
63125871 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
63125898 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
63125924 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
63125952 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
63125980 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
63126007 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
63126034 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
63126049 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:63125985 original size:82 final size:81
Alignment explanation
Indices: 63125872--63126027 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
63125862 AAATTGTACA
* *
63125872 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
63125936 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
63125953 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
63126018 TGCGAGTTGA
65 TGCGAATTGA
63126028 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:63126039 original size:82 final size:81
Alignment explanation
Indices: 63125868--63126048 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
63125858 GATTAAATTG
* *
63125868 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
63125933 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
63125949 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
63126013 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
63126031 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
63126049 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:63133811 original size:27 final size:27
Alignment explanation
Indices: 63133780--63133957 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
63133770 TAAATTGTAC
63133780 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
63133807 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
63133833 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
63133861 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
63133889 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
63133916 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
63133943 AGAACTGAGTGTGCG
1 AGCACTAAGTGTGCG
63133958 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:63133894 original size:82 final size:81
Alignment explanation
Indices: 63133781--63133936 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
63133771 AAATTGTACA
* *
63133781 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
63133845 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
63133862 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
63133927 TGCGAGTTGA
65 TGCGAATTGA
63133937 TTATATAGAA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:63133954 original size:82 final size:81
Alignment explanation
Indices: 63133777--63133957 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
63133767 GATTAAATTG
* * *
63133777 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGAACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
63133842 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
63133858 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGAACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
63133922 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
63133940 TATAGAACTGAGTGTGCG
1 TACAGAACTAAGTGTGCG
63133958 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGAACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:63137605 original size:13 final size:14
Alignment explanation
Indices: 63137563--63137607 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
63137553 TAATAATGAT
63137563 TAAAGTATATTATAA
1 TAAAGTA-ATTATAA
63137578 TAATA-TAA-TATAA
1 TAA-AGTAATTATAA
63137591 TAAAGTAATTA-AA
1 TAAAGTAATTATAA
63137604 TAAA
1 TAAA
63137608 ACAAATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 3 0.11
15 5 0.19
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTATAA
Found at i:63137674 original size:12 final size:12
Alignment explanation
Indices: 63137657--63137690 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
63137647 AGGAAAAGAA
63137657 AGAAAGAAAAAG
1 AGAAAGAAAAAG
63137669 AGAAAGAAAAAG
1 AGAAAGAAAAAG
63137681 A-AAAGGAAAA
1 AGAAA-GAAAA
63137691 TTTAGGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 3 0.14
12 18 0.86
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AGAAAGAAAAAG
Found at i:63137684 original size:31 final size:31
Alignment explanation
Indices: 63137614--63137685 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 31
63137604 TAAAACAAAT
* * *
63137614 AAAATAAAAGAAAGAATGAAAACGAAACAGA
1 AAAAGAAAAGAAAGAAAGAAAAAGAAACAGA
** *
63137645 GCAGGAAAAGAAAGAAAGAAAAAGAGAA-AGA
1 AAAAGAAAAGAAAGAAAGAAAAAGA-AACAGA
63137676 AAAAGAAAAG
1 AAAAGAAAAG
63137686 GAAAATTTAG
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
31 29 0.94
32 2 0.06
ACGTcount: A:0.71, C:0.04, G:0.22, T:0.03
Consensus pattern (31 bp):
AAAAGAAAAGAAAGAAAGAAAAAGAAACAGA
Found at i:63137689 original size:16 final size:16
Alignment explanation
Indices: 63137649--63137689 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
63137639 AACAGAGCAG
*
63137649 GAAAA-GAAAGAAAGA
1 GAAAAGGAAAGAAAAA
63137664 -AAAAGAGAAAGAAAAA
1 GAAAAG-GAAAGAAAAA
63137680 GAAAAGGAAA
1 GAAAAGGAAA
63137690 ATTTAGGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
14 4 0.18
16 13 0.59
17 5 0.23
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (16 bp):
GAAAAGGAAAGAAAAA
Found at i:63140365 original size:24 final size:25
Alignment explanation
Indices: 63140313--63140365 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
63140303 ATACATGTAT
* * *
63140313 GCTCATACGAGCTCTGAATCGGTAT
1 GCTCATACGAGCTATGAAACGGTAA
*
63140338 GCTCTTACGAGCTAT-AAACGGTAA
1 GCTCATACGAGCTATGAAACGGTAA
63140362 GCTC
1 GCTC
63140366 CTCCAAGCTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (25 bp):
GCTCATACGAGCTATGAAACGGTAA
Found at i:63148149 original size:25 final size:25
Alignment explanation
Indices: 63148084--63148150 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 25
63148074 GCTATAAATG
* * *
63148084 GTAAGCTCCTCCGAGCTGAATAACT
1 GTAAGCTCATACGAGCTGAATAACA
** * *
63148109 GTAAGCTCATGTGAGCTGAGTATCA
1 GTAAGCTCATACGAGCTGAATAACA
63148134 GTAAGCTCATACGAGCT
1 GTAAGCTCATACGAGCT
63148151 AAAATCGGTA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.25
Consensus pattern (25 bp):
GTAAGCTCATACGAGCTGAATAACA
Found at i:63148318 original size:22 final size:19
Alignment explanation
Indices: 63148264--63148319 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 19
63148254 ATTCATGGAA
*
63148264 ATTATAGAATTTACAAACAT
1 ATTATACAATTTA-AAACAT
*
63148284 ATTATTCAATTTAAAACAT
1 ATTATACAATTTAAAACAT
63148303 ATAAGTATACAATTTAA
1 AT---TATACAATTTAA
63148320 TTACACGAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 8 0.27
20 11 0.37
22 11 0.37
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.38
Consensus pattern (19 bp):
ATTATACAATTTAAAACAT
Found at i:63156151 original size:43 final size:41
Alignment explanation
Indices: 63156080--63156217 Score: 152
Period size: 42 Copynumber: 3.3 Consensus size: 41
63156070 CCATATCTTA
* ** *
63156080 GATATGGTCTTACATGTAA-TCTTGTATCGATGCCAATAGCCC
1 GATATGGTCTTACACG-AAGTCTCATATCGATGCC-ATATCCC
*
63156122 GATTATGGTCTTACACGAAGTCTCATATCGATGCTATATCCC
1 GA-TATGGTCTTACACGAAGTCTCATATCGATGCCATATCCC
* * *
63156164 AAATATGGTCTTACACGGAGTCTCAAATCGATGCCATATCCC
1 -GATATGGTCTTACACGAAGTCTCATATCGATGCCATATCCC
63156206 AGATATGGTCTT
1 -GATATGGTCTT
63156218 GCACATAATT
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
42 57 0.69
43 26 0.31
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (41 bp):
GATATGGTCTTACACGAAGTCTCATATCGATGCCATATCCC
Found at i:63158830 original size:28 final size:28
Alignment explanation
Indices: 63158762--63158840 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
63158752 GAATCATTCG
* * *
63158762 ATATTTTGCACACTAAGTGTCATTCTTA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
63158790 ATATCTCACACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* * *
63158818 ATATTTCGTACACTGAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
63158841 ATTTGATTGC
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:63161078 original size:24 final size:24
Alignment explanation
Indices: 63161051--63161098 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
63161041 AGTAATATAG
63161051 TTATACTTTTTTGTCAAAAATCAA
1 TTATACTTTTTTGTCAAAAATCAA
*
63161075 TTATACTTTTTTTTCAAAAATCAA
1 TTATACTTTTTTGTCAAAAATCAA
63161099 ATGATATAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.12, G:0.02, T:0.48
Consensus pattern (24 bp):
TTATACTTTTTTGTCAAAAATCAA
Found at i:63161118 original size:27 final size:27
Alignment explanation
Indices: 63161088--63161142 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
63161078 TACTTTTTTT
* * *
63161088 TCAAAAATCAAATGATATAACTTTTGA
1 TCAAAAACCAAAAGATATAAATTTTGA
*
63161115 TCAATAACCAAAAGATATAAATTTTGA
1 TCAAAAACCAAAAGATATAAATTTTGA
63161142 T
1 T
63161143 TAATTACACC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (27 bp):
TCAAAAACCAAAAGATATAAATTTTGA
Found at i:63161565 original size:26 final size:26
Alignment explanation
Indices: 63161536--63161587 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
63161526 CACAAAGCAA
63161536 AATGGTAGCAAATGTTGCTCATTGGT
1 AATGGTAGCAAATGTTGCTCATTGGT
63161562 AATGGTAGCAAATGTTGCTCATTGGT
1 AATGGTAGCAAATGTTGCTCATTGGT
63161588 TGTCTAACGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.35
Consensus pattern (26 bp):
AATGGTAGCAAATGTTGCTCATTGGT
Found at i:63162666 original size:13 final size:14
Alignment explanation
Indices: 63162643--63162675 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
63162633 TTGATTTCTC
63162643 GAAAT-AGAAATGA
1 GAAATGAGAAATGA
63162656 -AAATGAGAAATGA
1 GAAATGAGAAATGA
63162669 GAAATGA
1 GAAATGA
63162676 ATTCATTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.22
13 8 0.44
14 6 0.33
ACGTcount: A:0.61, C:0.00, G:0.24, T:0.15
Consensus pattern (14 bp):
GAAATGAGAAATGA
Found at i:63162668 original size:7 final size:7
Alignment explanation
Indices: 63162643--63162675 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
63162633 TTGATTTCTC
63162643 GAAAT-A
1 GAAATGA
63162649 GAAATGA
1 GAAATGA
63162656 -AAATGA
1 GAAATGA
63162662 GAAATGA
1 GAAATGA
63162669 GAAATGA
1 GAAATGA
63162676 ATTCATTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 11 0.44
7 14 0.56
ACGTcount: A:0.61, C:0.00, G:0.24, T:0.15
Consensus pattern (7 bp):
GAAATGA
Found at i:63162704 original size:62 final size:62
Alignment explanation
Indices: 63162588--63162704 Score: 134
Period size: 62 Copynumber: 1.9 Consensus size: 62
63162578 ATTTTCTTCT
* * *
63162588 AAATGAAAATGAAAATAGAGAAAATGAAATCATTTGAAAATGAATTTGATTTCTCGAAATAG
1 AAATGAAAATGAAAATAGAGAAAATGAAATCATTTGAAAATGAATATAAATTCTCGAAATAG
*
63162650 AAATGAAAATGAGAAAT-GAG-AAATGAATTCATTT-AGAAATGGACA-ATAAATTCTC
1 AAATGAAAATGA-AAATAGAGAAAATGAAATCATTTGA-AAAT-GA-ATATAAATTCTC
63162705 AAAAATGATC
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
60 1 0.02
61 17 0.36
62 24 0.51
63 5 0.11
ACGTcount: A:0.51, C:0.06, G:0.16, T:0.26
Consensus pattern (62 bp):
AAATGAAAATGAAAATAGAGAAAATGAAATCATTTGAAAATGAATATAAATTCTCGAAATAG
Found at i:63163907 original size:6 final size:6
Alignment explanation
Indices: 63163891--63163929 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
63163881 TTTCTTTCCA
* *
63163891 TTCTCTT TTCTTT TTCTTT TTCTTC TTATTT TTCTTT TT
1 TTCT-TT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TT
63163930 GCTTATTTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
6 24 0.86
7 4 0.14
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (6 bp):
TTCTTT
Done.