Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 194 of 343
Found at i:64311373 original size:82 final size:81
Alignment explanation
Indices: 64311255--64311410 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
64311245 TGCTATATAA
* *
64311255 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
64311320 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
64311337 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTTAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
64311401 CACTTAGTGC
65 CACTTAGTGC
64311411 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:64311400 original size:54 final size:54
Alignment explanation
Indices: 64311234--64311410 Score: 196
Period size: 54 Copynumber: 3.3 Consensus size: 54
64311224 ATATTGAGCC
* * * *
64311234 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
64311288 CGCACACTTAGTGC-TACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* ** *
64311343 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTTAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
64311397 CGCACACTTAGTGC
1 CGCACACTTAGTGC
64311411 TGTACAATTT
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
52 1 0.01
54 56 0.54
55 45 0.44
56 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:64316471 original size:50 final size:49
Alignment explanation
Indices: 64316405--64316544 Score: 149
Period size: 49 Copynumber: 2.8 Consensus size: 49
64316395 CTCTTGAGCA
* * *
64316405 TATAACAGGAATCTCAT-GTGAGCCAT-GTAAAGGGAAGCTTATCCGGGTTG
1 TATAACAGGAAGCTCATAAT-AGCCATAGTAAA--GAAGCTCATCCGGGTTG
* * * *
64316455 TATAACAGGAAGCTCATAATAGCCATATTCAAGAAGCTCATGCTGGTTG
1 TATAACAGGAAGCTCATAATAGCCATAGTAAAGAAGCTCATCCGGGTTG
* * *
64316504 TATAACAGGAAGCTCATAATAGCCATATTCAGGAAGCTCAT
1 TATAACAGGAAGCTCATAATAGCCATAGTAAAGAAGCTCAT
64316545 ACGAGCCAAT
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
49 54 0.68
50 22 0.28
51 4 0.05
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (49 bp):
TATAACAGGAAGCTCATAATAGCCATAGTAAAGAAGCTCATCCGGGTTG
Found at i:64316495 original size:24 final size:24
Alignment explanation
Indices: 64316460--64316545 Score: 91
Period size: 24 Copynumber: 3.5 Consensus size: 24
64316450 GGTTGTATAA
64316460 CAGGAAGCTCATAATAGCCATATT
1 CAGGAAGCTCATAATAGCCATATT
* ** * *** *
64316484 CAAGAAGCTCATGCTGGTTGTATAA
1 CAGGAAGCTCATAATAGCCATAT-T
64316509 CAGGAAGCTCATAATAGCCATATT
1 CAGGAAGCTCATAATAGCCATATT
64316533 CAGGAAGCTCATA
1 CAGGAAGCTCATA
64316546 CGAGCCAATA
Statistics
Matches: 45, Mismatches: 16, Indels: 2
0.71 0.25 0.03
Matches are distributed among these distances:
24 29 0.64
25 16 0.36
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (24 bp):
CAGGAAGCTCATAATAGCCATATT
Found at i:64316510 original size:49 final size:49
Alignment explanation
Indices: 64316450--64316544 Score: 181
Period size: 49 Copynumber: 1.9 Consensus size: 49
64316440 AGCTTATCCG
64316450 GGTTGTATAACAGGAAGCTCATAATAGCCATATTCAAGAAGCTCATGCT
1 GGTTGTATAACAGGAAGCTCATAATAGCCATATTCAAGAAGCTCATGCT
*
64316499 GGTTGTATAACAGGAAGCTCATAATAGCCATATTCAGGAAGCTCAT
1 GGTTGTATAACAGGAAGCTCATAATAGCCATATTCAAGAAGCTCAT
64316545 ACGAGCCAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (49 bp):
GGTTGTATAACAGGAAGCTCATAATAGCCATATTCAAGAAGCTCATGCT
Found at i:64320744 original size:40 final size:40
Alignment explanation
Indices: 64320689--64320996 Score: 544
Period size: 40 Copynumber: 7.7 Consensus size: 40
64320679 GAGCATTGGA
64320689 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
64320729 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
64320769 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
64320809 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
64320849 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
64320889 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
64320929 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
64320969 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
64320997 ATGTGTTTGC
Statistics
Matches: 255, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 255 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:64330184 original size:27 final size:27
Alignment explanation
Indices: 64330153--64330330 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
64330143 TAAATTGTAC
*
64330153 AGCACTAAGTGTGCGATTTAACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
64330180 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
64330206 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
64330234 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
64330262 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
64330289 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
64330316 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
64330331 GGCTCAATAT
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:64330270 original size:82 final size:81
Alignment explanation
Indices: 64330154--64330309 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
64330144 AAATTGTACA
* *
64330154 GCACTAAGTGTGCGATTTAACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
64330218 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
64330235 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
64330300 TGCGAGTTGA
65 TGCGAATTGA
64330310 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:64330321 original size:82 final size:81
Alignment explanation
Indices: 64330150--64330330 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
64330140 GATTAAATTG
* *
64330150 TACAGCACTAAGTGTGCGATTTAACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
64330215 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
64330231 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
64330295 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
64330313 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
64330331 GGCTCAATAT
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:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:64330341 original size:27 final size:27
Alignment explanation
Indices: 64330235--64330341 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
64330225 TGACCATGCG
* * * *
64330235 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
64330263 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
64330290 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
64330317 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
64330342 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:64336347 original size:20 final size:21
Alignment explanation
Indices: 64336324--64336365 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
64336314 TCCGCTATTA
64336324 TTATGCGAACTATGTT-TTAT
1 TTATGCGAACTATGTTCTTAT
* *
64336344 TTATGTGAGCTATGTTCTTAT
1 TTATGCGAACTATGTTCTTAT
64336365 T
1 T
64336366 CATATTATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.21, C:0.10, G:0.17, T:0.52
Consensus pattern (21 bp):
TTATGCGAACTATGTTCTTAT
Found at i:64339599 original size:42 final size:42
Alignment explanation
Indices: 64339535--64339623 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
64339525 TCCTAATTGG
* *
64339535 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAATATAAAA
1 GAAAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
* *
64339577 GAAAATAGTTTCCTTGTCCTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
*
64339619 TAAAA
1 GAAAA
64339624 ATATTCCTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.51, C:0.13, G:0.07, T:0.29
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
Found at i:64339645 original size:43 final size:41
Alignment explanation
Indices: 64339536--64339633 Score: 101
Period size: 42 Copynumber: 2.3 Consensus size: 41
64339526 CCTAATTGGG
* * *
64339536 AAAATAGTTCCCTTATTC-TAATAAACTACTAAAATATAAAAG
1 AAAATAGTT-CC-TAGTCATAATAAACTACTAAAAGATAAAAA
* *
64339578 AAAATAGTTTCCTTGTCCTAATAAACTACTAAAAGATAAAATA
1 AAAATAG-TTCCTAGTCATAATAAACTACTAAAAGATAAAA-A
64339621 AAAATA-TTCCTAG
1 AAAATAGTTCCTAG
64339634 ATTATGAATA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
41 9 0.19
42 31 0.65
43 8 0.17
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.31
Consensus pattern (41 bp):
AAAATAGTTCCTAGTCATAATAAACTACTAAAAGATAAAAA
Found at i:64343551 original size:42 final size:42
Alignment explanation
Indices: 64343487--64343575 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
64343477 TCCTAATTGG
* *
64343487 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAATATAAAA
1 GAAAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
*
64343529 GAAAATAGTTCCCTTGTCCTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
*
64343571 TAAAA
1 GAAAA
64343576 ATATTCCTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.28
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
Found at i:64343622 original size:19 final size:18
Alignment explanation
Indices: 64343600--64343639 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
64343590 TGAATAAAAC
64343600 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
64343619 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
64343637 TTA
1 TTA
64343640 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:64345061 original size:27 final size:27
Alignment explanation
Indices: 64345004--64345061 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
64344994 TTGCCAAAAA
* *
64345004 TAGGGGTTCACAGGGTAGACCACGTGT
1 TAGGGGTTCACAGGGTAGACCACGAGC
* * *
64345031 TAGGGGTTCATAGGGTTGACTACGAGC
1 TAGGGGTTCACAGGGTAGACCACGAGC
64345058 TAGG
1 TAGG
64345062 AAGGTGCGAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.22, C:0.16, G:0.38, T:0.24
Consensus pattern (27 bp):
TAGGGGTTCACAGGGTAGACCACGAGC
Found at i:64348889 original size:26 final size:26
Alignment explanation
Indices: 64348860--64348971 Score: 104
Period size: 26 Copynumber: 4.3 Consensus size: 26
64348850 ATGATTAGAG
** *
64348860 ATTTAATTTAGTTAAGACAATTAAGA
1 ATTTAATTTAAATAAGATAATTAAGA
*
64348886 ATTTAAATT-AATAGAGATAATT-AGA
1 ATTTAATTTAAATA-AGATAATTAAGA
* * *
64348911 GTTTAAATTAAATTAGGATAATTAA-A
1 ATTTAATTTAAA-TAAGATAATTAAGA
*
64348937 ATTTTAATTTAAATAAGATAATTAGGA
1 A-TTTAATTTAAATAAGATAATTAAGA
64348964 ATTTAATT
1 ATTTAATT
64348972 AATAGGTTGG
Statistics
Matches: 70, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
25 13 0.19
26 42 0.60
27 15 0.21
ACGTcount: A:0.48, C:0.01, G:0.11, T:0.40
Consensus pattern (26 bp):
ATTTAATTTAAATAAGATAATTAAGA
Found at i:64349020 original size:105 final size:104
Alignment explanation
Indices: 64348911--64349315 Score: 407
Period size: 105 Copynumber: 3.9 Consensus size: 104
64348901 GATAATTAGA
* * *
64348911 GTTTAAATTAAATTAGGATAATTAAAATTTTAATTTAAATAAGATAATTAGGAATTT-AATTAAT
1 GTTTAAATTAAATTAGGATAATTAGAGTTTTAATTTAAATAAGATAATTAAGAATTTAAATTAAT
* *
64348975 AGGTTGGATAATAATTTAGATTTTAGTTAAGGTAAGTAGGT
66 AGATTAGATAATAATTTAGA-TTTAGTTAA-GTAAGTAGGT
* ** ** * * *
64349016 GTTTAAATTAAATTAGAATAATTAGAGTTCAAATTTATTTAAGATTATTAATAATTTAAATTAAA
1 GTTTAAATTAAATTAGGATAATTAGAGTTTTAATTTAAATAAGATAATTAAGAATTTAAATTAAT
* * * * *
64349081 ATATTAGGTAATAATTTAGATTTAG---A-TAATTATGA
66 AGATTAGATAATAATTTAGATTTAGTTAAGTAAGTAGGT
* * *
64349116 GTTTAAATTGAATTAGGATAATTAGAGTTTTAATTTAGATAATGA-AATTAGGAATTT-AATTAA
1 GTTTAAATTAAATTAGGATAATTAGAGTTTTAATTTAAATAA-GATAATTAAGAATTTAAATTAA
* *
64349179 CAGATTAGATAATAATTTAGATTTAGTTAAGATAAGTAGAAT
65 TAGATTAGATAATAATTTAGATTTAGTTAAG-TAAGTAG-GT
* * * * * *
64349221 -TTTAAATTAAGTTAGGATGATTAGAGTTTTAA-TTAATTTTAA-AAAATTAATAATTTAAATCA
1 GTTTAAATTAAATTAGGATAATTAGAGTTTTAATTTAA--ATAAGATAATTAAGAATTTAAATTA
64349283 ATAGATTAGATAATAATTTAGATTTTAGTTAAG
64 ATAGATTAGATAATAATTTAGA-TTTAGTTAAG
64349316 ATAATTCAGA
Statistics
Matches: 244, Mismatches: 43, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
99 29 0.12
100 51 0.21
101 2 0.01
102 2 0.01
103 4 0.02
104 44 0.18
105 80 0.33
106 32 0.13
ACGTcount: A:0.44, C:0.01, G:0.14, T:0.41
Consensus pattern (104 bp):
GTTTAAATTAAATTAGGATAATTAGAGTTTTAATTTAAATAAGATAATTAAGAATTTAAATTAAT
AGATTAGATAATAATTTAGATTTAGTTAAGTAAGTAGGT
Found at i:64349233 original size:27 final size:27
Alignment explanation
Indices: 64349194--64349256 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 27
64349184 TAGATAATAA
* *
64349194 TTTAGATTTAGTTAAGATAAGTAGAAT
1 TTTAAATTAAGTTAAGATAAGTAGAAT
* * * *
64349221 TTTAAATTAAGTTAGGATGATTAGAGT
1 TTTAAATTAAGTTAAGATAAGTAGAAT
64349248 TTT-AATTAA
1 TTTAAATTAA
64349257 TTTTAAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 6 0.20
27 24 0.80
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (27 bp):
TTTAAATTAAGTTAAGATAAGTAGAAT
Found at i:64349272 original size:204 final size:204
Alignment explanation
Indices: 64348900--64349307 Score: 563
Period size: 204 Copynumber: 2.0 Consensus size: 204
64348890 AAATTAATAG
64348900 AGATAATTAGAGTTTAAATTAAATTAGGATAATTAAAATTTTAATTTAAATAAGATAATTAGGAA
1 AGATAATTAGAGTTTAAATTAAATTAGGATAATTAAAATTTTAATTTAAATAAGATAATTAGGAA
* * * * *
64348965 TTTAATTAATAGGTTGGATAATAATTTAGATTTTAGTTAAGGTAAGTAGGTGTTTAAATTAAATT
66 TTTAATTAACAGATTAGATAATAATTTAGATTTTAGTTAAGATAAGTAGATGTTTAAATTAAATT
* ** * * *
64349030 AGAATAATTAGAGTTCAAATTTATTTAAGATTATTAATAATTTAAATTAAAATATTAGGTAATAA
131 AGAATAATTAGAGTTCAAATTAATTTAAGAAAATTAATAATTTAAATCAAAAGATTAGATAATAA
64349095 TTTAGATTT
196 TTTAGATTT
* * * *
64349104 AGATAATTATGAGTTTAAATTGAATTAGGATAATTAGAGTTTTAATTTAGATAATGA-AATTAGG
1 AGATAATTA-GAGTTTAAATTAAATTAGGATAATTAAAATTTTAATTTAAATAA-GATAATTAGG
64349168 AATTTAATTAACAGATTAGATAATAATTTAGA-TTTAGTTAAGATAAGTAGAAT-TTTAAATTAA
64 AATTTAATTAACAGATTAGATAATAATTTAGATTTTAGTTAAGATAAGTAG-ATGTTTAAATTAA
* * * ** *
64349231 GTTAGGATGATTAGAGTTTTAATTAATTTTAA-AAAATTAATAATTTAAATCAATAGATTAGATA
128 ATTAGAATAATTAGAGTTCAAATTAA-TTTAAGAAAATTAATAATTTAAATCAAAAGATTAGATA
64349295 ATAATTTAGATTT
192 ATAATTTAGATTT
64349308 TAGTTAAGAT
Statistics
Matches: 179, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
204 95 0.53
205 82 0.46
206 2 0.01
ACGTcount: A:0.45, C:0.01, G:0.13, T:0.41
Consensus pattern (204 bp):
AGATAATTAGAGTTTAAATTAAATTAGGATAATTAAAATTTTAATTTAAATAAGATAATTAGGAA
TTTAATTAACAGATTAGATAATAATTTAGATTTTAGTTAAGATAAGTAGATGTTTAAATTAAATT
AGAATAATTAGAGTTCAAATTAATTTAAGAAAATTAATAATTTAAATCAAAAGATTAGATAATAA
TTTAGATTT
Found at i:64350573 original size:6 final size:6
Alignment explanation
Indices: 64350564--64350594 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
64350554 AAGAAATTGA
64350564 AAGTGG AAGTGG AAGTGG AAGTGG AAGTGG A
1 AAGTGG AAGTGG AAGTGG AAGTGG AAGTGG A
64350595 GAAAGTGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.48, T:0.16
Consensus pattern (6 bp):
AAGTGG
Found at i:64353476 original size:38 final size:38
Alignment explanation
Indices: 64353425--64353555 Score: 190
Period size: 38 Copynumber: 3.4 Consensus size: 38
64353415 CTGCCCCTTA
*
64353425 CCAGCCGTACACTCCATGTGGGGAATATCTCAACCCAC
1 CCAGCCCTACACTCCATGTGGGGAATATCTCAACCCAC
64353463 CCAGCCCTACACTCCATGTGGGGAATATCTCAACCCAC
1 CCAGCCCTACACTCCATGTGGGGAATATCTCAACCCAC
* * ** *
64353501 CCAGCCCTACACTCCACAGTTGCAAATACCTCAACCCAC
1 CCAGCCCTACACTCCA-TGTGGGGAATATCTCAACCCAC
*
64353540 CTAGCCCTACACTCCA
1 CCAGCCCTACACTCCA
64353556 CAGTTGCAGC
Statistics
Matches: 85, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
38 53 0.62
39 32 0.38
ACGTcount: A:0.27, C:0.42, G:0.13, T:0.18
Consensus pattern (38 bp):
CCAGCCCTACACTCCATGTGGGGAATATCTCAACCCAC
Found at i:64353546 original size:39 final size:39
Alignment explanation
Indices: 64353448--64353563 Score: 171
Period size: 39 Copynumber: 3.0 Consensus size: 39
64353438 CCATGTGGGG
* * **
64353448 AATATCTCAACCCACCCAGCCCTACACTCCA-TGTGGGG
1 AATATCTCAACCCACCCAGCCCTACACTCCACAGTTGCA
64353486 AATATCTCAACCCACCCAGCCCTACACTCCACAGTTGCA
1 AATATCTCAACCCACCCAGCCCTACACTCCACAGTTGCA
* *
64353525 AATACCTCAACCCACCTAGCCCTACACTCCACAGTTGCA
1 AATATCTCAACCCACCCAGCCCTACACTCCACAGTTGCA
64353564 GCAACGCTGC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
38 31 0.44
39 40 0.56
ACGTcount: A:0.29, C:0.42, G:0.10, T:0.18
Consensus pattern (39 bp):
AATATCTCAACCCACCCAGCCCTACACTCCACAGTTGCA
Found at i:64357259 original size:79 final size:81
Alignment explanation
Indices: 64357157--64357341 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
64357147 GCTCCTCGTT
* *
64357157 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
64357220 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
64357237 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
64357301 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
64357317 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
64357342 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:64357341 original size:40 final size:40
Alignment explanation
Indices: 64357157--64357341 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
64357147 GCTCCTCGTT
* *
64357157 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
64357197 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
64357237 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
64357276 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
64357317 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
64357342 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:64365144 original size:79 final size:81
Alignment explanation
Indices: 64365042--64365226 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
64365032 GCTCCTCGTT
* *
64365042 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
64365105 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
64365122 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
64365186 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
64365202 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
64365227 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:64365226 original size:40 final size:40
Alignment explanation
Indices: 64365042--64365226 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
64365032 GCTCCTCGTT
* *
64365042 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
64365082 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
64365122 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
64365161 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
64365202 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
64365227 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:64376497 original size:53 final size:52
Alignment explanation
Indices: 64376360--64376509 Score: 169
Period size: 52 Copynumber: 2.9 Consensus size: 52
64376350 GAAAAAGATG
** * *
64376360 TGATATGTGCACCCGTTTAAGACCATAAT-TGGGCTATGGCATCGGTGCAATA
1 TGATATGTGTTCCCGTATAAGACCAT-ATCTGGGCTATGGCATCGGTGCAACA
* * **
64376412 TGATATGTGTTCCCATATAAGACCATAGCTGGGCTATGGCATCGGTGTGACA
1 TGATATGTGTTCCCGTATAAGACCATATCTGGGCTATGGCATCGGTGCAACA
* *
64376464 TGATAATGTGATT-CCGTATAAGACTATATCTGGGATATGGCATCGG
1 TGAT-ATGTG-TTCCCGTATAAGACCATATCTGGGCTATGGCATCGG
64376510 GGTGTGGTGT
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
51 1 0.01
52 46 0.55
53 34 0.41
54 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (52 bp):
TGATATGTGTTCCCGTATAAGACCATATCTGGGCTATGGCATCGGTGCAACA
Found at i:64378675 original size:296 final size:296
Alignment explanation
Indices: 64378089--64378690 Score: 1163
Period size: 296 Copynumber: 2.0 Consensus size: 296
64378079 ACTTGTACTA
64378089 AAAAATATTTAATTTTTAGTGAAGAAGGGTCAGAGCTACCTAGCAGCAAAACAGGGGAAGATTTG
1 AAAAATATTTAATTTTTAGTGAAGAAGGGTCAGAGCTACCTAGCAGCAAAACAGGGGAAGATTTG
64378154 AAGAAAAAATAGTATTCATTGGCTTAAGTATAAATTCTAAAACTTTTATAGTATAAAGCTCATTG
66 AAGAAAAAATAGTATTCATTGGCTTAAGTATAAATTCTAAAACTTTTATAGTATAAAGCTCATTG
64378219 AGTCTACTTTTTTTTTAAAAAAAAAGCAAATCTTAATTTCAAATTTTATACATCGAGGTATAAAT
131 AGTCTACTTTTTTTTTAAAAAAAAAGCAAATCTTAATTTCAAATTTTATACATCGAGGTATAAAT
64378284 AGATTAGTGACTATTACTCAAATGGACAACCTTGACAAGAGTATGTGTGTAATTAGAGAAACCTT
196 AGATTAGTGACTATTACTCAAATGGACAACCTTGACAAGAGTATGTGTGTAATTAGAGAAACCTT
64378349 AATTAATGCTACATATAAGCATGATATGTTAAGA-G
261 AATTAATGCTACATATAAGCATGATATGTTAAGAGG
64378384 AAAAATATTTAATTTTTAGTGAAGAAGGGTCAGAGCTACCTAGCAGCAAAACAGGGGAAGATTTG
1 AAAAATATTTAATTTTTAGTGAAGAAGGGTCAGAGCTACCTAGCAGCAAAACAGGGGAAGATTTG
*
64378449 AAGAAAAAATAGTATTCATTGGCTTAAGTATAAATTCTAAAACTTTTATGGTATAAAGCTCATTG
66 AAGAAAAAATAGTATTCATTGGCTTAAGTATAAATTCTAAAACTTTTATAGTATAAAGCTCATTG
*
64378514 AGTCTAGTTTTTTTTTAAAAAAAAAAGCAAATCTTAATTTCAAATTTTATACATCGAGGTATAAA
131 AGTCTACTTTTTTTTT-AAAAAAAAAGCAAATCTTAATTTCAAATTTTATACATCGAGGTATAAA
64378579 TAGATTAGTGACTATTACTCAAATGGACAACCTTGACAAGAGTATGTGTGTAATTAGAGAAACCT
195 TAGATTAGTGACTATTACTCAAATGGACAACCTTGACAAGAGTATGTGTGTAATTAGAGAAACCT
64378644 TAATTAATGCTACATATAAGCATGATATGTTAAGAGG
260 TAATTAATGCTACATATAAGCATGATATGTTAAGAGG
64378681 AAAAA-ATTTA
1 AAAAATATTTA
64378691 TATATATACA
Statistics
Matches: 303, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
295 144 0.48
296 153 0.50
297 6 0.02
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.32
Consensus pattern (296 bp):
AAAAATATTTAATTTTTAGTGAAGAAGGGTCAGAGCTACCTAGCAGCAAAACAGGGGAAGATTTG
AAGAAAAAATAGTATTCATTGGCTTAAGTATAAATTCTAAAACTTTTATAGTATAAAGCTCATTG
AGTCTACTTTTTTTTTAAAAAAAAAGCAAATCTTAATTTCAAATTTTATACATCGAGGTATAAAT
AGATTAGTGACTATTACTCAAATGGACAACCTTGACAAGAGTATGTGTGTAATTAGAGAAACCTT
AATTAATGCTACATATAAGCATGATATGTTAAGAGG
Found at i:64381340 original size:27 final size:27
Alignment explanation
Indices: 64381288--64381349 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
64381278 CTTCATGGTG
*
64381288 TACTCTGAATGGATCACCTATGTGGCA
1 TACTCTGAATGGATCACCTATATGGCA
* *
64381315 TACTCTGAATGGATCGCCCT-TATGGCT
1 TACTCTGAATGGATC-ACCTATATGGCA
64381342 TACTCTGA
1 TACTCTGA
64381350 TTAGATTGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 28 0.90
28 3 0.10
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (27 bp):
TACTCTGAATGGATCACCTATATGGCA
Found at i:64394891 original size:39 final size:40
Alignment explanation
Indices: 64394807--64394891 Score: 118
Period size: 39 Copynumber: 2.1 Consensus size: 40
64394797 ACTTAATTCA
* * *
64394807 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
64394847 CCAGCATGAAGCCAGCGGGTCTCT-AACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
64394886 TCAGCA
1 CCAGCA
64394892 CAATTCATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 20 0.50
40 20 0.50
ACGTcount: A:0.29, C:0.32, G:0.21, T:0.18
Consensus pattern (40 bp):
CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
Found at i:64395024 original size:47 final size:47
Alignment explanation
Indices: 64394962--64395119 Score: 262
Period size: 47 Copynumber: 3.3 Consensus size: 47
64394952 TGCACACTTT
* * **
64394962 TCACAATTGGTCATTCGGCCTTATCACATGTATGCACTTTCACATTCA
1 TCAC-ATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
64395010 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
*
64395057 TCACATTGGCTATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
64395104 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
64395120 ATCTTAAGCT
Statistics
Matches: 104, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
47 100 0.96
48 4 0.04
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
Found at i:64406358 original size:55 final size:55
Alignment explanation
Indices: 64406284--64406400 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 55
64406274 GTAGGCCCAT
* * * *
64406284 GCCCGTGTTAATTTAACAGGTTCGACCAC-GGTTGCTTGGCACGGGCGTGTCGAAC
1 GCCCGTGCTAATTTAACAGGTTCGACCACAGGTT-CTAGACACGGGCATGTCGAAC
* * * *
64406339 GCCCGTGCTGATTTGACAGGTTCGGCCACAGGTTCTAGACACGGGTATGTCGAAC
1 GCCCGTGCTAATTTAACAGGTTCGACCACAGGTTCTAGACACGGGCATGTCGAAC
64406394 GCCCGTG
1 GCCCGTG
64406401 TTGTTTTAGC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
55 49 0.92
56 4 0.08
ACGTcount: A:0.18, C:0.26, G:0.32, T:0.24
Consensus pattern (55 bp):
GCCCGTGCTAATTTAACAGGTTCGACCACAGGTTCTAGACACGGGCATGTCGAAC
Found at i:64408068 original size:21 final size:21
Alignment explanation
Indices: 64408044--64408083 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
64408034 TTCTGCTCCG
*
64408044 CCTCCCTCGCTGCTGCCTCAC
1 CCTCCCGCGCTGCTGCCTCAC
64408065 CCTCCCGCGCTGCTGCCTC
1 CCTCCCGCGCTGCTGCCTC
64408084 CGCTCTAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.03, C:0.57, G:0.17, T:0.23
Consensus pattern (21 bp):
CCTCCCGCGCTGCTGCCTCAC
Found at i:64412599 original size:9 final size:9
Alignment explanation
Indices: 64412585--64412751 Score: 154
Period size: 9 Copynumber: 17.6 Consensus size: 9
64412575 ATGTATTAGT
64412585 TAAGTTATG
1 TAAGTTATG
64412594 TAAGTTGTTATG
1 TAA---GTTATG
*
64412606 TACGTTATG
1 TAAGTTATG
*
64412615 TGAGTTATG
1 TAAGTTATG
*
64412624 TAAATTATG
1 TAAGTTATG
64412633 TAAGTTATG
1 TAAGTTATG
*
64412642 TGAGTTATG
1 TAAGTTATG
64412651 TAAGTTGTTATG
1 TAA---GTTATG
*
64412663 TAAATTATG
1 TAAGTTATG
64412672 TAAGTTATG
1 TAAGTTATG
*
64412681 TGAGTTATG
1 TAAGTTATG
64412690 TAAGTTGTTATG
1 TAA---GTTATG
*
64412702 TAAATTATG
1 TAAGTTATG
*
64412711 TAAGTTATA
1 TAAGTTATG
*
64412720 TGAGTTATG
1 TAAGTTATG
64412729 TAAGTTATG
1 TAAGTTATG
* *
64412738 TAATTTATT
1 TAAGTTATG
64412747 TAAGT
1 TAAGT
64412752 AATGATCAAT
Statistics
Matches: 128, Mismatches: 21, Indels: 18
0.77 0.13 0.11
Matches are distributed among these distances:
9 102 0.80
12 26 0.20
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:64412632 original size:39 final size:40
Alignment explanation
Indices: 64412589--64412751 Score: 168
Period size: 39 Copynumber: 4.2 Consensus size: 40
64412579 ATTAGTTAAG
64412589 TTATGTAAGTTGTTATGT-ACGTTATGT-G-AGTTATGTAAA
1 TTATGTAAG-TGTTATGTGA-GTTATGTAGTAGTTATGTAAA
*
64412628 TTATGTAA--GTTATGTGAGTTATGTAAGTTGTTATGTAAA
1 TTATGTAAGTGTTATGTGAGTTATGT-AGTAGTTATGTAAA
*
64412667 TTATGTAA--GTTATGTGAGTTATGTAAGTTGTTATGTAAA
1 TTATGTAAGTGTTATGTGAGTTATGT-AGTAGTTATGTAAA
* *
64412706 TTATGTAA--GTTATATGAGTTATGTA--AGTTATGTAAT
1 TTATGTAAGTGTTATGTGAGTTATGTAGTAGTTATGTAAA
*
64412742 TTATTTAAGT
1 TTATGTAAGT
64412752 AATGATCAAT
Statistics
Matches: 113, Mismatches: 5, Indels: 13
0.86 0.04 0.10
Matches are distributed among these distances:
36 30 0.27
37 1 0.01
38 2 0.02
39 80 0.71
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (40 bp):
TTATGTAAGTGTTATGTGAGTTATGTAGTAGTTATGTAAA
Found at i:64412661 original size:48 final size:44
Alignment explanation
Indices: 64412600--64412739 Score: 183
Period size: 39 Copynumber: 3.4 Consensus size: 44
64412590 TATGTAAGTT
*
64412600 GTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATGTGA
1 GTTATGTAAGTTATGT-AGTTATGTAAATTATGTAAGTTATGTGA
64412645 GTTATGTAAG---T-T-GTTATGTAAATTATGTAAGTTATGTGA
1 GTTATGTAAGTTATGTAGTTATGTAAATTATGTAAGTTATGTGA
*
64412684 GTTATGTAAG---T-T-GTTATGTAAATTATGTAAGTTATATGA
1 GTTATGTAAGTTATGTAGTTATGTAAATTATGTAAGTTATGTGA
64412723 GTTATGTAAGTTATGTA
1 GTTATGTAAGTTATGTA
64412740 ATTTATTTAA
Statistics
Matches: 88, Mismatches: 2, Indels: 11
0.87 0.02 0.11
Matches are distributed among these distances:
39 75 0.85
41 1 0.01
42 2 0.02
43 1 0.01
45 9 0.10
ACGTcount: A:0.31, C:0.01, G:0.23, T:0.46
Consensus pattern (44 bp):
GTTATGTAAGTTATGTAGTTATGTAAATTATGTAAGTTATGTGA
Found at i:64412678 original size:57 final size:57
Alignment explanation
Indices: 64412585--64412751 Score: 196
Period size: 57 Copynumber: 2.9 Consensus size: 57
64412575 ATGTATTAGT
* *
64412585 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAATTATGTAAGTTATG
* * * *
64412642 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTTGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAATTATGTAA---GTTATG
* * * *
64412702 TAAATTATGTAAGTT-ATATG--AGTTATGTAAGTTATGTAATTTATTTAAGT
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAATTATGTAAGT
64412752 AATGATCAAT
Statistics
Matches: 94, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
54 2 0.02
57 69 0.73
59 4 0.04
60 19 0.20
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.47
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAATTATGTAAGTTATG
Found at i:64412740 original size:48 final size:48
Alignment explanation
Indices: 64412585--64412740 Score: 188
Period size: 48 Copynumber: 3.2 Consensus size: 48
64412575 ATGTATTAGT
* * *
64412585 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAGTTATG
* * * * *
64412633 TAAGTTATGTGAGTTATGTAAGT-TGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGT-TATGTAAGTTATGTAAGTTATGTAAGTTATG
* * * *
64412681 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAGTTATG
64412729 TAAGTTATGTAA
1 TAAGTTATGTAA
64412741 TTTATTTAAG
Statistics
Matches: 89, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
47 4 0.04
48 81 0.91
49 4 0.04
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (48 bp):
TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAGTTATG
Found at i:64413353 original size:241 final size:241
Alignment explanation
Indices: 64412930--64414380 Score: 2814
Period size: 241 Copynumber: 6.0 Consensus size: 241
64412920 TTAAGGTTAT
* * *
64412930 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAACTCTTTTTGAATTTTTTAAGAT
*
64412995 TTATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
64413060 ACCCGTC-AGCTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGA
131 ACCCGTCAAG-TTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGA
64413124 AGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
195 AGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
64413171 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAACTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAACTCTTTTTGAATTTTTTAAGAT
64413236 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
64413301 ACCCGTCAAGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAAGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
64413366 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
196 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
64413412 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAACTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAACTCTTTTTGAATTTTTTAAGAT
*
64413477 TCATCATACATGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
64413542 ACCCGTCAAGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAAGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
64413607 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
196 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
64413653 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAACTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAACTCTTTTTGAATTTTTTAAGAT
64413718 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
64413783 ACCCGTCAAGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAAGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
64413848 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
196 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
64413894 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAACTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAACTCTTTTTGAATTTTTTAAGAT
*
64413959 TCATCATACATGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
64414024 ACCCGTCAAGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAAGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
64414089 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
196 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
64414135 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAACTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAACTCTTTTTGAATTTTTTAAGAT
*
64414200 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAACTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
64414265 ACCCGTCAAGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAAGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
*
64414330 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGGTACATGGTA
196 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
64414376 ATAAA
1 ATAAA
64414381 ATTAATTCAT
Statistics
Matches: 1199, Mismatches: 10, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
241 1197 1.00
242 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.34
Consensus pattern (241 bp):
ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAACTCTTTTTGAATTTTTTAAGAT
TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
ACCCGTCAAGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
Found at i:64419093 original size:22 final size:22
Alignment explanation
Indices: 64419009--64419093 Score: 57
Period size: 21 Copynumber: 3.8 Consensus size: 22
64418999 TTAGGATTTA
64419009 TATAGTATTTAAGTGTTTAAGGGTT
1 TATAGT-TTTAAGT-TTT-AGGGTT
* * * *
64419034 TATTG-TCTACAGTTTAAGGTTT
1 TATAGTTTTA-AGTTTTAGGGTT
* * *
64419056 TATGGTTTT-GGATTTAGGGTT
1 TATAGTTTTAAGTTTTAGGGTT
64419077 TATAGTTTTAAGTTTTA
1 TATAGTTTTAAGTTTTA
64419094 TAATTTAGGG
Statistics
Matches: 44, Mismatches: 13, Indels: 9
0.67 0.20 0.14
Matches are distributed among these distances:
21 16 0.36
22 14 0.32
23 7 0.16
24 3 0.07
25 4 0.09
ACGTcount: A:0.24, C:0.02, G:0.22, T:0.52
Consensus pattern (22 bp):
TATAGTTTTAAGTTTTAGGGTT
Found at i:64419193 original size:29 final size:29
Alignment explanation
Indices: 64419124--64419199 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 29
64419114 TAGGTTTATA
64419124 GTTTTATGGTTTAGGAATCTATATTTAAGG
1 GTTTTATGGTTTAGG-ATCTATATTTAAGG
* * *
64419154 GCTTAAGGGTTTAGTG-TCTATAGTTT-AGG
1 GTTTTATGGTTTAG-GATCTATA-TTTAAGG
*
64419183 GTTTTATGGTTTTGGAT
1 GTTTTATGGTTTAGGAT
64419200 TCAAGATTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
28 1 0.03
29 20 0.56
30 14 0.39
31 1 0.03
ACGTcount: A:0.21, C:0.04, G:0.28, T:0.47
Consensus pattern (29 bp):
GTTTTATGGTTTAGGATCTATATTTAAGG
Found at i:64430877 original size:23 final size:23
Alignment explanation
Indices: 64430851--64430910 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
64430841 TGTCCCAATG
*
64430851 CACAAAGGCGTGTGCATTGTCTC
1 CACAAGGGCGTGTGCATTGTCTC
* *
64430874 CACACGGGCGTTTGCATTGTCTC
1 CACAAGGGCGTGTGCATTGTCTC
*
64430897 CACATGGGCGTGTG
1 CACAAGGGCGTGTG
64430911 AGGCATTAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.17, C:0.27, G:0.30, T:0.27
Consensus pattern (23 bp):
CACAAGGGCGTGTGCATTGTCTC
Found at i:64449060 original size:46 final size:48
Alignment explanation
Indices: 64448927--64449144 Score: 179
Period size: 46 Copynumber: 4.6 Consensus size: 48
64448917 ATTGTGGACT
* * *
64448927 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATTGAGATG-AGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCTACT-AGATGTA-AGCC
* * * *
64448975 AATGTAAGA-CATGTCTGGGACA-CGCATCGGCCT-CGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAG-CTACTAGATGTAAGCC
*
64449021 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCTACTAGATGT--GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCTACTAGATGTAAGCC
* * * **
64449065 AGTGTAAGACCATGTCTAGGACATGGCATCAAC-AC-GGATCTGTGAAAGGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCTACTAGA--TGT--AAGCC
64449115 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
64449145 GGCATTATAC
Statistics
Matches: 142, Mismatches: 15, Indels: 24
0.78 0.08 0.13
Matches are distributed among these distances:
44 13 0.09
45 17 0.12
46 59 0.42
47 15 0.11
48 8 0.06
50 30 0.21
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCTACTAGATGTAAGCC
Found at i:64450554 original size:49 final size:49
Alignment explanation
Indices: 64450498--64450669 Score: 206
Period size: 49 Copynumber: 3.5 Consensus size: 49
64450488 CTGGTACGCA
*
64450498 TAGTAGCCTGCACTTAGTGCTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * ** * * *
64450547 TAATAGCCTGCACTTAGTAC-ACACGTGATCGA--TGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATG--CGACCAATTATCCGGTACACG
* * *
64450595 TAGTAGCCTACACATAGTACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
64450644 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
64450670 CATGACCTCA
Statistics
Matches: 98, Mismatches: 20, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
47 3 0.03
48 34 0.35
49 58 0.59
50 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:64450621 original size:97 final size:98
Alignment explanation
Indices: 64450485--64450668 Score: 307
Period size: 97 Copynumber: 1.9 Consensus size: 98
64450475 TGGCCAAAGC
* * * * *
64450485 TATCTGGTACGCATAGTAGCCTGCACTTAGTGCTACACATGCGACCAATTATCCGGTACACGTAA
1 TATCGGGTACGCATAGTAGCCTACACATAGTACTACACATGCGACCAATTATCCAGTACACGTAA
64450550 TAGCCTGCACTTAGTAC-ACACGTGATCGATGT
66 TAGCCTGCACTTAGTACTACACGTGATCGATGT
*
64450582 TATCGGGTACGCATAGTAGCCTACACATAGTACTACACATGCGACCAATTATCCAGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTACACATAGTACTACACATGCGACCAATTATCCAGTACACGTAA
64450647 TAGCCTGCACTTAGTACTACAC
66 TAGCCTGCACTTAGTACTACAC
64450669 ACATGACCTC
Statistics
Matches: 80, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
97 76 0.95
98 4 0.05
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (98 bp):
TATCGGGTACGCATAGTAGCCTACACATAGTACTACACATGCGACCAATTATCCAGTACACGTAA
TAGCCTGCACTTAGTACTACACGTGATCGATGT
Found at i:64463926 original size:53 final size:53
Alignment explanation
Indices: 64463857--64463962 Score: 142
Period size: 53 Copynumber: 2.0 Consensus size: 53
64463847 TTTTCCTTTT
* * * * *
64463857 TGAACTTACCATTGCCATGTCTT-GACATGGTCTTACGTGGTATCCTTACCTTA
1 TGAACTCACCAATGCCATGCCTTAG-CATGGTCTTACATGATATCCTTACCTTA
*
64463910 TGAACTCACCAATGCCATGCCTTAGCATGGTCTTACATGATATCCTTATCTTA
1 TGAACTCACCAATGCCATGCCTTAGCATGGTCTTACATGATATCCTTACCTTA
64463963 CCAAATGCCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
53 45 0.98
54 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (53 bp):
TGAACTCACCAATGCCATGCCTTAGCATGGTCTTACATGATATCCTTACCTTA
Found at i:64463992 original size:47 final size:47
Alignment explanation
Indices: 64463935--64464056 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
64463925 CATGCCTTAG
*
64463935 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
* *
64463982 CTTGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
64464029 CATGGTCTTACATGGTATCCTTATCTTA
1 CATGGTCTTACATGGTATCCTTATCTTA
64464057 GTGCCAATGC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:64464245 original size:44 final size:44
Alignment explanation
Indices: 64464196--64464280 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
64464186 ATCCTTAACC
* *
64464196 ATCAATTCCTCCTTAAATGCCATGTTATAAACATGGACTTTTCT
1 ATCAATTCCTCCTTAAATGCCATGGTACAAACATGGACTTTTCT
* * *
64464240 ATCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 ATCAATTCCTCCTTAAATGCCATGGTACAAACATGGACTTT
64464281 GAGATATCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.38
Consensus pattern (44 bp):
ATCAATTCCTCCTTAAATGCCATGGTACAAACATGGACTTTTCT
Found at i:64464854 original size:31 final size:30
Alignment explanation
Indices: 64464819--64464876 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
64464809 CTAACTCAAA
*
64464819 CTTTGAAAAAATTATAATTTTGCCCCTACAC
1 CTTTG-AAAAATTACAATTTTGCCCCTACAC
* * *
64464850 CTTTGCAAAATTACGATTTTTCCCCTA
1 CTTTGAAAAATTACAATTTTGCCCCTA
64464877 GGCTTGAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 18 0.78
31 5 0.22
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
CTTTGAAAAATTACAATTTTGCCCCTACAC
Found at i:64470544 original size:55 final size:53
Alignment explanation
Indices: 64470417--64470617 Score: 217
Period size: 55 Copynumber: 3.7 Consensus size: 53
64470407 TTTCCTTTTT
* * * * * * * *
64470417 GAACTTACCATTGCCATGTCTTGACATGGTCATACGTGGTATCCTTGCCATAT-
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTGCCTTATA
* *
64470470 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGGGACC-TTGCCTTATA
* ***
64470524 GTAA-TTCATCAATGCCATGCCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTT-ATCAATGCCATGCCTTGGCATGGTCTTACATG-GGACCTTGCCTTATA
64470579 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGG
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGG
64470618 TATCCTTGTC
Statistics
Matches: 126, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
52 2 0.02
53 42 0.33
54 35 0.28
55 45 0.36
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (53 bp):
GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTGCCTTATA
Found at i:64470658 original size:47 final size:45
Alignment explanation
Indices: 64470582--64470763 Score: 177
Period size: 47 Copynumber: 4.0 Consensus size: 45
64470572 CCTTATAGAA
* * *
64470582 CTTATCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGT
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGT
*** *
64470627 CTTACCAAATGCCATGTTCCAAACATGGTCTTACATGG-AGTCCTTAAT
1 CTTACC-AATGCCATG-TCTTGACATGGTCTTACATGGTA-TCCTT-GT
* * * * * * *
64470675 CAATGCCGATGCCATGTCTTGGCATGGTCTTACACGGGATCCTTGC
1 C-TTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGT
*
64470721 CTTACCAATGCCATGTCTTGACATGGTTTTACATGGTATCCTT
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
64470764 AACCTTCAAT
Statistics
Matches: 107, Mismatches: 24, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
45 40 0.37
46 11 0.10
47 42 0.39
48 11 0.10
49 3 0.03
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.34
Consensus pattern (45 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGT
Found at i:64470835 original size:44 final size:44
Alignment explanation
Indices: 64470769--64470852 Score: 98
Period size: 44 Copynumber: 1.9 Consensus size: 44
64470759 TCCTTAACCT
* * *
64470769 TCAATTCATCCTTAAATGCCATGTTATGAA-CATGGACTTTTCCA
1 TCAATTCATCCCTAAATGCCATGGTA-CAACCATGGACTTTTCCA
* * *
64470813 TCAATTCTTCCCTAATTTCCATGGTACAACCATGGACTTT
1 TCAATTCATCCCTAAATGCCATGGTACAACCATGGACTTT
64470853 GAGATATCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
43 2 0.06
44 31 0.94
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (44 bp):
TCAATTCATCCCTAAATGCCATGGTACAACCATGGACTTTTCCA
Found at i:64477588 original size:46 final size:46
Alignment explanation
Indices: 64477530--64477618 Score: 135
Period size: 46 Copynumber: 1.9 Consensus size: 46
64477520 GAGACATGGC
* *
64477530 ATCGGCATTGAGATG-AGAGCTAGTGTAAGACATGTCTAGGACAAGT
1 ATCGGCATTGAGATGTA-AGCCAGTGTAAAACATGTCTAGGACAAGT
*
64477576 ATCGGCCTTGAGATGTAAGCCAGTGTAAAACATGTCTAGGACA
1 ATCGGCATTGAGATGTAAGCCAGTGTAAAACATGTCTAGGACA
64477619 TACATCGGCT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
46 38 0.97
47 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.24
Consensus pattern (46 bp):
ATCGGCATTGAGATGTAAGCCAGTGTAAAACATGTCTAGGACAAGT
Found at i:64477635 original size:46 final size:45
Alignment explanation
Indices: 64477503--64477663 Score: 132
Period size: 46 Copynumber: 3.5 Consensus size: 45
64477493 ATTGTGGACT
* * * * *
64477503 AGTGTAAGACCATGCCT-GAGACATGGCATCGGCATTGAGATGAGAGCT
1 AGTGTAAGA-CATGTCTAG-GACATAGCATCGGCCTCGAGAT-A-AGCC
* *
64477551 AGTGTAAGACATGTCTAGGACA-AGTATCGGCCTTGAGATGTAAGCC
1 AGTGTAAGACATGTCTAGGACATAGCATCGGCCTCGAGA--TAAGCC
* * *
64477597 AGTGTAAAACATGTCTAGGACATA-CATCGG-CTACGAGATATGTC
1 AGTGTAAGACATGTCTAGGACATAGCATCGGCCT-CGAGATAAGCC
*
64477641 AGTTTAAGACATGTCTAGGACAT
1 AGTGTAAGACATGTCTAGGACAT
64477664 GGCGTCGACA
Statistics
Matches: 96, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
44 25 0.26
45 2 0.02
46 46 0.48
47 12 0.12
48 11 0.11
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTAGGACATAGCATCGGCCTCGAGATAAGCC
Found at i:64477688 original size:31 final size:31
Alignment explanation
Indices: 64477650--64477711 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
64477640 CAGTTTAAGA
** * *
64477650 CATGTCTAGGACATGGCGTCGACATGGATAT
1 CATGTCTAAAACATGGCATCGACACGGATAT
64477681 CATGTCTAAAACATGGCATCGACACGGATAT
1 CATGTCTAAAACATGGCATCGACACGGATAT
64477712 GTGAGAGCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (31 bp):
CATGTCTAAAACATGGCATCGACACGGATAT
Found at i:64477784 original size:47 final size:47
Alignment explanation
Indices: 64477716--64477845 Score: 224
Period size: 47 Copynumber: 2.8 Consensus size: 47
64477706 GGATATGTGA
* *
64477716 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGACTTGATGGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGAT
*
64477763 GAGCCAGTGTAAGGCCATGTCTGGGACATGGCATCGACTTGATGGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGAT
*
64477810 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
64477846 GCTTTATACC
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 78 1.00
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.24
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGAT
Found at i:64480728 original size:42 final size:42
Alignment explanation
Indices: 64480609--64480728 Score: 134
Period size: 41 Copynumber: 2.9 Consensus size: 42
64480599 TACTATACCA
* *
64480609 ATGCCATATCCCAGATATGGTATTACATGTAATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
**** * * *
64480651 ATGCCA-AGAGAAGCTATGGTCCTACATGAAGTCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* *
64480692 ATGCCATATCCCATATATGGTCTTACACGAAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCA
64480729 GTAACCCTAA
Statistics
Matches: 59, Mismatches: 18, Indels: 2
0.75 0.23 0.03
Matches are distributed among these distances:
41 32 0.54
42 27 0.46
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
Found at i:64492955 original size:39 final size:39
Alignment explanation
Indices: 64492903--64493073 Score: 202
Period size: 39 Copynumber: 4.3 Consensus size: 39
64492893 GGACTAAGAT
64492903 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGATACAAA-TCCGGGTTAAGTC
*
64492942 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
* * * *
64492982 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
64493022 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
64493061 CCGAAGGCATTTG
1 CCGAAGGCATTTG
64493074 AACGAGGAGC
Statistics
Matches: 116, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
39 66 0.57
40 50 0.43
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:64492986 original size:79 final size:79
Alignment explanation
Indices: 64492850--64493073 Score: 222
Period size: 79 Copynumber: 2.8 Consensus size: 79
64492840 TTGAATGCTG
* * * * * * *
64492850 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAAACCGGGCTAAG-TCCCGAAGGCAT
64492913 TTGTGCGAGATA-CAAA
63 TTGTGCGAGATATCAAA
* * *
64492929 TTCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATT
* * *
64492993 CGTGCGAGTTATTAAA
64 TGTGCGAGATATCAAA
* * * *
64493009 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
64493074 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 89 0.73
80 31 0.25
81 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATATCAAA
Found at i:64493091 original size:79 final size:80
Alignment explanation
Indices: 64492930--64493106 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
64492920 AGATACAAAT
* * *
64492930 TCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
64492994 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
64493009 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
64493073 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
64493088 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
64493107 TACGTGATTT
Statistics
Matches: 81, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
78 15 0.19
79 58 0.72
80 8 0.10
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:64500916 original size:80 final size:79
Alignment explanation
Indices: 64500832--64501003 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
64500822 GGACTAAGAT
*
64500832 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
64500896 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
64500912 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
64500977 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
64500991 CCGAAGGCATTTG
1 CCGAAGGCATTTG
64501004 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:64500983 original size:39 final size:39
Alignment explanation
Indices: 64500779--64501001 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
64500769 TTGAATGCTG
* * * * *
64500779 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
64500819 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
64500858 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
64500899 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
64500939 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
64500978 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
64501002 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:64501021 original size:79 final size:80
Alignment explanation
Indices: 64500859--64501036 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
64500849 AGATACAAAT
* * * *
64500859 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
64500924 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
64500939 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
64501003 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
64501018 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
64501037 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:64512963 original size:46 final size:46
Alignment explanation
Indices: 64512896--64512988 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
64512886 CTCAGCTCTC
64512896 TCAGCATCATTTTCAACGGTAGCCCAAAACTCCTAAGCCCCGTGTT
1 TCAGCATCATTTTCAACGGTAGCCCAAAACTCCTAAGCCCCGTGTT
*
64512942 TCAGCATCATTTTCAACGGTAGCCCAGAACTCCTAAGCCCCGTGTT
1 TCAGCATCATTTTCAACGGTAGCCCAAAACTCCTAAGCCCCGTGTT
64512988 T
1 T
64512989 ATGAATCTTA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (46 bp):
TCAGCATCATTTTCAACGGTAGCCCAAAACTCCTAAGCCCCGTGTT
Found at i:64515011 original size:27 final size:27
Alignment explanation
Indices: 64514972--64515082 Score: 109
Period size: 27 Copynumber: 4.1 Consensus size: 27
64514962 GGAAGCGTCT
*
64514972 TGGTGGCTATGCCACAATTATCTGATC
1 TGGTGGCTCTGCCACAATTATCTGATC
**
64514999 TGGTGGCTCTGCCACATATT-TCTTTTC
1 TGGTGGCTCTGCCACA-ATTATCTGATC
*
64515026 TGGTGGCTCTGCCACGATTATCTGTATC
1 TGGTGGCTCTGCCACAATTATCTG-ATC
* * ** *
64515054 TAGTGACTCTATCAC-ATTATCTGTTC
1 TGGTGGCTCTGCCACAATTATCTGATC
64515080 TGG
1 TGG
64515083 CAGCCATGCT
Statistics
Matches: 69, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
26 7 0.10
27 46 0.67
28 16 0.23
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.39
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAATTATCTGATC
Found at i:64515081 original size:54 final size:54
Alignment explanation
Indices: 64514972--64515082 Score: 134
Period size: 54 Copynumber: 2.1 Consensus size: 54
64514962 GGAAGCGTCT
* * * * *
64514972 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTTTTC
1 TGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTACCACATATATCTGTTC
* * *
64515026 TGGTGGCTCTGCCACGATTATCTGTATCTAGTGACTCTATCACAT-TATCTGTTC
1 TGGTGGCTATGCCACAATTATCTG-ATCTAGTGACTCTACCACATATATCTGTTC
64515080 TGG
1 TGG
64515083 CAGCCATGCT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 32 0.67
55 16 0.33
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.39
Consensus pattern (54 bp):
TGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTACCACATATATCTGTTC
Found at i:64516164 original size:11 final size:10
Alignment explanation
Indices: 64516136--64516169 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
64516126 AGCTTGTAAG
64516136 TATTCTGAAT
1 TATTCTGAAT
*
64516146 TTTTCTGAAT
1 TATTCTGAAT
64516156 ATATTCTGAAT
1 -TATTCTGAAT
64516167 TAT
1 TAT
64516170 CTATCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:64522877 original size:27 final size:27
Alignment explanation
Indices: 64522837--64522947 Score: 120
Period size: 27 Copynumber: 4.1 Consensus size: 27
64522827 AGGAAACGTC
*
64522837 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
**
64522864 CTGGTGGCTCTGCCACATATT-TCTTTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
64522891 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
64522919 CTGGTGACTCTGTC-C-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
64522944 CTGG
1 CTGG
64522948 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
25 5 0.07
26 11 0.15
27 40 0.56
28 16 0.22
ACGTcount: A:0.14, C:0.24, G:0.23, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:64548594 original size:25 final size:25
Alignment explanation
Indices: 64548546--64548594 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
64548536 ATGGTCATGG
* *
64548546 CATATTTTGTAAAGCCTTTGTGGCA
1 CATATTCTGTAAAGCCTTTATGGCA
64548571 CATATTCTGTAAAGACC-TTATGGC
1 CATATTCTGTAAAG-CCTTTATGGC
64548595 TTATTATCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (25 bp):
CATATTCTGTAAAGCCTTTATGGCA
Found at i:64550265 original size:20 final size:20
Alignment explanation
Indices: 64550240--64550342 Score: 53
Period size: 20 Copynumber: 5.2 Consensus size: 20
64550230 CACATAAGTG
64550240 CCCCTGTTTGTACTTCAGTA
1 CCCCTGTTTGTACTTCAGTA
** ** * * *
64550260 CCCCTGAATACACATAAGTG
1 CCCCTGTTTGTACTTCAGTA
* *
64550280 CCTCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCAGTA
** * * * *
64550300 CCCCTGAATGCACATAAGTG
1 CCCCTGTTTGTACTTCAGTA
* *
64550320 CACCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCAGTA
64550340 CCC
1 CCC
64550343 TTGAATGCAC
Statistics
Matches: 50, Mismatches: 33, Indels: 0
0.60 0.40 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.20, C:0.30, G:0.17, T:0.32
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCAGTA
Found at i:64550279 original size:40 final size:40
Alignment explanation
Indices: 64550224--64550432 Score: 310
Period size: 40 Copynumber: 5.2 Consensus size: 40
64550214 TATATATATA
*
64550224 TGAATGCACATAAGTGCCCCTGTTTGTACTTCAGTACCCC
1 TGAATGCACATAAGTGCCCCTGTTTGTACTTCGGTACCCC
* *
64550264 TGAATACACATAAGTGCCTCTGTTTGTACTTCGGTACCCC
1 TGAATGCACATAAGTGCCCCTGTTTGTACTTCGGTACCCC
* *
64550304 TGAATGCACATAAGTGCACCTGTTTGTACTTCGGTACCCT
1 TGAATGCACATAAGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * *
64550344 TGAATGCACATAAGTGGCCTTGTTTGTACTTTGGTAACCT
1 TGAATGCACATAAGTGCCCCTGTTTGTACTTCGGTACCCC
* *
64550384 TGAATGCACATAAGTGCCCCTGTTTGCACTTCGATACCCC
1 TGAATGCACATAAGTGCCCCTGTTTGTACTTCGGTACCCC
64550424 TGAATGCAC
1 TGAATGCAC
64550433 CTGTTTGTAC
Statistics
Matches: 150, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 150 1.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (40 bp):
TGAATGCACATAAGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:64551189 original size:31 final size:31
Alignment explanation
Indices: 64551151--64551215 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
64551141 CTTAGTGTCC
64551151 AAGAAAGCATGTTTTGGTGAACTTGAGTTTT
1 AAGAAAGCATGTTTTGGTGAACTTGAGTTTT
64551182 AAGAAAGCATGTTTTGGTGAACTTGAGTTTT
1 AAGAAAGCATGTTTTGGTGAACTTGAGTTTT
64551213 AAG
1 AAG
64551216 GTACATTTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (31 bp):
AAGAAAGCATGTTTTGGTGAACTTGAGTTTT
Found at i:64563623 original size:30 final size:29
Alignment explanation
Indices: 64563589--64563663 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 29
64563579 ACACGAGTGG
* *
64563589 CCACACGGATGTGTG-TAGCACACAGGCGGT
1 CCACACGG-TGTGTGCCA-CACACAGGCAGT
*
64563619 CCACACAGGTGTGTGCCACACACGGGCAGT
1 CCACAC-GGTGTGTGCCACACACAGGCAGT
64563649 CCACACGGTCGTGTG
1 CCACACGGT-GTGTG
64563664 ATTTTGGAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
29 3 0.08
30 33 0.85
31 3 0.08
ACGTcount: A:0.21, C:0.31, G:0.32, T:0.16
Consensus pattern (29 bp):
CCACACGGTGTGTGCCACACACAGGCAGT
Found at i:64563782 original size:21 final size:21
Alignment explanation
Indices: 64563758--64563811 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
64563748 CGAGCGTGTG
*
64563758 CCTTAGACACAAGGCCGTATC
1 CCTTGGACACAAGGCCGTATC
**
64563779 CCTTGGACACAAGGTTGTATC
1 CCTTGGACACAAGGCCGTATC
64563800 CCTTGGACACAA
1 CCTTGGACACAA
64563812 AGTTGTGACC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (21 bp):
CCTTGGACACAAGGCCGTATC
Found at i:64563824 original size:21 final size:21
Alignment explanation
Indices: 64563774--64563817 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
64563764 ACACAAGGCC
*
64563774 GTATCCCTTGGACACAAGGTT
1 GTATCCCTTGGACACAAAGTT
64563795 GTATCCCTTGGACACAAAGTT
1 GTATCCCTTGGACACAAAGTT
64563816 GT
1 GT
64563818 GACCCTTAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (21 bp):
GTATCCCTTGGACACAAAGTT
Found at i:64568568 original size:26 final size:26
Alignment explanation
Indices: 64568531--64568586 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
64568521 TTTCACCCCT
64568531 AAAATCCTAACCTTAAAAAAATTAAA
1 AAAATCCTAACCTTAAAAAAATTAAA
**
64568557 AAAACTCC-AACCTTATCAAAATTAAA
1 AAAA-TCCTAACCTTAAAAAAATTAAA
64568583 AAAA
1 AAAA
64568587 AATCGAGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 24 0.89
27 3 0.11
ACGTcount: A:0.61, C:0.18, G:0.00, T:0.21
Consensus pattern (26 bp):
AAAATCCTAACCTTAAAAAAATTAAA
Found at i:64568795 original size:17 final size:18
Alignment explanation
Indices: 64568762--64568796 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
64568752 ATTTAATTTT
*
64568762 TTTTTATAATTTAAAAAC
1 TTTTTATAATCTAAAAAC
64568780 TTTTTATAATCTAAAAA
1 TTTTTATAATCTAAAAA
64568797 TATTGACGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTTTATAATCTAAAAAC
Found at i:64576626 original size:21 final size:21
Alignment explanation
Indices: 64576602--64576641 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
64576592 CCACCTTCTC
*
64576602 CATCCCCACCTCCACCTCCCA
1 CATCCCCACCGCCACCTCCCA
* *
64576623 CATCTCCATCGCCACCTCC
1 CATCCCCACCGCCACCTCC
64576642 ACCTCCTCCG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.17, C:0.62, G:0.03, T:0.17
Consensus pattern (21 bp):
CATCCCCACCGCCACCTCCCA
Found at i:64577917 original size:79 final size:79
Alignment explanation
Indices: 64577786--64577937 Score: 184
Period size: 79 Copynumber: 1.9 Consensus size: 79
64577776 AGTATGTATC
* * * *
64577786 TGTTTTAAAAGTTAAAGAGTCTGGATGATAACCCTTCTAATTGTTCTTTTGTTGAACGAT-TGAG
1 TGTTTTAAAAGTCAAAGAGTCTGGATGATAACCCCTCTAATTGTTCCTTTGTTGAA-AATCTGAG
*
64577850 CTATGTTATGCTCTT
65 CTATATTATGCTCTT
* * *
64577865 TGTTTTAAAAGTCAAAGAGTGTGGATGGA-AACCCCTGTCATCT-TTCCTTTGTTGAAAATCTGA
1 TGTTTTAAAAGTCAAAGAGTCTGGAT-GATAACCCCTCTAAT-TGTTCCTTTGTTGAAAATCTGA
64577928 GCTATATTAT
64 GCTATATTAT
64577938 CCTTCTTTCG
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
78 2 0.03
79 57 0.92
80 3 0.05
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (79 bp):
TGTTTTAAAAGTCAAAGAGTCTGGATGATAACCCCTCTAATTGTTCCTTTGTTGAAAATCTGAGC
TATATTATGCTCTT
Found at i:64586485 original size:12 final size:13
Alignment explanation
Indices: 64586458--64586490 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
64586448 TAGTATATAT
64586458 ATATATAAAAGGTA
1 ATATATAAAA-GTA
64586472 ATATATAAAA-TA
1 ATATATAAAAGTA
64586484 ATATATA
1 ATATATA
64586491 CTTCAATCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.47
14 10 0.53
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (13 bp):
ATATATAAAAGTA
Found at i:64588034 original size:44 final size:44
Alignment explanation
Indices: 64587986--64588124 Score: 149
Period size: 44 Copynumber: 3.2 Consensus size: 44
64587976 CGATACATGG
** *
64587986 AGATAAGA-TCTGTAATCTTCAGTCTACT-TCCTGCAACTTCAGGA
1 AGATAAGACT-TGT-ATCTTCAACCTACTCTCCTGCAACCTCAGGA
* * *
64588030 AGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGGA
1 AGATAAGACTTGTATCTTCAACCTACTCTCCTGCAACCTCAGGA
* * *
64588074 AGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCA-GA
1 AGATAAGACTTGTATCTTCAACCTACTCTCCTGCAACCTCAGGA
64588117 GAGATAAG
1 -AGATAAG
64588125 GCTGGTGGCT
Statistics
Matches: 86, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
43 13 0.15
44 72 0.84
45 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (44 bp):
AGATAAGACTTGTATCTTCAACCTACTCTCCTGCAACCTCAGGA
Found at i:64588144 original size:44 final size:44
Alignment explanation
Indices: 64588024--64588145 Score: 129
Period size: 44 Copynumber: 2.8 Consensus size: 44
64588014 TCCTGCAACT
* * **
64588024 TCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACC
1 TCAGGAAGATAAGACTGGTAGCTAAAACCTGCTCTCTTGCTACC
* * **
64588068 TCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACC
1 TCAGGAAGATAAGACTGGTAGCTAAAACCTGCTCTCTTGCTACC
* * *
64588112 TCA-GAGAGATAAGGCTGGTGGCTAAAATCTGCTC
1 TCAGGA-AGATAAGACTGGTAGCTAAAACCTGCTC
64588146 CATAGCCGAT
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
43 2 0.03
44 68 0.97
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (44 bp):
TCAGGAAGATAAGACTGGTAGCTAAAACCTGCTCTCTTGCTACC
Found at i:64588166 original size:88 final size:88
Alignment explanation
Indices: 64587936--64588170 Score: 212
Period size: 88 Copynumber: 2.7 Consensus size: 88
64587926 CACTGCAGCT
*
64587936 TCAGAGAGATAAGACTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAA
1 TCAGAGAGATAAGACTGGTGGCTAAAATCTGCTCCATAGCCGATATATGGAGATAAGATCTGTAA
** *
64588001 TCTTCAGTCTACTTCCTGCAACT
66 TCTTCAACCTACTTCCTGCAACC
* ** ** * * * **
64588024 TCAG-GAAGATAAGACTTGTATCTTCAACCTGCTCTC-TTG-CTACCTCA-GGAAGATAAGA-CT
1 TCAGAG-AGATAAGACTGGTGGCTAAAATCTGCTC-CATAGCCGATAT-ATGG-AGATAAGATC-
* * *
64588084 TGT-ATCTTCAACCTGCTCTCTTGCTACC
61 TGTAATCTTCAACCTACT-TCCTGCAACC
*
64588112 TCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATATATGGAGATAAGAT
1 TCAGAGAGATAAGACTGGTGGCTAAAATCTGCTCCATAGCCGATATATGGAGATAAGAT
64588171 TCGCCATCTT
Statistics
Matches: 108, Mismatches: 28, Indels: 21
0.69 0.18 0.13
Matches are distributed among these distances:
87 18 0.17
88 83 0.77
89 7 0.06
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (88 bp):
TCAGAGAGATAAGACTGGTGGCTAAAATCTGCTCCATAGCCGATATATGGAGATAAGATCTGTAA
TCTTCAACCTACTTCCTGCAACC
Found at i:64588296 original size:176 final size:177
Alignment explanation
Indices: 64587936--64588580 Score: 770
Period size: 176 Copynumber: 3.7 Consensus size: 177
64587926 CACTGCAGCT
* **
64587936 TCAGAGAGATAAGACTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGA-TCTGTA
1 TCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTC-GCC
* * * * ** * *
64588000 ATCTTC-AGTCTACTTCC-T-G-CAACTTCA-GGAAGATAAGA-CTTGT-ATCTTCAACCTGCTC
65 ATCTTCGA-TCTGC-TCCATAGCCGA-TACATGG-AGATAAGATC-TGTAATTTTCAGTCTGATT
* * *
64588058 TCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACC
125 TC-TGCAACTTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCAACC
* *
64588112 TCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATATATGGAGATAAGATTCGCCA
1 TCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCA
*
64588177 TCTTCGATCTGTTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGATTTCTGCA
66 TCTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGATTTCTGCA
* * *
64588242 ACTTCAGGAAGATAAGACTTGTATCTTTAACTTGCTCTC-TGCAACT
131 ACTTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCAACC
* * ** *
64588288 TTAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCGTAATCAATACATGGAGATAAGACTCGCCA
1 TCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCA
* * * * * * *
64588353 TTTTCGATCTGCTCCATAGCCGATAAATGGAGATAATATCTATATTTTTTAGTCT-ACTTCCTGC
66 TCTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGA-TTTCTGC
* * *
64588417 AACTTCAAGAAGATAAGACTTGTACCTTCAACCTGCTCTCTTGCTACC
130 AACTTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCAACC
* * * *
64588465 TTAGAGAGATAAGGTTGGTGTCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGTCA
1 TCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCA
* * *
64588530 TTTTCGATCTGCTCCATAGTCGATACATAGAGATAAGATCTGTAATTTTCA
66 TCTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCA
64588581 CCGATGTCGC
Statistics
Matches: 405, Mismatches: 54, Indels: 19
0.85 0.11 0.04
Matches are distributed among these distances:
175 4 0.01
176 220 0.54
177 164 0.40
178 17 0.04
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (177 bp):
TCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCA
TCTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGATTTCTGCA
ACTTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCAACC
Found at i:64588365 original size:221 final size:221
Alignment explanation
Indices: 64587962--64588388 Score: 497
Period size: 221 Copynumber: 1.9 Consensus size: 221
64587952 GGTGGCTAAA
64587962 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATCTTCAGTCTACTTCCTGCAACTTCA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATCTTCAGTCTACTTCCTGCAACTTCA
* * * *
64588027 GGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGGAAGATAAGACTTGTATCTT
66 GGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCAACCTCAGGAAGATAAGACTGGTAGCTA
* * ** * * ***
64588092 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATA
131 AAACCTGCTCTCGTAATACATCAGAGAGATAAGACTGCCAGCTAAAATCTGCTCCATAGCCGATA
*
64588157 TATGGAGATAAGATTCGCCATCTTCG
196 AATGGAGATAAGATTCGCCATCTTCG
* * *
64588183 ATCTGTTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGA-TTTCTGCAACTTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATCTTCAGTCT-ACTTCCTGCAACTTC
* * * * * *
64588247 AGGAAGATAAGACTTGTATCTTTAACTTGCTCTC-TGCAACTTTA-GAGAGATAAGGCTGGTGGC
65 AGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCAACCTCAGGA-AGATAAGACTGGTAGC
* ** ***
64588310 TAAAATCTGCTC-CGTAAT-CAATACATG-GAGATAAGACTCGCCATTTTCGATCTGCTCCATAG
129 TAAAACCTGCTCTCGTAATAC-AT-CA-GAGAGATAAGACT-GCCAGCTAAAATCTGCTCCATAG
64588372 CCGATAAATGGAGATAA
190 CCGATAAATGGAGATAA
64588389 TATCTATATT
Statistics
Matches: 171, Mismatches: 29, Indels: 12
0.81 0.14 0.06
Matches are distributed among these distances:
218 1 0.01
219 6 0.04
220 40 0.23
221 123 0.72
222 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (221 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATCTTCAGTCTACTTCCTGCAACTTCA
GGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCAACCTCAGGAAGATAAGACTGGTAGCTA
AAACCTGCTCTCGTAATACATCAGAGAGATAAGACTGCCAGCTAAAATCTGCTCCATAGCCGATA
AATGGAGATAAGATTCGCCATCTTCG
Found at i:64588578 original size:45 final size:45
Alignment explanation
Indices: 64588491--64588579 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
64588481 GGTGTCTAAA
* *
64588491 ATCTGCTCCATAGCCGATACATGGAGATAAGACTCGTCATTTTCG
1 ATCTGCTCCATAGCCGATACATAGAGATAAGACTCGTAATTTTCG
*
64588536 ATCTGCTCCATAGTCGATACATAGAGATAAGA-TCTGTAATTTTC
1 ATCTGCTCCATAGCCGATACATAGAGATAAGACTC-GTAATTTTC
64588580 ACCGATGTCG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 2 0.05
45 38 0.95
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (45 bp):
ATCTGCTCCATAGCCGATACATAGAGATAAGACTCGTAATTTTCG
Found at i:64588701 original size:23 final size:22
Alignment explanation
Indices: 64588650--64588702 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
64588640 TATGTTTATG
*
64588650 CCAAATGATTAGAATGCTATGA
1 CCAAATGATTAGAATGCTATAA
*
64588672 CCGAAATGAATTAG-ATGCTCCTAA
1 CC-AAATG-ATTAGAATGCT-ATAA
64588696 CCAAATG
1 CCAAATG
64588703 TGTTATGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 2 0.08
23 15 0.58
24 9 0.35
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.25
Consensus pattern (22 bp):
CCAAATGATTAGAATGCTATAA
Found at i:64596826 original size:19 final size:20
Alignment explanation
Indices: 64596795--64596842 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
64596785 GTTCTTTTTG
* *
64596795 TGAAATTTAATGCACATG-A
1 TGAAATGTAATGCAAATGCA
*
64596814 TGCAATGTAATGCAAATGCA
1 TGAAATGTAATGCAAATGCA
64596834 TGAAATGTA
1 TGAAATGTA
64596843 TGCGAAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (20 bp):
TGAAATGTAATGCAAATGCA
Found at i:64603879 original size:19 final size:19
Alignment explanation
Indices: 64603855--64603895 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
64603845 TATTTTAAAG
64603855 TTATTTAGGTAAATAAATC
1 TTATTTAGGTAAATAAATC
*
64603874 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAAATAAATC
64603893 TTA
1 TTA
64603896 GAATAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (19 bp):
TTATTTAGGTAAATAAATC
Found at i:64607312 original size:41 final size:41
Alignment explanation
Indices: 64607283--64607361 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
64607273 TTTTATTTTT
*
64607283 TATTTTAGTAGTTCATTAGAATCAGGGAATTATTTTCCTTA
1 TATTTTAGTAGTTCATTAGAATAAGGGAATTATTTTCCTTA
* *
64607324 TGTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
1 TATTTTAGTAGTTCATTAGAATAAGGGAATTATTTTCC
64607362 CAATTAGGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.29, C:0.08, G:0.16, T:0.47
Consensus pattern (41 bp):
TATTTTAGTAGTTCATTAGAATAAGGGAATTATTTTCCTTA
Found at i:64613549 original size:9 final size:9
Alignment explanation
Indices: 64613535--64613562 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
64613525 TCTCTCACTC
64613535 TTGCCTTTA
1 TTGCCTTTA
64613544 TTGCCTTTA
1 TTGCCTTTA
64613553 TTGCCTTTA
1 TTGCCTTTA
64613562 T
1 T
64613563 CCTACTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.11, C:0.21, G:0.11, T:0.57
Consensus pattern (9 bp):
TTGCCTTTA
Found at i:64626955 original size:46 final size:46
Alignment explanation
Indices: 64626888--64627016 Score: 231
Period size: 46 Copynumber: 2.8 Consensus size: 46
64626878 TGTAACCCGC
* * *
64626888 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
64626934 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
64626980 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
64627017 TGCTCAACCA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:64634169 original size:52 final size:48
Alignment explanation
Indices: 64634107--64634299 Score: 196
Period size: 47 Copynumber: 4.0 Consensus size: 48
64634097 GAAATGTGAT
* * *
64634107 TTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATTTGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATC-GAG---TGTGATATGTGC
* *
64634159 TTCCGTATAAGACCATATCCGGGATATGGCATCG-GTGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * * *
64634206 TACTGTATAAGACCATATCTGGGATATGGCATC-AGTGTGATATGTGA
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * *
64634253 TT-CGTATAAGACCATGGCTGGGCTATGGCCTCG-GTATGTGATATGTG
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAG--TGTGATATGTG
64634300 ACTATGTGCA
Statistics
Matches: 122, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
46 26 0.21
47 54 0.44
48 11 0.09
50 1 0.01
51 1 0.01
52 29 0.24
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (48 bp):
TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
Found at i:64634287 original size:93 final size:97
Alignment explanation
Indices: 64634111--64634317 Score: 226
Period size: 93 Copynumber: 2.1 Consensus size: 97
64634101 TGTGATTTCC
* * * *
64634111 GTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATTTGTGCTTCCGTATAAGACCATA
1 GTATAAGACCATAGCTGGGATATGGCATC-GAG--ATGTGATATGTGATTCCGTATAAGACCATA
*
64634176 TCCGGGATATGGCATCGG-TGTGATATGTG-CTACT
63 GCCGGGATATGGCATCGGATGTGATATGTGACTA-T
* * *
64634210 GTATAAGACCATATCTGGGATATGGCATC-AG-TGTGATATGTGATT-CGTATAAGACCATGGCT
1 GTATAAGACCATAGCTGGGATATGGCATCGAGATGTGATATGTGATTCCGTATAAGACCATAGCC
* *
64634272 GGGCTATGGCCTCGGTATGTGATATGTGACTAT
66 GGGATATGGCATCGG-ATGTGATATGTGACTAT
**
64634305 GTGCAAGACCATA
1 GTATAAGACCATA
64634318 ATTTTACTAT
Statistics
Matches: 93, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
93 27 0.29
94 12 0.13
95 23 0.25
96 3 0.03
97 2 0.02
99 26 0.28
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (97 bp):
GTATAAGACCATAGCTGGGATATGGCATCGAGATGTGATATGTGATTCCGTATAAGACCATAGCC
GGGATATGGCATCGGATGTGATATGTGACTAT
Found at i:64634685 original size:24 final size:22
Alignment explanation
Indices: 64634642--64634685 Score: 52
Period size: 24 Copynumber: 1.9 Consensus size: 22
64634632 ATAAATTATG
* *
64634642 AAAATTGAGTTAAGGGCTGAAT
1 AAAATTGAGTTAAAGCCTGAAT
64634664 AAAATATGAGATTAAAGCCTGA
1 AAAAT-TGAG-TTAAAGCCTGA
64634686 TGAGTCTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.28
23 4 0.22
24 9 0.50
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.25
Consensus pattern (22 bp):
AAAATTGAGTTAAAGCCTGAAT
Found at i:64635874 original size:16 final size:17
Alignment explanation
Indices: 64635853--64635886 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
64635843 ATGGTTTTGG
64635853 AACAAAA-AAAAAAGAA
1 AACAAAACAAAAAAGAA
*
64635869 AACAAAACAAAGAAGAA
1 AACAAAACAAAAAAGAA
64635886 A
1 A
64635887 TAGTCAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.82, C:0.09, G:0.09, T:0.00
Consensus pattern (17 bp):
AACAAAACAAAAAAGAA
Found at i:64640040 original size:15 final size:15
Alignment explanation
Indices: 64640020--64640049 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
64640010 ATTATTCATT
*
64640020 AGTTGTGAAAATTAA
1 AGTTGTAAAAATTAA
64640035 AGTTGTAAAAATTAA
1 AGTTGTAAAAATTAA
64640050 CAAATATCAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (15 bp):
AGTTGTAAAAATTAA
Found at i:64640472 original size:32 final size:32
Alignment explanation
Indices: 64640436--64640500 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
64640426 TGTATGCATT
64640436 TTAGCATTTTAATAGTTAATGGATGACGGGCA
1 TTAGCATTTTAATAGTTAATGGATGACGGGCA
*
64640468 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGACGGGCA
64640500 T
1 T
64640501 GGTAAGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.37
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGACGGGCA
Found at i:64642010 original size:26 final size:26
Alignment explanation
Indices: 64641981--64642033 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
64641971 TTTACAGTTT
64641981 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
64642007 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
64642033 T
1 T
64642034 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:64648111 original size:43 final size:42
Alignment explanation
Indices: 64648060--64648248 Score: 213
Period size: 43 Copynumber: 4.5 Consensus size: 42
64648050 TATCTCAAAT
* * * *
64648060 ATGGTCTTACATGTTATCACATATCGATGCCATTGTCCCAGAC
1 ATGGTCTTACACGTAATCACA-ATCAATGCCAATGTCCCAGAC
* * * * *
64648103 AGGGTCTTACACGAAAT--CAA-CGATGCTAATGTCCCAGAG
1 ATGGTCTTACACGTAATCACAATCAATGCCAATGTCCCAGAC
*
64648142 ATGGTCTTGCACGTAATCACAATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACAAT-CAATGCCAATGTCCCAGAC
*
64648185 ATGGTCTTACACGTAATCACAAAACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCAC-AATCAATGCCAATGTCCCAGAC
* *
64648228 ATGGTCTTACATGTAACCACA
1 ATGGTCTTACACGTAATCACA
64648249 TCTCTGTAAC
Statistics
Matches: 124, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 30 0.24
40 1 0.01
41 5 0.04
42 1 0.01
43 85 0.69
44 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (42 bp):
ATGGTCTTACACGTAATCACAATCAATGCCAATGTCCCAGAC
Found at i:64648197 original size:82 final size:84
Alignment explanation
Indices: 64648060--64648249 Score: 224
Period size: 82 Copynumber: 2.3 Consensus size: 84
64648050 TATCTCAAAT
* * * *
64648060 ATGGTCTTACATGTTATCACATATCGATGCCATTGTCCCAGACAGGGTCTTACACGAAAT-C-AA
1 ATGGTCTTACACGTAATCACATATCAATGCCAATGTCCCAGACAGGGTCTTACACGAAATACAAA
* * *
64648123 CGATGCTAATGTCCCAGAG
66 CAATGCCAATGTCCCAGAC
* * *
64648142 ATGGTCTTGCACGTAATCACA-ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA
1 ATGGTCTTACACGTAATCACATAT-CAATGCCAATGTCCCAGACAGGGTCTTACACGAAAT-AC-
64648206 AAACAATGCCAATGTCCCAGAC
63 AAACAATGCCAATGTCCCAGAC
* *
64648228 ATGGTCTTACATGTAACCACAT
1 ATGGTCTTACACGTAATCACAT
64648250 CTCTGTAACC
Statistics
Matches: 89, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
81 2 0.02
82 50 0.56
84 1 0.01
86 36 0.40
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (84 bp):
ATGGTCTTACACGTAATCACATATCAATGCCAATGTCCCAGACAGGGTCTTACACGAAATACAAA
CAATGCCAATGTCCCAGAC
Found at i:64657110 original size:21 final size:21
Alignment explanation
Indices: 64657069--64657110 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
64657059 TTAGAGTTAT
* *
64657069 TAGAGTTTGACTGGGAAAAGA
1 TAGAGTTTAACTAGGAAAAGA
*
64657090 TAGAGTTTAACTAGGAGAAGA
1 TAGAGTTTAACTAGGAAAAGA
64657111 AACCCGATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.05, G:0.31, T:0.24
Consensus pattern (21 bp):
TAGAGTTTAACTAGGAAAAGA
Found at i:64659595 original size:25 final size:25
Alignment explanation
Indices: 64659567--64659614 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
64659557 TAAGTTAATC
64659567 AGAGTCTAAGTGGAA-AACTAAAAAT
1 AGAGTCTAAGTGGAAGAAC-AAAAAT
* *
64659592 AGAGTTTAATTGGAAGAACAAAA
1 AGAGTCTAAGTGGAAGAACAAAA
64659615 GTTGAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.52, C:0.06, G:0.21, T:0.21
Consensus pattern (25 bp):
AGAGTCTAAGTGGAAGAACAAAAAT
Found at i:64661362 original size:9 final size:9
Alignment explanation
Indices: 64661350--64661385 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
64661340 AATAGGGAGA
64661350 AAAGAAAGG
1 AAAGAAAGG
*
64661359 AAAGAAAGA
1 AAAGAAAGG
64661368 AAAGAAA-G
1 AAAGAAAGG
64661376 AAAGAAAGG
1 AAAGAAAGG
64661385 A
1 A
64661386 GAAACTAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 7 0.29
9 17 0.71
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (9 bp):
AAAGAAAGG
Found at i:64661365 original size:4 final size:4
Alignment explanation
Indices: 64661350--64661383 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
64661340 AATAGGGAGA
64661350 AAAG AAAGG AAAG AAAG AAAAG AAAG AAAG AAAG
1 AAAG AAA-G AAAG AAAG -AAAG AAAG AAAG AAAG
64661384 GAGAAACTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:64661368 original size:13 final size:13
Alignment explanation
Indices: 64661350--64661385 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
64661340 AATAGGGAGA
64661350 AAAGAAAGGAAAG
1 AAAGAAAGGAAAG
*
64661363 AAAGAAAAGAAAG
1 AAAGAAAGGAAAG
64661376 AAAGAAAGGA
1 AAAGAAAGGA
64661386 GAAACTAGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (13 bp):
AAAGAAAGGAAAG
Found at i:64661662 original size:30 final size:28
Alignment explanation
Indices: 64661608--64661664 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 28
64661598 AATTGTGGAA
64661608 TAAATTGTAAAATTTGAATATTAGGGAC
1 TAAATTGTAAAATTTGAATATTAGGGAC
64661636 TAAATTGTGAAAATTTTGAA-ATTTAGGGA
1 TAAATTGT-AAAA-TTTGAATA-TTAGGGA
64661665 TTTAAGTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 8 0.31
29 5 0.19
30 13 0.50
ACGTcount: A:0.42, C:0.02, G:0.19, T:0.37
Consensus pattern (28 bp):
TAAATTGTAAAATTTGAATATTAGGGAC
Found at i:64665808 original size:27 final size:28
Alignment explanation
Indices: 64665755--64665810 Score: 96
Period size: 27 Copynumber: 2.0 Consensus size: 28
64665745 TGTGATGAAT
64665755 GTGAAAGTGTATATATATGTGATAAGGCC
1 GTGAAAGTG-ATATATATGTGATAAGGCC
64665784 GTGAAAGTG-TATATATGTGATAAGGCC
1 GTGAAAGTGATATATATGTGATAAGGCC
64665811 TAATGGCCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 18 0.67
29 9 0.33
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.30
Consensus pattern (28 bp):
GTGAAAGTGATATATATGTGATAAGGCC
Found at i:64665837 original size:47 final size:48
Alignment explanation
Indices: 64665784--64666238 Score: 681
Period size: 47 Copynumber: 9.5 Consensus size: 48
64665774 TGATAAGGCC
64665784 GTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
64665831 GTGAAAGTGTATATATATGTGAT-AGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
64665879 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
64665928 GTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
64665975 GTGAAAGTGTATATATATGTGAT-AGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
64666023 GTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * * * *
64666070 GTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCAATGTGATGAAT
1 GTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
64666119 GTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * * * * * *
64666166 GTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATGGAT
1 GTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
64666215 GTGAAAGTG-TATAAATGTGATAAG
1 GTGAAAGTGATATATATGTGATAAG
64666239 TCCCGAAGGG
Statistics
Matches: 374, Mismatches: 24, Indels: 20
0.89 0.06 0.05
Matches are distributed among these distances:
46 12 0.03
47 142 0.38
48 82 0.22
49 138 0.37
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (48 bp):
GTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:64666036 original size:144 final size:144
Alignment explanation
Indices: 64665784--64666238 Score: 720
Period size: 144 Copynumber: 3.2 Consensus size: 144
64665774 TGATAAGGCC
64665784 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATAT
64665849 GTGATAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
66 GTGATAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
64665914 CCGATGTGATGAAT
131 CCGATGTGATGAAT
64665928 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATAT
64665993 GTGATAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGG
66 GTGATAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
64666056 CCGATGTGATGAAT
131 CCGATGTGATGAAT
* * * * * *
64666070 GTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCAATGTGATGAATGTGAAAGTG--TATAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * *
64666133 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAG
64 ATGTGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
* * *
64666198 TGGCCAACGTGATGGAT
128 TGGCCGATGTGATGAAT
*
64666215 GTGAAAGTGTATAAATGTGATAAG
1 GTGAAAGTGTATATATGTGATAAG
64666239 TCCCGAAGGG
Statistics
Matches: 288, Mismatches: 18, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
142 58 0.20
143 45 0.16
144 146 0.51
145 39 0.14
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (144 bp):
GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATAT
GTGATAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
CCGATGTGATGAAT
Found at i:64666167 original size:96 final size:96
Alignment explanation
Indices: 64665784--64666238 Score: 729
Period size: 96 Copynumber: 4.8 Consensus size: 96
64665774 TGATAAGGCC
64665784 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
64665847 ATGTGAT-AGGCCTAATGGCCGATGTGATGAAT
64 ATGTGATAAGGCCTAATGGCCGATGTGATGAAT
64665879 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
64665944 GTGATAAGGCCTAATGGCCGATGTGATGAAT
66 GTGATAAGGCCTAATGGCCGATGTGATGAAT
64665975 GTGAAAGTGTATATATATGTGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
64666039 GTGATAAGGCCTAATGGCCGATGTGATGAAT
66 GTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * * * *
64666070 GTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
64666135 GTGATAAGGCCTAATGGCCGATGTGATGAAT
66 GTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * * * * * * *
64666166 GTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
64666231 GTGATAAG
66 GTGATAAG
64666239 TCCCGAAGGG
Statistics
Matches: 347, Mismatches: 9, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
95 114 0.33
96 186 0.54
97 47 0.14
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (96 bp):
GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:64672440 original size:13 final size:13
Alignment explanation
Indices: 64672430--64672454 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64672420 GAAAAGAAGG
64672430 GAAAGAAAGAAAA
1 GAAAGAAAGAAAA
64672443 GAAAGAAAGAAA
1 GAAAGAAAGAAA
64672455 GGAGAAACTA
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:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
GAAAGAAAGAAAA
Found at i:64677926 original size:25 final size:25
Alignment explanation
Indices: 64677878--64677926 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
64677868 CTAGGTTAAT
* *
64677878 TAGAGTTTAAGTGGGAAACTAAAAA
1 TAGAGTTTAACTGGGAAACGAAAAA
64677903 TAGAGTTTAACTGGGATAA-GAAAA
1 TAGAGTTTAACTGGGA-AACGAAAA
64677927 GCTGAAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.47, C:0.04, G:0.24, T:0.24
Consensus pattern (25 bp):
TAGAGTTTAACTGGGAAACGAAAAA
Found at i:64685916 original size:29 final size:30
Alignment explanation
Indices: 64685861--64685918 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
64685851 GCCTTTTGAA
* *
64685861 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCACCAAATTTTT
64685891 AATATTTAC-AAAAGA-GCAACCAAATTTT
1 AATATTTACAAAAAGAGGC-ACCAAATTTT
64685919 AAAAATAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 14 0.56
30 9 0.36
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.33
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCACCAAATTTTT
Found at i:64689020 original size:26 final size:26
Alignment explanation
Indices: 64688989--64689096 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
64688979 TGAAATGCCC
*
64688989 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
64689015 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
64689041 ATCATGAAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
64689067 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
64689093 ATCA
1 ATCA
64689097 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:64695493 original size:21 final size:20
Alignment explanation
Indices: 64695464--64695509 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
64695454 CGAAATGCAA
64695464 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
64695485 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
64695505 T-AACC
1 TCAACC
64695510 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:64699484 original size:17 final size:17
Alignment explanation
Indices: 64699418--64699486 Score: 52
Period size: 17 Copynumber: 4.0 Consensus size: 17
64699408 TTTTTTTCAA
*
64699418 AATA-TTTTTTGTTGTAG
1 AATACTTTTCTGTTG-AG
* *
64699435 AATATTTTTCGGTTGAG
1 AATACTTTTCTGTTGAG
**
64699452 AATACTCTGACTGTTGCAG
1 AATACT-TTTCTGTTG-AG
64699471 AATA-TTTTCTGTTGAG
1 AATACTTTTCTGTTGAG
64699487 GAAAATCCTC
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
16 2 0.05
17 18 0.44
18 15 0.37
19 6 0.15
ACGTcount: A:0.25, C:0.09, G:0.20, T:0.46
Consensus pattern (17 bp):
AATACTTTTCTGTTGAG
Found at i:64701466 original size:12 final size:10
Alignment explanation
Indices: 64701437--64701462 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
64701427 TTTTTCTATA
64701437 ATTTTTATTG
1 ATTTTTATTG
64701447 ATTTTTATTG
1 ATTTTTATTG
64701457 ATTTTT
1 ATTTTT
64701463 TTATCATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (10 bp):
ATTTTTATTG
Found at i:64701623 original size:18 final size:18
Alignment explanation
Indices: 64701602--64701654 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
64701592 AAAAAATTCT
64701602 AATTTATATTTTTATTAA
1 AATTTATATTTTTATTAA
*
64701620 AATTTAATAATTTTT-CTAA
1 AATTT-AT-ATTTTTATTAA
*
64701639 AATTTAT-TATTTATTA
1 AATTTATATTTTTATTA
64701655 TATTTTCTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
16 4 0.14
17 2 0.07
18 7 0.24
19 10 0.34
20 6 0.21
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
AATTTATATTTTTATTAA
Done.