Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 197 of 202
Found at i:60159948 original size:11 final size:12
Alignment explanation
Indices: 60159925--60159953 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
60159915 TATAAAATTT
60159925 AAAAATCATTAA
1 AAAAATCATTAA
60159937 AAAAATCA-TAA
1 AAAAATCATTAA
60159948 AAAAAT
1 AAAAAT
60159954 TTTATAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAAATCATTAA
Found at i:60178248 original size:24 final size:24
Alignment explanation
Indices: 60178211--60178283 Score: 119
Period size: 24 Copynumber: 3.0 Consensus size: 24
60178201 GGTAAGACAT
60178211 TTTCCACAGCTCCTCTCTTCACCC
1 TTTCCACAGCTCCTCTCTTCACCC
* *
60178235 TTTCCACTGTTCCTCTCTTCACCC
1 TTTCCACAGCTCCTCTCTTCACCC
*
60178259 TTTCCACAGCTCCTCTATTCACCC
1 TTTCCACAGCTCCTCTCTTCACCC
60178283 T
1 T
60178284 ATCGATTGCA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.12, C:0.47, G:0.04, T:0.37
Consensus pattern (24 bp):
TTTCCACAGCTCCTCTCTTCACCC
Found at i:60184525 original size:15 final size:15
Alignment explanation
Indices: 60184505--60184535 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
60184495 ACAACAACAT
60184505 AACTCTTGAACTTTC
1 AACTCTTGAACTTTC
*
60184520 AACTCTTGACCTTTC
1 AACTCTTGAACTTTC
60184535 A
1 A
60184536 CTTACATAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGAACTTTC
Found at i:60185845 original size:11 final size:12
Alignment explanation
Indices: 60185822--60185850 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
60185812 TATAAAATTT
60185822 AAAAATCATTAA
1 AAAAATCATTAA
60185834 AAAAATCA-TAA
1 AAAAATCATTAA
60185845 AAAAAT
1 AAAAAT
60185851 TTTATAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAAATCATTAA
Found at i:60192313 original size:24 final size:24
Alignment explanation
Indices: 60192276--60192348 Score: 119
Period size: 24 Copynumber: 3.0 Consensus size: 24
60192266 GGTAAGACAT
60192276 TTTCCACAGCTCCTCTCTTCACCC
1 TTTCCACAGCTCCTCTCTTCACCC
* *
60192300 TTTCCACTGTTCCTCTCTTCACCC
1 TTTCCACAGCTCCTCTCTTCACCC
*
60192324 TTTCCACAGCTCCTCTATTCACCC
1 TTTCCACAGCTCCTCTCTTCACCC
60192348 T
1 T
60192349 ATCGATTGCA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.12, C:0.47, G:0.04, T:0.37
Consensus pattern (24 bp):
TTTCCACAGCTCCTCTCTTCACCC
Found at i:60194849 original size:15 final size:15
Alignment explanation
Indices: 60194829--60194859 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
60194819 AAAACAACAT
60194829 AACTCTTAACCTTTC
1 AACTCTTAACCTTTC
*
60194844 AACTCTTGACCTTTC
1 AACTCTTAACCTTTC
60194859 A
1 A
60194860 CTTACATAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.32, G:0.03, T:0.39
Consensus pattern (15 bp):
AACTCTTAACCTTTC
Found at i:60198410 original size:15 final size:15
Alignment explanation
Indices: 60198390--60198420 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
60198380 ACAACAACAT
60198390 AACTCTTGAACTTTC
1 AACTCTTGAACTTTC
*
60198405 AACTCTTGACCTTTC
1 AACTCTTGAACTTTC
60198420 A
1 A
60198421 CTTACATAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGAACTTTC
Found at i:60199728 original size:11 final size:12
Alignment explanation
Indices: 60199705--60199733 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
60199695 TATAAAATTT
60199705 AAAAATCATTAA
1 AAAAATCATTAA
60199717 AAAAATCA-TAA
1 AAAAATCATTAA
60199728 AAAAAT
1 AAAAAT
60199734 TTTATAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAAATCATTAA
Found at i:60206196 original size:24 final size:24
Alignment explanation
Indices: 60206159--60206231 Score: 119
Period size: 24 Copynumber: 3.0 Consensus size: 24
60206149 GGTAAGACAT
60206159 TTTCCACAGCTCCTCTCTTCACCC
1 TTTCCACAGCTCCTCTCTTCACCC
* *
60206183 TTTCCACTGTTCCTCTCTTCACCC
1 TTTCCACAGCTCCTCTCTTCACCC
*
60206207 TTTCCACAGCTCCTCTATTCACCC
1 TTTCCACAGCTCCTCTCTTCACCC
60206231 T
1 T
60206232 ATCGATTGCA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.12, C:0.47, G:0.04, T:0.37
Consensus pattern (24 bp):
TTTCCACAGCTCCTCTCTTCACCC
Found at i:60216329 original size:29 final size:30
Alignment explanation
Indices: 60216265--60216330 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
60216255 ATAAATCTCA
* * *
60216265 AATT-TATACATGAATTTTGATTTAATGTGC
1 AATTGTATACATGAACTTTAATTT-AGGTGC
60216295 AATTGTATACATGAACTTTAATTT-GGTGC
1 AATTGTATACATGAACTTTAATTTAGGTGC
60216324 AATTGTA
1 AATTGTA
60216331 CACGTGAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 11 0.34
30 4 0.12
31 17 0.53
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (30 bp):
AATTGTATACATGAACTTTAATTTAGGTGC
Found at i:60216338 original size:29 final size:30
Alignment explanation
Indices: 60216291--60216347 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
60216281 TTGATTTAAT
* *
60216291 GTGCAATTGTATACATG-AACTTTAATTTG
1 GTGCAATTGTACACATGAAACTCTAATTTG
*
60216320 GTGCAATTGTACACGTGAAACTCTAATT
1 GTGCAATTGTACACATGAAACTCTAATT
60216348 GTTGTTCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (30 bp):
GTGCAATTGTACACATGAAACTCTAATTTG
Found at i:60216569 original size:29 final size:30
Alignment explanation
Indices: 60216537--60216600 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
60216527 AAATTTTATT
*
60216537 TATAAAATTGCACA-AAATCAAAGTTCATG
1 TATAAAATTGCACATAAACCAAAGTTCATG
* *
60216566 TATACAATTGCACATTAAACCATAGTTCATG
1 TATAAAATTGCACA-TAAACCAAAGTTCATG
60216597 TATA
1 TATA
60216601 GTTTTGAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 13 0.43
31 17 0.57
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (30 bp):
TATAAAATTGCACATAAACCAAAGTTCATG
Found at i:60217481 original size:13 final size:13
Alignment explanation
Indices: 60217463--60217487 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60217453 ATTTACAAGA
60217463 TTACATAATCAAT
1 TTACATAATCAAT
60217476 TTACATAATCAA
1 TTACATAATCAA
60217488 ATCAAATCTA
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:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
TTACATAATCAAT
Found at i:60224563 original size:2 final size:2
Alignment explanation
Indices: 60224556--60224594 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
60224546 AAAATTTTAT
60224556 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
60224595 TTTTTAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:60226139 original size:20 final size:20
Alignment explanation
Indices: 60226114--60226153 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
60226104 TCTTTCAATT
* *
60226114 TTAAAATGAAATTTTTAAAA
1 TTAAAAAGAAATATTTAAAA
*
60226134 TTAAAAAGATATATTTAAAA
1 TTAAAAAGAAATATTTAAAA
60226154 GATCATGATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
TTAAAAAGAAATATTTAAAA
Found at i:60235292 original size:10 final size:10
Alignment explanation
Indices: 60235277--60235306 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
60235267 TAAAAGACCC
60235277 AAAATAAAAA
1 AAAATAAAAA
60235287 AAAATAAAAA
1 AAAATAAAAA
60235297 AAAAGTAAAA
1 AAAA-TAAAA
60235307 GCAAATTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 14 0.74
11 5 0.26
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (10 bp):
AAAATAAAAA
Found at i:60236105 original size:24 final size:24
Alignment explanation
Indices: 60236078--60236143 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
60236068 TAAATATATA
*
60236078 TAATAATAAATTAAAAT-TTTAAAT
1 TAATAATAAA-TAAAATAATTAAAT
* *
60236102 TAATACTAAATAAATATAATTATAT
1 TAATAATAAATAAA-ATAATTAAAT
60236127 TAAT-ATAAATAAAATAA
1 TAATAATAAATAAAATAA
60236144 AAATCCTCCC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 8 0.22
24 19 0.53
25 9 0.25
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
TAATAATAAATAAAATAATTAAAT
Found at i:60236510 original size:15 final size:15
Alignment explanation
Indices: 60236474--60236515 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
60236464 TTTTTTCAGT
* *
60236474 TTTAT-TTTTTTTAT
1 TTTATATTTTTTAAA
*
60236488 TTTTTATTTTTTAAA
1 TTTATATTTTTTAAA
60236503 TTTATATTTTTTA
1 TTTATATTTTTTA
60236516 TAAAATATCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTATATTTTTTAAA
Found at i:60238808 original size:19 final size:17
Alignment explanation
Indices: 60238769--60238808 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
60238759 AAAATCTAAA
60238769 ATGAAAATTTTAAAAAG
1 ATGAAAATTTTAAAAAG
*
60238786 ATGAATATTGTTAAAATAG
1 ATGAAAATT-TTAAAA-AG
60238805 ATGA
1 ATGA
60238809 TGTAAAAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 6 0.30
19 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.33
Consensus pattern (17 bp):
ATGAAAATTTTAAAAAG
Found at i:60239829 original size:252 final size:244
Alignment explanation
Indices: 60239486--60239989 Score: 635
Period size: 252 Copynumber: 2.0 Consensus size: 244
60239476 AAAAAAAGAG
** *
60239486 AAAAACATAATTAAAGAAGGAAAAAAAGGAAGTAATAAAATGAAAATGAAAAATCTTACTTAAAC
1 AAAAACATAATTAAAG-AGGAAAAAAAACAAGTAATAAAATGAAAAAGAAAAATCTTACTTAAAC
* *
60239551 TCGAATATATCTCTGCCATGTTTTCTTAGCAACCAAACAGAATATAAACCTTAAACAAATGCATT
65 TCGAATATATCTCTGCCATATTTTCTTAGCAACCAAACAGAAGATAAACCTTAAACAAAT--A--
* * * *
60239616 TGATAGCTTCCAAGCATAAAT-TGCT-GAATATCAAGCTAAGTACTAAATTACTGAAGTAACTCA
126 T-AT---TT--AAACA-AAATCTGCTAG-ATATCAAGCTAAGTACTAAACTACTCAAGTAACTAA
* *
60239679 TATTTTAGGGGA-AAAA-TAATTCAGCAATTAGATTTCAAAATCAAAGAAATCTATCAAACA
183 CATTTTAGGGGACAAAAGTAATTCAGCAATTAGATTACAAAATCAAAGAAATCTATCAAACA
*
60239739 CAAAAACATAATTAAAG-GGAAAAAAAACAAGTAATAAATTGAAAAAGAAAAATCTTA-TATAAA
1 -AAAAACATAATTAAAGAGGAAAAAAAACAAGTAATAAAATGAAAAAGAAAAATCTTACT-TAAA
* * * *
60239802 CTCGGATATATGT-TAGCCATATTTTCTTAGCAACCAAACAGACGATAAACCTTAACCAAATATA
64 CTCGAATATATCTCT-GCCATATTTTCTTAGCAACCAAACAGAAGATAAACCTTAAACAAATATA
* * *
60239866 TTTAAACAAAATCTGGTAGTTCTCAAGCTAAGTACTAAACTACTCAAGTAACTAACATTTTAGGG
128 TTTAAACAAAATCTGCTAGATATCAAGCTAAGTACTAAACTACTCAAGTAACTAACATTTTAGGG
60239931 GACAAAAGTTAATTCAGCAATTAGATTACAAAATCAAAGAAATCTATCAAACA
193 GACAAAAG-TAATTCAGCAATTAGATTACAAAATCAAAGAAATCTATCAAACA
60239984 AAAAAC
1 AAAAAC
60239990 CAAGACGTAA
Statistics
Matches: 224, Mismatches: 19, Indels: 24
0.84 0.07 0.09
Matches are distributed among these distances:
241 4 0.02
242 49 0.22
243 5 0.02
244 8 0.04
245 43 0.19
247 2 0.01
248 1 0.00
250 1 0.00
251 2 0.01
252 93 0.42
254 16 0.07
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (244 bp):
AAAAACATAATTAAAGAGGAAAAAAAACAAGTAATAAAATGAAAAAGAAAAATCTTACTTAAACT
CGAATATATCTCTGCCATATTTTCTTAGCAACCAAACAGAAGATAAACCTTAAACAAATATATTT
AAACAAAATCTGCTAGATATCAAGCTAAGTACTAAACTACTCAAGTAACTAACATTTTAGGGGAC
AAAAGTAATTCAGCAATTAGATTACAAAATCAAAGAAATCTATCAAACA
Found at i:60247032 original size:19 final size:19
Alignment explanation
Indices: 60247001--60247046 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
60246991 GGCCTGATTA
*
60247001 AAAAATT-ATTAAAATTTC
1 AAAAATTAATAAAAATTTC
60247019 AAAAATATAATAAAAATTTC
1 AAAAAT-TAATAAAAATTTC
60247039 AATAAATT
1 AA-AAATT
60247047 TTGGTTCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 6 0.25
19 1 0.04
20 13 0.54
21 4 0.17
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAATTAATAAAAATTTC
Found at i:60247802 original size:16 final size:16
Alignment explanation
Indices: 60247778--60247818 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
60247768 TATATCATTT
*
60247778 TATTAAATATTTATTA
1 TATTTAATATTTATTA
*
60247794 TATTTAATATTTATTT
1 TATTTAATATTTATTA
*
60247810 TTTTTAATA
1 TATTTAATA
60247819 CGATGTACCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTTAATATTTATTA
Found at i:60248821 original size:13 final size:13
Alignment explanation
Indices: 60248803--60248835 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
60248793 CTCCCTAACA
60248803 GCGGTCCTACGTG
1 GCGGTCCTACGTG
60248816 GCGGTCCTACGTG
1 GCGGTCCTACGTG
*
60248829 GCAGTCC
1 GCGGTCC
60248836 AAATTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.09, C:0.33, G:0.36, T:0.21
Consensus pattern (13 bp):
GCGGTCCTACGTG
Found at i:60252063 original size:18 final size:17
Alignment explanation
Indices: 60252042--60252078 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
60252032 ATATTTTTAT
*
60252042 AAATTTATTTTTAAATAA
1 AAATTTAATTTTAAA-AA
60252060 AAATTTAATTTTAAAAA
1 AAATTTAATTTTAAAAA
60252077 AA
1 AA
60252079 TTAAATATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAATTTAATTTTAAAAA
Found at i:60253956 original size:9 final size:9
Alignment explanation
Indices: 60253942--60253972 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
60253932 GTTAAACGAA
60253942 TCGAGTTAT
1 TCGAGTTAT
*
60253951 TCGAGTTAA
1 TCGAGTTAT
60253960 TCGAGTTAT
1 TCGAGTTAT
60253969 TCGA
1 TCGA
60253973 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:60254042 original size:9 final size:9
Alignment explanation
Indices: 60254025--60254061 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
60254015 TCAGTTTTCG
60254025 AATTCGAAT
1 AATTCGAAT
*
60254034 AACTCGAAT
1 AATTCGAAT
60254043 AATTCGAAT
1 AATTCGAAT
60254052 AATTCGAAT
1 AATTCGAAT
60254061 A
1 A
60254062 TCAAATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:60254177 original size:29 final size:30
Alignment explanation
Indices: 60254116--60254179 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
60254106 TTTTACTTTT
* *
60254116 CCCT-CAAAACTTTTACTCCTTCCCACTTT
1 CCCTCCAAAACTTTTACTCCCTCCCACTTC
60254145 CCCTCCAAAACTTTTACTCCCCTCCC-C-TC
1 CCCTCCAAAACTTTTACT-CCCTCCCACTTC
60254174 CCCTCC
1 CCCTCC
60254180 CAACCCCCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 11 0.35
30 14 0.45
31 6 0.19
ACGTcount: A:0.17, C:0.52, G:0.00, T:0.31
Consensus pattern (30 bp):
CCCTCCAAAACTTTTACTCCCTCCCACTTC
Found at i:60254315 original size:30 final size:31
Alignment explanation
Indices: 60254281--60254340 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
60254271 AAACCTTTTA
*
60254281 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
60254311 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
60254341 TCTCACATCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:60255080 original size:5 final size:5
Alignment explanation
Indices: 60255070--60255100 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
60255060 CTCGAAAATT
60255070 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
60255101 CGAATGCTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:60258314 original size:34 final size:34
Alignment explanation
Indices: 60258269--60258333 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
60258259 ACTGTATACG
* *
60258269 TGAACAGTACCGTCA-ACATGAATAGTATCGTGCA
1 TGAACAATACCGT-ATACATAAATAGTATCGTGCA
*
60258303 TGAACAATACCGTATACTTAAATAGTATCGT
1 TGAACAATACCGTATACATAAATAGTATCGT
60258334 AAACGGCCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 1 0.04
34 26 0.96
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (34 bp):
TGAACAATACCGTATACATAAATAGTATCGTGCA
Found at i:60277385 original size:31 final size:32
Alignment explanation
Indices: 60277336--60277406 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 32
60277326 CGCGTGAACA
* * * *
60277336 ATAGTAAAAGGATCAAAGTGAGAA-TTTCATT
1 ATAGTACAAGGATAAAAGTGAAAACTTTCACT
*
60277367 ATAGTACAAGGGTAAAAGTGAAAACTTTCACT
1 ATAGTACAAGGATAAAAGTGAAAACTTTCACT
60277399 ATAGTACA
1 ATAGTACA
60277407 TATCAAAGTG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 20 0.59
32 14 0.41
ACGTcount: A:0.45, C:0.10, G:0.18, T:0.27
Consensus pattern (32 bp):
ATAGTACAAGGATAAAAGTGAAAACTTTCACT
Found at i:60277417 original size:30 final size:28
Alignment explanation
Indices: 60277347--60277431 Score: 75
Period size: 32 Copynumber: 2.9 Consensus size: 28
60277337 TAGTAAAAGG
* *
60277347 ATCAAAGTGAGAATTTCATTATAGTACA
1 ATCAAAGTGAAAATTTCACTATAGTACA
*
60277375 AGGGTAAAAGTGAAAACTTTCACTATAGTACA
1 A---TCAAAGTGAAAA-TTTCACTATAGTACA
*
60277407 TATCAAAGTG-AAA-TTCACTACAGTA
1 -ATCAAAGTGAAAATTTCACTATAGTA
60277432 TAAGGGCCAA
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
27 11 0.23
28 1 0.02
29 3 0.06
30 7 0.15
31 10 0.21
32 14 0.30
33 1 0.02
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (28 bp):
ATCAAAGTGAAAATTTCACTATAGTACA
Found at i:60280034 original size:3 final size:3
Alignment explanation
Indices: 60280026--60280061 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
60280016 ATATAGGGTG
60280026 ATA ATA ATA ATA ATA ATA ATA ATA ATA GATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
60280062 GATTGAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:60284207 original size:70 final size:70
Alignment explanation
Indices: 60284113--60284254 Score: 275
Period size: 70 Copynumber: 2.0 Consensus size: 70
60284103 CCCTGTCAAT
*
60284113 TTCGAAAGTGAGCAATTAAGGATAATTAATCACGGCATTAACGTCATCAGTCAATTGTACATAAT
1 TTCGAAAGTGAGCAATTAAGGATAATTAATCACGGCATTAACGTCATCAATCAATTGTACATAAT
60284178 TTTGA
66 TTTGA
60284183 TTCGAAAGTGAGCAATTAAGGATAATTAATCACGGCATTAACGTCATCAATCAATTGTACATAAT
1 TTCGAAAGTGAGCAATTAAGGATAATTAATCACGGCATTAACGTCATCAATCAATTGTACATAAT
60284248 TTTGA
66 TTTGA
60284253 TT
1 TT
60284255 GATATAACAA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.32
Consensus pattern (70 bp):
TTCGAAAGTGAGCAATTAAGGATAATTAATCACGGCATTAACGTCATCAATCAATTGTACATAAT
TTTGA
Found at i:60298909 original size:28 final size:28
Alignment explanation
Indices: 60298877--60298951 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 28
60298867 TAAATTATTT
*
60298877 TTAAATTGAATATTGAAATATTGAAATA
1 TTAAATTGAATATTGAAAAATTGAAATA
** *
60298905 TTAAATTGGAA-ATAAAAAAATTGAAGTA
1 TTAAATT-GAATATTGAAAAATTGAAATA
*
60298933 TCAAATTGAATATTGAAAA
1 TTAAATTGAATATTGAAAA
60298952 CTAAATGATA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.08
28 32 0.84
29 3 0.08
ACGTcount: A:0.53, C:0.01, G:0.12, T:0.33
Consensus pattern (28 bp):
TTAAATTGAATATTGAAAAATTGAAATA
Found at i:60306787 original size:195 final size:196
Alignment explanation
Indices: 60306536--60306912 Score: 528
Period size: 195 Copynumber: 1.9 Consensus size: 196
60306526 TTGGGAAAAA
* * **
60306536 AAAACAATGTAATTAATTGCTTAATTTTCCTGCAGTTTCTTTTCTCAGTAACCAAACACAAATTG
1 AAAACAATGTAATTAATTGATTAATTTTCCTGCAGTTCCTTTTCTCAGTAACCAAACACAAAAAG
* *
60306601 AATCAAACAAATCTAAG-AACAAGAAA-CCATCCTTTCCA-CACCAATTACTAG-AAAACCAAAT
66 AATCAAACAAATCTAAGAAACAA-AAAGCCATCCTTACCACCA-CAATAACTAGCAAAACCAAAT
60306662 TATGCATTTAACACTTCATTATCCAACCAAAAATTGGAACTTTCAAAATATAAAGTCATAAATCA
129 TATGCATTTAACACTTCATTATCCAACCAAAAATTGGAACTTTCAAAATATAAAGTCATAAATCA
60306727 GTT
194 GTT
* *
60306730 AAAACTAATGTAATTAATTGATTAATTTTCCTGGAGTTCCTTTTCTCAGTGACCAAACACAAAAA
1 AAAAC-AATGTAATTAATTGATTAATTTTCCTGCAGTTCCTTTTCTCAGTAACCAAACACAAAAA
* * * *
60306795 GAATCTAACAAATTTGAGAAACAAAAAGCCATTCTTACCACCACAATAACTAGCAAAACCAAATT
65 GAATCAAACAAATCTAAGAAACAAAAAGCCATCCTTACCACCACAATAACTAGCAAAACCAAATT
* ** * * **
60306860 CTGCATTTAGTATTTCATTATCCAACGAAAAATTTTAACTTTCAAAATATAAA
130 ATGCATTTAACACTTCATTATCCAACCAAAAATTGGAACTTTCAAAATATAAA
60306913 ACAAATAAAA
Statistics
Matches: 159, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
194 5 0.03
195 71 0.45
196 24 0.15
197 59 0.37
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.30
Consensus pattern (196 bp):
AAAACAATGTAATTAATTGATTAATTTTCCTGCAGTTCCTTTTCTCAGTAACCAAACACAAAAAG
AATCAAACAAATCTAAGAAACAAAAAGCCATCCTTACCACCACAATAACTAGCAAAACCAAATTA
TGCATTTAACACTTCATTATCCAACCAAAAATTGGAACTTTCAAAATATAAAGTCATAAATCAGT
T
Found at i:60311294 original size:6 final size:6
Alignment explanation
Indices: 60311283--60311307 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
60311273 GAATCTCACG
60311283 TTTATT TTTATT TTTATT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT T
60311308 GGAAATACTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:60311300 original size:85 final size:85
Alignment explanation
Indices: 60311203--60311360 Score: 230
Period size: 85 Copynumber: 1.9 Consensus size: 85
60311193 ACATTTTCAC
* *
60311203 TTTTATTATTATTATTT-TCTT-GAAATAATGTGTTTGGTTGCCGAGAAACTGAAGTGAACAGTT
1 TTTTATTATTATT-TTTAT-TTGGAAATAATGTGTTTGGTTGCAGAGAAACTGAAGTAAACAGTT
60311266 TAAAAGAGAATCTCACGTTTAT
64 TAAAAGAGAATCTCACGTTTAT
* * * *
60311288 TTTTATTTTTATTTTTATTTGGAAATACTGTGTTTGGTTGCATAGAAACTGAAGTAAATAGTTTA
1 TTTTATTATTATTTTTATTTGGAAATAATGTGTTTGGTTGCAGAGAAACTGAAGTAAACAGTTTA
60311353 AAAGAGAA
66 AAAGAGAA
60311361 AATGAATACT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
84 5 0.08
85 60 0.92
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (85 bp):
TTTTATTATTATTTTTATTTGGAAATAATGTGTTTGGTTGCAGAGAAACTGAAGTAAACAGTTTA
AAAGAGAATCTCACGTTTAT
Found at i:60319028 original size:10 final size:10
Alignment explanation
Indices: 60319004--60319042 Score: 53
Period size: 9 Copynumber: 3.9 Consensus size: 10
60318994 AATTTAAAAA
60319004 ATTAAAAATT
1 ATTAAAAATT
60319014 A-TAAAAATT
1 ATTAAAAATT
60319023 ATTAAAAATAT
1 ATTAAAAAT-T
*
60319034 TTTAAAAAT
1 ATTAAAAAT
60319043 ATATATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 9 0.35
10 8 0.31
11 9 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
ATTAAAAATT
Found at i:60319028 original size:19 final size:19
Alignment explanation
Indices: 60318978--60319031 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
60318968 ATGTCAACAA
* *
60318978 ATAAATAATTTTTTAAAATT
1 ATAAA-AATTATTAAAAATT
60318998 -TAAAAA--ATTAAAAATT
1 ATAAAAATTATTAAAAATT
60319014 ATAAAAATTATTAAAAAT
1 ATAAAAATTATTAAAAAT
60319032 ATTTTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
16 8 0.28
17 6 0.21
18 2 0.07
19 13 0.45
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
ATAAAAATTATTAAAAATT
Found at i:60319038 original size:11 final size:11
Alignment explanation
Indices: 60319004--60319046 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
60318994 AATTTAAAAA
60319004 ATTAAAAAT-T
1 ATTAAAAATAT
60319014 A-TAAAAAT-T
1 ATTAAAAATAT
60319023 ATTAAAAATAT
1 ATTAAAAATAT
*
60319034 TTTAAAAATAT
1 ATTAAAAATAT
60319045 AT
1 AT
60319047 ATTTAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 9 0.31
10 8 0.28
11 12 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
ATTAAAAATAT
Found at i:60322601 original size:54 final size:56
Alignment explanation
Indices: 60322506--60322720 Score: 179
Period size: 57 Copynumber: 3.8 Consensus size: 56
60322496 ATCTTGGGCA
* * * * * *
60322506 AAAAAAAAGTTCAAGCCCCATTGTGGGAAGTATTGCCAAGTTCAGG-GC-CTTGAAT
1 AAAAAAAAGTTCAGGCCCCAATGTGAGAA-AATTGCTAAGTTCAGGACCACTTGAAT
* * *
60322561 AAAAAAAAGTTCAGGCCCCACTGTGAGAAAATTGCTAAGTTTAGGACCTAACTTGGAT
1 AAAAAAAAGTTCAGGCCCCAATGTGAGAAAATTGCTAAGTTCAGGACC--ACTTGAAT
* * * * * *
60322619 GAAACAAA-TTCAGGCCCCAATATGAGAAAATTGCTAAGTTTAGGACCTAACTTGGAC
1 AAAAAAAAGTTCAGGCCCCAATGTGAGAAAATTGCTAAGTTCAGGACC--ACTTGAAT
* *
60322676 GAAAAAAA-TTCAGGCCCCAATGT-AGGAAAAGTTGCCAAGTTCAGG
1 AAAAAAAAGTTCAGGCCCCAATGTGA-GAAAA-TTGCTAAGTTCAGG
60322721 CCCTAAAAAG
Statistics
Matches: 137, Mismatches: 17, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
54 13 0.09
55 27 0.20
56 1 0.01
57 72 0.53
58 24 0.18
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (56 bp):
AAAAAAAAGTTCAGGCCCCAATGTGAGAAAATTGCTAAGTTCAGGACCACTTGAAT
Found at i:60322636 original size:57 final size:57
Alignment explanation
Indices: 60322562--60322726 Score: 233
Period size: 57 Copynumber: 2.9 Consensus size: 57
60322552 GCCTTGAATA
* *
60322562 AAAAAAAGTTCAGGCCCCACTGTGAGAAAATTGCTAAGTTTAGGACCTAACTTGGATG
1 AAAAAAA-TTCAGGCCCCAATGTGAGAAAATTGCTAAGTTTAGGACCTAACTTGGACG
* *
60322620 AAACAAATTCAGGCCCCAATATGAGAAAATTGCTAAGTTTAGGACCTAACTTGGACG
1 AAAAAAATTCAGGCCCCAATGTGAGAAAATTGCTAAGTTTAGGACCTAACTTGGACG
* * *
60322677 AAAAAAATTCAGGCCCCAATGT-AGGAAAAGTTGCCAAGTTCAGGCCCTAA
1 AAAAAAATTCAGGCCCCAATGTGA-GAAAA-TTGCTAAGTTTAGGACCTAA
60322727 AAAGTAATTT
Statistics
Matches: 96, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
56 1 0.01
57 72 0.75
58 23 0.24
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (57 bp):
AAAAAAATTCAGGCCCCAATGTGAGAAAATTGCTAAGTTTAGGACCTAACTTGGACG
Found at i:60323358 original size:18 final size:18
Alignment explanation
Indices: 60323335--60323371 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
60323325 TTTTTCACTC
60323335 TATATGCTAATGCATAGG
1 TATATGCTAATGCATAGG
60323353 TATATGCTAATGCATAGG
1 TATATGCTAATGCATAGG
60323371 T
1 T
60323372 GAACTTACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (18 bp):
TATATGCTAATGCATAGG
Found at i:60327696 original size:2 final size:2
Alignment explanation
Indices: 60327691--60327716 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
60327681 AAAATCTTCA
60327691 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
60327717 TTGCTTCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60332243 original size:19 final size:20
Alignment explanation
Indices: 60332210--60332248 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
60332200 TCTTCTTCTT
*
60332210 TTTTTTAAAATAA-TTATAA
1 TTTTTTAAAACAATTTATAA
*
60332229 TTTTTTAGAACAATTTATAA
1 TTTTTTAAAACAATTTATAA
60332249 AATTTTGGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (20 bp):
TTTTTTAAAACAATTTATAA
Found at i:60332280 original size:20 final size:20
Alignment explanation
Indices: 60332243--60332303 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
60332233 TTAGAACAAT
**
60332243 TTATAAA-ATTTTGGAATTC
1 TTATAAATATTTTAAAATTC
60332262 TTATAAATATTTTAAAATT-
1 TTATAAATATTTTAAAATTC
*
60332281 TTGA-AAATTATTTTAAATTTC
1 TT-ATAAA-TATTTTAAAATTC
60332302 TT
1 TT
60332304 TTTGTAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
19 12 0.34
20 21 0.60
21 2 0.06
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.52
Consensus pattern (20 bp):
TTATAAATATTTTAAAATTC
Found at i:60332297 original size:29 final size:29
Alignment explanation
Indices: 60332241--60332298 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
60332231 TTTTAGAACA
* *
60332241 ATTTATAAAATTTTGGAATTCTTATAAAT
1 ATTTATAAAATTTTGAAATTATTATAAAT
*
60332270 ATTT-TAAAATTTTGAAAATTATTTTAAAT
1 ATTTATAAAATTTTG-AAATTATTATAAAT
60332299 TTCTTTTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (29 bp):
ATTTATAAAATTTTGAAATTATTATAAAT
Found at i:60336388 original size:14 final size:14
Alignment explanation
Indices: 60336369--60336395 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
60336359 CTAAATAACT
60336369 ATTAAATTAAATTA
1 ATTAAATTAAATTA
60336383 ATTAAATTAAATT
1 ATTAAATTAAATT
60336396 CCAAATTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATTAAATTAAATTA
Found at i:60337887 original size:31 final size:31
Alignment explanation
Indices: 60337841--60337899 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
60337831 CACAAATTTG
*
60337841 TTAATTTTGGTCCCTAAATTTGTTAATTTTCT
1 TTAATTTTAGTCCCTAAATTT-TTAATTTTCT
60337873 TTAA-TTTAGTCCCTAAATTTTTAATTT
1 TTAATTTTAGTCCCTAAATTTTTAATTT
60337900 AGTCCTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 7 0.27
31 15 0.58
32 4 0.15
ACGTcount: A:0.25, C:0.12, G:0.07, T:0.56
Consensus pattern (31 bp):
TTAATTTTAGTCCCTAAATTTTTAATTTTCT
Found at i:60337897 original size:20 final size:20
Alignment explanation
Indices: 60337872--60337910 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
60337862 GTTAATTTTC
60337872 TTTAATTTAGTCCCTAAATT
1 TTTAATTTAGTCCCTAAATT
*
60337892 TTTAATTTAGTCCTTAAAT
1 TTTAATTTAGTCCCTAAAT
60337911 CTTGGATTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.13, G:0.05, T:0.51
Consensus pattern (20 bp):
TTTAATTTAGTCCCTAAATT
Found at i:60338036 original size:22 final size:22
Alignment explanation
Indices: 60337992--60338037 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
60337982 AAACATATAA
* * *
60337992 TTTTATATTTTGTTTTCTATTT
1 TTTTATATTTTATATACTATTT
60338014 TTTTATATTTTATATACT-TTT
1 TTTTATATTTTATATACTATTT
60338035 TTT
1 TTT
60338038 AAAGAAATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.76
Consensus pattern (22 bp):
TTTTATATTTTATATACTATTT
Found at i:60338351 original size:17 final size:17
Alignment explanation
Indices: 60338329--60338381 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
60338319 TATTATATCA
60338329 ATATAATATAAAATATT
1 ATATAATATAAAATATT
* *
60338346 ATATAATATGAATATGAAT
1 ATATAATAT-AAAAT-ATT
*
60338365 ATATAATACAAAATATT
1 ATATAATATAAAATATT
60338382 TCTCTACCAC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
17 11 0.38
18 8 0.28
19 10 0.34
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.38
Consensus pattern (17 bp):
ATATAATATAAAATATT
Found at i:60338977 original size:19 final size:18
Alignment explanation
Indices: 60338961--60339016 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
60338951 ACTAAAAATT
60338961 TATTTTAAAAATAAAAAA
1 TATTTTAAAAATAAAAAA
*
60338979 TATTTTAAAATTAAAAAA
1 TATTTTAAAAATAAAAAA
*
60338997 -A-TATAAAAAT-AAAAA
1 TATTTTAAAAATAAAAAA
60339012 TATTT
1 TATTT
60339017 ATTATATTCG
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
15 5 0.16
16 8 0.25
17 2 0.06
18 17 0.53
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TATTTTAAAAATAAAAAA
Found at i:60338994 original size:17 final size:17
Alignment explanation
Indices: 60338961--60339016 Score: 60
Period size: 16 Copynumber: 3.3 Consensus size: 17
60338951 ACTAAAAATT
*
60338961 TATTTTAAAAATAAAAAA
1 TATTTT-AAAATTAAAAA
60338979 TATTTTAAAATTAAAAA
1 TATTTTAAAATTAAAAA
* * *
60338996 -AATATAAAAATAAAAA
1 TATTTTAAAATTAAAAA
60339012 TATTT
1 TATTT
60339017 ATTATATTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
16 13 0.42
17 12 0.39
18 6 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TATTTTAAAATTAAAAA
Found at i:60343324 original size:22 final size:22
Alignment explanation
Indices: 60343296--60343448 Score: 225
Period size: 22 Copynumber: 7.0 Consensus size: 22
60343286 TGTTGATAGT
*
60343296 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
60343318 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
60343340 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
* * * **
60343362 ACGAACTAAACCCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
**
60343384 ACGTACTAAGCTCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
*
60343406 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
60343428 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
60343449 GAACAATAAA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 119 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTA
Found at i:60347701 original size:6 final size:6
Alignment explanation
Indices: 60347690--60347715 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
60347680 CAAGAATATT
60347690 ACTTGC ACTTGC ACTTGC ACTTGC AC
1 ACTTGC ACTTGC ACTTGC ACTTGC AC
60347716 ATACTACTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.35, G:0.15, T:0.31
Consensus pattern (6 bp):
ACTTGC
Found at i:60358679 original size:18 final size:20
Alignment explanation
Indices: 60358657--60358704 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
60358647 TATTTAATTT
*
60358657 TATATA-ATATAATTTAAAAA
1 TATATACATA-AAATTAAAAA
60358677 TATATACATAAAATTAAAAA
1 TATATACATAAAATTAAAAA
60358697 TAT-TACAT
1 TATATACAT
60358705 TACATCAGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 5 0.19
20 18 0.69
21 3 0.12
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (20 bp):
TATATACATAAAATTAAAAA
Found at i:60358680 original size:20 final size:20
Alignment explanation
Indices: 60358636--60358699 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
60358626 TTAAAATTTT
60358636 AAATATATAA-AT-ATTTAA
1 AAATATATAATATAATTTAA
***
60358654 TTTTATATAATATAATTTAA
1 AAATATATAATATAATTTAA
*
60358674 AAATATATACATA-AAATTAA
1 AAATATATA-ATATAATTTAA
60358694 AAATAT
1 AAATAT
60358700 TACATTACAT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
18 7 0.19
19 2 0.06
20 24 0.67
21 3 0.08
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATATATAATATAATTTAA
Found at i:60359186 original size:16 final size:17
Alignment explanation
Indices: 60359165--60359196 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
60359155 TCTTTCACTT
60359165 TATTTATTT-ATCCATA
1 TATTTATTTAATCCATA
60359181 TATTTATTTAATCCAT
1 TATTTATTTAATCCAT
60359197 CCCCCCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.56
Consensus pattern (17 bp):
TATTTATTTAATCCATA
Found at i:60360148 original size:241 final size:242
Alignment explanation
Indices: 60359589--60360308 Score: 1033
Period size: 242 Copynumber: 3.0 Consensus size: 242
60359579 GGTCACTTGA
* *
60359589 GATTTTCTCTGATTTTTCTTATCTCTTGTTTGTTTTCTCGGAATTTCTGCATTTCCTCGTCTGGG
1 GATTTTCTCTGATTTTTCTTATCTCTTGTTTGTTTCCTCGGAATTTCTGCATTTTCTCGT-TGGG
* * * * * * *
60359654 TCATCTCCAATTTTTGATTGCTTTTATGTTTTGTTTTTCGTT--CATAATGAGTTCT-CTTCTAC
65 TCATCTCCAATATTTGATAGATTTTATGTTTTTTTTTTCATTGGC-T-AT-A-TTCTGCTCCT-T
** * * *
60359716 TCCTTTGTTTTGTTT-AATCATTAATTTCGATATGTTGTTTAAGATGATTG-ATTTTCTAATTAA
125 TGGTTTGTTTTTTTTAAATCATTAATTTGGATATGTTGTTTAAGATTATTGAATTTTCTAATTAA
* * *
60359779 ATTGGCTACACTGCATTTGATAATTCACTCTGATTTACTTGTTTATTATTACT
190 ATTGGCTACACTGCATTTGATAATTTACTCTGATTTATTTGTTTATGATTACT
* *
60359832 GATTTTCTCTGTTTTTTCTTATCTCTTGTTTGTTTCCTTGGAATTTCTGCATTTTCTCGTTGGGT
1 GATTTTCTCTGATTTTTCTTATCTCTTGTTTGTTTCCTCGGAATTTCTGCATTTTCTCGTTGGGT
60359897 CATCTCCAATATTTGATAGATTTTATGTTTTTTTTTTCATTGGCTATATTCTGCTCCTTTGGTTT
66 CATCTCCAATATTTGATAGATTTTATGTTTTTTTTTTCATTGGCTATATTCTGCTCCTTTGGTTT
* * *
60359962 TTTTTTTTTAAATCATTAATTTGGACATGTTGTTTAAGATTACTGAATTTTCTAATTAAATTGGC
131 GTTTTTTTTAAATCATTAATTTGGATATGTTGTTTAAGATTATTGAATTTTCTAATTAAATTGGC
*
60360027 TACATTGCATTTGATAATTTACTCTGATTTATTTGTTTATGATTACT
196 TACACTGCATTTGATAATTTACTCTGATTTATTTGTTTATGATTACT
60360074 GATTTTCTCTG-TTTTTCTTATCTCTTGTTTGTTTCCTCGGAATTTCTGCATTTTCTCGTTGGGT
1 GATTTTCTCTGATTTTTCTTATCTCTTGTTTGTTTCCTCGGAATTTCTGCATTTTCTCGTTGGGT
* *
60360138 CATCTCCAATATTTGATATATTTTA--ATTTTTTTTTCATTGGCTATATTCTGCTCCTTTGGTTT
66 CATCTCCAATATTTGATAGATTTTATGTTTTTTTTTTCATTGGCTATATTCTGCTCCTTTGGTTT
*
60360201 GTTTTTTTTAAATCATTAATTTGGATATGTTGTTTTAAGATTATTGAATTTTCTAATTAAATTAG
131 GTTTTTTTTAAATCATTAATTTGGATATGTTG-TTTAAGATTATTGAATTTTCTAATTAAATTGG
* ** * **
60360266 CTATACTGTGTTTGATAATTTGCTCTGATTTATAAGTTTATGA
195 CTACACTGCATTTGATAATTTACTCTGATTTATTTGTTTATGA
60360309 ATGTATTGCT
Statistics
Matches: 434, Mismatches: 37, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
239 67 0.15
240 81 0.19
241 112 0.26
242 116 0.27
243 57 0.13
244 1 0.00
ACGTcount: A:0.19, C:0.13, G:0.13, T:0.54
Consensus pattern (242 bp):
GATTTTCTCTGATTTTTCTTATCTCTTGTTTGTTTCCTCGGAATTTCTGCATTTTCTCGTTGGGT
CATCTCCAATATTTGATAGATTTTATGTTTTTTTTTTCATTGGCTATATTCTGCTCCTTTGGTTT
GTTTTTTTTAAATCATTAATTTGGATATGTTGTTTAAGATTATTGAATTTTCTAATTAAATTGGC
TACACTGCATTTGATAATTTACTCTGATTTATTTGTTTATGATTACT
Found at i:60363930 original size:3 final size:3
Alignment explanation
Indices: 60363922--60363966 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
60363912 CTTCCTTTAA
60363922 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
60363967 TCTTCTGAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:60366390 original size:104 final size:104
Alignment explanation
Indices: 60366031--60366724 Score: 521
Period size: 104 Copynumber: 6.6 Consensus size: 104
60366021 GTAGTATCTA
* * *
60366031 TATAGTAGTTGATGATTTCATTTGAACTATAGTTTGATTCGTAAAAGCTGAA-CAATGTATACAC
1 TATAGTAGTTGATGATTTCATTTGAACTATAGTTTGATTCGTAAAACCTGAATC-ATGGATACAT
* **
60366095 GAATTATTAAATTTTGGCATTCCGAAATTCATAGTATTGG
65 GAATTAGTAAATTTTGGCATTTAGAAATTCATAGTATTGG
* **
60366135 TATAGTAGTTGATGATTTCATTTGAACTATAGTTTGGTTCGTAAAACCTCG-ATCATGGATATTT
1 TATAGTAGTTGATGATTTCATTTGAACTATAGTTTGATTCGTAAAACCT-GAATCATGGATA-CA
* * * ** * *
60366199 TG-CTTGGTAACTTTTCCTCCTATTAAGGCAAACTACA-A-TATTGG
64 TGAATTAGTAAATTTT--GGC-ATTTA-G-AAA-TTCATAGTATTGG
* * ** * * *
60366243 TTTAGTAGTAGATGATTTGGTTTCAACTGTAGTTTGATTCGTAAAACCTGAATCATGGATACACG
1 TATAGTAGTTGATGATTTCATTTGAACTATAGTTTGATTCGTAAAACCTGAATCATGGATACATG
* *
60366308 AATCATTAAATTTTGGCATGTT-GAAATTCATAGTATTGG
66 AATTAGTAAATTTTGGCAT-TTAGAAATTCATAGTATTGG
* * * * ** *
60366347 TATAGTAGTTGATGATTTCATTTGAACTATATTTTGGTACGTAAAACCTCAATCATGGATATTTT
1 TATAGTAGTTGATGATTTCATTTGAACTATAGTTTGATTCGTAAAACCTGAATCATGGATACATG
** ** * * * * *
60366412 TCTCGGTAACTATTCCT-CCTATTACACAAATT-ACAGTATTGG
66 AATTAGTAA--ATT-TTGGC-ATT-TAGAAATTCATAGTATTGG
* * ** *
60366454 TTTAGTAGTTGGTGATTTGGTTTGAACTGTAGTTTGATTCGTAAAACCTGAATCATGGATACATG
1 TATAGTAGTTGATGATTTCATTTGAACTATAGTTTGATTCGTAAAACCTGAATCATGGATACATG
* * * *
60366519 AATTACTAAATTTTGGCATTTCGAAATTTATAGCATTGG
66 AATTAGTAAATTTTGGCATTTAGAAATTCATAGTATTGG
* * **
60366558 TATAGTAGTTGATGATTTCATTTGAACTATAGTTTGGTTCGTAAAACCTGAATCATGGTTATTTT
1 TATAGTAGTTGATGATTTCATTTGAACTATAGTTTGATTCGTAAAACCTGAATCATGGATA-CAT
* * * ** * * * *
60366623 G-CTTGGTAACTTTTCTCCTATTAACTCAAATT-ACAGTATAGG
65 GAATTAGTAAATTTT-GGC-ATTTA--GAAATTCATAGTATTGG
* * *
60366665 TATAGTAGTTGATGATTTCGTTT--ACTTATAGTTTGGTTCATAAAACCTGAATCATGGATA
1 TATAGTAGTTGATGATTTCATTTGAAC-TATAGTTTGATTCGTAAAACCTGAATCATGGATA
60366725 GTTACTCAGT
Statistics
Matches: 457, Mismatches: 105, Indels: 54
0.74 0.17 0.09
Matches are distributed among these distances:
102 3 0.01
103 9 0.02
104 201 0.44
105 14 0.03
106 43 0.09
107 103 0.23
108 77 0.17
109 4 0.01
110 3 0.01
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (104 bp):
TATAGTAGTTGATGATTTCATTTGAACTATAGTTTGATTCGTAAAACCTGAATCATGGATACATG
AATTAGTAAATTTTGGCATTTAGAAATTCATAGTATTGG
Found at i:60366566 original size:211 final size:210
Alignment explanation
Indices: 60366033--60366724 Score: 998
Period size: 211 Copynumber: 3.3 Consensus size: 210
60366023 AGTATCTATA
* * *
60366033 TAGTAGTTGATGATTTCATTTGAACTATAGTTTGATTCGTAAAAGCTGAA-CAATGTATACACGA
1 TAGTAGTTGATGATTTCGTTTGAACTATAGTTTGATTCGTAAAACCTGAATC-ATGGATACACGA
*
60366097 ATTATTAAATTTTGGCATTCCGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAAC
65 ATTATTAAATTTTGGCATTTCGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAAC
*
60366162 TATAGTTTGGTTCGTAAAACCTCGATCATGGATATTTTGCTTGGTAACTTTTCCTCCTATTA-AG
130 TATAGTTTGGTTCGTAAAACCTCAATCATGGATATTTTGCTTGGTAAC-TTTCCTCCTATTACA-
* *
60366226 GCAAACTACAATATTGGTT
193 -CAAATTACAGTATTGGTT
* * * *
60366245 TAGTAGTAGATGATTTGGTTTCAACTGTAGTTTGATTCGTAAAACCTGAATCATGGATACACGAA
1 TAGTAGTTGATGATTTCGTTTGAACTATAGTTTGATTCGTAAAACCTGAATCATGGATACACGAA
*
60366310 TCATTAAATTTTGGCATGTT-GAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAAC
66 TTATTAAATTTTGGCAT-TTCGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAAC
* * * *
60366374 TATATTTTGGTACGTAAAACCTCAATCATGGATATTTTTCTCGGTAACTATTCCTCCTATTACAC
130 TATAGTTTGGTTCGTAAAACCTCAATCATGGATATTTTGCTTGGTAACT-TTCCTCCTATTACAC
60366439 AAATTACAGTATTGGTT
194 AAATTACAGTATTGGTT
* * * *
60366456 TAGTAGTTGGTGATTTGGTTTGAACTGTAGTTTGATTCGTAAAACCTGAATCATGGATACATGAA
1 TAGTAGTTGATGATTTCGTTTGAACTATAGTTTGATTCGTAAAACCTGAATCATGGATACACGAA
* * *
60366521 TTACTAAATTTTGGCATTTCGAAATTTATAGCATTGGTATAGTAGTTGATGATTTCATTTGAACT
66 TTATTAAATTTTGGCATTTCGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAACT
* * * *
60366586 ATAGTTTGGTTCGTAAAACCTGAATCATGGTTATTTTGCTTGGTAACTTTTCTCCTATTAACTCA
131 ATAGTTTGGTTCGTAAAACCTCAATCATGGATATTTTGCTTGGTAACTTTCCTCCTATT-ACACA
* *
60366651 AATTACAGTATAGGTA
195 AATTACAGTATTGGTT
* *
60366667 TAGTAGTTGATGATTTCGTTT--ACTTATAGTTTGGTTCATAAAACCTGAATCATGGATA
1 TAGTAGTTGATGATTTCGTTTGAAC-TATAGTTTGATTCGTAAAACCTGAATCATGGATA
60366725 GTTACTCAGT
Statistics
Matches: 434, Mismatches: 39, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
209 2 0.00
210 43 0.10
211 215 0.50
212 171 0.39
213 3 0.01
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (210 bp):
TAGTAGTTGATGATTTCGTTTGAACTATAGTTTGATTCGTAAAACCTGAATCATGGATACACGAA
TTATTAAATTTTGGCATTTCGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAACT
ATAGTTTGGTTCGTAAAACCTCAATCATGGATATTTTGCTTGGTAACTTTCCTCCTATTACACAA
ATTACAGTATTGGTT
Found at i:60371265 original size:8 final size:7
Alignment explanation
Indices: 60371223--60371263 Score: 73
Period size: 7 Copynumber: 5.7 Consensus size: 7
60371213 TTCTGAACCC
60371223 AAAAATA
1 AAAAATA
60371230 AAAAATA
1 AAAAATA
60371237 AAAAATA
1 AAAAATA
60371244 AAAAATAA
1 AAAAAT-A
60371252 AAAAATA
1 AAAAATA
60371259 AAAAA
1 AAAAA
60371264 ATGTTTTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:60372795 original size:2 final size:2
Alignment explanation
Indices: 60372790--60372829 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
60372780 GTATTGTGTG
*
60372790 TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
60372830 ACTCGAGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:60374730 original size:18 final size:18
Alignment explanation
Indices: 60374707--60374741 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
60374697 AAAAAGAATT
*
60374707 AAAAAAGTATATTATTTA
1 AAAAAAATATATTATTTA
*
60374725 AAAAAAATATTTTATTT
1 AAAAAAATATATTATTT
60374742 CATGTCTACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
AAAAAAATATATTATTTA
Found at i:60380159 original size:6 final size:6
Alignment explanation
Indices: 60380150--60380201 Score: 104
Period size: 6 Copynumber: 8.7 Consensus size: 6
60380140 CATAAAAACT
60380150 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
60380198 TATA
1 TATA
60380202 TGCATTACAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (6 bp):
TATACA
Found at i:60383058 original size:14 final size:15
Alignment explanation
Indices: 60383041--60383079 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
60383031 AAAAATAATA
60383041 TAATAAACAAAA-CC
1 TAATAAACAAAAGCC
* *
60383055 TAATAAATAAAAGTC
1 TAATAAACAAAAGCC
60383070 TAATAAACAA
1 TAATAAACAA
60383080 TTCAGTCCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.64, C:0.13, G:0.03, T:0.21
Consensus pattern (15 bp):
TAATAAACAAAAGCC
Found at i:60383865 original size:26 final size:27
Alignment explanation
Indices: 60383836--60383888 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
60383826 TTTCAGAGAA
*
60383836 AAGGGAAAGAAGAGATG-ATTTTTTTT
1 AAGGGAAAGAAGAAATGAATTTTTTTT
* * *
60383862 AAGGTAGAGAGGAAATGAATTTTTTTT
1 AAGGGAAAGAAGAAATGAATTTTTTTT
60383889 TCTAAAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.36
Consensus pattern (27 bp):
AAGGGAAAGAAGAAATGAATTTTTTTT
Found at i:60384422 original size:20 final size:20
Alignment explanation
Indices: 60384383--60384422 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
60384373 TTATATTATT
*
60384383 TTTATGTATTATTTTATTTA
1 TTTATGTATTATTTCATTTA
* *
60384403 TTTATTTATTATTTCCTTTA
1 TTTATGTATTATTTCATTTA
60384423 CTTTTTTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.70
Consensus pattern (20 bp):
TTTATGTATTATTTCATTTA
Found at i:60404158 original size:27 final size:28
Alignment explanation
Indices: 60404128--60404182 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
60404118 TTTCAGAGAA
*
60404128 AAGGGAAAGAAGAGATG-ATTTTTTTTT
1 AAGGGAAAGAAGAAATGAATTTTTTTTT
* * *
60404155 AAGGTAGAGAGGAAATGAATTTTTTTTT
1 AAGGGAAAGAAGAAATGAATTTTTTTTT
60404183 CTAAAATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.36, C:0.00, G:0.25, T:0.38
Consensus pattern (28 bp):
AAGGGAAAGAAGAAATGAATTTTTTTTT
Found at i:60404715 original size:20 final size:20
Alignment explanation
Indices: 60404676--60404715 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
60404666 TTATATTATT
*
60404676 TTTATGTATTATTTTATTTA
1 TTTATGTATTATTTCATTTA
* *
60404696 TTTATTTATTATTTCCTTTA
1 TTTATGTATTATTTCATTTA
60404716 CTTTTTTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.70
Consensus pattern (20 bp):
TTTATGTATTATTTCATTTA
Found at i:60405578 original size:43 final size:43
Alignment explanation
Indices: 60405521--60405791 Score: 330
Period size: 43 Copynumber: 6.3 Consensus size: 43
60405511 TTATGGGAAA
* **
60405521 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATAAC
1 AAACGCCGCTAAAGATCGTGACCTTTAGCGGCGCTTTTACCAC
* * * *
60405564 AAATGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTGCCAC
1 AAACGCCGCTAAAGATCGTGACCTTTAGCGGCGCTTTTACCAC
* * *
60405607 AAACGCCGCTAAAGATCTTGACCTTTAGCGGCGTTTTTATCAC
1 AAACGCCGCTAAAGATCGTGACCTTTAGCGGCGCTTTTACCAC
60405650 AAACGCCGCTAAAGATCGTGACCTTTAGCGGCGC-TTTAGCCAC
1 AAACGCCGCTAAAGATCGTGACCTTTAGCGGCGCTTTTA-CCAC
* * **
60405693 AAACACCGCTAAAGATCGTGATCTTTAGCGGCGC-TTTAGATAC
1 AAACGCCGCTAAAGATCGTGACCTTTAGCGGCGCTTTTA-CCAC
* * * * * *
60405736 AAACGTCGCTAAAGATCGTGAGCTTTAGCGACGCTTCTAGCAA
1 AAACGCCGCTAAAGATCGTGACCTTTAGCGGCGCTTTTACCAC
60405779 AAACGCCGCTAAA
1 AAACGCCGCTAAA
60405792 AACATAACCT
Statistics
Matches: 199, Mismatches: 27, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
42 4 0.02
43 192 0.96
44 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCGTGACCTTTAGCGGCGCTTTTACCAC
Found at i:60405629 original size:86 final size:86
Alignment explanation
Indices: 60405521--60405804 Score: 376
Period size: 86 Copynumber: 3.3 Consensus size: 86
60405511 TTATGGGAAA
* * *
60405521 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATAACAAATGCCGCTAAAGAACATGAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATAACAAACGCCGCTAAAGATCGTGAC
*
60405586 CTTTAGCGGCGCTTTTGCCAC
66 CTTTAGCGGCGCTTTAGCCAC
* * *
60405607 AAACGCCGCTAAAGATCTTGACCTTTAGCGGCGTTTTTATCACAAACGCCGCTAAAGATCGTGAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATAACAAACGCCGCTAAAGATCGTGAC
60405672 CTTTAGCGGCGCTTTAGCCAC
66 CTTTAGCGGCGCTTTAGCCAC
* * * * *
60405693 AAACACCGCTAAAGATCGTGATCTTTAGCGGCGC-TTTAGATACAAACGTCGCTAAAGATCGTGA
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATA-ACAAACGCCGCTAAAGATCGTGA
* * *
60405757 GCTTTAGCGACGCTTCTAG-CAA
65 CCTTTAGCGGCGCTT-TAGCCAC
* *
60405779 AAACGCCGCTAAA-AACATAACCTTTA
1 AAACGCCGCTAAAGATCATGACCTTTA
60405805 AAAAAATATT
Statistics
Matches: 174, Mismatches: 22, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
85 13 0.07
86 158 0.91
87 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (86 bp):
AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATAACAAACGCCGCTAAAGATCGTGAC
CTTTAGCGGCGCTTTAGCCAC
Found at i:60407621 original size:18 final size:18
Alignment explanation
Indices: 60407600--60407639 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
60407590 AAAATAAAAT
60407600 AAAAGAATAAAAGCAATA
1 AAAAGAATAAAAGCAATA
** *
60407618 AAAAGCGTGAAAGCAATA
1 AAAAGAATAAAAGCAATA
60407636 AAAA
1 AAAA
60407640 AGACAGACAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.68, C:0.07, G:0.15, T:0.10
Consensus pattern (18 bp):
AAAAGAATAAAAGCAATA
Found at i:60411420 original size:34 final size:34
Alignment explanation
Indices: 60411373--60411440 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
60411363 ATTTTTAAAC
* * * **
60411373 CCTAAATCACTAACTCTTAACTTTTAACCCCTAA
1 CCTAAACCACTAACCCCTAACTACTAACCCCTAA
*
60411407 CCTAAACCCCTAACCCCTAACTACTAACCCCTAA
1 CCTAAACCACTAACCCCTAACTACTAACCCCTAA
60411441 ACCTTATCTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.35, C:0.40, G:0.00, T:0.25
Consensus pattern (34 bp):
CCTAAACCACTAACCCCTAACTACTAACCCCTAA
Found at i:60411422 original size:20 final size:20
Alignment explanation
Indices: 60411397--60411440 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 20
60411387 TCTTAACTTT
60411397 TAACCCCTAACCTA-AACCCC
1 TAACCCCTAA-CTACAACCCC
60411417 TAACCCCTAACTACTAACCCC
1 TAACCCCTAACTAC-AACCCC
60411438 TAA
1 TAA
60411441 ACCTTATCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.14
20 10 0.45
21 9 0.41
ACGTcount: A:0.36, C:0.45, G:0.00, T:0.18
Consensus pattern (20 bp):
TAACCCCTAACTACAACCCC
Found at i:60411495 original size:70 final size:69
Alignment explanation
Indices: 60411421--60411553 Score: 180
Period size: 70 Copynumber: 1.9 Consensus size: 69
60411411 AACCCCTAAC
* *
60411421 CCCTAACTACTAACCCCTAAACCTTATCTAATATATAA-ATTCAAAA-ACATTAATTAATCTAAA
1 CCCTAACCACTAACCCCTAAACCTTATCTAATA-A-AAGATT-AAAACACACTAATTAATCTAAA
60411484 CTCGAAT
63 CTCGAAT
* * *
60411491 CCCTAACCCCTAACCCCTAAACCTTATTTCATAAAAGATTAAAACACACTAATTAATCTAAAC
1 CCCTAACCACTAACCCCTAAACCTTATCTAATAAAAGATTAAAACACACTAATTAATCTAAAC
60411554 CCTAAAGTCT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
68 6 0.11
69 21 0.38
70 29 0.52
ACGTcount: A:0.44, C:0.27, G:0.02, T:0.28
Consensus pattern (69 bp):
CCCTAACCACTAACCCCTAAACCTTATCTAATAAAAGATTAAAACACACTAATTAATCTAAACTC
GAAT
Found at i:60412023 original size:19 final size:19
Alignment explanation
Indices: 60411983--60412025 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
60411973 AATTTTAATT
*
60411983 AATATAAATAAACAAATTA
1 AATATAAATAAACAAATAA
*
60412002 AATAGTAAAT-AACAGATAA
1 AATA-TAAATAAACAAATAA
60412021 AATAT
1 AATAT
60412026 TTTTGCGGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 15 0.71
20 5 0.24
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.26
Consensus pattern (19 bp):
AATATAAATAAACAAATAA
Found at i:60412087 original size:41 final size:41
Alignment explanation
Indices: 60412030--60412187 Score: 253
Period size: 41 Copynumber: 3.9 Consensus size: 41
60412020 AAATATTTTT
* *
60412030 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCTCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
60412071 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* *
60412112 GCGGCACTTTTTCAAAAACGGCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* * *
60412153 GTGGCGCTTTTTTAAAAACGCCGCTAAAGACCTGA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGA
60412188 TAGGTCAAAA
Statistics
Matches: 108, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 108 1.00
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:60412275 original size:41 final size:39
Alignment explanation
Indices: 60412227--60412319 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 39
60412217 AGGTTTTTTT
60412227 GCGGCGTTTTTCCAAAAAACGCCGCTAATGCTTGATCTTTA
1 GCGGCGTTTTT--AAAAAACGCCGCTAATGCTTGATCTTTA
** * *
60412268 GCGGCGTTTTGTGTAAAGCGCCGCTAATGCTTGATTTTTA
1 GCGGCGTTTT-TAAAAAACGCCGCTAATGCTTGATCTTTA
60412308 GCGGCGCTTTTT
1 GCGGCG-TTTTT
60412320 GTCCAAACGC
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
40 31 0.67
41 14 0.30
42 1 0.02
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (39 bp):
GCGGCGTTTTTAAAAAACGCCGCTAATGCTTGATCTTTA
Found at i:60413228 original size:14 final size:14
Alignment explanation
Indices: 60413209--60413259 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
60413199 ATGGTAGGGT
60413209 TTGGGCCTAGTGTA
1 TTGGGCCTAGTGTA
* *
60413223 TTGGGCCAAGGGTA
1 TTGGGCCTAGTGTA
*
60413237 TTTGGG-CTAATGTAA
1 -TTGGGCCTAGTGT-A
60413252 TTGGGCCT
1 TTGGGCCT
60413260 CGTAAATTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
14 21 0.72
15 8 0.28
ACGTcount: A:0.18, C:0.14, G:0.35, T:0.33
Consensus pattern (14 bp):
TTGGGCCTAGTGTA
Found at i:60414017 original size:101 final size:101
Alignment explanation
Indices: 60413854--60414348 Score: 762
Period size: 100 Copynumber: 4.9 Consensus size: 101
60413844 ATTTAACTGT
* * * * * * * ** * *
60413854 AATGTCGCGGAAACAAGATTCGCCGTCAT-GACTTCAATCTATTCCACTACACTACTAGGAAAGT
1 AATGTCGGGGAAACCAGATCCGCTGTCGTAG-CTTCAATCTGTTCCACTGCACCGCCAAGAAAGT
*
60413918 AAGACCCGCCATTGTGGCTTCAATCTTTTTAAATTGC
65 AAGACCCGCCGTTGTGGCTTCAATCTTTTTAAATTGC
*
60413955 AATGTCGGGGAAACCAGATCCGCTGTCGTAGCTTCAATCTGCTCCACTGCACCGCCAAGAAAGTA
1 AATGTCGGGGAAACCAGATCCGCTGTCGTAGCTTCAATCTGTTCCACTGCACCGCCAAGAAAGTA
60414020 AGACCCGCCGTTGTGGCTTCAATC-TTTTAAATTGC
66 AGACCCGCCGTTGTGGCTTCAATCTTTTTAAATTGC
* *
60414055 AATATCGGGGAAACCAGATCTGCTGTCGTAGCTTCAATCTGTTCCACTGCACCGCCAAGAAAGTA
1 AATGTCGGGGAAACCAGATCCGCTGTCGTAGCTTCAATCTGTTCCACTGCACCGCCAAGAAAGTA
60414120 AGACCCGCCGTTGTGGCTTCAATCTTTTT-AATTGC
66 AGACCCGCCGTTGTGGCTTCAATCTTTTTAAATTGC
* *
60414155 AATGTCGGGGAAACCAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGAAAGTA
1 AATGTCGGGGAAACCAGATCCGCTGTCGTAGCTTCAATCTGTTCCACTGCACCGCCAAGAAAGTA
*
60414220 AGACCCGTCGTTGTGGCTTCAATCTTTTTAAATTGC
66 AGACCCGCCGTTGTGGCTTCAATCTTTTTAAATTGC
* * *
60414256 AATGTCGAGGAAACCAGATCCGCTGTCGTAGCTTCAATCTGTTCCACTGCACCGCCAGGAAAGGA
1 AATGTCGGGGAAACCAGATCCGCTGTCGTAGCTTCAATCTGTTCCACTGCACCGCCAAGAAAGTA
*
60414321 AGACCCGCCGTTGTGGCTTTAATCTTTT
66 AGACCCGCCGTTGTGGCTTCAATCTTTT
60414349 CCACTGTAAT
Statistics
Matches: 365, Mismatches: 26, Indels: 6
0.92 0.07 0.02
Matches are distributed among these distances:
100 192 0.53
101 172 0.47
102 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (101 bp):
AATGTCGGGGAAACCAGATCCGCTGTCGTAGCTTCAATCTGTTCCACTGCACCGCCAAGAAAGTA
AGACCCGCCGTTGTGGCTTCAATCTTTTTAAATTGC
Found at i:60414044 original size:50 final size:50
Alignment explanation
Indices: 60413985--60414354 Score: 242
Period size: 50 Copynumber: 7.4 Consensus size: 50
60413975 CGCTGTCGTA
* * *
60413985 GCTTCAATCTGCTCCACTGCACCGCCAAGAAAGTAAGACCCGCCGTTGTG
1 GCTTCAATCTGTTCCACTGCACCGCCAGGAAAGCAAGACCCGCCGTTGTG
* ** * *** ** * * * * * *
60414035 GCTTCAATCTTTTAAATTGCAATATCGGGGAAA-CCAGATCTGCTGTCGTA
1 GCTTCAATCTGTTCCACTGC-ACCGCCAGGAAAGCAAGACCCGCCGTTGTG
* *
60414085 GCTTCAATCTGTTCCACTGCACCGCCAAGAAAGTAAGACCCGCCGTTGTG
1 GCTTCAATCTGTTCCACTGCACCGCCAGGAAAGCAAGACCCGCCGTTGTG
* ** * ** ** * * * *
60414135 GCTTCAATCTTTTTAATTGCAATGTCGGGGAAA-CCAGATCCGCTGTTGTA
1 GCTTCAATCTGTTCCACTGCACCG-CCAGGAAAGCAAGACCCGCCGTTGTG
* *
60414185 GCTTCAATCTGTTCCACTGCACCGCCAGGAAAGTAAGACCCGTCGTTGTG
1 GCTTCAATCTGTTCCACTGCACCGCCAGGAAAGCAAGACCCGCCGTTGTG
* ** * ** * * * * * *
60414235 GCTTCAATCTTTTTAAATTGCAATGTCGAGGAAA-CCAGATCCGCTGTCGTA
1 GCTTCAATC-TGTTCCACTGCACCG-CCAGGAAAGCAAGACCCGCCGTTGTG
*
60414286 GCTTCAATCTGTTCCACTGCACCGCCAGGAAAGGAAGACCCGCCGTTGTG
1 GCTTCAATCTGTTCCACTGCACCGCCAGGAAAGCAAGACCCGCCGTTGTG
* *
60414336 GCTTTAATCTTTTCCACTG
1 GCTTCAATCTGTTCCACTG
60414355 TAATGCCAAA
Statistics
Matches: 221, Mismatches: 92, Indels: 14
0.68 0.28 0.04
Matches are distributed among these distances:
49 19 0.09
50 156 0.71
51 39 0.18
52 7 0.03
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (50 bp):
GCTTCAATCTGTTCCACTGCACCGCCAGGAAAGCAAGACCCGCCGTTGTG
Found at i:60414251 original size:201 final size:201
Alignment explanation
Indices: 60413885--60414348 Score: 768
Period size: 201 Copynumber: 2.3 Consensus size: 201
60413875 GCCGTCATGA
* * ** * *
60413885 CTTCAATCTATTCCACTACACTACTAGGAAAGTAAGACCCGCCATTGTGGCTTCAATCTTTTTAA
1 CTTCAATCTGTTCCACTGCACCGCCAGGAAAGTAAGACCCGCCGTTGTGGCTTCAATCTTTTTAA
60413950 ATTGCAATGTCGGGGAAACCAGATCCGCTGTCGTAGCTTCAATCTGCTCCACTGCACCGCCAAGA
66 ATTGCAATGTCGGGGAAACCAGATCCGCTGTCGTAGCTTCAATCTGCTCCACTGCACCGCCAAGA
* *
60414015 AAGTAAGACCCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATATCGGGGAAACCAGATCTGCTG
131 AAGTAAGACCCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATATCGAGGAAACCAGATCCGCTG
60414080 TCGTAG
196 TCGTAG
*
60414086 CTTCAATCTGTTCCACTGCACCGCCAAGAAAGTAAGACCCGCCGTTGTGGCTTCAATCTTTTT-A
1 CTTCAATCTGTTCCACTGCACCGCCAGGAAAGTAAGACCCGCCGTTGTGGCTTCAATCTTTTTAA
* * *
60414150 ATTGCAATGTCGGGGAAACCAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGA
66 ATTGCAATGTCGGGGAAACCAGATCCGCTGTCGTAGCTTCAATCTGCTCCACTGCACCGCCAAGA
* *
60414215 AAGTAAGACCCGTCGTTGTGGCTTCAATCTTTTTAAATTGCAATGTCGAGGAAACCAGATCCGCT
131 AAGTAAGACCCGCCGTTGTGGCTTCAATC-TTTTAAATTGCAATATCGAGGAAACCAGATCCGCT
60414280 GTCGTAG
195 GTCGTAG
* *
60414287 CTTCAATCTGTTCCACTGCACCGCCAGGAAAGGAAGACCCGCCGTTGTGGCTTTAATCTTTT
1 CTTCAATCTGTTCCACTGCACCGCCAGGAAAGTAAGACCCGCCGTTGTGGCTTCAATCTTTT
60414349 CCACTGTAAT
Statistics
Matches: 245, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
200 91 0.37
201 154 0.63
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (201 bp):
CTTCAATCTGTTCCACTGCACCGCCAGGAAAGTAAGACCCGCCGTTGTGGCTTCAATCTTTTTAA
ATTGCAATGTCGGGGAAACCAGATCCGCTGTCGTAGCTTCAATCTGCTCCACTGCACCGCCAAGA
AAGTAAGACCCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATATCGAGGAAACCAGATCCGCTG
TCGTAG
Found at i:60416501 original size:14 final size:14
Alignment explanation
Indices: 60416465--60416532 Score: 52
Period size: 14 Copynumber: 4.9 Consensus size: 14
60416455 AGGGCTACAT
60416465 TGTAGTTGGG-CTAG
1 TGTA-TTGGGCCTAG
*
60416479 GGT-TTGGGCCTAG
1 TGTATTGGGCCTAG
*
60416492 TGTATTGGGCCAAG
1 TGTATTGGGCCTAG
* *
60416506 GGTATTTGGG-CTAA
1 TGTA-TTGGGCCTAG
60416520 TGTAATTGGGCCT
1 TGT-ATTGGGCCT
60416533 CGTAAATTAG
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
12 5 0.12
13 6 0.14
14 23 0.55
15 8 0.19
ACGTcount: A:0.16, C:0.12, G:0.38, T:0.34
Consensus pattern (14 bp):
TGTATTGGGCCTAG
Found at i:60417119 original size:9 final size:9
Alignment explanation
Indices: 60417107--60417136 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
60417097 GATGAACATA
60417107 AAATTTAGT
1 AAATTTAGT
60417116 AAATTTAGT
1 AAATTTAGT
*
60417125 AAATTTACT
1 AAATTTAGT
60417134 AAA
1 AAA
60417137 CATAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (9 bp):
AAATTTAGT
Found at i:60417575 original size:27 final size:27
Alignment explanation
Indices: 60417537--60417598 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
60417527 TTTTAGTCCT
*
60417537 GTGCCGCCTCTGGCAAAGGCACCTTTG
1 GTGCCGCCTCTGCCAAAGGCACCTTTG
*
60417564 GTGCCGCCTCTGCCACAGGCACCTTTG
1 GTGCCGCCTCTGCCAAAGGCACCTTTG
60417591 GTGCCGCC
1 GTGCCGCC
60417599 CGTGGCATCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.11, C:0.39, G:0.29, T:0.21
Consensus pattern (27 bp):
GTGCCGCCTCTGCCAAAGGCACCTTTG
Found at i:60418035 original size:31 final size:32
Alignment explanation
Indices: 60418002--60418063 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
60417992 GAATTAGATA
*
60418002 TTTTGATTTAAATTTATTATGATA-TTTTTTAT
1 TTTTGACTTAAATTT-TTATGATAGTTTTTTAT
* *
60418034 TTTTTACTTGAATTTTTATGATAGTTTTTT
1 TTTTGACTTAAATTTTTATGATAGTTTTTT
60418064 CCTTAGCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 8 0.31
32 18 0.69
ACGTcount: A:0.24, C:0.02, G:0.08, T:0.66
Consensus pattern (32 bp):
TTTTGACTTAAATTTTTATGATAGTTTTTTAT
Found at i:60418785 original size:33 final size:33
Alignment explanation
Indices: 60418748--60418814 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
60418738 TGGTTGGGAC
60418748 TAAGGAAATAATTATCCAAATGCCCCTTCATGA
1 TAAGGAAATAATTATCCAAATGCCCCTTCATGA
*
60418781 TAAGGAAATAATTATCCAAATGTCCCTTCATGA
1 TAAGGAAATAATTATCCAAATGCCCCTTCATGA
60418814 T
1 T
60418815 CCATGTATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (33 bp):
TAAGGAAATAATTATCCAAATGCCCCTTCATGA
Found at i:60420835 original size:17 final size:17
Alignment explanation
Indices: 60420797--60420845 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
60420787 GGGTGAGAAG
60420797 TAAAAGTTTAGGGGAAAA
1 TAAAAGTTTAGGGG-AAA
*
60420815 TAAAAAGTTTTGGGG-AA
1 T-AAAAGTTTAGGGGAAA
60420832 TAAAAGTTTGAGGG
1 TAAAAGTTT-AGGG
60420846 AAAGTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 8 0.30
17 6 0.22
18 1 0.04
19 12 0.44
ACGTcount: A:0.43, C:0.00, G:0.31, T:0.27
Consensus pattern (17 bp):
TAAAAGTTTAGGGGAAA
Found at i:60425116 original size:18 final size:17
Alignment explanation
Indices: 60425088--60425122 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60425078 ATTTTTAAGA
*
60425088 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
60425105 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
60425123 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:60425376 original size:16 final size:16
Alignment explanation
Indices: 60425355--60425393 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
60425345 TTGATTTGCT
*
60425355 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
60425371 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
60425387 ATTACAC
1 ATTACAC
60425394 CTCTAATCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:60425394 original size:16 final size:16
Alignment explanation
Indices: 60425368--60425424 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
60425358 ACACAGCTTT
* *
60425368 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
60425384 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
*
60425400 TCTAATACACCTCTAA
1 TCCAATACACCTCTAA
60425416 TCCAATACA
1 TCCAATACA
60425425 GCGAACCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.33, C:0.35, G:0.00, T:0.32
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:60429938 original size:27 final size:28
Alignment explanation
Indices: 60429897--60429968 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
60429887 TAAAATAAAA
* *
60429897 AATATTTTATAAATTTT-ATAATAATTTT
1 AATATTTT-TTAATTTTAAAAATAATTTT
*
60429925 AATGA-TTTTTAATTTTAAAAATAGTTTT
1 AAT-ATTTTTTAATTTTAAAAATAATTTT
*
60429953 TATATTTTTTAATTTT
1 AATATTTTTTAATTTT
60429969 TAAATTTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
27 8 0.22
28 28 0.76
29 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (28 bp):
AATATTTTTTAATTTTAAAAATAATTTT
Found at i:60439204 original size:31 final size:31
Alignment explanation
Indices: 60439158--60439219 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
60439148 ATCAACTTAA
* *
60439158 GAAAAAGTGTCAAGTTTAGGTACTAAATTAG
1 GAAAAAGTGTAAAGTTTAGGTACCAAATTAG
*
60439189 GAAAAATTGTAAAGTTTAGGTACCAAATTAG
1 GAAAAAGTGTAAAGTTTAGGTACCAAATTAG
60439220 ACCAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.44, C:0.06, G:0.21, T:0.29
Consensus pattern (31 bp):
GAAAAAGTGTAAAGTTTAGGTACCAAATTAG
Found at i:60439365 original size:16 final size:18
Alignment explanation
Indices: 60439328--60439367 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
60439318 TTTTTGAGAT
60439328 ATTT-TATATTATGTTAG
1 ATTTATATATTATGTTAG
*
60439345 TTTTATATATTATG-TA-
1 ATTTATATATTATGTTAG
60439361 ATTTATA
1 ATTTATA
60439368 ATACATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 6 0.30
17 5 0.25
18 9 0.45
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (18 bp):
ATTTATATATTATGTTAG
Found at i:60440845 original size:28 final size:28
Alignment explanation
Indices: 60440814--60440868 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
60440804 TTTAATAAAT
60440814 ATATA-TATTTTATT-TTATTTTTATTTTA
1 ATATACTATTTT-TTATT-TTTTTATTTTA
60440842 ATATACTATTTTTTATTTTTTTATTTT
1 ATATACTATTTTTTATTTTTTTATTTT
60440869 TAAAATAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (28 bp):
ATATACTATTTTTTATTTTTTTATTTTA
Found at i:60440882 original size:29 final size:31
Alignment explanation
Indices: 60440810--60440882 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
60440800 CAAATTTAAT
* *
60440810 AAATATATATATTTTATTTTATTTTTATTTTA
1 AAATA-ATATTTTTTATTTTATTTATATTTTA
* *
60440842 ATATACTATTTTTTATTTT-TTTAT-TTTTA
1 AAATAATATTTTTTATTTTATTTATATTTTA
60440871 AAATAAT-TTTTT
1 AAATAATATTTTT
60440883 GGTGTTTATT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
28 5 0.14
29 10 0.29
30 4 0.11
31 12 0.34
32 4 0.11
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (31 bp):
AAATAATATTTTTTATTTTATTTATATTTTA
Found at i:60442459 original size:3 final size:3
Alignment explanation
Indices: 60442451--60442510 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
60442441 AAATTTTAGA
60442451 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
60442499 TAT TAT TAT TAT
1 TAT TAT TAT TAT
60442511 ATTGTGTGTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:60444481 original size:120 final size:119
Alignment explanation
Indices: 60444268--60444506 Score: 460
Period size: 120 Copynumber: 2.0 Consensus size: 119
60444258 GCACAGTTAA
60444268 ACTCCCATCATTTGCTGGCCCCGTACGAGGTAGGCGACCCCATCCGAAATCTACTTTTCTACAGA
1 ACTCCCATCATTTGCTGGCCCCGTACGAGGTAGGCGACCCCATCCGAAATCTACTTTTCTACAGA
60444333 GGCAACCGCATTTAAATATTTTCAATGAATTTTAATTACACGTCTGCTAAAACCT
66 GGCAACCGCATTTAAATATTTTCAATGAATTTTAATTACACGTC-GCTAAAACCT
*
60444388 ACTCCCATCATTTGCTGGCCCCGTACGAGGTAGGCGACCCCATCCGAAATCTACTTTTCTACATA
1 ACTCCCATCATTTGCTGGCCCCGTACGAGGTAGGCGACCCCATCCGAAATCTACTTTTCTACAGA
60444453 GGCAACCGCATTTAAATATTTTCAATGAATTTTAATTACACGTCGCTAAAACCT
66 GGCAACCGCATTTAAATATTTTCAATGAATTTTAATTACACGTCGCTAAAACCT
60444507 TACATGACTA
Statistics
Matches: 118, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
119 10 0.08
120 108 0.92
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (119 bp):
ACTCCCATCATTTGCTGGCCCCGTACGAGGTAGGCGACCCCATCCGAAATCTACTTTTCTACAGA
GGCAACCGCATTTAAATATTTTCAATGAATTTTAATTACACGTCGCTAAAACCT
Found at i:60444880 original size:33 final size:35
Alignment explanation
Indices: 60444842--60444938 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
60444832 ATGATTATAT
60444842 TTAAATATTTAAAATATATTTTATATATT-C-TAA
1 TTAAATATTTAAAATATATTTTATATATTGCTTAA
* *
60444875 TTAAAT-TTTATAAATA-ATTAATATTTATTGCTTAA
1 TTAAATATTTA-AAATATATT-TTATATATTGCTTAA
*
60444910 --AAATATTTAAAATTTATATTTCATATATT
1 TTAAATATTTAAAA--TATATTTTATATATT
60444939 AAAATGTTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
32 7 0.14
33 25 0.49
34 5 0.10
35 11 0.22
36 3 0.06
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (35 bp):
TTAAATATTTAAAATATATTTTATATATTGCTTAA
Found at i:60445125 original size:13 final size:13
Alignment explanation
Indices: 60445107--60445131 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60445097 GCTAAACACT
60445107 CACTTTTCAAAAG
1 CACTTTTCAAAAG
60445120 CACTTTTCAAAA
1 CACTTTTCAAAA
60445132 CTAGCCCTAA
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
CACTTTTCAAAAG
Found at i:60455181 original size:17 final size:17
Alignment explanation
Indices: 60455159--60455192 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
60455149 TTGGTATAGT
60455159 TGGAATATAT-AACACAA
1 TGGAATAT-TCAACACAA
60455176 TGGAATATTCAACACAA
1 TGGAATATTCAACACAA
60455193 ACAGCTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 15 0.94
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.24
Consensus pattern (17 bp):
TGGAATATTCAACACAA
Found at i:60459290 original size:16 final size:16
Alignment explanation
Indices: 60459266--60459303 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
60459256 TTAGAACATA
60459266 ATTTATTTTCCTTCTTTT
1 ATTT-TTTTCCTT-TTTT
60459284 -TTTTTTTCCTTTTTT
1 ATTTTTTTCCTTTTTT
60459299 ATTTT
1 ATTTT
60459304 CCATTGCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.21
16 12 0.63
17 3 0.16
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (16 bp):
ATTTTTTTCCTTTTTT
Found at i:60489389 original size:36 final size:36
Alignment explanation
Indices: 60489339--60489503 Score: 177
Period size: 36 Copynumber: 4.3 Consensus size: 36
60489329 NNNNNNNNNN
* *
60489339 ATAAGTATAACACTTATCACTTTGTCACTTGATCAG
1 ATAAGTATAGCACTTATCACTTTATCACTTGATCAG
*
60489375 ATAAGTATAGCACTTATCACTTTCTCACTTGATCAG
1 ATAAGTATAGCACTTATCACTTTATCACTTGATCAG
*
60489411 ATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCTTGATCAG
1 ATAA--GTA--T--AG----CACTTATCACTTTATCACTTGATCAG
* *
60489457 ATAAGTGTAGCACTTATCACTTTTTCACTTGATCAG
1 ATAAGTATAGCACTTATCACTTTATCACTTGATCAG
*
60489493 ATAAGTGTAGC
1 ATAAGTATAGC
60489504 TAATGCTACC
Statistics
Matches: 112, Mismatches: 7, Indels: 20
0.81 0.05 0.14
Matches are distributed among these distances:
36 73 0.65
38 3 0.03
40 3 0.03
42 3 0.03
44 2 0.02
46 28 0.25
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (36 bp):
ATAAGTATAGCACTTATCACTTTATCACTTGATCAG
Found at i:60489436 original size:46 final size:46
Alignment explanation
Indices: 60489385--60489539 Score: 204
Period size: 46 Copynumber: 3.6 Consensus size: 46
60489375 ATAAGTATAG
*
60489385 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
60489431 CACTTATCACTTTATCTCTTGATCAGATAA--GT-G-T--AG----
1 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
60489467 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAGCTAC
60489513 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTATCACTTGATCAGA
60489540 AGTACTCAAA
Statistics
Matches: 93, Mismatches: 6, Indels: 20
0.78 0.05 0.17
Matches are distributed among these distances:
36 28 0.30
38 2 0.02
39 1 0.01
40 3 0.03
42 2 0.02
43 1 0.01
44 2 0.02
46 54 0.58
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (46 bp):
CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:60489486 original size:82 final size:82
Alignment explanation
Indices: 60489349--60489539 Score: 337
Period size: 82 Copynumber: 2.3 Consensus size: 82
60489339 ATAAGTATAA
*
60489349 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCACTTATCACTTTCTCACTTGATCAGATA
1 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCACTTATCACTTTCTCACTTGATCAGATA
60489414 AGTGTAGCTAAAGCTAC
66 AGTGTAGCTAAAGCTAC
* * *
60489431 CACTTATCACTTTATCTCTTGATCAGATAAGTGTAGCACTTATCACTTTTTCACTTGATCAGATA
1 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCACTTATCACTTTCTCACTTGATCAGATA
*
60489496 AGTGTAGCTAATGCTAC
66 AGTGTAGCTAAAGCTAC
60489513 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTATCACTTGATCAGA
60489540 AGTACTCAAA
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 103 1.00
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (82 bp):
CACTTATCACTTTATCACTTGATCAGATAAGTATAGCACTTATCACTTTCTCACTTGATCAGATA
AGTGTAGCTAAAGCTAC
Found at i:60491727 original size:2 final size:2
Alignment explanation
Indices: 60491720--60491780 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
60491710 ATTTACCCAC
60491720 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
60491762 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
60491781 CTGAAGTCAC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:60492193 original size:4 final size:4
Alignment explanation
Indices: 60492184--60492238 Score: 74
Period size: 4 Copynumber: 13.8 Consensus size: 4
60492174 CAGGGGAGAA
* * * *
60492184 TATG TATG TATG TATG TATG CATG CATG TATG TATG TATG CATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
60492232 TATG TAT
1 TATG TAT
60492239 CAGTGCAGGC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.25, C:0.07, G:0.24, T:0.44
Consensus pattern (4 bp):
TATG
Found at i:60492212 original size:16 final size:16
Alignment explanation
Indices: 60492184--60492238 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
60492174 CAGGGGAGAA
*
60492184 TATGTATGTATGTATG
1 TATGTATGCATGTATG
*
60492200 TATGCATGCATGTATG
1 TATGTATGCATGTATG
*
60492216 TATGTATGCATGCATG
1 TATGTATGCATGTATG
60492232 TATGTAT
1 TATGTAT
60492239 CAGTGCAGGC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.25, C:0.07, G:0.24, T:0.44
Consensus pattern (16 bp):
TATGTATGCATGTATG
Found at i:60492245 original size:20 final size:20
Alignment explanation
Indices: 60492189--60492238 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
60492179 GAGAATATGT
60492189 ATGTATGTATGTATGCATGC
1 ATGTATGTATGTATGCATGC
60492209 ATGTATGTATGTATGCATGC
1 ATGTATGTATGTATGCATGC
60492229 ATGTATGTAT
1 ATGTATGTAT
60492239 CAGTGCAGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.08, G:0.24, T:0.42
Consensus pattern (20 bp):
ATGTATGTATGTATGCATGC
Found at i:60494668 original size:20 final size:21
Alignment explanation
Indices: 60494621--60494668 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
60494611 GCTTCCAGAA
* *
60494621 AATAATTTCTGAAAAATGACT
1 AATATTTTCTGAAAAATAACT
*
60494642 TAT-TTTTCTGAAAAA-AACT
1 AATATTTTCTGAAAAATAACT
60494661 AATATTTT
1 AATATTTT
60494669 TTGGTGTTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 5 0.23
20 15 0.68
21 2 0.09
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (21 bp):
AATATTTTCTGAAAAATAACT
Found at i:60500118 original size:14 final size:14
Alignment explanation
Indices: 60500087--60500161 Score: 73
Period size: 14 Copynumber: 5.3 Consensus size: 14
60500077 CGTACCACCT
*
60500087 TTTATAACAAATAAA
1 TTTATAA-AAATATA
*
60500102 TTTATATAAATATA
1 TTTATAAAAATATA
60500116 TTTATAAAAAT-TCGA
1 TTTATAAAAATAT--A
*
60500131 TATA-AAAAATATA
1 TTTATAAAAATATA
*
60500144 TTTATAAAAAAATA
1 TTTATAAAAATATA
60500158 TTTA
1 TTTA
60500162 AAATATAGAT
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
13 5 0.10
14 34 0.68
15 11 0.22
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (14 bp):
TTTATAAAAATATA
Found at i:60504411 original size:15 final size:15
Alignment explanation
Indices: 60504369--60504412 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
60504359 ATTAAATAAA
60504369 TAAAAAATATTAAATT
1 TAAAAAA-ATTAAATT
* * *
60504385 TAAATAATTTAATTT
1 TAAAAAAATTAAATT
60504400 TAAAAAAATTAAA
1 TAAAAAAATTAAA
60504413 AATAATATGG
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TAAAAAAATTAAATT
Found at i:60509706 original size:2 final size:2
Alignment explanation
Indices: 60509699--60509731 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
60509689 ATTGATTGAA
60509699 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
60509732 AATAAAGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:60510263 original size:21 final size:21
Alignment explanation
Indices: 60510239--60510310 Score: 78
Period size: 20 Copynumber: 3.5 Consensus size: 21
60510229 AATACATGCA
*
60510239 TAAGGTATCGATACCTCGTAG
1 TAAGGTATCAATACCTCGTAG
**
60510260 TAA-GTATCAATACC-C-TCCC
1 TAAGGTATCAATACCTCGT-AG
60510279 TAAGGTATCAATACCTCGTAG
1 TAAGGTATCAATACCTCGTAG
*
60510300 CAAGGTATCAA
1 TAAGGTATCAA
60510311 AACTATAGAC
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
18 1 0.02
19 4 0.10
20 21 0.51
21 14 0.34
22 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (21 bp):
TAAGGTATCAATACCTCGTAG
Found at i:60519189 original size:34 final size:35
Alignment explanation
Indices: 60519123--60519189 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
60519113 CAAACACCAG
*
60519123 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATAATTTTACAGAAAAGT
* *
60519158 AAAATATTTTTCAG-AAATAATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATAATTTTACAGAAAA
60519190 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATAATTTTACAGAAAAGT
Found at i:60525459 original size:3 final size:3
Alignment explanation
Indices: 60525451--60525495 Score: 67
Period size: 3 Copynumber: 15.3 Consensus size: 3
60525441 ATTAATTTTG
60525451 TTA TTA TTA TTA TTA TTA TTA -TA TTA -TA TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
60525495 T
1 T
60525496 ACCTACATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.10
3 32 0.82
4 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Done.