Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 184 of 320
Found at i:60957094 original size:40 final size:40
Alignment explanation
Indices: 60956951--60957134 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
60956941 TAACTCATAC
* *
60956951 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
60956991 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
60957031 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
60957071 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
60957112 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
60957135 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:60964882 original size:93 final size:93
Alignment explanation
Indices: 60964723--60964893 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
60964713 GGATGGTTGA
*
60964723 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATAGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATAGATGCGAACGTCCGAACTCGTTGAGT
60964788 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * * *
60964816 GCATCCGAACTTGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATAGATGCGAACGTCC-GAACTCGTTGAG
*
60964880 TTGAGTCTGAGTTC
65 TTGAGTCCGAGTTC
60964894 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
92 2 0.03
93 67 0.97
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATAGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:60980642 original size:21 final size:21
Alignment explanation
Indices: 60980618--60980670 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
60980608 CCTACAGCCA
60980618 CTGTTTTTCCTGTTTTGGAAC
1 CTGTTTTTCCTGTTTTGGAAC
60980639 CTGTTTTTCCTGTTTTGGAAC
1 CTGTTTTTCCTGTTTTGGAAC
60980660 CTGTTTTTCCT
1 CTGTTTTTCCT
60980671 ATCTCCACTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.08, C:0.21, G:0.17, T:0.55
Consensus pattern (21 bp):
CTGTTTTTCCTGTTTTGGAAC
Found at i:60980643 original size:12 final size:12
Alignment explanation
Indices: 60980626--60980666 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
60980616 CACTGTTTTT
60980626 CCTGTTTTGGAA
1 CCTGTTTTGGAA
*
60980638 CCTGTTTT---T
1 CCTGTTTTGGAA
60980647 CCTGTTTTGGAA
1 CCTGTTTTGGAA
60980659 CCTGTTTT
1 CCTGTTTT
60980667 TCCTATCTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
9 8 0.33
12 16 0.67
ACGTcount: A:0.10, C:0.20, G:0.20, T:0.51
Consensus pattern (12 bp):
CCTGTTTTGGAA
Found at i:60990406 original size:25 final size:25
Alignment explanation
Indices: 60990377--60990455 Score: 112
Period size: 25 Copynumber: 3.3 Consensus size: 25
60990367 GATCTTTGCT
60990377 TAATTTCATATGCTCTAACTTACAG
1 TAATTTCATATGCTCTAACTTACAG
*
60990402 TAATTTCATATGCT-TCAA---AAAG
1 TAATTTCATATGCTCT-AACTTACAG
60990424 TAATTTCATATGCTCTAACTTACAG
1 TAATTTCATATGCTCTAACTTACAG
60990449 TAATTTC
1 TAATTTC
60990456 TTTTTGCAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
22 19 0.40
23 1 0.02
24 1 0.02
25 26 0.55
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.41
Consensus pattern (25 bp):
TAATTTCATATGCTCTAACTTACAG
Found at i:60990849 original size:18 final size:17
Alignment explanation
Indices: 60990822--60990976 Score: 74
Period size: 18 Copynumber: 9.0 Consensus size: 17
60990812 AATATTAAGA
60990822 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
60990839 ATTTCTATTAAA-T-TAT
1 ATTT-TATTAAATTATAT
* *
60990855 A-TTTAAT-AATAAT-T
1 ATTTTATTAAATTATAT
* *
60990869 ATTTTAAATTATATTTTAT
1 ATTTT--ATTAAATTATAT
* *
60990888 AGTATTA-TATATTATA-
1 A-TTTTATTAAATTATAT
60990904 ATTTTATTAAATTCATAT
1 ATTTTATTAAATT-ATAT
*** *
60990922 AAGAATATTTAATATTA-AGA
1 -ATTTTA-TTAA-ATTATA-T
60990942 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
60990959 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
60990977 TTAATAATAA
Statistics
Matches: 102, Mismatches: 18, Indels: 35
0.66 0.12 0.23
Matches are distributed among these distances:
13 2 0.02
14 5 0.05
15 10 0.10
16 10 0.10
17 23 0.23
18 32 0.31
19 9 0.09
20 8 0.08
21 3 0.03
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:60990892 original size:121 final size:120
Alignment explanation
Indices: 60990579--60991006 Score: 748
Period size: 120 Copynumber: 3.5 Consensus size: 120
60990569 GAATATAATG
* *
60990579 ATTTGATTAAATTATATATTTTTACTAAATTATATTTTTAATAATAATTATTTTAAATTATATTT
1 ATTTTATTAAATTATATATTTTTATTAAATTATA--TTTAATAATAATTATTTTAAATTATATTT
60990644 TATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGA
64 TATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGA
*
60990701 ATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
60990766 TAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAAATATTAAGA
66 TAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTT-AATATTAAGA
*
60990822 ATTTTATTAAATTATATATTTCTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
* * *
60990887 TAGTATTATATATTATAATTTTATTAAATTCATATAAGAATATTTAATATTAAGA
66 TAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGA
* *
60990942 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATCTTTTA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
60991007 AATTATTTAT
Statistics
Matches: 294, Mismatches: 11, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
120 148 0.50
121 115 0.39
122 31 0.11
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (120 bp):
ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
TAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGA
Found at i:60990893 original size:22 final size:23
Alignment explanation
Indices: 60990868--60990910 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
60990858 TAATAATAAT
*
60990868 TATTTTAAATTAT-ATTTTATAG
1 TATTATAAATTATAATTTTATAG
*
60990890 TATTATATATTATAATTTTAT
1 TATTATAAATTATAATTTTAT
60990911 TAAATTCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TATTATAAATTATAATTTTATAG
Found at i:60991058 original size:120 final size:116
Alignment explanation
Indices: 60990579--60991118 Score: 597
Period size: 120 Copynumber: 4.5 Consensus size: 116
60990569 GAATATAATG
* * *
60990579 ATTTGATTAAATTATATATTTTTACTAAATTATATTTTTAATAATAATTATTTTAAATTATATTT
1 ATTTTATTAAATTATATATTTTTATTAAATTATA--TTTAATAATAATTATGTTAAATTATATTT
* * *
60990644 TATAGTATTATATATTATGATT-TTAGTAAATTCATTTAAGAATATTTAATATTAAGA
64 TATAG-ATTATATA-T-TG-TTAATAATAAATTCA-TAAAGAATATTTAATATTAAGA
* *
60990701 ATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTA
* * *
60990766 TAGTATTATATATTATGATT-TTAGTAAATTCATTTAAGAATATTTAAATATTAAGA
66 TAG-ATTATATA-T-TG-TTAATAATAAATTCA-TAAAGAATATTT-AATATTAAGA
* *
60990822 ATTTTATTAAATTATATATTTCTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTA
* *
60990887 TAGTATTATATATT-ATAATTTTATTAAATTCATATAAGAATATTTAATATTAAGA
66 TAG-ATTATATATTGTTAA---TAATAAATTCATA-AAGAATATTTAATATTAAGA
*
60990942 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATCTTTTA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTA
* * * *
60991007 -A-ATTATTTATTGTTAATAATAATTTACCA-AAACAAATTTCTGCTAATTATTAAGA
66 TAGATTATATATTGTTAATAATAAATT--CATAAA-GAATAT-T--TAA-TATTAAGA
* * *
60991062 ATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAAAATTATGTTTAAAT
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATG-TTAAAT
60991119 ATGATTAAAT
Statistics
Matches: 382, Mismatches: 21, Indels: 31
0.88 0.05 0.07
Matches are distributed among these distances:
115 9 0.02
116 5 0.01
117 13 0.03
118 3 0.01
119 5 0.01
120 205 0.54
121 111 0.29
122 31 0.08
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (116 bp):
ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTA
TAGATTATATATTGTTAATAATAAATTCATAAAGAATATTTAATATTAAGA
Found at i:60991090 original size:18 final size:17
Alignment explanation
Indices: 60991062--60991096 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60991052 ATTATTAAGA
*
60991062 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
60991079 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
60991097 TTAATAAAAA
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:60991096 original size:16 final size:16
Alignment explanation
Indices: 60991062--60991116 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
60991052 ATTATTAAGA
60991062 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
60991079 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
60991095 A-TTTAATAAAAAT-T
1 ATTTTAATTAAAATAT
60991109 ATGTTTAA
1 AT-TTTAA
60991117 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:60991118 original size:241 final size:238
Alignment explanation
Indices: 60990579--60991118 Score: 732
Period size: 241 Copynumber: 2.2 Consensus size: 238
60990569 GAATATAATG
* * *
60990579 ATTTGATTAAATTATATATTTTTACTAAATTATATTTTTAATAATAATTATTTTAAATTATATTT
1 ATTTTATTAAATTATATA-TTTTATTAAA--ATATATTTAATAATAATTATTTTAAATTATATTT
* *
60990644 TATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGAATTTTATT
63 TATAGTATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATT
* *
60990709 AAATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTA
128 AAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAG-ATTA
* * * *
60990774 TATATTATGATTTTAGTAAATTCATTTAAGAATATTTAAATATTAAGA
192 TATATTATGATTATAATAAATTCA-TAAAAAATATTTAAATATTAAGA
*
60990822 ATTTTATTAAATTATATATTTCTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
1 ATTTTATTAAATTATATATTT-TATTAAAATATATTTAATAATAATTATTTTAAATTATATTTTA
*
60990887 TAGTATTATATATTATAATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
65 TAGTATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
* *
60990952 ATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATCTTTTA-A-ATTATTT
130 ATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGATTATAT
* * *
60991015 A-T-TG-TTAATAATAATTTACCA-AAACAAATTTCTGCTAATTATTAAGA
195 ATTATGATT-ATAATAAATT--CATAAA-AAATAT-T--TAAATATTAAGA
*
60991062 ATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAAAATTATGTTTAAAT
1 ATTTTATTAAATTATATATTTT-ATTAAAATATATTTAATAATAATTAT-TTTAAAT
60991119 ATGATTAAAT
Statistics
Matches: 267, Mismatches: 20, Indels: 22
0.86 0.06 0.07
Matches are distributed among these distances:
235 2 0.01
236 11 0.04
237 5 0.02
238 10 0.04
239 1 0.00
240 57 0.21
241 155 0.58
242 3 0.01
243 23 0.09
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (238 bp):
ATTTTATTAAATTATATATTTTATTAAAATATATTTAATAATAATTATTTTAAATTATATTTTAT
AGTATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAA
TTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGATTATATA
TTATGATTATAATAAATTCATAAAAAATATTTAAATATTAAGA
Found at i:60991353 original size:16 final size:16
Alignment explanation
Indices: 60991332--60991367 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
60991322 GATTTGCTAT
60991332 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
60991348 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
60991364 TACA
1 TACA
60991368 ACGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:60992208 original size:55 final size:55
Alignment explanation
Indices: 60992095--60992208 Score: 144
Period size: 55 Copynumber: 2.1 Consensus size: 55
60992085 AGTTTTGGGG
* * *
60992095 AAAAGAAAAAAAGTTTTGGAGGGTTTGCGAGAAGTAAAAGTTTTCAAGGTAAAGT
1 AAAAGAAAAAAAGTTTTGGAGGGTTTGCGAGAAGTAAAACTTTTCAAGGAAAAAT
*
60992150 AAAAGGAAAAAAGTTTTGGA-GGTTTAG-GAGGAAGTAAAACTTTT-AAGGGAAAAAT
1 AAAAGAAAAAAAGTTTTGGAGGGTTT-GCGA-GAAGTAAAACTTTTCAA-GGAAAAAT
60992205 AAAA
1 AAAA
60992209 TTTTAGGGGA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
54 9 0.17
55 43 0.83
ACGTcount: A:0.47, C:0.03, G:0.26, T:0.24
Consensus pattern (55 bp):
AAAAGAAAAAAAGTTTTGGAGGGTTTGCGAGAAGTAAAACTTTTCAAGGAAAAAT
Found at i:60992216 original size:18 final size:20
Alignment explanation
Indices: 60992184--60992221 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
60992174 TAGGAGGAAG
60992184 TAAAACTTTTAAGGGAAAAA
1 TAAAACTTTTAAGGGAAAAA
*
60992204 TAAAA-TTTTAGGGGAAAA
1 TAAAACTTTTAAGGGAAAA
60992222 GAAAAAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.53, C:0.03, G:0.18, T:0.26
Consensus pattern (20 bp):
TAAAACTTTTAAGGGAAAAA
Found at i:60992226 original size:18 final size:20
Alignment explanation
Indices: 60992185--60992226 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
60992175 AGGAGGAAGT
*
60992185 AAAACTTTTAAGGGAAAAAT
1 AAAACTTTTAAGGGAAAAAG
*
60992205 AAAA-TTTT-AGGGGAAAAG
1 AAAACTTTTAAGGGAAAAAG
60992223 AAAA
1 AAAA
60992227 AGTAAAAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 12 0.60
19 4 0.20
20 4 0.20
ACGTcount: A:0.57, C:0.02, G:0.19, T:0.21
Consensus pattern (20 bp):
AAAACTTTTAAGGGAAAAAG
Found at i:60992227 original size:19 final size:18
Alignment explanation
Indices: 60992185--60992227 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
60992175 AGGAGGAAGT
*
60992185 AAAACTTTTAAGGGAAAA
1 AAAAATTTTAAGGGAAAA
*
60992203 ATAAAATTTTAGGGGAAAA
1 A-AAAATTTTAAGGGAAAA
60992222 GAAAAA
1 -AAAAA
60992228 GTAAAAATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 19 0.90
20 1 0.05
ACGTcount: A:0.58, C:0.02, G:0.19, T:0.21
Consensus pattern (18 bp):
AAAAATTTTAAGGGAAAA
Found at i:60996952 original size:90 final size:91
Alignment explanation
Indices: 60996846--60997027 Score: 224
Period size: 90 Copynumber: 2.0 Consensus size: 91
60996836 TTTTTTTTGT
* * * * *
60996846 TTTTTTTTAATGGAATGTATTGAAATTTTTGACGCAAAGAGGGATGAGAACCTAAGCACCCCACC
1 TTTTTTTTAA-GGAATGTATCGAAACTTTTGACGCAAAGAGGGATGACAACCCAAACACCCCACC
*
60996911 TCGGTTACTCAG-CCGAACACACTCTTA
65 CCGGTTACTCAGCCCG-ACACACTCTTA
* * * *
60996938 TTTTTTTTAA-GAATGTATCGAACCTTTTGATGCGAAGAGGGATGACAACCCAAACACCGCACCC
1 TTTTTTTTAAGGAATGTATCGAAACTTTTGACGCAAAGAGGGATGACAACCCAAACACCCCACCC
* *
60997002 CGGTTACTTAGCCCGACACGCTCTTA
66 CGGTTACTCAGCCCGACACACTCTTA
60997028 ATGGAATTCA
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
90 64 0.83
91 3 0.04
92 10 0.13
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (91 bp):
TTTTTTTTAAGGAATGTATCGAAACTTTTGACGCAAAGAGGGATGACAACCCAAACACCCCACCC
CGGTTACTCAGCCCGACACACTCTTA
Found at i:61003172 original size:17 final size:17
Alignment explanation
Indices: 61003150--61003189 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
61003140 AAGTGTAATA
61003150 ACAATGAAAATGCAATG
1 ACAATGAAAATGCAATG
61003167 ACAATGAAAATGCAATG
1 ACAATGAAAATGCAATG
61003184 ACAATG
1 ACAATG
61003190 TATACTTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.53, C:0.12, G:0.17, T:0.17
Consensus pattern (17 bp):
ACAATGAAAATGCAATG
Found at i:61004723 original size:48 final size:48
Alignment explanation
Indices: 61004667--61004762 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
61004657 TCCGATTCAC
61004667 AGATTGTGGTAATAGAGGATGCATGTTCCTTAATAGTTTTGGTGGCTT
1 AGATTGTGGTAATAGAGGATGCATGTTCCTTAATAGTTTTGGTGGCTT
61004715 AGATTGTGGTAATAGAGGATGCATGTTCCTTAATAGTTTTGGTGGCTT
1 AGATTGTGGTAATAGAGGATGCATGTTCCTTAATAGTTTTGGTGGCTT
61004763 TCTTGACCGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.23, C:0.08, G:0.29, T:0.40
Consensus pattern (48 bp):
AGATTGTGGTAATAGAGGATGCATGTTCCTTAATAGTTTTGGTGGCTT
Found at i:61017569 original size:27 final size:27
Alignment explanation
Indices: 61017535--61017712 Score: 164
Period size: 27 Copynumber: 6.6 Consensus size: 27
61017525 TAAACTGTAC
61017535 AGCACTAAGTGTGCGATATGACTATGT
1 AGCACTAAGTGTGCGATATGACTATGT
* * * *
61017562 TGCACTAAGTGTGCGAAATGAATACG-
1 AGCACTAAGTGTGCGATATGACTATGT
* *
61017588 ATGCACTAAGTGTGCGAAATGA-TCATGC
1 A-GCACTAAGTGTGCGATATGACT-ATGT
* *
61017616 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TATGACTATGT
* * *
61017644 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATATGACTATGT
* * *
61017671 GGCACTAAGTGTGCGAGT-TGATTATAT
1 AGCACTAAGTGTGCGA-TATGACTATGT
*
61017698 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61017713 GGCTCAATAT
Statistics
Matches: 127, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.01
27 103 0.81
28 22 0.17
29 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATATGACTATGT
Found at i:61017650 original size:82 final size:81
Alignment explanation
Indices: 61017536--61017686 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
61017526 AAACTGTACA
*
61017536 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
61017600 TGCGAAATGATCATGCG
65 TGCGAAATGATCATGCG
* ** *
61017617 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
61017682 TGCGA
65 TGCGA
61017687 GTTGATTATA
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAAATGATCATGCG
Found at i:61017703 original size:82 final size:81
Alignment explanation
Indices: 61017532--61017712 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
61017522 GATTAAACTG
*
61017532 TACAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATACGATGCACTAA
1 TACAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
61017597 GTGTGCGAAATGATCA
66 GTGTGCGAAATGATCA
* * * ** *
61017613 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
** *
61017677 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAAATGATCA
* *
61017695 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
61017713 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAAATGATCA
Found at i:61019985 original size:30 final size:30
Alignment explanation
Indices: 61019950--61020009 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
61019940 CTTTAATATG
* *
61019950 AACTTTGGCAAAATTACATTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
61019980 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
61020010 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:61028637 original size:5 final size:5
Alignment explanation
Indices: 61028588--61028630 Score: 77
Period size: 5 Copynumber: 8.4 Consensus size: 5
61028578 AATATAAGAA
61028588 ATTATT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTA-T ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
61028631 ATTATATAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 33 0.89
6 4 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:61030573 original size:30 final size:30
Alignment explanation
Indices: 61030539--61030595 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
61030529 TCTTTAATAC
*
61030539 AAACTTTGGCAAAATTACATTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
* *
61030569 AAACTTTTGCATAATTACACTTTTGCC
1 AAACTTTGGCAAAATTACACTTTTGCC
61030596 ACTAGGCTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTGCCCCT
Found at i:61037474 original size:29 final size:29
Alignment explanation
Indices: 61037441--61037499 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
61037431 CATCTGAGAC
61037441 AAATTACATGGCGTATTGTTATGGGACTA
1 AAATTACATGGCGTATTGTTATGGGACTA
*
61037470 AAATTACATGGCGTATTGTTATTGGACTA
1 AAATTACATGGCGTATTGTTATGGGACTA
61037499 A
1 A
61037500 CTTGTTGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.36
Consensus pattern (29 bp):
AAATTACATGGCGTATTGTTATGGGACTA
Found at i:61042429 original size:20 final size:21
Alignment explanation
Indices: 61042390--61042429 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
61042380 CATCGATTCA
* *
61042390 ATACTTGTACAGTTCTTATAC
1 ATACCTGTACAGTACTTATAC
61042411 ATACCTGTACAG-ACTTATA
1 ATACCTGTACAGTACTTATA
61042430 TCGATCTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.38
Consensus pattern (21 bp):
ATACCTGTACAGTACTTATAC
Found at i:61045173 original size:14 final size:14
Alignment explanation
Indices: 61045154--61045186 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
61045144 ACATTTCTAA
61045154 TCATCCCTCATCAC
1 TCATCCCTCATCAC
*
61045168 TCATCCCTCATCAT
1 TCATCCCTCATCAC
61045182 TCATC
1 TCATC
61045187 ATTCTCTCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.45, G:0.00, T:0.33
Consensus pattern (14 bp):
TCATCCCTCATCAC
Found at i:61047962 original size:40 final size:40
Alignment explanation
Indices: 61047911--61048102 Score: 280
Period size: 40 Copynumber: 4.8 Consensus size: 40
61047901 GGATACAGCT
* * *
61047911 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGATGTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
61047951 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
* *
61047991 ACTCGTACAAATGCCTTCGGGGCTTAAG-CCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTT-AGCCCGGATATAGTA
*
61048031 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TAGTA
* *
61048071 ACTAGCGCAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
61048103 TTATCATCCG
Statistics
Matches: 139, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
39 3 0.02
40 134 0.96
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:61049910 original size:25 final size:25
Alignment explanation
Indices: 61049830--61049921 Score: 82
Period size: 25 Copynumber: 3.7 Consensus size: 25
61049820 CAATGCTAAC
61049830 CCGCACACATAGTGCC-TT-AGAAAT
1 CCGCACACATAGTGCCATTCA-AAAT
* * * *
61049854 CCACACACTCGTATTGACATTC-AAAT
1 CCGCACA--CATAGTGCCATTCAAAAT
*
61049880 CAGCACACATAGTGCCATTCAAAAT
1 CCGCACACATAGTGCCATTCAAAAT
*
61049905 CCGCACACTTAGTGCCA
1 CCGCACACATAGTGCCA
61049922 ATGTCATTTC
Statistics
Matches: 52, Mismatches: 11, Indels: 9
0.72 0.15 0.12
Matches are distributed among these distances:
24 16 0.31
25 19 0.37
26 15 0.29
27 2 0.04
ACGTcount: A:0.34, C:0.32, G:0.13, T:0.22
Consensus pattern (25 bp):
CCGCACACATAGTGCCATTCAAAAT
Found at i:61057154 original size:24 final size:24
Alignment explanation
Indices: 61057127--61057265 Score: 120
Period size: 24 Copynumber: 5.7 Consensus size: 24
61057117 CAATCGATTT
*
61057127 CGCACACATAGTGCTATTCAAATC
1 CGCACACATAGTGCCATTCAAATC
* * *
61057151 CGCACACTTAGTGCCATGCTAA-C
1 CGCACACATAGTGCCATTCAAATC
*
61057174 CTGCACACATAGTGCC-TTAGAAATC
1 C-GCACACATAGTGCCATT-CAAATC
* * * *
61057199 CACACACTCGTATTGACATTCAAATC
1 CGCACA--CATAGTGCCATTCAAATC
*
61057225 AGCACACATAGTGCCATTCAAAATC
1 CGCACACATAGTGCCATTC-AAATC
*
61057250 CGCACACTTAGTGCCA
1 CGCACACATAGTGCCA
61057266 ATTTCATTTC
Statistics
Matches: 88, Mismatches: 20, Indels: 13
0.73 0.17 0.11
Matches are distributed among these distances:
23 3 0.03
24 47 0.53
25 21 0.24
26 15 0.17
27 2 0.02
ACGTcount: A:0.32, C:0.31, G:0.14, T:0.23
Consensus pattern (24 bp):
CGCACACATAGTGCCATTCAAATC
Found at i:61064236 original size:90 final size:88
Alignment explanation
Indices: 61064076--61064239 Score: 206
Period size: 90 Copynumber: 1.8 Consensus size: 88
61064066 TTCAAATTAA
* *
61064076 AAAAAAAAACCAATTAAGCCTATGCTTTTTTCACTCAATTTGGAACTTGAACTTTCAAAATATAT
1 AAAAAAAAACCAATTAAGCCTATGCTTTTTTCACTCAATTAGGAACTTGAACTTTCAAAATACAT
61064141 AAAAAAGACACTTAATCTTTTTT
66 AAAAAAGACACTTAATCTTTTTT
* * * *
61064164 AAAAAAAAATCAATTAAGCCCTTACT-TTTTTTTCATTCAATTAGGTACTTGAA-TTGTCAAAAT
1 AAAAAAAAACCAATTAAG-CC-TA-TGCTTTTTTCACTCAATTAGGAACTTGAACTT-TCAAAAT
* *
61064227 GCATTAAAAAGAC
62 ACATAAAAAAGAC
61064240 TATTTGATCG
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
88 17 0.27
89 4 0.06
90 42 0.66
91 1 0.02
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (88 bp):
AAAAAAAAACCAATTAAGCCTATGCTTTTTTCACTCAATTAGGAACTTGAACTTTCAAAATACAT
AAAAAAGACACTTAATCTTTTTT
Found at i:61064423 original size:30 final size:29
Alignment explanation
Indices: 61064357--61064423 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 29
61064347 AATTATAAAA
** *
61064357 AATAAAAAATTTAAAAATTATTAAATTTT
1 AATAAAAAATTTAAAAATTAAAAAATTGT
61064386 AATAAAAAATATTAAAAATTAAAATAATTGT
1 AATAAAAAAT-TTAAAAATTAAAA-AATTGT
61064417 AA-AAAAA
1 AATAAAAA
61064424 TAAAAAAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 10 0.30
30 16 0.48
31 7 0.21
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (29 bp):
AATAAAAAATTTAAAAATTAAAAAATTGT
Found at i:61064431 original size:29 final size:30
Alignment explanation
Indices: 61064389--61064470 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 30
61064379 AAATTTTAAT
** *
61064389 AAAAAATATTAAAAA-T-TAAAATAATTGTA
1 AAAAAATAAAAAAAACTATAAAAT-ATTATA
*
61064418 AAAAAATAAAAAAAACTATAAAATTTTATA
1 AAAAAATAAAAAAAACTATAAAATATTATA
*
61064448 AAAATCATAAAAAAAACTATAAA
1 AAAA-AATAAAAAAAACTATAAA
61064471 CTTCTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
29 13 0.29
30 9 0.20
31 23 0.51
ACGTcount: A:0.70, C:0.04, G:0.01, T:0.26
Consensus pattern (30 bp):
AAAAAATAAAAAAAACTATAAAATATTATA
Found at i:61064663 original size:9 final size:9
Alignment explanation
Indices: 61064649--61064845 Score: 65
Period size: 9 Copynumber: 20.3 Consensus size: 9
61064639 CTCTTGGAAC
61064649 TATAATTTT
1 TATAATTTT
61064658 TATAATTTAT
1 TATAATTT-T
* *
61064668 TATACGAATCT
1 TATA--ATTTT
*
61064679 TATATTTCTT
1 TATAATT-TT
*
61064689 TACAATTTT
1 TATAATTTT
61064698 TATAATTTTCT
1 TATAA-TTT-T
* *
61064709 TATGA-CTT
1 TATAATTTT
*
61064717 TATAAAATTT
1 TAT-AATTTT
*
61064727 GATAATTTTT
1 TATAA-TTTT
* *
61064737 TCTATATTTC
1 TATA-ATTTT
61064747 TAT-ATATTT
1 TATAAT-TTT
61064756 TATAATTTT
1 TATAATTTT
*
61064765 TATGATTTT
1 TATAATTTT
*
61064774 TATAAAATTT
1 TAT-AATTTT
**
61064784 TCCAATTTT
1 TATAATTTT
*
61064793 TAAGTATTTTTT
1 T-A-TA-ATTTT
*
61064805 TATATTTTT
1 TATAATTTT
*
61064814 TATTAAAATTT
1 TA-T-AATTTT
*
61064825 AATAATTTT
1 TATAATTTT
*
61064834 TATAACTTT
1 TATAATTTT
61064843 TAT
1 TAT
61064846 TGGTTTTTAT
Statistics
Matches: 136, Mismatches: 34, Indels: 36
0.66 0.17 0.17
Matches are distributed among these distances:
8 6 0.04
9 66 0.49
10 39 0.29
11 18 0.13
12 7 0.05
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (9 bp):
TATAATTTT
Found at i:61064811 original size:28 final size:28
Alignment explanation
Indices: 61064749--61064812 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
61064739 TATATTTCTA
* *
61064749 TATATTTTATAATTTTTATGATTTTTAT
1 TATATTTTACAATTTTTAAGATTTTTAT
* * *
61064777 AAAATTTTCCAATTTTTAAGTATTTTT-T
1 TATATTTTACAATTTTTAAG-ATTTTTAT
61064805 TATATTTT
1 TATATTTT
61064813 TTATTAAAAT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
28 22 0.79
29 6 0.21
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (28 bp):
TATATTTTACAATTTTTAAGATTTTTAT
Found at i:61067717 original size:140 final size:137
Alignment explanation
Indices: 61067311--61067825 Score: 666
Period size: 140 Copynumber: 3.7 Consensus size: 137
61067301 TAGAAAAATG
*
61067311 AATTATATTCTTTCCAAAAAAGATTAATTTCCATGTCTTTTATATTTTG-ACTGAAATTAATTAA
1 AATTATATTCTTTCCAAAAAATATTAATTTCCATGTCTTTTATATTTTGAAC-GAAATTAATTAA
* *
61067375 TATAATTGTTTATTATATTAATTAATTTGGTAAAATATAAACAATTAATATTTTGTATGAATCAA
65 TATAA-T-TTT-TTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAA
61067440 A-TCTATATACATT
127 ATTC-ATAT--ATT
* * * * *
61067453 AATTATATTCTTTCTAAACGAATATTAATTTCTATATCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAA-AAATATTAATTTCCATGTCTTTTATATTTTGAACGAAATTAATTAA
* * * *
61067518 TATAATTGTTTATATTAATAAATTAGATGAAATATATACAATTAATATTTTGTATGAATCAAATT
65 TATAATTTTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
61067583 CATATATT
130 CATATATT
* * *
61067591 AATTATATTTCTTT-CAAAAGAATATCAATTTCCTTGTCTTTTATATTTTGAAC-AAACTTAAAT
1 AATTATA-TTCTTTCCAAAA-AATATTAATTTCCATGTCTTTTATATTTTGAACGAAA-TTAATT
* * *
61067654 AATATAACTATTTATATTAATAAATTCT-GTAAAATTTATATACAATTAATATTTTATATGAATC
63 AATATAATTTTTTATATTAATAAATT-TGGTAAAA--TATATACAATTAATATTTTGTATGAATC
*
61067718 AAATTCATGTATT
125 AAATTCATATATT
* *
61067731 AATTATATTCTTTCC-AAAAA-ATTAGTTTCCATGTCTTTTATATTTTGACCGAAATTAATTAAT
1 AATTATATTCTTTCCAAAAAATATTAATTTCCATGTCTTTTATATTTTGAACGAAATTAATTAAT
61067794 ATAATTTTTTATATTAATAAATTTGGTAAAAT
66 ATAATTTTTTATATTAATAAATTTGGTAAAAT
61067826 GTATGAATCA
Statistics
Matches: 327, Mismatches: 34, Indels: 31
0.83 0.09 0.08
Matches are distributed among these distances:
135 1 0.00
136 1 0.00
137 64 0.20
138 79 0.24
139 15 0.05
140 100 0.31
141 4 0.01
142 18 0.06
143 44 0.13
144 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (137 bp):
AATTATATTCTTTCCAAAAAATATTAATTTCCATGTCTTTTATATTTTGAACGAAATTAATTAAT
ATAATTTTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
ATATATT
Found at i:61067807 original size:275 final size:276
Alignment explanation
Indices: 61067311--61067997 Score: 765
Period size: 257 Copynumber: 2.6 Consensus size: 276
61067301 TAGAAAAATG
* *
61067311 AATTATATTCTTTCCAAAAAAGATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAAT
1 AATTATATTCTTTCCAAAAAAGATCAATTTCCATGTCTTTTATATTTTGAC-GAAATTAAATAAT
* * * *
61067376 ATAATTGTTTATTATATTAATTAATTTGGTAAAATATAAACAATTAATATTTTGTATGAATCAAA
65 ATAA-TCTATATTATATTAATAAATTTGGTAAAATATAAACAATTAATATTTTATATGAATCAAA
* *
61067441 TCTATATACATTAATTATATTCTTTCTAAACGAATATTAATTTCTATATCTTTTATATTTTGACC
129 TCTATATA-ATTAATTATATTCTTTCCAAAC-AATATTAATTTCCATATCTTTTATATTTTGACC
61067506 GAAATTAATTAATATAATTGTTTATATTAATAAATTAGATGAAATATATACAATTAATATTTTGT
192 GAAATTAATTAATATAATTGTTTATATTAATAAATTAGATGAAATATATACAATTAATATTTTGT
61067571 ATGAATCAAATTCATATATT
257 ATGAATCAAATTCATATATT
* *
61067591 AATTATATTTCTTT-CAAAAGAATATCAATTTCCTTGTCTTTTATATTTTGAAC-AAACTTAAAT
1 AATTATA-TTCTTTCCAAAA-AAGATCAATTTCCATGTCTTTTATATTTTG-ACGAAA-TTAAAT
*
61067654 AATATAA-CTAT-TTATATTAATAAATTCT-GTAAAATTTATATACAATTAATATTTTATATGAA
62 AATATAATCTATATTATATTAATAAATT-TGGTAAAA--TATAAACAATTAATATTTTATATGAA
* * *
61067716 TCAAAT-TCATGT-ATTAATTATATTCTTTCCAAA-AA-ATTAGTTTCCATGTCTTTTATATTTT
124 TCAAATCT-ATATAATTAATTATATTCTTTCCAAACAATATTAATTTCCATATCTTTTATATTTT
* *
61067777 GACCGAAATTAATTAATATAATTTTTTATATTAATAAATT---TG------GT---A--AA-A--
188 GACCGAAATTAATTAATATAATTGTTTATATTAATAAATTAGATGAAATATATACAATTAATATT
*
61067825 -TGTATGAATCAAACTCATATATT
253 TTGTATGAATCAAATTCATATATT
* * * *
61067848 AATTATATTATTTCCAAAAGAATAAT-AATTTCCATGTCTTTTATACTTTGACTGAAATTAATTA
1 AATTATATTCTTTCCAAAA-AA-GATCAATTTCCATGTCTTTTATATTTTGAC-GAAATTAAATA
* * * *
61067912 ATAT-ATCTAT-TTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAA
63 ATATAATCTATATTATATTAATAAATTTGGTAAAATATAAACAATTAATATTTTATATGAATCAA
*
61067975 AT-TCATAT-ATTAATTTTA-TCTTT
128 ATCT-ATATAATTAATTATATTCTTT
61067998 GTTCTCTATT
Statistics
Matches: 366, Mismatches: 27, Indels: 54
0.82 0.06 0.12
Matches are distributed among these distances:
254 5 0.01
255 45 0.12
256 8 0.02
257 93 0.25
258 5 0.01
260 1 0.00
261 2 0.01
263 1 0.00
266 1 0.00
272 2 0.01
275 62 0.17
276 2 0.01
278 40 0.11
279 4 0.01
280 48 0.13
281 45 0.12
282 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (276 bp):
AATTATATTCTTTCCAAAAAAGATCAATTTCCATGTCTTTTATATTTTGACGAAATTAAATAATA
TAATCTATATTATATTAATAAATTTGGTAAAATATAAACAATTAATATTTTATATGAATCAAATC
TATATAATTAATTATATTCTTTCCAAACAATATTAATTTCCATATCTTTTATATTTTGACCGAAA
TTAATTAATATAATTGTTTATATTAATAAATTAGATGAAATATATACAATTAATATTTTGTATGA
ATCAAATTCATATATT
Found at i:61067862 original size:117 final size:119
Alignment explanation
Indices: 61067710--61067945 Score: 352
Period size: 120 Copynumber: 2.0 Consensus size: 119
61067700 TAATATTTTA
* * * *
61067710 TATGAATCAAATTCATGTATTAATTATATTCTTTCCAAAA-AAT-TAGTTTCCATGTCTTTTATA
1 TATGAATCAAACTCATATATTAATTATATTATTTCCAAAAGAATATAATTTCCATGTCTTTTATA
* * * *
61067773 TTTTGACCGAAATTAATTAATATAAT-TTTTTATATTAATAAATTTGGTAAAATG
66 CTTTGACCGAAATTAATTAATAT-ATCTATTTATATTAATAAATTCGATAAAATG
61067827 TATGAATCAAACTCATATATTAATTATATTATTTCCAAAAGAATAATAATTTCCATGTCTTTTAT
1 TATGAATCAAACTCATATATTAATTATATTATTTCCAAAAGAAT-ATAATTTCCATGTCTTTTAT
*
61067892 ACTTTGACTGAAATTAATTAATATATCTATTTATATTAATAAATTCGATAAAAT
65 ACTTTGACCGAAATTAATTAATATATCTATTTATATTAATAAATTCGATAAAAT
61067946 ATATACAATT
Statistics
Matches: 106, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
117 37 0.35
118 3 0.03
119 2 0.02
120 64 0.60
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.44
Consensus pattern (119 bp):
TATGAATCAAACTCATATATTAATTATATTATTTCCAAAAGAATATAATTTCCATGTCTTTTATA
CTTTGACCGAAATTAATTAATATATCTATTTATATTAATAAATTCGATAAAATG
Found at i:61072495 original size:27 final size:27
Alignment explanation
Indices: 61072445--61072496 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
61072435 CCTATTAAAA
* * *
61072445 TTTTGATGATTTTACCAGTTGTAAATT
1 TTTTGATAATTTTACCACTGGTAAATT
*
61072472 TTTTGATAATTTTACCTCTGGTAAA
1 TTTTGATAATTTTACCACTGGTAAA
61072497 ATTTCAAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.50
Consensus pattern (27 bp):
TTTTGATAATTTTACCACTGGTAAATT
Found at i:61074033 original size:203 final size:201
Alignment explanation
Indices: 61073673--61074044 Score: 514
Period size: 203 Copynumber: 1.8 Consensus size: 201
61073663 CCGCTTAATA
* *
61073673 TTAGTTAAACATTAGATAACTAATGAGTAACATTTGCTTCCATTTTACTTTGTATGAAAAAACCA
1 TTAGTTAAACATTAGATAAATAATGAGTAACATTTGCTTCCATTTTACTTTGCATGAAAAAACCA
61073738 TGTGAGGACAATATACAAAGTATTAATGTAATTAACGAACAATTTTATTAACCAATTTATTCAAA
66 TGTGAGGACAATATACAAAGTATTAATGTAATTAACGAACAATTTTATTAACCAATTTATTCAAA
* * * * *
61073803 AAATTACAAGTGTACTTAGACGAAAATACTACACTTAAGGCACTAGATCCAACAGTAATATCACT
131 AAATTAAAAATATACATAAACGAAAATACTACACTTAAGGCACTAGATCCAACAGTAATATCACT
61073868 TAGTCT
196 TAGTCT
* * * * *
61073874 TTAGTTAAACATTAGATAAATAGTGAGCTAATATTTTCTTCCATTTTGCTTTGCATGGAAAAACC
1 TTAGTTAAACATTAGATAAATAATGAG-TAACATTTGCTTCCATTTTACTTTGCATGAAAAAACC
* * * * * *
61073939 AT-TGAGGAGAATATACAAATGGTATTAATGTAATTTATGGATAATTTTATTAAACCAATTTGTT
65 ATGTGAGGACAATATACAAA--GTATTAATGTAATTAACGAACAATTTTATT-AACCAATTTATT
* *
61074003 CAAACAA-TAAAAATATACATAAATGAAAATACTACACTTAAG
127 CAAAAAATTAAAAATATACATAAACGAAAATACTACACTTAAG
61074045 AAAATAGGTC
Statistics
Matches: 147, Mismatches: 20, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
201 41 0.28
202 34 0.23
203 55 0.37
204 17 0.12
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.34
Consensus pattern (201 bp):
TTAGTTAAACATTAGATAAATAATGAGTAACATTTGCTTCCATTTTACTTTGCATGAAAAAACCA
TGTGAGGACAATATACAAAGTATTAATGTAATTAACGAACAATTTTATTAACCAATTTATTCAAA
AAATTAAAAATATACATAAACGAAAATACTACACTTAAGGCACTAGATCCAACAGTAATATCACT
TAGTCT
Found at i:61074134 original size:45 final size:45
Alignment explanation
Indices: 61074070--61074161 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
61074060 TAACTAATAC
*
61074070 TAAGTGTTATTACGTGGTTGGATCATAATACTGAAGGACAACTTG
1 TAAGTGTTATTACGTGGTTGGATCATAATACGGAAGGACAACTTG
61074115 TAAGTGTTATTACGTGGTTGGATCATAATACGGAAGGACAACTTG
1 TAAGTGTTATTACGTGGTTGGATCATAATACGGAAGGACAACTTG
61074160 TA
1 TA
61074162 CTTGTAACAG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.33
Consensus pattern (45 bp):
TAAGTGTTATTACGTGGTTGGATCATAATACGGAAGGACAACTTG
Found at i:61079401 original size:24 final size:24
Alignment explanation
Indices: 61079372--61079433 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 24
61079362 TAAAACATAA
61079372 AACATAAAACATCATTTGCAGTCC
1 AACATAAAACATCATTTGCAGTCC
*
61079396 AACAT---A-ATCA--TGTAGTCC
1 AACATAAAACATCATTTGCAGTCC
61079414 AACATAAAACATCATTTGCA
1 AACATAAAACATCATTTGCA
61079434 TAAATATCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
18 12 0.40
20 4 0.13
21 2 0.07
22 4 0.13
24 8 0.27
ACGTcount: A:0.44, C:0.23, G:0.08, T:0.26
Consensus pattern (24 bp):
AACATAAAACATCATTTGCAGTCC
Found at i:61082942 original size:13 final size:13
Alignment explanation
Indices: 61082911--61082943 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
61082901 AATTCAATGT
*
61082911 AATTCTGATTCTG
1 AATTTTGATTCTG
61082924 -ATTTTGATTCTG
1 AATTTTGATTCTG
61082936 AATTTTGA
1 AATTTTGA
61082944 ATAGATGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.52
Consensus pattern (13 bp):
AATTTTGATTCTG
Found at i:61085624 original size:42 final size:43
Alignment explanation
Indices: 61085515--61085637 Score: 124
Period size: 44 Copynumber: 2.9 Consensus size: 43
61085505 TATTGATTTG
* * * *
61085515 AGATTTATGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTT
1 AGATTTACGTGTAAGACCATGTCTGGGACACAGGCATCGATCT
* **
61085558 GAGATTTACCTGTAAGACCATGTCTGGGACATTGGCATCGTATCT
1 -AGATTTACGTGTAAGACCATGTCTGGGACACAGGCATCG-ATCT
* * *
61085603 -GATTT-CGTGTAAGACCCTGTCTGGGATAAAGGCAT
1 AGATTTACGTGTAAGACCATGTCTGGGACACAGGCAT
61085638 TAATACTGAA
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
42 25 0.38
43 5 0.08
44 33 0.50
45 3 0.05
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (43 bp):
AGATTTACGTGTAAGACCATGTCTGGGACACAGGCATCGATCT
Found at i:61090425 original size:40 final size:40
Alignment explanation
Indices: 61090344--61090561 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
61090334 AAACCAAGTA
* * * * *
61090344 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAATTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
61090383 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
61090423 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
61090463 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
61090503 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAACG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
61090543 CCTTCGGGACTTGGCCCGG
1 CCTTCGGGACTTAGCCCGG
61090562 TTATCATCCG
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 14 0.09
40 149 0.91
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:61094030 original size:194 final size:194
Alignment explanation
Indices: 61093693--61094083 Score: 638
Period size: 194 Copynumber: 2.0 Consensus size: 194
61093683 ACTATCACAA
* **
61093693 TGCGTAATCTCTTTAACATATAATGATAATACAACATTTACCACCTTTGTAAATATATACTATTA
1 TGCGTAATCTCTTTAACATATAATGATAATACAACATTTACCACCATTACAAATATATACTATTA
* *
61093758 CGAACCGTTTACCGTCTCACACGTTGTATTTAGACCCTTATGTATTTCCATCTGACGCATACTGA
66 CGAACCGTTTACCGTCTCACACATTGTATTTAGACCATTATGTATTTCCATCTGACGCATACTGA
* * * *
61093823 AAAGACGATTGAAATCCTAGTACCTGATTCATATTGTTCCATAGTCCAACTTTGGTCTTACATG
131 AAAGACAATTGAAATCCTAGAACATGATTCATATTGTTCCATAGTCCAACTATGGTCTTACATG
** *
61093887 TGCGTAATCTCTTTAACATATAATGATAATACAATGTTTATCACCATTACAAATATATACTATTA
1 TGCGTAATCTCTTTAACATATAATGATAATACAACATTTACCACCATTACAAATATATACTATTA
* * *
61093952 CGAACCGTTTACTGTCTCACACATTGTGTTTAGACCATTATGTATTTCCATCTGACGCATACTGG
66 CGAACCGTTTACCGTCTCACACATTGTATTTAGACCATTATGTATTTCCATCTGACGCATACTGA
*
61094017 AAAGACAATTGAAATCCTGGAACATGATTCATATTGTTCCATAGTCCAACTATGGTCTTACATG
131 AAAGACAATTGAAATCCTAGAACATGATTCATATTGTTCCATAGTCCAACTATGGTCTTACATG
61094081 TGC
1 TGC
61094084 ATAGCCATGG
Statistics
Matches: 181, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
194 181 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (194 bp):
TGCGTAATCTCTTTAACATATAATGATAATACAACATTTACCACCATTACAAATATATACTATTA
CGAACCGTTTACCGTCTCACACATTGTATTTAGACCATTATGTATTTCCATCTGACGCATACTGA
AAAGACAATTGAAATCCTAGAACATGATTCATATTGTTCCATAGTCCAACTATGGTCTTACATG
Found at i:61094156 original size:33 final size:33
Alignment explanation
Indices: 61094119--61094208 Score: 110
Period size: 33 Copynumber: 2.7 Consensus size: 33
61094109 ACGTTCATAG
* * *
61094119 TGCCATAACTCGGTTATGGTCTTATCATCAGAA
1 TGCCATAACCCAGCTATGGTCTTATCATCAGAA
* *
61094152 TGCCATAGCCCAGCTATGGTCTTATCATCAGTA
1 TGCCATAACCCAGCTATGGTCTTATCATCAGAA
*
61094185 TGCCATAGA-CCAACTATGGTCTTA
1 TGCCATA-ACCCAGCTATGGTCTTA
61094209 CATATATACA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (33 bp):
TGCCATAACCCAGCTATGGTCTTATCATCAGAA
Found at i:61099766 original size:27 final size:27
Alignment explanation
Indices: 61099736--61099798 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
61099726 ATACGCTTAG
*
61099736 TTTGTAAAAATATTAAAATACCCTCGA
1 TTTGTAAAAATACTAAAATACCCTCGA
* * * *
61099763 TTTGTAAAATTACTGAAGTACCTTCGA
1 TTTGTAAAAATACTAAAATACCCTCGA
*
61099790 CTTGTAAAA
1 TTTGTAAAA
61099799 TTACCAAAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (27 bp):
TTTGTAAAAATACTAAAATACCCTCGA
Found at i:61099799 original size:27 final size:27
Alignment explanation
Indices: 61099754--61099812 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
61099744 AATATTAAAA
* * **
61099754 TACCCTCGATTTGTAAAATTACTGAAG
1 TACCTTCGACTTGTAAAATTACCAAAG
61099781 TACCTTCGACTTGTAAAATTACCAAAG
1 TACCTTCGACTTGTAAAATTACCAAAG
61099808 TACCT
1 TACCT
61099813 CCAATTTACA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.32
Consensus pattern (27 bp):
TACCTTCGACTTGTAAAATTACCAAAG
Found at i:61099827 original size:27 final size:27
Alignment explanation
Indices: 61099797--61099858 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
61099787 CGACTTGTAA
*
61099797 AATTACCAAAGTACCTCCAATTTACAG
1 AATTACCAAAGTACCCCCAATTTACAG
*** * *
61099824 AATTACCATTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCAATTTACAG
61099851 AATTACCA
1 AATTACCA
61099859 TTTTACCCCC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.37, C:0.27, G:0.05, T:0.31
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCAATTTACAG
Found at i:61099859 original size:27 final size:27
Alignment explanation
Indices: 61099816--61100002 Score: 117
Period size: 27 Copynumber: 6.5 Consensus size: 27
61099806 AGTACCTCCA
61099816 ATTTACAGAATTACCATTTTACCCCCG
1 ATTTACAGAATTACCATTTTACCCCCG
*
61099843 ATTTACATAATTACCATTTTACCCCC-
1 ATTTACAGAATTACCATTTTACCCCCG
*
61099869 ATTTTACCCTCGACTTACAGAATTACCATTTT-CCCCTCG
1 A-TTTA----C-A--GA----ATTACCATTTTACCCC-CG
* * **
61099908 ATTTACAGAAGTACCGTTTTACCCTTG
1 ATTTACAGAATTACCATTTTACCCCCG
* * **
61099935 ATTTATAGAATTACTATTTTACCCTTG
1 ATTTACAGAATTACCATTTTACCCCCG
** *
61099962 ATTTACAGAATTACTGTTTTACCCTCG
1 ATTTACAGAATTACCATTTTACCCCCG
*
61099989 ATTTACAAAATTAC
1 ATTTACAGAATTAC
61100003 TAGAATACCC
Statistics
Matches: 131, Mismatches: 14, Indels: 30
0.75 0.08 0.17
Matches are distributed among these distances:
26 1 0.01
27 99 0.76
28 3 0.02
31 2 0.02
32 1 0.01
33 1 0.01
34 3 0.02
37 4 0.03
38 16 0.12
39 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (27 bp):
ATTTACAGAATTACCATTTTACCCCCG
Found at i:61099913 original size:38 final size:38
Alignment explanation
Indices: 61099829--61099904 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
61099819 TACAGAATTA
* *
61099829 CCATTTTACCCCCGATTTACATAATTACCATTTTACCC
1 CCATTTTACCCCCGACTTACAGAATTACCATTTTACCC
*
61099867 CCATTTTACCCTCGACTTACAGAATTACCATTTT-CCC
1 CCATTTTACCCCCGACTTACAGAATTACCATTTTACCC
61099904 C
1 C
61099905 TCGATTTACA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
37 4 0.11
38 31 0.89
ACGTcount: A:0.25, C:0.36, G:0.04, T:0.36
Consensus pattern (38 bp):
CCATTTTACCCCCGACTTACAGAATTACCATTTTACCC
Found at i:61100003 original size:27 final size:27
Alignment explanation
Indices: 61099869--61100004 Score: 173
Period size: 27 Copynumber: 5.0 Consensus size: 27
61099859 TTTTACCCCC
* *
61099869 ATTTTACCCTCGACTTACAGAATTACC
1 ATTTTACCCTCGATTTACAGAATTACT
* * *
61099896 ATTTTCCCCTCGATTTACAGAAGTACC
1 ATTTTACCCTCGATTTACAGAATTACT
* * *
61099923 GTTTTACCCTTGATTTATAGAATTACT
1 ATTTTACCCTCGATTTACAGAATTACT
*
61099950 ATTTTACCCTTGATTTACAGAATTACT
1 ATTTTACCCTCGATTTACAGAATTACT
* *
61099977 GTTTTACCCTCGATTTACAAAATTACT
1 ATTTTACCCTCGATTTACAGAATTACT
61100004 A
1 A
61100005 GAATACCCTA
Statistics
Matches: 94, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 94 1.00
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
ATTTTACCCTCGATTTACAGAATTACT
Found at i:61100011 original size:27 final size:27
Alignment explanation
Indices: 61099981--61100266 Score: 138
Period size: 27 Copynumber: 10.6 Consensus size: 27
61099971 ATTACTGTTT
**
61099981 TACCCTCGATTTACAAAATTACTAGAA
1 TACCCTCGATTTGTAAAATTACTAGAA
* * * *
61100008 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTCGATTTGTAAAATTACTAGAA
* *
61100034 TACCCTTGGTTTGTAAAATTAC-AGAAA
1 TACCCTCGATTTGTAAAATTACTAG-AA
* * *
61100061 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACTAGAA
* * *
61100088 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTGTAAAATTACTAGAA
* * *
61100115 TACCACT-GGTTTGTGAAATTAC-CGAAA
1 TACC-CTCGATTTGTAAAATTACTAG-AA
* * *
61100142 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACTAGAA
** *
61100169 TACCC-CTGATTTACAAAGTTAC-AGAAA
1 TACCCTC-GATTTGTAAAATTACTAG-AA
* *
61100196 TACCCTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTGT-AAAATTACTAG-AA
* * * ** *
61100225 TACCATTGGTTTACAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACTAGAA
* *
61100252 TACCCTTGGTTTGTA
1 TACCCTCGATTTGTA
61100267 GATTTACCAA
Statistics
Matches: 201, Mismatches: 42, Indels: 32
0.73 0.15 0.12
Matches are distributed among these distances:
26 27 0.13
27 146 0.73
28 10 0.05
29 18 0.09
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACTAGAA
Found at i:61100092 original size:54 final size:53
Alignment explanation
Indices: 61099995--61100266 Score: 210
Period size: 54 Copynumber: 5.0 Consensus size: 53
61099985 CTCGATTTAC
* * * *
61099995 AAAATTACTAG-AATACCCTAGTCTGTAAAATTGCTAAAATACCCTTGGTTTGT
1 AAAATTAC-AGAAATACCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGT
** * *
61100048 AAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACAGAAATACCCT-GGTTTGTAAAATTACCAAAATACCCTTGGTTTGT
* * ***
61100102 AAAATTACCA-AAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGT
1 AAAATTA-CAGAAATACC-CTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGT
* ** * * *
61100156 AAAATTACCA-AAATACCCCTGATTTACAAAGTTA-CAGAAATACCCTTGACTTTCT
1 AAAATTA-CAGAAATA-CCCTGGTTTGTAAAATTACCA-AAATACCCTTG-GTTTGT
* * ** *
61100211 AAAAATTATAGAAATACCATTGGTTTACAAAATTACTAAAATACCCTTGGTTTGT
1 -AAAATTACAGAAATACC-CTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGT
61100266 A
1 A
61100267 GATTTACCAA
Statistics
Matches: 178, Mismatches: 30, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
52 2 0.01
53 17 0.10
54 105 0.59
55 17 0.10
56 36 0.20
57 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (53 bp):
AAAATTACAGAAATACCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGT
Found at i:61100125 original size:81 final size:81
Alignment explanation
Indices: 61099981--61100175 Score: 277
Period size: 81 Copynumber: 2.4 Consensus size: 81
61099971 ATTACTGTTT
* ** * * * *
61099981 TACCCTCGATTTACAAAATTACTAGAATA-CCCTAGTCTGTAAAATTGCTAAAATACCCTTGGTT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCCTTGGTT
61100045 TGTAAAATTACAGAAA
66 TGTAAAATTACAGAAA
*
61100061 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCAC-TGGT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACC-CTTGGT
* *
61100125 TTGTGAAATTACCGAAA
65 TTGTAAAATTACAGAAA
61100142 TACCCTCAATTTGTAAAATTACCAAAATACCCCT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCT
61100176 GATTTACAAA
Statistics
Matches: 103, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
80 24 0.23
81 78 0.76
82 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (81 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCCTTGGTT
TGTAAAATTACAGAAA
Found at i:61100197 original size:81 final size:81
Alignment explanation
Indices: 61099981--61100228 Score: 274
Period size: 81 Copynumber: 3.0 Consensus size: 81
61099971 ATTACTGTTT
* ** * * * *
61099981 TACCCTCGATTTACAAAATTACTAGAATA-CCCTAG-TCTGTAAAATTGCTAAAATACCCTTGGT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGAT-TGTAAAATTACCAAAATACCCTTGGT
61100044 TTGTAAAATTACAGAAA
65 TTGTAAAATTACAGAAA
*
61100061 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCAC-TGGT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTACCAAAATACC-CTTGGT
* *
61100125 TTGTGAAATTACCGAAA
65 TTGTAAAATTACAGAAA
61100142 TACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATT-TACAAAGTTA-CAGAAATACCCTTG
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTA-AAA-TTACCA-AAATACCCTTG
* * *
61100204 ACTTTCTAAAAATTATAGAAA
63 -GTTTGT-AAAATTACAGAAA
61100225 TACC
1 TACC
61100229 ATTGGTTTAC
Statistics
Matches: 144, Mismatches: 15, Indels: 15
0.83 0.09 0.09
Matches are distributed among these distances:
79 2 0.01
80 33 0.23
81 89 0.62
82 6 0.04
83 14 0.10
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (81 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTACCAAAATACCCTTGGTT
TGTAAAATTACAGAAA
Found at i:61100381 original size:27 final size:27
Alignment explanation
Indices: 61100304--61100381 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
61100294 AAATGACTAA
* *
61100304 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
61100331 AA-AGCCCCTGTAAGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
61100358 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
61100382 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:61101569 original size:25 final size:25
Alignment explanation
Indices: 61101540--61101587 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
61101530 TTATAATATG
* * *
61101540 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
61101565 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
61101588 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:61101649 original size:20 final size:20
Alignment explanation
Indices: 61101624--61101694 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
61101614 ATTTTGATAA
*
61101624 ACATGATATCTATGATATGC
1 ACATGATATGTATGATATGC
*
61101644 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
61101664 ACATGATATGTATGATAAGC
1 ACATGATATGTATGATATGC
*
61101684 ACATGAGATGT
1 ACATGATATGT
61101695 TCATAAATGC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:61101820 original size:25 final size:25
Alignment explanation
Indices: 61101741--61101930 Score: 293
Period size: 25 Copynumber: 7.8 Consensus size: 25
61101731 AGGAAGTGCA
*
61101741 AAAGGGCTTATGCCCTAGTTAT--T
1 AAAGGGCTTATGCCCCAGTTATGAT
*
61101764 AAAGGGCTTATGCCCCAATTAT--T
1 AAAGGGCTTATGCCCCAGTTATGAT
61101787 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
61101812 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
61101837 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
61101862 GAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
61101887 AAAGGGCTTATGCCCCAGTTAT-AA
1 AAAGGGCTTATGCCCCAGTTATGAT
*
61101911 AAAGGGCTT-TTCCCCAGTTA
1 AAAGGGCTTATGCCCCAGTTA
61101931 CTAAAGGAGG
Statistics
Matches: 158, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
23 52 0.33
24 10 0.06
25 96 0.61
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:61108732 original size:21 final size:21
Alignment explanation
Indices: 61108703--61108750 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
61108693 ATACCAAGGT
61108703 TAAATAAGTAAATTAA-TAAA
1 TAAATAAGTAAATTAAGTAAA
61108723 TAAACTAAGTAAATTAAGTAAA
1 TAAA-TAAGTAAATTAAGTAAA
61108745 -AAATAA
1 TAAATAA
61108751 TGTATCATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.27
21 15 0.58
22 4 0.15
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (21 bp):
TAAATAAGTAAATTAAGTAAA
Found at i:61111284 original size:40 final size:40
Alignment explanation
Indices: 61111217--61111388 Score: 190
Period size: 40 Copynumber: 4.3 Consensus size: 40
61111207 ACCCAAGAAT
*
61111217 CTTCGGGAT-TTAG-CCGGATATAACAACTCACACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCACACAAATGC
*
61111256 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCACACAAATGC
* * *
61111296 TTTCGGGTCTTAGCCCGGATATAATC-ACT-AGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCA-CACAAATGC
* * * * *
61111336 CTTCGAGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCACACAAATGC
*
61111376 CTTCGGATCTTAG
1 CTTCGGGTCTTAG
61111389 TCCGATTATC
Statistics
Matches: 109, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
38 1 0.01
39 13 0.12
40 93 0.85
41 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCACACAAATGC
Found at i:61111350 original size:80 final size:79
Alignment explanation
Indices: 61111217--61111388 Score: 224
Period size: 80 Copynumber: 2.2 Consensus size: 79
61111207 ACCCAAGAAT
* * *
61111217 CTTCGGGAT-TTAGCCGGATATAACAACTCACACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
1 CTTCGGG-TCTTAGCCGGATATAACAACTCACACAAATGCCTTCGAGACATAGCCCGGATATAGC
61111281 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* *
61111296 TTTCGGGTCTTAGCCCGGATATAATC-ACT-AGCATAAATGCCTTCGAGACATAGCCCGGATATA
1 CTTCGGGTCTTAG-CCGGATATAA-CAACTCA-CACAAATGCCTTCGAGACATAGCCCGGATATA
*
61111359 GCAACTCGCACGAATGC
63 GCAACTCGCACAAATGC
*
61111376 CTTCGGATCTTAG
1 CTTCGGGTCTTAG
61111389 TCCGATTATC
Statistics
Matches: 81, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 11 0.14
80 68 0.84
81 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (79 bp):
CTTCGGGTCTTAGCCGGATATAACAACTCACACAAATGCCTTCGAGACATAGCCCGGATATAGCA
ACTCGCACAAATGC
Found at i:61119226 original size:35 final size:36
Alignment explanation
Indices: 61119178--61119247 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 36
61119168 GCCGATATAA
*
61119178 CACTCGCACAATGCC-TCGGGTCTTAGCCCGGATATG
1 CACTCGCAAAATGCCTTCGGG-CTTAGCCCGGATATG
61119214 CACT-GCAAAATGCCTTCGGGCTTAGCCCGGATAT
1 CACTCGCAAAATGCCTTCGGGCTTAGCCCGGATAT
61119248 ATCATAGCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 23 0.72
36 9 0.28
ACGTcount: A:0.21, C:0.31, G:0.24, T:0.23
Consensus pattern (36 bp):
CACTCGCAAAATGCCTTCGGGCTTAGCCCGGATATG
Found at i:61130898 original size:26 final size:26
Alignment explanation
Indices: 61130877--61130980 Score: 111
Period size: 26 Copynumber: 4.0 Consensus size: 26
61130867 TCATTTTGCC
61130877 CTACAGGGGATTTCGGTAATTTTACA
1 CTACAGGGGATTTCGGTAATTTTACA
* * * *
61130903 CTACAAGGGTTTTTGATAATTTTACA
1 CTACAGGGGATTTCGGTAATTTTACA
* **
61130929 CTACAGGGTATTTTAGTAATTTTACA
1 CTACAGGGGATTTCGGTAATTTTACA
* *
61130955 AT-TAGGGGTATTTCGGTAATTTTACA
1 CTACAGGGG-ATTTCGGTAATTTTACA
61130981 AATCGAGGGT
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
25 4 0.06
26 59 0.94
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (26 bp):
CTACAGGGGATTTCGGTAATTTTACA
Found at i:61130999 original size:27 final size:27
Alignment explanation
Indices: 61130881--61131149 Score: 220
Period size: 27 Copynumber: 10.2 Consensus size: 27
61130871 TTTGCCCTAC
* * * *
61130881 AGGGGATTTCGGTAATTTTAC-ACTACA
1 AGGGTATTTTGGTAATTTTACAAAT-CG
* *
61130908 AGGGT-TTTTGATAATTTTAC-ACTAC-
1 AGGGTATTTTGGTAATTTTACAAAT-CG
* * *
61130933 AGGGTATTTTAGTAATTTTACAATTAG
1 AGGGTATTTTGGTAATTTTACAAATCG
*
61130960 -GGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCG
*
61130986 AGGGTATTTTGGTAATTTTATAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCG
* *
61131013 A-GGTATTTTGATAA-TTTATAAA-CTG
1 AGGGTATTTTGGTAATTTTACAAATC-G
* * * *
61131038 -GGGTTATTTCGATAGTTTTACAAACCG
1 AGGG-TATTTTGGTAATTTTACAAATCG
*
61131065 AGGGTATTATGGTAATTTTACAAA-CTG
1 AGGGTATTTTGGTAATTTTACAAATC-G
* *
61131092 AGGGTATTTCGGTAATTTTACAAA-CT
1 AGGGTATTTTGGTAATTTTACAAATCG
61131118 AGGGGTATTTTGGTAATTTTACAAATC-
1 A-GGGTATTTTGGTAATTTTACAAATCG
61131145 AGGGT
1 AGGGT
61131150 CTTAACAACC
Statistics
Matches: 204, Mismatches: 25, Indels: 27
0.80 0.10 0.11
Matches are distributed among these distances:
24 1 0.00
25 16 0.08
26 80 0.39
27 102 0.50
28 5 0.02
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAATCG
Found at i:61131029 original size:79 final size:79
Alignment explanation
Indices: 61130881--61131149 Score: 270
Period size: 79 Copynumber: 3.4 Consensus size: 79
61130871 TTTGCCCTAC
* * * * *
61130881 AGGGG-ATTTCGGTAATTTTAC-ACTACAAGGGT-TTTTGATAATTTTACACTAC-AGGGTATTT
1 AGGGGTATTTCGGTAATTTTACAAAT-CGAGGGTATTTTGGTAATTTTAAAAT-CGAGGGTATTT
*
61130942 T-AGTAATTTTACAATT
64 TGA-TAATTTTACAACT
61130958 AGGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAATCGA-GGTATTTT
1 AGGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTA-AAATCGAGGGTATTTT
61131022 GATAATTTATA-AACT
65 GATAATTT-TACAACT
* * * *
61131037 -GGGGTTATTTCGATAGTTTTACAAACCGAGGGTATTATGGTAATTTTACAAA-CTGAGGGTATT
1 AGGGG-TATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTA-AAATC-GAGGGTATT
* *
61131100 TCGGTAATTTTACAAACT
63 TTGATAATTTTAC-AACT
*
61131118 AGGGGTATTTTGGTAATTTTACAAATC-AGGGT
1 AGGGGTATTTCGGTAATTTTACAAATCGAGGGT
61131150 CTTAACAACC
Statistics
Matches: 162, Mismatches: 17, Indels: 23
0.80 0.08 0.11
Matches are distributed among these distances:
77 5 0.03
78 27 0.17
79 79 0.49
80 25 0.15
81 22 0.14
82 4 0.02
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (79 bp):
AGGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTAAAATCGAGGGTATTTTG
ATAATTTTACAACT
Found at i:61131101 original size:54 final size:53
Alignment explanation
Indices: 61130881--61131142 Score: 236
Period size: 52 Copynumber: 4.9 Consensus size: 53
61130871 TTTGCCCTAC
* * * * *
61130881 AGGGGATTTCGGTAATTTTACACTACAAGGGT-TTTTGATAATTTTAC--ACTAC
1 AGGGTATTTCGGTAATTTTACA-AACGAGGGTATTTTGGTAATTTTACAAACT-G
** *
61130933 AGGGTATTTTAGTAATTTTACAATTA-G-GGGTATTTCGGTAATTTTACAAA-TCG
1 AGGGTATTTCGGTAATTTTACAA--ACGAGGGTATTTTGGTAATTTTACAAACT-G
* * * *
61130986 AGGGTATTTTGGTAATTTTATAAATCGA-GGTATTTTGATAA-TTTATAAACTG
1 AGGGTATTTCGGTAATTTTACAAA-CGAGGGTATTTTGGTAATTTTACAAACTG
* * *
61131038 -GGGTTATTTCGATAGTTTTACAAACCGAGGGTATTATGGTAATTTTACAAACTG
1 AGGG-TATTTCGGTAATTTTACAAA-CGAGGGTATTTTGGTAATTTTACAAACTG
*
61131092 AGGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA
1 AGGGTATTTCGGTAATTTTACAAACGA-GGGTATTTTGGTAATTTTACAAA
61131143 TCAGGGTCTT
Statistics
Matches: 170, Mismatches: 26, Indels: 26
0.77 0.12 0.12
Matches are distributed among these distances:
51 8 0.05
52 59 0.35
53 49 0.29
54 51 0.30
55 3 0.02
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (53 bp):
AGGGTATTTCGGTAATTTTACAAACGAGGGTATTTTGGTAATTTTACAAACTG
Found at i:61132696 original size:41 final size:41
Alignment explanation
Indices: 61132415--61132698 Score: 358
Period size: 41 Copynumber: 7.0 Consensus size: 41
61132405 GTAAAACACA
* * * * *
61132415 GAGCAATAGCGGCGTTTTTGTTAACACGCCGCTAAAAAT-A
1 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCG
** * * *
61132455 GAGCAATAGCAACGTTTTTTGTTAAAACGCCGCTAAAA-T-A
1 GAGCAATAGCGGCG-CTTTTGGTAAAACGCCGCTAAAAGTCG
* * *
61132495 GAGCAATAGAGGTGATTTTGGTAAAACGCCGCTAAAAGTCG
1 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCG
* * *
61132536 GAGCAATAGCAGTGATTTTGGTAAAACGCCGCTAAAAGTCG
1 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCG
* * *
61132577 GAGCAATTGCGGCGCTTTTGGTAAAGCGCTGCTAAAAGTCG
1 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCG
*
61132618 GAGCAATAGCGGCACTTTTGGTAAAACGCCGCTAAAAGTCG
1 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCG
61132659 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTC
1 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTC
61132699 ATATAACCTC
Statistics
Matches: 218, Mismatches: 23, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
39 21 0.10
40 25 0.11
41 172 0.79
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (41 bp):
GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCG
Found at i:61133636 original size:21 final size:20
Alignment explanation
Indices: 61133599--61133672 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
61133589 CTCAAAAATA
* *
61133599 AAAATTAAAAATTAAAATTTT
1 AAAATTTAAAA-TAAAAATTT
*
61133620 AAATTTTAAAATAAAAATTT
1 AAAATTTAAAATAAAAATTT
*
61133640 AAAATTTAAAATAAAAACTTA
1 AAAATTTAAAATAAAAA-TTT
61133661 AAAATTTAAAAT
1 AAAATTTAAAAT
61133673 TTAATATTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 24 0.51
21 23 0.49
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAATTTAAAATAAAAATTT
Found at i:61133641 original size:28 final size:28
Alignment explanation
Indices: 61133599--61133683 Score: 104
Period size: 28 Copynumber: 3.0 Consensus size: 28
61133589 CTCAAAAATA
61133599 AAAATTAAAAA-TTAAAATTTTAAATTTT
1 AAAATTAAAAATTTAAAA-TTTAAATTTT
* *
61133627 AAAA-TAAAAATTTAAAATTTAAA-ATA
1 AAAATTAAAAATTTAAAATTTAAATTTT
61133653 AAAACTTAAAAATTTAAAATTTAATATTTT
1 AAAA-TTAAAAATTTAAAATTTAA-ATTTT
61133683 A
1 A
61133684 GTCCATAGTT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
26 5 0.10
27 12 0.25
28 28 0.58
29 1 0.02
30 2 0.04
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (28 bp):
AAAATTAAAAATTTAAAATTTAAATTTT
Found at i:61133643 original size:7 final size:7
Alignment explanation
Indices: 61133597--61133681 Score: 75
Period size: 7 Copynumber: 12.1 Consensus size: 7
61133587 AACTCAAAAA
*
61133597 TAAAAAT
1 TAAAATT
*
61133604 TAAAAAT
1 TAAAATT
61133611 TAAAATTT
1 TAAAA-TT
*
61133619 TAAATTT
1 TAAAATT
61133626 TAAAA-T
1 TAAAATT
*
61133632 AAAAATT
1 TAAAATT
61133639 TAAAATT
1 TAAAATT
61133646 TAAAA-T
1 TAAAATT
*
61133652 AAAAACTT
1 TAAAA-TT
*
61133660 AAAAATT
1 TAAAATT
61133667 TAAAATT
1 TAAAATT
*
61133674 TAATATT
1 TAAAATT
61133681 T
1 T
61133682 TAGTCCATAG
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
6 10 0.15
7 45 0.68
8 11 0.17
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (7 bp):
TAAAATT
Found at i:61154958 original size:51 final size:51
Alignment explanation
Indices: 61154842--61154963 Score: 181
Period size: 51 Copynumber: 2.4 Consensus size: 51
61154832 ATCTGATCAG
* * * * * *
61154842 TGATAAGTGACAAGCGACACGTGATAAGTGGTAGCTTTAGCTATACTTATC
1 TGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTTTACCTACACTTATC
*
61154893 TGATCAGTGACAAGTGATAAGTGATAAGTGGTAGTTTTACCTACACTTATC
1 TGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTTTACCTACACTTATC
61154944 TGATCAGTGACAAGTGATAA
1 TGATCAGTGACAAGTGATAA
61154964 ATGTGATCAG
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (51 bp):
TGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTTTACCTACACTTATC
Found at i:61158833 original size:7 final size:7
Alignment explanation
Indices: 61158823--61158856 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
61158813 AATGATGAAT
61158823 GATGAGG
1 GATGAGG
61158830 GATGAGG
1 GATGAGG
61158837 GATGAGG
1 GATGAGG
61158844 GATGAGG
1 GATGAGG
61158851 GATGAG
1 GATGAG
61158857 CAGAAATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.29, C:0.00, G:0.56, T:0.15
Consensus pattern (7 bp):
GATGAGG
Found at i:61158840 original size:21 final size:21
Alignment explanation
Indices: 61158816--61158856 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
61158806 AGGAGAGAAT
*
61158816 GATGAATGATGAGGGATGAGG
1 GATGAAGGATGAGGGATGAGG
*
61158837 GATGAGGGATGAGGGATGAG
1 GATGAAGGATGAGGGATGAG
61158857 CAGAAATGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.51, T:0.17
Consensus pattern (21 bp):
GATGAAGGATGAGGGATGAGG
Found at i:61166507 original size:37 final size:37
Alignment explanation
Indices: 61166457--61166536 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
61166447 CTTATTACGA
* *
61166457 AGTCTTACCCGGACATAA-TCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATTC-CCACACGAAGTCATCG
*
61166494 AGTCTTACCCGGACAAAATTCCCACACGCAGTCATCG
1 AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
*
61166531 GGTCTT
1 AGTCTT
61166537 TAGAGCCCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:61166726 original size:47 final size:47
Alignment explanation
Indices: 61166667--61167373 Score: 1130
Period size: 47 Copynumber: 15.1 Consensus size: 47
61166657 TATCACATTT
* * * *
61166667 ATACAC-T-TTCACATTCATCACATCGGCCATTAGGCCTTATCTCAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
61166712 ATACACATGCTCACATTCATCACATTGGCCACTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
*
61166759 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* *
61166806 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCTTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* *
61166853 ATATACATGTTCACTTTCATCACATTGGCCATTCGGTCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
*
61166900 ATACACACGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
*
61166947 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
61166994 ATACACCTATTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* *
61167041 ATATACATGTTCACTTTCATCACATTGGCCATTCGGTCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
*
61167088 ATACACACGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* *
61167135 ATATACATGTTCACTTTCATCACATTGGCCATTCGGTCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
*
61167182 ATACACACGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
*
61167229 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
61167276 ATACACCTATTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* *
61167323 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCCCTATTCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTA-TCACAC
61167371 ATA
1 ATA
61167374 TACACTTTCA
Statistics
Matches: 613, Mismatches: 46, Indels: 3
0.93 0.07 0.00
Matches are distributed among these distances:
45 6 0.01
46 1 0.00
47 597 0.97
48 9 0.01
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
Found at i:61166828 original size:25 final size:25
Alignment explanation
Indices: 61166799--61166876 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
61166789 ATTCGGCCTT
61166799 ATCACACATATACATGTTCACTTTC
1 ATCACACATATACATGTTCACTTTC
* *** *
61166824 ATCACA-TTGGCCA--TTCGGCTTT-
1 ATCACACATATACATGTTC-ACTTTC
61166846 ATCACACATATACATGTTCACTTTC
1 ATCACACATATACATGTTCACTTTC
61166871 ATCACA
1 ATCACA
61166877 TTGGCCATTC
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 9 0.24
23 7 0.18
24 7 0.18
25 15 0.39
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.35
Consensus pattern (25 bp):
ATCACACATATACATGTTCACTTTC
Found at i:61166992 original size:22 final size:22
Alignment explanation
Indices: 61166965--61167039 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
61166955 GTTCACTTTC
61166965 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
*** * *
61166987 ATCACACATACACCTATTC-ACATT
1 AT--CACATTGGCC-ATTCGGCCTT
61167011 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
61167034 ATCACA
1 ATCACA
61167040 CATATACATG
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 12 0.32
23 10 0.26
24 10 0.26
25 6 0.16
ACGTcount: A:0.27, C:0.33, G:0.11, T:0.29
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:61167274 original size:22 final size:22
Alignment explanation
Indices: 61167247--61167321 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
61167237 GTTCACTTTC
61167247 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
*** * *
61167269 ATCACACATACACCTATTC-ACATT
1 AT--CACATTGGCC-ATTCGGCCTT
61167293 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
61167316 ATCACA
1 ATCACA
61167322 CATATACATG
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 12 0.32
23 10 0.26
24 10 0.26
25 6 0.16
ACGTcount: A:0.27, C:0.33, G:0.11, T:0.29
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:61172385 original size:13 final size:13
Alignment explanation
Indices: 61172349--61172378 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
61172339 GAGTATTAGA
*
61172349 GAAAGAAATATTT
1 GAAACAAATATTT
61172362 GAAACAAATATTT
1 GAAACAAATATTT
61172375 GAAA
1 GAAA
61172379 TCGATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.13, T:0.27
Consensus pattern (13 bp):
GAAACAAATATTT
Found at i:61175031 original size:40 final size:40
Alignment explanation
Indices: 61174976--61175186 Score: 239
Period size: 40 Copynumber: 5.3 Consensus size: 40
61174966 ATTTGAATGA
*
61174976 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
*
61175016 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
* * *
61175056 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * *
61175096 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * * * * *
61175136 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
61175176 TATCC-GGCTAA
1 TATCCGGGCTAA
61175187 ATTCCGAAGA
Statistics
Matches: 156, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 7 0.04
40 146 0.94
41 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
Found at i:61182326 original size:40 final size:40
Alignment explanation
Indices: 61182282--61182492 Score: 230
Period size: 40 Copynumber: 5.3 Consensus size: 40
61182272 ATTTGAATGA
* *
61182282 TATCCGGGCTAAGTCCCGAATGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
*
61182322 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
* * *
61182362 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * *
61182402 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * * * * *
61182442 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
61182482 TATCC-GGCTAA
1 TATCCGGGCTAA
61182493 ATTCCGATGA
Statistics
Matches: 155, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 7 0.05
40 145 0.94
41 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
Found at i:61189536 original size:40 final size:40
Alignment explanation
Indices: 61189457--61189617 Score: 180
Period size: 40 Copynumber: 4.0 Consensus size: 40
61189447 CGGATGATAA
* * ** *
61189457 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTTCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATAT
* * * * *
61189497 ACGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTG-CTATAT
*
61189537 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATAT
* * *
61189577 CCGGGCTAAGACCCGATGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATAT
61189617 C
1 C
61189618 TGGCTAAATC
Statistics
Matches: 101, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 98 0.97
41 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATAT
Found at i:61189598 original size:80 final size:80
Alignment explanation
Indices: 61189457--61189617 Score: 216
Period size: 80 Copynumber: 2.0 Consensus size: 80
61189447 CGGATGATAA
* * * *
61189457 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTTCTATATACGGGCTATGTCCCGAAGGCATTTA
1 CCGGACTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATACGGGCTAAGACCCGAAGGCATTTA
*
61189522 TGCTAG-TGATTATAT
66 TGCGAGTTG-TTATAT
* * * * *
61189537 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGATGGCATTTG
1 CCGGACTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATACGGGCTAAGACCCGAAGGCATTTA
61189602 TGCGAGTTGTTATAT
66 TGCGAGTTGTTATAT
61189617 C
1 C
61189618 TGGCTAAATC
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
80 68 0.97
81 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (80 bp):
CCGGACTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATACGGGCTAAGACCCGAAGGCATTTA
TGCGAGTTGTTATAT
Found at i:61207142 original size:40 final size:40
Alignment explanation
Indices: 61207093--61207296 Score: 157
Period size: 40 Copynumber: 5.1 Consensus size: 40
61207083 CGGAATTTAA
** *
61207093 CCGGATATAGCT-ACTCATTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCACACAAATGCCTTCGGGACATAAC
* * *
61207133 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCACACAAATGCCTTCGGGACATAAC
* * * *
61207173 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCACACAAATGCCTTCGGGACATAAC
* * * **
61207212 CCAGA-ATTAGTATCTCACACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCACACAAATGCCTTCGGGA-CATAAC
* * * * *
61207252 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCA-CACAAATGCCTTCGGGACATAAC
61207292 CCGGA
1 CCGGA
61207297 CACCATTCAA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 31 0.23
40 94 0.69
41 10 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCACACAAATGCCTTCGGGACATAAC
Found at i:61207233 original size:39 final size:39
Alignment explanation
Indices: 61207112--61207294 Score: 192
Period size: 40 Copynumber: 4.6 Consensus size: 39
61207102 GCTACTCATT
* *
61207112 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGATT-TAGTAACTCGCA
*
61207152 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GATTTAGTAACTCGCA
* * *
61207192 CAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCACA
1 CAAATGCCTTCGGGACTTAGCCC-GATTTAGTAACTCGCA
* * * * *
61207231 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAG-CCCGATTTAGTAAC-TCGCA
61207272 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
61207295 GACACCATTC
Statistics
Matches: 120, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
38 2 0.02
39 34 0.28
40 69 0.57
41 15 0.12
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGATTTAGTAACTCGCA
Found at i:61207233 original size:79 final size:81
Alignment explanation
Indices: 61207112--61207294 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
61207102 GCTACTCATT
* ** *
61207112 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCACACAAATGCCTTC-GGATCTTAACCCG
* *
61207176 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
61207192 CAAATGCCTTCGGG-CTTAGCCCAGAAT-TAGTATCTCACACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCC-GAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCG
* *
61207255 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
61207272 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
61207295 GACACCATTC
Statistics
Matches: 88, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 53 0.60
80 32 0.36
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:61212463 original size:29 final size:29
Alignment explanation
Indices: 61212391--61212498 Score: 112
Period size: 29 Copynumber: 3.8 Consensus size: 29
61212381 TTCACATACC
* * * *
61212391 TGTATTTGGCCCATTAAGCCC-ATTCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* * *
61212419 T-TCATACGGCCTATTAGGCCCAAATCACC
1 TGT-ATATGGCCCATTAGGCCCAAATCACA
61212448 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
61212477 TTTATATGGCCCGTTAGGCCCA
1 TGTATATGGCCCATTAGGCCCA
61212499 GTTACATTCA
Statistics
Matches: 65, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
27 1 0.02
28 15 0.23
29 48 0.74
30 1 0.02
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:61212735 original size:8 final size:8
Alignment explanation
Indices: 61212722--61212772 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
61212712 GTAGCCAAAC
61212722 TTTCGGCT
1 TTTCGGCT
*
61212730 TTTCGGCA
1 TTTCGGCT
*
61212738 TTTCGACT
1 TTTCGGCT
*
61212746 TTTCAGCAT
1 TTTCGGC-T
*
61212755 TTT-GGCA
1 TTTCGGCT
61212762 TTTCGGCT
1 TTTCGGCT
61212770 TTT
1 TTT
61212773 GCCGATTCAT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
7 3 0.09
8 26 0.79
9 4 0.12
ACGTcount: A:0.10, C:0.22, G:0.20, T:0.49
Consensus pattern (8 bp):
TTTCGGCT
Found at i:61217325 original size:14 final size:14
Alignment explanation
Indices: 61217289--61217327 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
61217279 TTGTTTCACT
*
61217289 GAAAATGACTTCCG
1 GAAAATGATTTCCG
*
61217303 GAAAATGATTTCTG
1 GAAAATGATTTCCG
61217317 GAAAATGATTT
1 GAAAATGATTT
61217328 ACTTTTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (14 bp):
GAAAATGATTTCCG
Found at i:61217945 original size:19 final size:19
Alignment explanation
Indices: 61217923--61217979 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
61217913 AATAAAATTG
61217923 AAATATTAAATAATTTATT
1 AAATATTAAATAATTTATT
* *
61217942 AAATAATAAATTATTT-TT
1 AAATATTAAATAATTTATT
*
61217960 ATTATATT-AATAATTTATT
1 A-AATATTAAATAATTTATT
61217979 A
1 A
61217980 TATGACTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
18 10 0.32
19 21 0.68
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATATTAAATAATTTATT
Found at i:61217962 original size:21 final size:22
Alignment explanation
Indices: 61217936--61217978 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
61217926 TATTAAATAA
61217936 TTTATTA-AATAATAAATTATT
1 TTTATTATAATAATAAATTATT
* *
61217957 TTTATTATATTAATAATTTATT
1 TTTATTATAATAATAAATTATT
61217979 ATATGACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTATTATAATAATAAATTATT
Found at i:61220184 original size:50 final size:49
Alignment explanation
Indices: 61220061--61220235 Score: 175
Period size: 49 Copynumber: 3.7 Consensus size: 49
61220051 TCCATCAAGT
61220061 CGATGCCATGTCCCAGACATGGTCTTACACTAACTATCAAAATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACTATCAAAATCGAGGC
* * * * * *
61220110 AGATGCCATGTCCCAGACATGGTCTTCCACTAGCTCTCACATATTCG-TGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACTATCA-A-AATCGAGGC
* * **
61220160 CGATGCCATGTCTCAGACATGGTCTTACACTGAC-A-C-ATCTCGTA-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACTATCAAAATCG-AGGC
*
61220206 CGATG-CATATCCCAGACAT-GTCTTACACTA
1 CGATGCCATGTCCCAGACATGGTCTTACACTA
61220236 GCTCTCGTCT
Statistics
Matches: 105, Mismatches: 17, Indels: 13
0.78 0.13 0.10
Matches are distributed among these distances:
44 10 0.10
45 15 0.14
46 8 0.08
48 1 0.01
49 35 0.33
50 32 0.30
51 4 0.04
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAACTATCAAAATCGAGGC
Found at i:61220247 original size:99 final size:99
Alignment explanation
Indices: 61220061--61220241 Score: 248
Period size: 99 Copynumber: 1.9 Consensus size: 99
61220051 TCCATCAAGT
*
61220061 CGATGCCATGTCCCAGACATGGTCTTACACTAACTATCAAAATCGAGGCAGATGCCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACTATCAAAATCGAGGCAGATGCCATATCCCAG
*
61220126 ACATGGTCTTCCACTAGCTCTCACATATTCGTGC
66 ACATGGTCTTACACTAGCTCTCACATATTCGTGC
* * ** *
61220160 CGATGCCATGTCTCAGACATGGTCTTACACTGAC-A-C-ATCTCGTA-GCCGATG-CATATCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACTATCAAAATCG-AGGCAGATGCCATATCCCA
61220220 GACAT-GTCTTACACTAGCTCTC
65 GACATGGTCTTACACTAGCTCTC
61220242 GTCTCAATGC
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
94 16 0.22
95 13 0.18
96 10 0.14
97 2 0.03
98 1 0.01
99 32 0.43
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (99 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAACTATCAAAATCGAGGCAGATGCCATATCCCAG
ACATGGTCTTACACTAGCTCTCACATATTCGTGC
Found at i:61224446 original size:40 final size:40
Alignment explanation
Indices: 61224280--61224448 Score: 212
Period size: 40 Copynumber: 4.2 Consensus size: 40
61224270 AGATCAATTG
* *
61224280 AACAAACCAGACAGAAGCTCATAAGAGTTGATCCAACCGA
1 AACACACCAAACAGAAGCTCATAAGAGTTGATCCAACCGA
* * * * *
61224320 GACACATCAAATAGAAGCTAATAAGAGTTGATCCAACCAA
1 AACACACCAAACAGAAGCTCATAAGAGTTGATCCAACCGA
*** * * *
61224360 AACTTGCCAAATAGAAGTTCATAAGAGTTGGTCCAACCGA
1 AACACACCAAACAGAAGCTCATAAGAGTTGATCCAACCGA
*
61224400 AACACACCAAACAGAAGCTCATAAGAGCTGATCCAACCGA
1 AACACACCAAACAGAAGCTCATAAGAGTTGATCCAACCGA
61224440 AACACACCA
1 AACACACCA
61224449 GGCAGAGAGT
Statistics
Matches: 106, Mismatches: 23, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 106 1.00
ACGTcount: A:0.44, C:0.25, G:0.16, T:0.15
Consensus pattern (40 bp):
AACACACCAAACAGAAGCTCATAAGAGTTGATCCAACCGA
Found at i:61225403 original size:21 final size:19
Alignment explanation
Indices: 61225379--61225426 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
61225369 CCATTATGTT
61225379 TTCTTATATTTTAACCTTTTA
1 TTCTTATATTTTAA--TTTTA
*
61225400 TTCTTTTATTTTAATTTTA
1 TTCTTATATTTTAATTTTA
61225419 TTACTTAT
1 TT-CTTAT
61225427 TTTAATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.29
20 4 0.17
21 13 0.54
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (19 bp):
TTCTTATATTTTAATTTTA
Found at i:61229001 original size:48 final size:48
Alignment explanation
Indices: 61228916--61229007 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
61228906 TAGGGTTATG
* *
61228916 TGTGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATATCTAGGACATAGCATTGGCATCGATA
* *
61228964 TGTGATCCCATGTAAGACCATATCTGGGATATAGCATTGGCATC
1 TGTGATCCCATGTAAGACCATATCTAGGACATAGCATTGGCATC
61229008 TTACTATGTG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATATCTAGGACATAGCATTGGCATCGATA
Found at i:61239318 original size:23 final size:26
Alignment explanation
Indices: 61239211--61239317 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
61239201 TGATACAATT
61239211 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
61239237 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
61239263 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
61239289 TGAT-A-A-GTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
61239312 TGATAA
1 TGATAA
61239318 GAATTTCATG
Statistics
Matches: 80, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
23 21 0.26
24 2 0.03
25 1 0.01
26 56 0.70
ACGTcount: A:0.36, C:0.07, G:0.22, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:61240978 original size:27 final size:27
Alignment explanation
Indices: 61240937--61241049 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
61240927 GAGGAAGCGT
*
61240937 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
61240964 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
61240991 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
61241019 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
61241045 TCTGG
1 TCTGG
61241050 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:61241042 original size:54 final size:54
Alignment explanation
Indices: 61240935--61241049 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
61240925 TGGAGGAAGC
*
61240935 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
61240989 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
61241043 GTTCTGG
1 GTTCTGG
61241050 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:61242075 original size:28 final size:28
Alignment explanation
Indices: 61242043--61242126 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
61242033 AACTGTGATC
61242043 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
61242071 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
*
61242093 ACGTGTGTAGTACTAAGCGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
61242121 ACGTGT
1 ACGTGT
61242127 ACCGGATAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 16
0.64 0.11 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.20
23 2 0.05
24 2 0.05
25 6 0.15
26 3 0.07
27 2 0.05
28 14 0.34
29 2 0.05
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.29
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:61242164 original size:49 final size:49
Alignment explanation
Indices: 61241997--61242219 Score: 284
Period size: 49 Copynumber: 4.5 Consensus size: 49
61241987 AGGTCGCATA
* * * * *
61241997 TGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACGTG
* * **
61242048 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACGTG
*
61242098 TGTAGTACTAAGCGCAGGCTACTACGTGTACCGGATAATTGGTCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACGTG
* * * *
61242147 TGTAGTACTAAGTGCAGGCTACTACATGTATCGGATAATTGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACGTG
*
61242196 TGTAGTACTATGTGCAGGCTACTA
1 TGTAGTACTAAGTGCAGGCTACTA
61242220 TGCGTACCAG
Statistics
Matches: 152, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
49 77 0.51
50 44 0.29
51 31 0.20
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACGTG
Found at i:61242177 original size:99 final size:100
Alignment explanation
Indices: 61241988--61242227 Score: 313
Period size: 99 Copynumber: 2.4 Consensus size: 100
61241978 TTTATTGTGA
* * *
61241988 GGTCGCATATGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAG
* **
61242053 TACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 TACTAAGTGCAGGCTACTACATGTATCAGATAATT
* * * * * *
61242088 AGGTCACGTGTGTAGTACTAAGCGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACGTGTGTA
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTA
*
61242151 GTACTAAGTGCAGGCTACTACATGTATCGGATAATT
65 GTACTAAGTGCAGGCTACTACATGTATCAGATAATT
* * *
61242187 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACC
61242228 AGATAGCTTT
Statistics
Matches: 120, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
98 35 0.29
99 45 0.38
100 1 0.01
101 39 0.32
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (100 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAG
TACTAAGTGCAGGCTACTACATGTATCAGATAATT
Found at i:61244086 original size:6 final size:7
Alignment explanation
Indices: 61244056--61244085 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
61244046 ATCGTATTAC
61244056 TTTTAA-
1 TTTTAAT
61244062 TTTTAAT
1 TTTTAAT
61244069 TTTTAAT
1 TTTTAAT
61244076 TTTTAAT
1 TTTTAAT
61244083 TTT
1 TTT
61244086 ATTTCAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTAAT
Found at i:61246315 original size:16 final size:17
Alignment explanation
Indices: 61246294--61246326 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
61246284 TTCATCACAC
61246294 TTAGG-TTAATTTGCAT
1 TTAGGTTTAATTTGCAT
*
61246310 TTAGGTTTATTTTGCAT
1 TTAGGTTTAATTTGCAT
61246327 CTAGTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.21, C:0.06, G:0.18, T:0.55
Consensus pattern (17 bp):
TTAGGTTTAATTTGCAT
Found at i:61252531 original size:16 final size:17
Alignment explanation
Indices: 61252510--61252542 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
61252500 GCCATCACAC
61252510 TTAGGTTAA-TTTGCAT
1 TTAGGTTAATTTTGCAT
61252526 TTAGGTTAATTTTGCAT
1 TTAGGTTAATTTTGCAT
61252543 CTAGTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.24, C:0.06, G:0.18, T:0.52
Consensus pattern (17 bp):
TTAGGTTAATTTTGCAT
Found at i:61252549 original size:16 final size:16
Alignment explanation
Indices: 61252511--61252546 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
61252501 CCATCACACT
*
61252511 TAGGTTAATTTGCATT
1 TAGGTTAATTTGCATC
61252527 TAGGTTAATTTTGCATC
1 TAGGTTAA-TTTGCATC
61252544 TAG
1 TAG
61252547 TTATTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.25, C:0.08, G:0.19, T:0.47
Consensus pattern (16 bp):
TAGGTTAATTTGCATC
Found at i:61260044 original size:7 final size:7
Alignment explanation
Indices: 61260032--61260058 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
61260022 TAGTAAACAA
61260032 TAATATT
1 TAATATT
61260039 TAATATT
1 TAATATT
61260046 TAATATT
1 TAATATT
61260053 TAATAT
1 TAATAT
61260059 ATTATGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TAATATT
Found at i:61277355 original size:14 final size:14
Alignment explanation
Indices: 61277332--61277364 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
61277322 ATTGTGTATT
*
61277332 TAAA-AATTAAAAG
1 TAAATAATTAAAAA
61277345 TAAATAATTAAAAA
1 TAAATAATTAAAAA
61277359 TAAATA
1 TAAATA
61277365 GAGTAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (14 bp):
TAAATAATTAAAAA
Found at i:61287352 original size:27 final size:27
Alignment explanation
Indices: 61287314--61287394 Score: 153
Period size: 27 Copynumber: 3.0 Consensus size: 27
61287304 CTTAACCAAC
61287314 TCGTGAAGAGTTATGGTCAAAATGAAA
1 TCGTGAAGAGTTATGGTCAAAATGAAA
61287341 TCGTGAAGAGTTATGGTCAAAATGAAA
1 TCGTGAAGAGTTATGGTCAAAATGAAA
*
61287368 TCGTGAAGAGTTATGATCAAAATGAAA
1 TCGTGAAGAGTTATGGTCAAAATGAAA
61287395 GGGGATGTTT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.42, C:0.07, G:0.25, T:0.26
Consensus pattern (27 bp):
TCGTGAAGAGTTATGGTCAAAATGAAA
Found at i:61289856 original size:16 final size:16
Alignment explanation
Indices: 61289835--61289868 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
61289825 TATAGCATTA
61289835 TATTTTATGTTAATTG
1 TATTTTATGTTAATTG
61289851 TATTTTATGTTAATTG
1 TATTTTATGTTAATTG
61289867 TA
1 TA
61289869 CACTATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.62
Consensus pattern (16 bp):
TATTTTATGTTAATTG
Found at i:61290411 original size:20 final size:21
Alignment explanation
Indices: 61290388--61290427 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
61290378 AATTAAGAAA
61290388 ATATA-TCAAAAATTTAAAAT
1 ATATATTCAAAAATTTAAAAT
* *
61290408 ATATATTTAAAATTTTAAAA
1 ATATATTCAAAAATTTAAAA
61290428 AAATAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (21 bp):
ATATATTCAAAAATTTAAAAT
Found at i:61291132 original size:21 final size:22
Alignment explanation
Indices: 61291076--61291132 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
61291066 CTTGAATGTC
61291076 AAGTCTTGAAACTTCAACCTAT
1 AAGTCTTGAAACTTCAACCTAT
*
61291098 AAGT-TTTAATACTT-AACCTAT
1 AAGTCTTGAA-ACTTCAACCTAT
*
61291119 AAGTCTTGAGACTT
1 AAGTCTTGAAACTT
61291133 GGCTTGCTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 19 0.63
22 11 0.37
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.37
Consensus pattern (22 bp):
AAGTCTTGAAACTTCAACCTAT
Found at i:61291324 original size:12 final size:12
Alignment explanation
Indices: 61291307--61291332 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
61291297 ATTCATACTC
61291307 ATGTTTAAATCA
1 ATGTTTAAATCA
61291319 ATGTTTAAATCA
1 ATGTTTAAATCA
61291331 AT
1 AT
61291333 TGAGGAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (12 bp):
ATGTTTAAATCA
Found at i:61293702 original size:44 final size:44
Alignment explanation
Indices: 61293634--61293810 Score: 137
Period size: 44 Copynumber: 4.0 Consensus size: 44
61293624 TTAACTTGAG
* * * *
61293634 AAAACGAGAAACACCATGGTTGAAAGATA-TCATGGCATTATACC
1 AAAATGAGAAAGACCATAGTTGAAAGATACT-ATGGCATTAAACC
*
61293678 AAAATGAGAAAGACCATAGTTGAAAGATACTATGGCATTAAACT
1 AAAATGAGAAAGACCATAGTTGAAAGATACTATGGCATTAAACC
* * * * * * *
61293722 GAATTG-GATAAGACCTTAGTTGAAAGATACTACGACACTT-TACTGA
1 AAAATGAGA-AAGACCATAGTTGAAAGATACTATGGCA-TTAAAC--C
* *
61293768 AAAATGA-ACAAAACCATAGTTGAAAAGATACTATGACATTAAA
1 AAAATGAGA-AAGACCATAGTTG-AAAGATACTATGGCATTAAA
61293811 TGTGATTGAA
Statistics
Matches: 106, Mismatches: 19, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
43 2 0.02
44 68 0.64
45 3 0.03
46 18 0.17
47 15 0.14
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.23
Consensus pattern (44 bp):
AAAATGAGAAAGACCATAGTTGAAAGATACTATGGCATTAAACC
Found at i:61293826 original size:46 final size:44
Alignment explanation
Indices: 61293690--61293850 Score: 155
Period size: 46 Copynumber: 3.6 Consensus size: 44
61293680 AATGAGAAAG
* * * *
61293690 ACCATAGTTGAAAGATACTATGGCATTAAACTGAATTGGAT-AAG
1 ACCATAGTTGAAAGATACTACGACATTAAA-TGAATTGAATCAAA
* * * *
61293734 ACCTTAGTTGAAAGATACTACGACACTTTACTGAAAAATGAA-CAAA
1 ACCATAGTTGAAAGATACTACGACA-TTAAATG--AATTGAATCAAA
* *
61293780 ACCATAGTTGAAAAGATACTATGACATTAAATGTGATTGAATCAAA
1 ACCATAGTTG-AAAGATACTACGACATTAAATG-AATTGAATCAAA
*
61293826 ACCACAGTTGAAAGATACTACGACA
1 ACCATAGTTGAAAGATACTACGACA
61293851 CCACTTTGGG
Statistics
Matches: 94, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
44 24 0.26
45 22 0.23
46 34 0.36
47 14 0.15
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.25
Consensus pattern (44 bp):
ACCATAGTTGAAAGATACTACGACATTAAATGAATTGAATCAAA
Done.