Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 20 of 362
Found at i:5997019 original size:32 final size:32
Alignment explanation
Indices: 5996978--5997041 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
5996968 ACTGTCATCG
5996978 TCTATCCAAATGGAATTTAAAAAGCTCTAAAA
1 TCTATCCAAATGGAATTTAAAAAGCTCTAAAA
5997010 TCTATCCAAATGGAATTTAAAAAGCTCTAAAA
1 TCTATCCAAATGGAATTTAAAAAGCTCTAAAA
5997042 GAGAATCTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (32 bp):
TCTATCCAAATGGAATTTAAAAAGCTCTAAAA
Found at i:6003846 original size:20 final size:20
Alignment explanation
Indices: 6003807--6003852 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
6003797 TTTAATAGTA
6003807 ATTTAATATTAAAATGATAT
1 ATTTAATATTAAAATGATAT
* * *
6003827 ATTTGATATTAAATTTATAT
1 ATTTAATATTAAAATGATAT
6003847 -TTTAAT
1 ATTTAAT
6003853 TGAATTATCA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (20 bp):
ATTTAATATTAAAATGATAT
Found at i:6005499 original size:19 final size:18
Alignment explanation
Indices: 6005458--6005500 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
6005448 AATTGAATTG
*
6005458 ATTTATTTAATTTTTTAA
1 ATTTATTTAATTATTTAA
6005476 ATTTATTATAAATTATTT-A
1 ATTTATT-T-AATTATTTAA
6005495 ATTTAT
1 ATTTAT
6005501 CATTATTGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 7 0.32
19 8 0.36
20 7 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTATTTAATTATTTAA
Found at i:6021077 original size:46 final size:46
Alignment explanation
Indices: 6020803--6021077 Score: 390
Period size: 46 Copynumber: 6.0 Consensus size: 46
6020793 TTCGACATGA
* * * * *
6020803 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* ** ** *
6020849 TGCCATGGTATCATTCAACCATGGTCTTATTCATTTCCCCATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT-CATATCAGGT
* * *
6020896 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
6020942 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
6020988 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
6021034 TGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
6021078 AGAGCACACT
Statistics
Matches: 209, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
45 3 0.01
46 168 0.80
47 38 0.18
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:6023228 original size:11 final size:11
Alignment explanation
Indices: 6023212--6023263 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
6023202 TATACTAAAT
6023212 AAATAATAATA
1 AAATAATAATA
*
6023223 AAATAAT-ATT
1 AAATAATAATA
* *
6023233 AAATATCTCATA
1 AAATA-ATAATA
*
6023245 AAATATTAATA
1 AAATAATAATA
6023256 AAATAATA
1 AAATAATA
6023264 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:6028465 original size:18 final size:18
Alignment explanation
Indices: 6028442--6028483 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
6028432 CTCCATACAT
6028442 TGTACACACATTCCAATC
1 TGTACACACATTCCAATC
* *
6028460 TGTACATACGTTCCAATC
1 TGTACACACATTCCAATC
*
6028478 TATACA
1 TGTACA
6028484 AGCGTGTACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.07, T:0.31
Consensus pattern (18 bp):
TGTACACACATTCCAATC
Found at i:6031713 original size:13 final size:14
Alignment explanation
Indices: 6031697--6031732 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
6031687 CAATCTCATA
6031697 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
6031710 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
6031723 TCTC-ATTTCA
1 TCTCAATTTCA
6031733 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:6031722 original size:18 final size:19
Alignment explanation
Indices: 6031684--6031724 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
6031674 TGGTTCATGT
6031684 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
6031703 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
6031721 TTTC
1 TTTC
6031725 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:6031967 original size:23 final size:23
Alignment explanation
Indices: 6031885--6031971 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
6031875 TCTGATCAGT
*
6031885 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
6031907 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
6031927 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
6031950 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
6031972 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:6032374 original size:15 final size:15
Alignment explanation
Indices: 6032356--6032405 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
6032346 ATATATATAT
6032356 TATAATTTCAATCAA
1 TATAATTTCAATCAA
*
6032371 TATAAATTCAATCAA
1 TATAATTTCAATCAA
* *
6032386 AATGATTTCAATCAA
1 TATAATTTCAATCAA
6032401 TATAA
1 TATAA
6032406 ATTTGATAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.36
Consensus pattern (15 bp):
TATAATTTCAATCAA
Found at i:6033107 original size:6 final size:6
Alignment explanation
Indices: 6033096--6033122 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
6033086 AAACCCCAAA
6033096 TTTTTC TTTTTC TTTTTC TTTTTC TTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTT
6033123 CTTTCTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:6033181 original size:15 final size:15
Alignment explanation
Indices: 6033161--6033189 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6033151 TTCGTTTCCA
6033161 CATTCTGTTTCTTTT
1 CATTCTGTTTCTTTT
6033176 CATTCTGTTTCTTT
1 CATTCTGTTTCTTT
6033190 CCTTTATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.21, G:0.07, T:0.66
Consensus pattern (15 bp):
CATTCTGTTTCTTTT
Found at i:6033422 original size:21 final size:22
Alignment explanation
Indices: 6033369--6033423 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
6033359 CAATTTAAAT
*
6033369 AATAATAACAATAACAATAATA
1 AATAATAATAATAACAATAATA
* *
6033391 ATTAA-ATATAA-AACTATAATA
1 AATAATA-ATAATAACAATAATA
6033412 AATAATAATAAT
1 AATAATAATAAT
6033424 TTAATATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.29
Consensus pattern (22 bp):
AATAATAATAATAACAATAATA
Found at i:6045387 original size:19 final size:19
Alignment explanation
Indices: 6045363--6045401 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6045353 AATAAATAAA
*
6045363 TATTTT-TAATAATATAATT
1 TATTTTGTAA-AAAATAATT
6045382 TATTTTGTAAAAAATAATT
1 TATTTTGTAAAAAATAATT
6045401 T
1 T
6045402 TTGTAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
TATTTTGTAAAAAATAATT
Found at i:6048889 original size:24 final size:24
Alignment explanation
Indices: 6048859--6048908 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
6048849 GGGGCCGGGT
6048859 AAATTTGGGTTCCCACAGTCTTCA
1 AAATTTGGGTTCCCACAGTCTTCA
*
6048883 AAATTTGGGTTCTCACAGTCTTCA
1 AAATTTGGGTTCCCACAGTCTTCA
6048907 AA
1 AA
6048909 CTCTAACATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (24 bp):
AAATTTGGGTTCCCACAGTCTTCA
Found at i:6055728 original size:27 final size:27
Alignment explanation
Indices: 6055675--6055729 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
6055665 AATATTAAAG
* **
6055675 ACATTTTCAAACCTACTCTGAGGATTC
1 ACATTTTCAAACCTACTCGGACAATTC
6055702 ACATTTTCAAACCTACTCGGACAATTC
1 ACATTTTCAAACCTACTCGGACAATTC
6055729 A
1 A
6055730 ATATTTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.27, G:0.09, T:0.31
Consensus pattern (27 bp):
ACATTTTCAAACCTACTCGGACAATTC
Found at i:6056860 original size:21 final size:22
Alignment explanation
Indices: 6056836--6056877 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
6056826 AACATGTAAA
6056836 AAATTATAA-ATAATATTATTT
1 AAATTATAATATAATATTATTT
*
6056857 AAATTGTAATATAATATTATT
1 AAATTATAATATAATATTATT
6056878 AATATTCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
AAATTATAATATAATATTATTT
Found at i:6056926 original size:16 final size:16
Alignment explanation
Indices: 6056904--6056945 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
6056894 TTTTTGTATT
6056904 ATTTTAATATTAAATA
1 ATTTTAATATTAAATA
* *
6056920 TTTTTAAAATTAAATA
1 ATTTTAATATTAAATA
*
6056936 ACTTTAATAT
1 ATTTTAATAT
6056946 AATTGATTTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTTAATATTAAATA
Found at i:6063988 original size:45 final size:45
Alignment explanation
Indices: 6063935--6064060 Score: 141
Period size: 45 Copynumber: 2.8 Consensus size: 45
6063925 ACCTACTTAC
*
6063935 CATGATGCCATAACATCTTTCAATTATGGTCTTACTTAAT-TATGT
1 CATGATGCCATAACATCTTTCAACTATGGTCTTACTTAATCT-TGT
* *
6063980 CATGATGCCA-AAGCATCTTTCAACTATGGTCATAC-TCATCCTTGT
1 CATGATGCCATAA-CATCTTTCAACTATGGTCTTACTTAAT-CTTGT
* * * *
6064025 CATGGTGCCATAGCATCTTTCAGCTATGATCTTACT
1 CATGATGCCATAACATCTTTCAACTATGGTCTTACT
6064061 CATTTTAGGC
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
44 5 0.07
45 61 0.90
46 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.37
Consensus pattern (45 bp):
CATGATGCCATAACATCTTTCAACTATGGTCTTACTTAATCTTGT
Found at i:6068183 original size:29 final size:30
Alignment explanation
Indices: 6068148--6068210 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
6068138 ATTTATACCG
* *
6068148 AAATCAAAGTTT-ATGTTTATAATTGCACA
1 AAATCAAAGTTTAAAGTTTAGAATTGCACA
6068177 AAATCAAAGTTTAAAGTTTAGAATTGCACA
1 AAATCAAAGTTTAAAGTTTAGAATTGCACA
6068207 AAAT
1 AAAT
6068211 TAATATGTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 12 0.39
30 19 0.61
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (30 bp):
AAATCAAAGTTTAAAGTTTAGAATTGCACA
Found at i:6078071 original size:15 final size:15
Alignment explanation
Indices: 6078047--6078078 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6078037 CAAGGCCACC
6078047 AAGAAAAAGAAAAAG
1 AAGAAAAAGAAAAAG
*
6078062 AAGAAGAAGAAAAAG
1 AAGAAAAAGAAAAAG
6078077 AA
1 AA
6078079 ACGTACTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (15 bp):
AAGAAAAAGAAAAAG
Found at i:6078903 original size:15 final size:15
Alignment explanation
Indices: 6078883--6078919 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
6078873 AAAATGTTTA
*
6078883 ATTAATTTAATTAAT
1 ATTAATTTAATTAAG
*
6078898 ATTAATTTAATTCAG
1 ATTAATTTAATTAAG
6078913 ATTAATT
1 ATTAATT
6078920 AACTTTATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (15 bp):
ATTAATTTAATTAAG
Found at i:6078920 original size:19 final size:17
Alignment explanation
Indices: 6078880--6078926 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 17
6078870 CTTAAAATGT
6078880 TTAATTAATTTAATTAA
1 TTAATTAATTTAATTAA
6078897 -T-ATTAATTTAATTCAGA
1 TTAATTAATTTAATT-A-A
6078914 TTAATTAACTTTA
1 TTAATTAA-TTTA
6078927 TTGGTAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
15 12 0.48
16 2 0.08
17 1 0.04
18 1 0.04
19 5 0.20
20 4 0.16
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (17 bp):
TTAATTAATTTAATTAA
Found at i:6079210 original size:24 final size:24
Alignment explanation
Indices: 6079183--6079229 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
6079173 TTCATCATAA
6079183 AATTTA-AATTCACATAAAATTTTT
1 AATTTATAATTCA-ATAAAATTTTT
* *
6079207 AATTTATTATTGAATAAAATTTT
1 AATTTATAATTCAATAAAATTTT
6079230 ATTTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (24 bp):
AATTTATAATTCAATAAAATTTTT
Found at i:6079235 original size:23 final size:24
Alignment explanation
Indices: 6079183--6079240 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
6079173 TTCATCATAA
*
6079183 AATTTAA-ATTCACATAAAATTTTT
1 AATTTAATATTGA-ATAAAATTTTT
*
6079207 AATTTATTATTGAATAAAA-TTTT
1 AATTTAATATTGAATAAAATTTTT
*
6079230 ATTTTAATATT
1 AATTTAATATT
6079241 TTTATACATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 13 0.45
24 12 0.41
25 4 0.14
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (24 bp):
AATTTAATATTGAATAAAATTTTT
Found at i:6082143 original size:20 final size:19
Alignment explanation
Indices: 6082114--6082173 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
6082104 ATATACATAG
*
6082114 TAATATTATCTAAAAATATA
1 TAATAATATC-AAAAATATA
*
6082134 TAATAATATCGAAAATATA
1 TAATAATATCAAAAATATA
* *
6082153 TACATGATAT-AAAAAGATA
1 TA-ATAATATCAAAAATATA
6082172 TA
1 TA
6082174 GGGTTAAAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (19 bp):
TAATAATATCAAAAATATA
Found at i:6088093 original size:12 final size:12
Alignment explanation
Indices: 6088076--6088118 Score: 77
Period size: 12 Copynumber: 3.6 Consensus size: 12
6088066 TACGTGGACA
6088076 TTCAAGAAGACT
1 TTCAAGAAGACT
6088088 TTCAAGAAGACT
1 TTCAAGAAGACT
*
6088100 TTCAAGAAGATT
1 TTCAAGAAGACT
6088112 TTCAAGA
1 TTCAAGA
6088119 TTGGCAGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (12 bp):
TTCAAGAAGACT
Found at i:6088347 original size:15 final size:17
Alignment explanation
Indices: 6088309--6088348 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
6088299 TTTCAGTATT
*
6088309 CTCTCTTTGTAAACACT
1 CTCTCTTTGTAAACACC
6088326 CTCTCTTTGTAAA-ACC
1 CTCTCTTTGTAAACACC
6088342 CT-TCTTT
1 CTCTCTTT
6088349 TTACTTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.23
16 4 0.18
17 13 0.59
ACGTcount: A:0.20, C:0.30, G:0.05, T:0.45
Consensus pattern (17 bp):
CTCTCTTTGTAAACACC
Found at i:6101633 original size:33 final size:33
Alignment explanation
Indices: 6101591--6101687 Score: 140
Period size: 33 Copynumber: 2.9 Consensus size: 33
6101581 TCTTCTTGAC
**
6101591 ATTCCAGCTCCTGTCCAGCAACCAAACACTTTA
1 ATTCCAGCTCCTGTCCAGCAACCAAACACTCCA
* *
6101624 ATTCCAGCTCCTGTCCAGCAACCAAATACTCCC
1 ATTCCAGCTCCTGTCCAGCAACCAAACACTCCA
* *
6101657 ATTCCAGCGCCTGTCCAGCAATCAAACACTC
1 ATTCCAGCTCCTGTCCAGCAACCAAACACTC
6101688 TCACTCAGAC
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.29, C:0.39, G:0.10, T:0.22
Consensus pattern (33 bp):
ATTCCAGCTCCTGTCCAGCAACCAAACACTCCA
Found at i:6116688 original size:70 final size:69
Alignment explanation
Indices: 6116575--6116704 Score: 224
Period size: 70 Copynumber: 1.9 Consensus size: 69
6116565 GATAGTTTTT
6116575 ATAAATTATGAAATAATATTTGATGTAATAACATAATAAATCATCATTAAATTAAACAAAAAAAT
1 ATAAATTATGAAATAATATTTGATGTAATAACATAATAAATCATCATTAAATTAAA-AAAAAAAT
6116640 ATCTA
65 ATCTA
* **
6116645 ATAAATTATGGAATAATATTTTTTGTAATAACATAATAAATCATCATTAAATTAAAAAAA
1 ATAAATTATGAAATAATATTTGATGTAATAACATAATAAATCATCATTAAATTAAAAAAA
6116705 TTAAAGAATT
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
69 4 0.07
70 53 0.93
ACGTcount: A:0.55, C:0.06, G:0.05, T:0.35
Consensus pattern (69 bp):
ATAAATTATGAAATAATATTTGATGTAATAACATAATAAATCATCATTAAATTAAAAAAAAAATA
TCTA
Found at i:6116719 original size:70 final size:68
Alignment explanation
Indices: 6116573--6116720 Score: 208
Period size: 70 Copynumber: 2.1 Consensus size: 68
6116563 AGGATAGTTT
6116573 TTATAAATTATGAAATAATATTTGATGTAATAACATAATAAATCATCATTAAATTAAACAAAAAA
1 TTATAAATTATGAAATAATATTTGATGTAATAACATAATAAATCATCATTAAATTAAACAAAAAA
*
6116638 ATA
66 AAA
* **
6116641 TCTAATAAATTATGGAATAATATTTTTTGTAATAACATAATAAATCATCATTAAATTAAA-AAAA
1 T-T-ATAAATTATGAAATAATATTTGATGTAATAACATAATAAATCATCATTAAATTAAACAAAA
6116705 TTAAAGAA
64 --AAA-AA
6116713 TTATAAAT
1 TTATAAAT
6116721 AAAATCATCA
Statistics
Matches: 71, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
68 1 0.01
69 5 0.07
70 59 0.83
71 4 0.06
72 2 0.03
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (68 bp):
TTATAAATTATGAAATAATATTTGATGTAATAACATAATAAATCATCATTAAATTAAACAAAAAA
AAA
Found at i:6117646 original size:5 final size:6
Alignment explanation
Indices: 6117631--6117667 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
6117621 TAGGATTCGA
6117631 AAAAAG AAAAAG AAAAAG AAAAAGG AAAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAA-G -AAAAAG AAAAA
6117668 AAATTAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 22 0.76
7 2 0.07
8 5 0.17
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:6117660 original size:8 final size:7
Alignment explanation
Indices: 6117629--6117668 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
6117619 TTTAGGATTC
6117629 GAAAAAA
1 GAAAAAA
6117636 G-AAAAA
1 GAAAAAA
6117642 G-AAAAA
1 GAAAAAA
*
6117648 GAAAAAG
1 GAAAAAA
6117655 GAAAAAA
1 GAAAAAA
6117662 GAAAAAA
1 GAAAAAA
6117669 AATTAAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 12 0.40
7 18 0.60
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:6120210 original size:72 final size:72
Alignment explanation
Indices: 6120093--6120237 Score: 290
Period size: 72 Copynumber: 2.0 Consensus size: 72
6120083 GATCTAATGG
6120093 GATGCAATTTTGAAATCAGTCTTAGGTGTGAGTTTGTGTTTACAGATTGGAATAGTGTGGAGGAT
1 GATGCAATTTTGAAATCAGTCTTAGGTGTGAGTTTGTGTTTACAGATTGGAATAGTGTGGAGGAT
6120158 TGGTTTA
66 TGGTTTA
6120165 GATGCAATTTTGAAATCAGTCTTAGGTGTGAGTTTGTGTTTACAGATTGGAATAGTGTGGAGGAT
1 GATGCAATTTTGAAATCAGTCTTAGGTGTGAGTTTGTGTTTACAGATTGGAATAGTGTGGAGGAT
6120230 TGGTTTA
66 TGGTTTA
6120237 G
1 G
6120238 CAATGCATAG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.25, C:0.06, G:0.31, T:0.39
Consensus pattern (72 bp):
GATGCAATTTTGAAATCAGTCTTAGGTGTGAGTTTGTGTTTACAGATTGGAATAGTGTGGAGGAT
TGGTTTA
Found at i:6141985 original size:71 final size:71
Alignment explanation
Indices: 6141902--6142044 Score: 286
Period size: 71 Copynumber: 2.0 Consensus size: 71
6141892 TTGAATCTTG
6141902 TATTTGTATTTAATTGTAACATATTTGTTTATTTGTAGTAAAAATGTAAACACTAAACTTAATTC
1 TATTTGTATTTAATTGTAACATATTTGTTTATTTGTAGTAAAAATGTAAACACTAAACTTAATTC
6141967 CTAAAA
66 CTAAAA
6141973 TATTTGTATTTAATTGTAACATATTTGTTTATTTGTAGTAAAAATGTAAACACTAAACTTAATTC
1 TATTTGTATTTAATTGTAACATATTTGTTTATTTGTAGTAAAAATGTAAACACTAAACTTAATTC
6142038 CTAAAA
66 CTAAAA
6142044 T
1 T
6142045 TCAATGATTA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.44
Consensus pattern (71 bp):
TATTTGTATTTAATTGTAACATATTTGTTTATTTGTAGTAAAAATGTAAACACTAAACTTAATTC
CTAAAA
Found at i:6147040 original size:8 final size:8
Alignment explanation
Indices: 6147017--6147051 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
6147007 AATTTCAACA
6147017 ATATACAT
1 ATATACAT
*
6147025 ATAGACAT
1 ATATACAT
*
6147033 ACATACAT
1 ATATACAT
6147041 ATATACAT
1 ATATACAT
6147049 ATA
1 ATA
6147052 CATATAGGCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.51, C:0.14, G:0.03, T:0.31
Consensus pattern (8 bp):
ATATACAT
Found at i:6152151 original size:12 final size:12
Alignment explanation
Indices: 6152134--6152158 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6152124 TTAATTATAA
6152134 AAATATTAATAT
1 AAATATTAATAT
6152146 AAATATTAATAT
1 AAATATTAATAT
6152158 A
1 A
6152159 TTTACTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATATTAATAT
Found at i:6156396 original size:21 final size:22
Alignment explanation
Indices: 6156367--6156413 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
6156357 CAGAAGGAGT
*
6156367 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
6156389 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
6156410 GAGT
1 GAGT
6156414 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:6164173 original size:25 final size:25
Alignment explanation
Indices: 6164137--6164198 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
6164127 ACAAATGTGC
*
6164137 TAATC-GATGAGCACTGACATGCTAA
1 TAATCAGA-GAGCACTAACATGCTAA
*
6164162 TAATTAGAGAGCACTAACATGCTAA
1 TAATCAGAGAGCACTAACATGCTAA
6164187 TAATCAGAGAGC
1 TAATCAGAGAGC
6164199 GTGCTAAGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 31 0.94
26 2 0.06
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (25 bp):
TAATCAGAGAGCACTAACATGCTAA
Found at i:6176046 original size:16 final size:16
Alignment explanation
Indices: 6176027--6176074 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
6176017 ATATATTTTT
6176027 AAATTAAAATATAAAA
1 AAATTAAAATATAAAA
* **
6176043 AAATTAAATTAT-ACT
1 AAATTAAAATATAAAA
6176058 AAATTAAAATATAAAA
1 AAATTAAAATATAAAA
6176074 A
1 A
6176075 TTAAATTCTA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATTAAAATATAAAA
Found at i:6176827 original size:15 final size:16
Alignment explanation
Indices: 6176809--6176838 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6176799 TTTTTTATAA
6176809 TTTTATA-ATTTTTAT
1 TTTTATATATTTTTAT
6176824 TTTTATATATTTTTA
1 TTTTATATATTTTTA
6176839 AATTCTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTATATATTTTTAT
Found at i:6176842 original size:24 final size:24
Alignment explanation
Indices: 6176780--6176863 Score: 75
Period size: 22 Copynumber: 3.4 Consensus size: 24
6176770 ACCTATATGA
* *
6176780 TTTATAATTTTTTAA--GTTATTT
1 TTTATAATTTTATAATTTTTATTT
6176802 TTTATAATTTTATAATTTTTATTT
1 TTTATAATTTTATAATTTTTATTT
*
6176826 TTATATATTTTTA-AATTCTATTAGTTT
1 TT-TATAATTTTATAATT-T-TTA-TTT
6176853 TTTAATAATTT
1 TTT-ATAATTT
6176864 AAAAAAAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
22 14 0.27
24 12 0.24
25 10 0.20
26 4 0.08
27 11 0.22
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTATAATTTTATAATTTTTATTT
Found at i:6177198 original size:29 final size:30
Alignment explanation
Indices: 6177166--6177223 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
6177156 AAATGTTATA
*
6177166 ATTTAA-TCACTGAACTATTAAAAATTTTC
1 ATTTAAGTCACTGAACCATTAAAAATTTTC
* *
6177195 ATTTAAGTCATTGAACCATTAAAATTTTT
1 ATTTAAGTCACTGAACCATTAAAAATTTT
6177224 TTATCTAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (30 bp):
ATTTAAGTCACTGAACCATTAAAAATTTTC
Found at i:6186169 original size:21 final size:21
Alignment explanation
Indices: 6186143--6186183 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6186133 ATCTGCTCAA
* *
6186143 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
6186164 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
6186184 TTGCTCGTCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:6189134 original size:47 final size:47
Alignment explanation
Indices: 6189061--6189156 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
6189051 CATTACATGC
* *
6189061 AGACATATATTCGAGGACACTAGTTCACTTTCAATCCTACTGCCATT
1 AGACATAAATTCGAGGACACTAGTTCACTCTCAATCCTACTGCCATT
*
6189108 AGACATAAATTCGAGGACACTGGTTCACTCTCAATCCTACTGCCATT
1 AGACATAAATTCGAGGACACTAGTTCACTCTCAATCCTACTGCCATT
6189155 AG
1 AG
6189157 CAAATTCTTG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (47 bp):
AGACATAAATTCGAGGACACTAGTTCACTCTCAATCCTACTGCCATT
Found at i:6193079 original size:3 final size:3
Alignment explanation
Indices: 6193071--6193509 Score: 97
Period size: 3 Copynumber: 148.0 Consensus size: 3
6193061 AACGAAAACG
* * * * * * *
6193071 ATA ATA ATA ATG ATA ATA TTG ATA ATA ATA ATA GTA GTA AAA ATA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
6193119 ATA AT- ATA GTA ATA GTA ATA AAA AGA A-A AT- ATA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
6193164 ATA ATA ATA AAA AGGT- ATA ATA GT- ATA TTA GATA GTA A-A AAA ATA
1 ATA ATA ATA ATA A--TA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* * * * * *
6193209 AAA ATA A-A ATA ATA ATA ATA ATA GTA ATA A-A AAA ATG ATA ATA GTG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * * *
6193255 ATA TTA GTA GTA ATA GTA ATA A-A GTA ATA GTA ATA AAA ATA GTA CTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
6193302 ATG TTA ATA GTA ATA A-A ATA A-A GAAA ATA AAA ATT GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
* * *
6193346 ATA ATG AT- GTAA ATA ACA ATA TATA CATA ATA TATA TATA AT- ATA
1 ATA ATA ATA AT-A ATA ATA ATA -ATA -ATA ATA -ATA -ATA ATA ATA
* ** * * * * * * * *
6193391 ATG ATA ACG AT- ATGA A-A TTT ATGG GT- TTA ATG CTA A-G ATA ATA
1 ATA ATA ATA ATA AT-A ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
*
6193434 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG A-A ATA ATTCA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-T-A ATA ATA
* * * *
6193480 GTA ATA ATG ACA ATA GTA GA-A ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
6193510 GTATTTGAAT
Statistics
Matches: 304, Mismatches: 101, Indels: 62
0.65 0.22 0.13
Matches are distributed among these distances:
2 28 0.09
3 252 0.83
4 22 0.07
5 2 0.01
ACGTcount: A:0.58, C:0.02, G:0.10, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:6193162 original size:34 final size:35
Alignment explanation
Indices: 6193118--6193303 Score: 140
Period size: 32 Copynumber: 5.5 Consensus size: 35
6193108 TAAAAATAAA
*
6193118 AATAAT-ATAGTAATAGTAATAAAAAGAAAATA-T
1 AATAATAATAGTAATAATAATAAAAAGAAAATAGT
*
6193151 AATAATAATAGTAATAATAATAAAAAGGTATAATAGT
1 AATAATAATAGTAATAATAATAAAAA-G-AAAATAGT
* * * *
6193188 -ATATTAGATAGTAA-AAAAATAAAAATAAAATAAT
1 AATAATA-ATAGTAATAATAATAAAAAGAAAATAGT
* *
6193222 AATAATAATAGTAAT-A-AA-AAAATGATAATAGT
1 AATAATAATAGTAATAATAATAAAAAGAAAATAGT
* * * * *
6193254 GATATTAGTAGTAATAGTAAT--AAAG-TAATAGT
1 AATAATAATAGTAATAATAATAAAAAGAAAATAGT
* *
6193286 AATAAAAATAGTACTAAT
1 AATAATAATAGTAATAAT
6193304 GTTAATAGTA
Statistics
Matches: 120, Mismatches: 23, Indels: 21
0.73 0.14 0.13
Matches are distributed among these distances:
32 41 0.34
33 11 0.09
34 34 0.28
35 6 0.05
36 20 0.17
37 8 0.07
ACGTcount: A:0.60, C:0.01, G:0.10, T:0.29
Consensus pattern (35 bp):
AATAATAATAGTAATAATAATAAAAAGAAAATAGT
Found at i:6193223 original size:65 final size:67
Alignment explanation
Indices: 6193130--6193269 Score: 189
Period size: 65 Copynumber: 2.1 Consensus size: 67
6193120 TAATATAGTA
* * * **
6193130 ATAGTAATAAAAAGAAAATATAATAATAATAGTAATAATAATAAAAAGGT-ATAATAGT-ATATT
1 ATAGTAATAAAAAAAAAATAAAATAATAATAATAATAATAATAAAAAAATGATAATAGTGATATT
6193193 AG
66 AG
*
6193195 ATAGTAA-AAAAATAAAAATAAAATAATAATAATAATAGTAATAAAAAAATGATAATAGTGATAT
1 ATAGTAATAAAAA-AAAAATAAAATAATAATAATAATAATAATAAAAAAATGATAATAGTGATAT
6193259 TAG
65 TAG
6193262 -TAGTAATA
1 ATAGTAATA
6193270 GTAATAAAGT
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
64 5 0.08
65 38 0.58
66 14 0.22
67 8 0.12
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (67 bp):
ATAGTAATAAAAAAAAAATAAAATAATAATAATAATAATAATAAAAAAATGATAATAGTGATATT
AG
Found at i:6193316 original size:41 final size:41
Alignment explanation
Indices: 6193265--6193344 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
6193255 ATATTAGTAG
* * *
6193265 TAATAGTAATAAAGTAATAG-TAATAAAAATAGTACTAATGT
1 TAATAGTAATAAAATAA-AGAAAATAAAAATAGTAATAATGT
*
6193306 TAATAGTAATAAAATAAAGAAAATAAAAATTGTAATAAT
1 TAATAGTAATAAAATAAAGAAAATAAAAATAGTAATAAT
6193345 AATAATGATG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 2 0.06
41 32 0.94
ACGTcount: A:0.59, C:0.01, G:0.10, T:0.30
Consensus pattern (41 bp):
TAATAGTAATAAAATAAAGAAAATAAAAATAGTAATAATGT
Found at i:6193321 original size:26 final size:26
Alignment explanation
Indices: 6193214--6193319 Score: 83
Period size: 26 Copynumber: 4.1 Consensus size: 26
6193204 AAATAAAAAT
*
6193214 AAAATAATAAT-AA-TAATAGTAATA
1 AAAATAGTAATAAAGTAATAGTAATA
* * * * *
6193238 AAAA-AATGATAATAGTGATATTAGTA
1 AAAATAGTAATAA-AGTAATAGTAATA
**
6193264 GTAATAGTAATAAAGTAATAGTAATA
1 AAAATAGTAATAAAGTAATAGTAATA
* *
6193290 AAAATAGTACTAATGTTAATAGTAATA
1 AAAATAGTAATAAAG-TAATAGTAATA
6193317 AAA
1 AAA
6193320 TAAAGAAAAT
Statistics
Matches: 62, Mismatches: 15, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
23 5 0.08
24 5 0.08
25 1 0.02
26 31 0.50
27 20 0.32
ACGTcount: A:0.58, C:0.01, G:0.11, T:0.30
Consensus pattern (26 bp):
AAAATAGTAATAAAGTAATAGTAATA
Found at i:6195191 original size:68 final size:68
Alignment explanation
Indices: 6195051--6195859 Score: 1065
Period size: 68 Copynumber: 11.9 Consensus size: 68
6195041 TTACTTGCTA
* * *
6195051 AAACTTCAAGGAGATCTGCTGTGGCTTCTAACTGCT-CAATGCCATTTCAGGGAGAAGAGATCCA
1 AAACTTCAAGGAGATCTGCTGTGGCTTCTAACCGCTCCAACGCCATTTCAGGGAGAAGAGATCCG
6195115 CTG
66 CTG
6195118 AAACTTCAAGGAGATCTGCTGTGGCTTCTAACCGCTCCAACGCCATTTCAGGGAGAAGAGATCCG
1 AAACTTCAAGGAGATCTGCTGTGGCTTCTAACCGCTCCAACGCCATTTCAGGGAGAAGAGATCCG
6195183 CTG
66 CTG
* * * *
6195186 AAACTTCAAAGAGATCTACTGTGGCTTCTAGCCACTCCAACGCCATTTCAGGGAGAAGAGATCCG
1 AAACTTCAAGGAGATCTGCTGTGGCTTCTAACCGCTCCAACGCCATTTCAGGGAGAAGAGATCCG
*
6195251 TTG
66 CTG
* * * * *
6195254 AAACTTTAAGGAGATCTACTGTGGCTTC-AAGCCGCTCCAATGCCATTTCAGGAAGAAGAGATCT
1 AAACTTCAAGGAGATCTGCTGTGGCTTCTAA-CCGCTCCAACGCCATTTCAGGGAGAAGAGATCC
6195318 GCTG
65 GCTG
* * * * *
6195322 AAACTTCAAGGAGATCTGCTGTGGCTT-AAAGCCACTCCAACTCCATTTCAGGGAGAAGTGATCA
1 AAACTTCAAGGAGATCTGCTGTGGCTTCTAA-CCGCTCCAACGCCATTTCAGGGAGAAGAGATCC
**
6195386 ATTG
65 GCTG
* * * *
6195390 AAACTTCAAGGAGATCTGCTGTGGATTC-AAGCCGTTCCAACGCCATTTCAAGGAGAAGAGGTCC
1 AAACTTCAAGGAGATCTGCTGTGGCTTCTAA-CCGCTCCAACGCCATTTCAGGGAGAAGAGATCC
* *
6195454 ACTA
65 GCTG
* * * **
6195458 AAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACACCATTTCAGAGAGAAGAGATCTA
1 AAACTTCAAGGAGATCTGCTGTGGCTTCTAACCGCTCCAACGCCATTTCAGGGAGAAGAGATCCG
6195523 CTG
66 CTG
* ** *
6195526 AAACTTCAAGGAGATCTGCTGTAGCTTCTAGTCGCTCCAACGCCATTTCAGGGAGAAGAGATTCG
1 AAACTTCAAGGAGATCTGCTGTGGCTTCTAACCGCTCCAACGCCATTTCAGGGAGAAGAGATCCG
6195591 CTG
66 CTG
* * * *
6195594 AAACTTTAAGGAGATCTGCTGTGGC-TCAAAGCCGCTCCAACGTCATTTTAGGGAGAAGAGATCC
1 AAACTTCAAGGAGATCTGCTGTGGCTTCTAA-CCGCTCCAACGCCATTTCAGGGAGAAGAGATCC
6195658 GCTG
65 GCTG
* * * *
6195662 AAACTTCAAGGAGATTTGCTGTGGCTT-TAAGCCGCTCCAACTCTATTTTAGGGAGAAGAGATCC
1 AAACTTCAAGGAGATCTGCTGTGGCTTCTAA-CCGCTCCAACGCCATTTCAGGGAGAAGAGATCC
6195726 GCTG
65 GCTG
* * * * *
6195730 AAACTTCAAGAAGATCTGCTGTGGCTTCTAGCCGCTCCAACACCATTTCAGGGAGAAGAAATCTG
1 AAACTTCAAGGAGATCTGCTGTGGCTTCTAACCGCTCCAACGCCATTTCAGGGAGAAGAGATCCG
6195795 CTG
66 CTG
* *
6195798 AAACTTCATA-GAGATCTGCTGTGGCTTCAAACCGCTCCAACGCCATTTCAAGGAGAAGAGAT
1 AAACTTCA-AGGAGATCTGCTGTGGCTTCTAACCGCTCCAACGCCATTTCAGGGAGAAGAGAT
6195860 TTGTAATTCC
Statistics
Matches: 653, Mismatches: 80, Indels: 17
0.87 0.11 0.02
Matches are distributed among these distances:
67 39 0.06
68 609 0.93
69 5 0.01
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.24
Consensus pattern (68 bp):
AAACTTCAAGGAGATCTGCTGTGGCTTCTAACCGCTCCAACGCCATTTCAGGGAGAAGAGATCCG
CTG
Found at i:6196024 original size:88 final size:88
Alignment explanation
Indices: 6195856--6196343 Score: 681
Period size: 88 Copynumber: 5.5 Consensus size: 88
6195846 CAAGGAGAAG
* ** * ** * * *
6195856 AGATTTGTAATTCCCAGCCTGTTACCCTA-TCGCTTAGTGGGTTAAGGCTTACCGTATTTGATCT
1 AGATCTGTAATTTTCAGCCTGTTACCCTACT-GCTTAGGGGGTTAAGGCCCATCGTCTTCGATCT
* * * * **
6195920 ACTCCACTATTACTTAGAGAGGTA
65 GCTCCACTACTGCTTAGGGAGACA
** * * *
6195944 AGATCTAAAATTTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCATCGTCTTTGATCTG
1 AGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGTCTTCGATCTG
*
6196009 CTCCACTACTGCTTAGGGAGACG
66 CTCCACTACTGCTTAGGGAGACA
* *
6196032 AGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCGTCTTCGATCTT
1 AGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGTCTTCGATCTG
6196097 CTCCACTACTGCTTAGGGAGACA
66 CTCCACTACTGCTTAGGGAGACA
* * * *
6196120 AGATCTGTAATTTTCAGCCTGTTACCCTACTACTTAAGGGGTTTAGGCCCTTCGTCTTCGATCTG
1 AGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGTCTTCGATCTG
6196185 CTCCACTACTGCTTAGGGAGACA
66 CTCCACTACTGCTTAGGGAGACA
* * *
6196208 AGATATGTAATTTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGATCTG
1 AGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGTCTTCGATCTG
6196273 CTCCACTACTGCTTAGGGAGACA
66 CTCCACTACTGCTTAGGGAGACA
*
6196296 AGATCTGTAATTTTCAGTCTGTTACCCTACTGCTTAGGGGGTTAAGGC
1 AGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
6196344 TTACGAATTC
Statistics
Matches: 360, Mismatches: 39, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
88 359 1.00
89 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (88 bp):
AGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGTCTTCGATCTG
CTCCACTACTGCTTAGGGAGACA
Found at i:6196062 original size:44 final size:44
Alignment explanation
Indices: 6196014--6196334 Score: 162
Period size: 44 Copynumber: 7.3 Consensus size: 44
6196004 ATCTGCTCCA
* *
6196014 CTACTGCTTAGGGAGACGAGATCTGTAATTTTCAGCCTGTTACC
1 CTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGTCTGTTACC
* * ** ** *
6196058 CTACTGCTTAGGGGGTTA-AAG-CCCATCGTCTTC-GATCT-TCT-CC
1 CTACTGCTTAGGGAG--ACAAGATCTGTAATTTTCAG-TCTGT-TACC
*
6196101 ACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACC
1 -CTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGTCTGTTACC
* ** * ** ** * *
6196146 CTACTACTTAAGGG-GTTTAGGCCCT-TCGTCTTC-GATCTGCT-CC
1 CTACTGCTT-AGGGAG-ACAAGATCTGTAATTTTCAG-TCTGTTACC
* * *
6196189 ACTACTGCTTAGGGAGACAAGATATGTAATTTTTAGCCTGTTACC
1 -CTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGTCTGTTACC
* ** ** ** * *
6196234 CTACTGCTTAGGGGGTTAAGGCCCT-TCGTCTTC-GATCTGCT-CC
1 CTACTGCTTAGGGAGACAA-GATCTGTAATTTTCAG-TCTGTTACC
6196277 ACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGTCTGTTACC
1 -CTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGTCTGTTACC
6196322 CTACTGCTTAGGG
1 CTACTGCTTAGGG
6196335 GGTTAAGGCT
Statistics
Matches: 191, Mismatches: 62, Indels: 48
0.63 0.21 0.16
Matches are distributed among these distances:
42 1 0.01
43 23 0.12
44 144 0.75
45 22 0.12
46 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.33
Consensus pattern (44 bp):
CTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGTCTGTTACC
Found at i:6200102 original size:22 final size:22
Alignment explanation
Indices: 6200059--6200102 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
6200049 GCAGCACTAC
* *
6200059 TTTAAGTTCTTCTATCTTCTCT
1 TTTAAGTTCTTCAATCTGCTCT
6200081 TTTAA-TTCTTCAATTCTGCTCT
1 TTTAAGTTCTTCAA-TCTGCTCT
6200103 GACTAGCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.16, C:0.23, G:0.05, T:0.57
Consensus pattern (22 bp):
TTTAAGTTCTTCAATCTGCTCT
Found at i:6203584 original size:3 final size:3
Alignment explanation
Indices: 6203576--6203855 Score: 96
Period size: 3 Copynumber: 95.7 Consensus size: 3
6203566 AACGAAAACG
* * * * * * *
6203576 ATA ATA ATA ATG ATA ATA TTG ATA ATA ATA ATA GTA GTA AAA ATA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
6203624 ATA AT- ATA GTA ATA GTA ATA AAA AGA A-A AT- ATA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
6203669 ATA ATA ATA AAA AGGT- ATA ATA GT- ATA TTA GATA GTA A-A AAA ATA
1 ATA ATA ATA ATA A--TA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* * * * * *
6203714 AAA ATA A-A ATA ATA ATA ATA ATA GTA ATA A-A AAA ATG ATA ATA GTG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * * *
6203760 ATA TTA GTA GTA ATA GTA ATA A-A GTA ATA GTA ATA AAA ATA GTA CTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
6203807 ATG TTA ATA GTA ATA A-A ATA A-A GAAA ATA AAA ATT GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
6203851 ATA AT
1 ATA AT
6203856 GATGTAAATA
Statistics
Matches: 195, Mismatches: 67, Indels: 30
0.67 0.23 0.10
Matches are distributed among these distances:
2 18 0.09
3 173 0.89
4 4 0.02
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:6203667 original size:34 final size:35
Alignment explanation
Indices: 6203623--6203808 Score: 140
Period size: 32 Copynumber: 5.5 Consensus size: 35
6203613 TAAAAATAAA
*
6203623 AATAAT-ATAGTAATAGTAATAAAAAGAAAATA-T
1 AATAATAATAGTAATAATAATAAAAAGAAAATAGT
*
6203656 AATAATAATAGTAATAATAATAAAAAGGTATAATAGT
1 AATAATAATAGTAATAATAATAAAAA-G-AAAATAGT
* * * *
6203693 -ATATTAGATAGTAA-AAAAATAAAAATAAAATAAT
1 AATAATA-ATAGTAATAATAATAAAAAGAAAATAGT
* *
6203727 AATAATAATAGTAAT-A-AA-AAAATGATAATAGT
1 AATAATAATAGTAATAATAATAAAAAGAAAATAGT
* * * * *
6203759 GATATTAGTAGTAATAGTAAT--AAAG-TAATAGT
1 AATAATAATAGTAATAATAATAAAAAGAAAATAGT
* *
6203791 AATAAAAATAGTACTAAT
1 AATAATAATAGTAATAAT
6203809 GTTAATAGTA
Statistics
Matches: 120, Mismatches: 23, Indels: 21
0.73 0.14 0.13
Matches are distributed among these distances:
32 41 0.34
33 11 0.09
34 34 0.28
35 6 0.05
36 20 0.17
37 8 0.07
ACGTcount: A:0.60, C:0.01, G:0.10, T:0.29
Consensus pattern (35 bp):
AATAATAATAGTAATAATAATAAAAAGAAAATAGT
Found at i:6203728 original size:65 final size:67
Alignment explanation
Indices: 6203635--6203774 Score: 189
Period size: 65 Copynumber: 2.1 Consensus size: 67
6203625 TAATATAGTA
* * * **
6203635 ATAGTAATAAAAAGAAAATATAATAATAATAGTAATAATAATAAAAAGGT-ATAATAGT-ATATT
1 ATAGTAATAAAAAAAAAATAAAATAATAATAATAATAATAATAAAAAAATGATAATAGTGATATT
6203698 AG
66 AG
*
6203700 ATAGTAA-AAAAATAAAAATAAAATAATAATAATAATAGTAATAAAAAAATGATAATAGTGATAT
1 ATAGTAATAAAAA-AAAAATAAAATAATAATAATAATAATAATAAAAAAATGATAATAGTGATAT
6203764 TAG
65 TAG
6203767 -TAGTAATA
1 ATAGTAATA
6203775 GTAATAAAGT
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
64 5 0.08
65 38 0.58
66 14 0.22
67 8 0.12
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (67 bp):
ATAGTAATAAAAAAAAAATAAAATAATAATAATAATAATAATAAAAAAATGATAATAGTGATATT
AG
Found at i:6203821 original size:41 final size:41
Alignment explanation
Indices: 6203770--6203849 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
6203760 ATATTAGTAG
* * *
6203770 TAATAGTAATAAAGTAATAG-TAATAAAAATAGTACTAATGT
1 TAATAGTAATAAAATAA-AGAAAATAAAAATAGTAATAATGT
*
6203811 TAATAGTAATAAAATAAAGAAAATAAAAATTGTAATAAT
1 TAATAGTAATAAAATAAAGAAAATAAAAATAGTAATAAT
6203850 AATAATGATG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 2 0.06
41 32 0.94
ACGTcount: A:0.59, C:0.01, G:0.10, T:0.30
Consensus pattern (41 bp):
TAATAGTAATAAAATAAAGAAAATAAAAATAGTAATAATGT
Found at i:6203826 original size:26 final size:26
Alignment explanation
Indices: 6203719--6203824 Score: 83
Period size: 26 Copynumber: 4.1 Consensus size: 26
6203709 AAATAAAAAT
*
6203719 AAAATAATAAT-AA-TAATAGTAATA
1 AAAATAGTAATAAAGTAATAGTAATA
* * * * *
6203743 AAAA-AATGATAATAGTGATATTAGTA
1 AAAATAGTAATAA-AGTAATAGTAATA
**
6203769 GTAATAGTAATAAAGTAATAGTAATA
1 AAAATAGTAATAAAGTAATAGTAATA
* *
6203795 AAAATAGTACTAATGTTAATAGTAATA
1 AAAATAGTAATAAAG-TAATAGTAATA
6203822 AAA
1 AAA
6203825 TAAAGAAAAT
Statistics
Matches: 62, Mismatches: 15, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
23 5 0.08
24 5 0.08
25 1 0.02
26 31 0.50
27 20 0.32
ACGTcount: A:0.58, C:0.01, G:0.11, T:0.30
Consensus pattern (26 bp):
AAAATAGTAATAAAGTAATAGTAATA
Found at i:6203941 original size:3 final size:3
Alignment explanation
Indices: 6203933--6204008 Score: 66
Period size: 3 Copynumber: 25.0 Consensus size: 3
6203923 TAATGCTAAG
*
6203933 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG A-A ATA ATTCA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-T-A ATA ATA
* * * *
6203979 GTA ATA ATG ACA ATA GTA GA-A ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
6204009 GTATTTGAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
2 2 0.03
3 52 0.90
4 2 0.03
5 2 0.03
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:6222180 original size:164 final size:164
Alignment explanation
Indices: 6221786--6222276 Score: 830
Period size: 161 Copynumber: 3.0 Consensus size: 164
6221776 AAACCAAATG
*
6221786 TAAAAGAAAAAAAGTTTTTTGGGGGAGAAAGTTATTGTAAAGGATTTTTGAGAGTTTTTTTGAGA
1 TAAAA-AAAAAAAGGTTTTTGGGGGAGAAAGTTATTGTAAAGGATTTTTGAGAGTTTTTTTGAGA
*
6221851 GTAATCAAGGAGAAGAGTTATTGTAAGGGCTAGTTTTTGGAGAGGCTAGTTTTTTTTTTGGAGAT
65 GTAATCAAGGAGAAGAGTTATTGTAAAGGCTAGTTTTTGGAGAGGCTAGTTTTTTTTTTGGAGAT
*
6221916 TAATCAAAGATTAAAGCAAAAGAGGTTTCTTTGTC
130 TAATCAAAGATCAAAGCAAAAGAGGTTTCTTTGTC
*
6221951 T---AAAAAAAA-GTTTTTGGGGGGAGAAAGTTATTGTAAAGGATTTTTGAGAGTTTTTTTTAGA
1 TAAAAAAAAAAAGGTTTTT-GGGGGAGAAAGTTATTGTAAAGGATTTTTGAGAGTTTTTTTGAGA
6222012 GTAATCAAGGAGAAGAGTTATTGTAAAGGCTAGTTTTTGGAGAGGCTAGTTTTTTTTTTGGAGAT
65 GTAATCAAGGAGAAGAGTTATTGTAAAGGCTAGTTTTTGGAGAGGCTAGTTTTTTTTTTGGAGAT
* * * *
6222077 TAATCAAAAATCAAAGTAAAAAATGTTTCTTTGTC
130 TAATCAAAGATCAAAGCAAAAGAGGTTTCTTTGTC
* *
6222112 TAAAAAAAAAAAGGTTTTTGGGGGAGAAAGTTATTGTAAAGGATTTTTGAGAGGTTTTTTGGGAG
1 TAAAAAAAAAAAGGTTTTTGGGGGAGAAAGTTATTGTAAAGGATTTTTGAGAGTTTTTTTGAGAG
*
6222177 TAATCAAGGAGAAGAGTTATTGTAAAGGCTAATTTTTGGAGAGGCTAG-TTTTTTTTTGGAGATT
66 TAATCAAGGAGAAGAGTTATTGTAAAGGCTAGTTTTTGGAGAGGCTAGTTTTTTTTTTGGAGATT
6222241 AATCAAAGATCAAAGCAAAAGAGGTTTCTTTGTC
131 AATCAAAGATCAAAGCAAAAGAGGTTTCTTTGTC
6222275 TA
1 TA
6222277 TTCTCGTTTT
Statistics
Matches: 305, Mismatches: 16, Indels: 12
0.92 0.05 0.04
Matches are distributed among these distances:
160 5 0.02
161 146 0.48
162 1 0.00
163 48 0.16
164 98 0.32
165 7 0.02
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.36
Consensus pattern (164 bp):
TAAAAAAAAAAAGGTTTTTGGGGGAGAAAGTTATTGTAAAGGATTTTTGAGAGTTTTTTTGAGAG
TAATCAAGGAGAAGAGTTATTGTAAAGGCTAGTTTTTGGAGAGGCTAGTTTTTTTTTTGGAGATT
AATCAAAGATCAAAGCAAAAGAGGTTTCTTTGTC
Found at i:6222540 original size:22 final size:22
Alignment explanation
Indices: 6222495--6222543 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
6222485 CCTTTTTTGT
*
6222495 TATTATTATATTCTTAATATTA
1 TATTATTATATTCTTAATAATA
*
6222517 TATTATATATATTCTT-TTAATA
1 TATTAT-TATATTCTTAATAATA
6222539 TATTA
1 TATTA
6222544 GGTATATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (22 bp):
TATTATTATATTCTTAATAATA
Found at i:6222549 original size:22 final size:23
Alignment explanation
Indices: 6222501--6222555 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
6222491 TTGTTATTAT
* *
6222501 TATATTCTTAATATTATATTATA
1 TATATTCTTAATAATATATTAGA
* *
6222524 TATATTCTT-TTAATATATTAGG
1 TATATTCTTAATAATATATTAGA
6222546 TATATT-TTAA
1 TATATTCTTAA
6222556 ATTCTATATT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 2 0.08
22 15 0.58
23 9 0.35
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (23 bp):
TATATTCTTAATAATATATTAGA
Found at i:6222619 original size:25 final size:25
Alignment explanation
Indices: 6222501--6222717 Score: 103
Period size: 25 Copynumber: 8.7 Consensus size: 25
6222491 TTGTTATTAT
*
6222501 TATATTCTTAATATTATATTA--TA
1 TATATTTTTAATATTATATTATGTA
* *
6222524 TATATTCTTT--TAATATATTA-G-G
1 TATATT-TTTAATATTATATTATGTA
* *
6222546 TATATTTTAAAT-TCTATATTACGTA
1 TATATTTTTAATAT-TATATTATGTA
** * *
6222571 TATATATATTTTGTACTATTTTATGTA
1 TATAT-T-TTTAATATTATATTATGTA
* *
6222598 TATATCTTTAATATTATATTATTTA
1 TATATTTTTAATATTATATTATGTA
* *
6222623 TATATTTTTTTTCTACATGTTATCTTATGTA
1 TATA----TTTT-TA-ATATTATATTATGTA
* *
6222654 TATA-TCTT-A-ACTATATTATGTA
1 TATATTTTTAATATTATATTATGTA
* * *
6222676 TGTATTTTTAACACTATATTATGTA
1 TATATTTTTAATATTATATTATGTA
*
6222701 CATATTTTTAATATTAT
1 TATATTTTTAATATTAT
6222718 CACGTATTTA
Statistics
Matches: 143, Mismatches: 32, Indels: 36
0.68 0.15 0.17
Matches are distributed among these distances:
21 2 0.01
22 28 0.20
23 18 0.13
24 4 0.03
25 50 0.35
26 3 0.02
27 17 0.12
29 3 0.02
30 2 0.01
31 16 0.11
ACGTcount: A:0.33, C:0.06, G:0.05, T:0.56
Consensus pattern (25 bp):
TATATTTTTAATATTATATTATGTA
Found at i:6222716 original size:20 final size:20
Alignment explanation
Indices: 6222691--6222749 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
6222681 TTTTAACACT
6222691 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
** *
6222711 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTA
6222734 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
6222750 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:6222884 original size:8 final size:8
Alignment explanation
Indices: 6222873--6222916 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
6222863 ATTATTCTAT
*
6222873 TATTTTGA
1 TATTTTAA
6222881 TATTTTAA
1 TATTTTAA
6222889 TA-TTTAA
1 TATTTTAA
6222896 TATTTTATA
1 TATTTTA-A
*
6222905 TATTTTAT
1 TATTTTAA
6222913 TATT
1 TATT
6222917 CACATCATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 7 0.22
8 17 0.53
9 8 0.25
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (8 bp):
TATTTTAA
Found at i:6222892 original size:16 final size:17
Alignment explanation
Indices: 6222873--6222916 Score: 56
Period size: 15 Copynumber: 2.7 Consensus size: 17
6222863 ATTATTCTAT
*
6222873 TATTTTGATATTTTA-A
1 TATTTTAATATTTTATA
6222889 TA-TTTAATATTTTATA
1 TATTTTAATATTTTATA
*
6222905 TATTTTATTATT
1 TATTTTAATATT
6222917 CACATCATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 11 0.46
16 5 0.21
17 8 0.33
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (17 bp):
TATTTTAATATTTTATA
Found at i:6222892 original size:24 final size:25
Alignment explanation
Indices: 6222865--6222917 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
6222855 TAATTATTAT
*
6222865 TATTCTATTATTTT-GATATTTTAA
1 TATTCTAATATTTTAGATATTTTAA
* *
6222889 TATT-TAATATTTTATATATTTTAT
1 TATTCTAATATTTTAGATATTTTAA
6222913 TATTC
1 TATTC
6222918 ACATCATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (25 bp):
TATTCTAATATTTTAGATATTTTAA
Found at i:6227616 original size:4 final size:4
Alignment explanation
Indices: 6227597--6227632 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
6227587 CTTATGTTTG
*
6227597 AATA AATA ATTAA AATA AATA AATA AATA AATA AAT
1 AATA AATA AAT-A AATA AATA AATA AATA AATA AAT
6227633 GAAGGTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 26 0.90
5 3 0.10
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
AATA
Found at i:6243605 original size:3 final size:3
Alignment explanation
Indices: 6243597--6243741 Score: 65
Period size: 3 Copynumber: 47.0 Consensus size: 3
6243587 ATAATTGTAA
* * * * * *
6243597 AAT AAT AAT AGT GAAA AAT AAT AGT AAT AAT GAT GTAT AAA AAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
* * * * * * * *
6243644 AGT AAT AAA AAT AGT AAC GAT AAT AAT AAC ATAT AAT AGT AAG AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
* * * * * *
6243690 AAT AAC AAT TAT ATAT AAT AGT AAG AAT AAT AAT AAC AAT GAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
6243736 ATT AAT
1 AAT AAT
6243742 TAGTAATCCA
Statistics
Matches: 97, Mismatches: 41, Indels: 8
0.66 0.28 0.05
Matches are distributed among these distances:
3 89 0.92
4 8 0.08
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:6243627 original size:22 final size:25
Alignment explanation
Indices: 6243583--6243651 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
6243573 TATGGTATAT
* *
6243583 AAAAATAATTGTAAAATAATAATAGT-G
1 AAAAATAATAGT--AATAATGAT-GTAG
*
6243610 AAAAATAATAGTAATAATGATGTAT
1 AAAAATAATAGTAATAATGATGTAG
6243635 AAAAATAATAGTAATAA
1 AAAAATAATAGTAATAA
6243652 AAATAGTAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 2 0.05
25 25 0.66
27 11 0.29
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (25 bp):
AAAAATAATAGTAATAATGATGTAG
Found at i:6245373 original size:133 final size:133
Alignment explanation
Indices: 6245200--6245475 Score: 392
Period size: 133 Copynumber: 2.1 Consensus size: 133
6245190 TACTGCTTAG
* *
6245200 GGAGATAAGATCTAAAATTTTCAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGACTTGTATCTT
1 GGAGATAAGATCTAAAATTTTCAGTCTGCTTCCTTCCTACCTCAAGAAAATAAGACTTGTATCTT
* * * * * *
6245265 CGACCTGCTCTCTTGCTACCTCAGAA-AGACAAGGCCGGTGGCTAAAATCTGCTCTATAGCCGAT
66 CAACCTGCTCTCTTGCTACCTCA-AAGAGACAAGGCCGATAGCTAAAATCTACTCCATAACCGAT
6245329 ACAT
130 ACAT
** * * *
6245333 GGAGATAAGATCTGTAATTTTTAGTCTGCTTCCTTCCTACCTCAGGAAAATGAGACTTGTATCTT
1 GGAGATAAGATCTAAAATTTTCAGTCTGCTTCCTTCCTACCTCAAGAAAATAAGACTTGTATCTT
* *
6245398 CAACCTGCTCTCTTGCTACCTCAAAGAGATAAGGCTGATAGCTAAAATCTACTCCATAACCGATA
66 CAACCTGCTCTCTTGCTACCTCAAAGAGACAAGGCCGATAGCTAAAATCTACTCCATAACCGATA
6245463 CAT
131 CAT
*
6245466 AGAGATAAGA
1 GGAGATAAGA
6245476 CTCACCATTT
Statistics
Matches: 126, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
132 2 0.02
133 124 0.98
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (133 bp):
GGAGATAAGATCTAAAATTTTCAGTCTGCTTCCTTCCTACCTCAAGAAAATAAGACTTGTATCTT
CAACCTGCTCTCTTGCTACCTCAAAGAGACAAGGCCGATAGCTAAAATCTACTCCATAACCGATA
CAT
Found at i:6245530 original size:178 final size:178
Alignment explanation
Indices: 6245311--6246072 Score: 1003
Period size: 178 Copynumber: 4.3 Consensus size: 178
6245301 GGTGGCTAAA
* * *
6245311 ATCTGCTCTATAGCCGATACATGGAGATAAGATCTGTAATTTTTAGTCTGCTTCCTTCCTACCTC
1 ATCTACTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTCCTACCTC
* * * * *
6245376 AGGAAAATGAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAAAGAGATAAGGCTGATAGCT
66 AGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCT
* * *
6245441 AAAATCTACTCCATAACCGATACATAGAGATAAGACTCACCATTTTCG
131 AAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCATTTTCG
* *
6245489 ATCTACTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAATCTGCTTCCTTGCTACCTC
1 ATCTACTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTCCTACCTC
6245554 AGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCT
66 AGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCT
*
6245619 AAAATCTGCTCCATAGCCAATACATAGAGATAAGACTCGCCA-TTTCTG
131 AAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCATTTTC-G
*
6245667 ATCTACTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTACTACCTC
1 ATCTACTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTCCTACCTC
* * * * *
6245732 AGGAATATAGGACTTGTATCTTCAACTTGCTCTCTTGCTACCTTAGAGAAATAAGGCTGGTGGCT
66 AGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCT
* * * **
6245797 AAAATCTGTTCCATAGCCGATACATGGAGATAAGACTCGTCATTTTTT
131 AAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCATTTTCG
* * * * * * * *
6245845 ATCTTCTCTATAGCCAATACATAGAGATAAGATATGTAATTTTTAGCCTG-TTAC--CCTACTGC
1 ATCTACTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTCCTAC--C
* * * ** * *
6245907 TTAGGTAGATAAGGCTCATCGTCTTCAACCTACTCTCTTGCTACCTCAGAGAGATAAGG-TCGGT
64 TCAGGAAGATAAGACTTGT-ATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCT-GGT
* * * * * *
6245971 GGCTAAAATCTGTTCCATAGTCGATATATGGAGATAAGACTTGCCATTTCCG
127 GGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCATTTTCG
* * *
6246023 ATCTGCTCAATAGCCGATACATGGAGATAAGATCTATAATTTTCAGTCTG
1 ATCTACTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTG
6246073 TTATCCTACT
Statistics
Matches: 515, Mismatches: 63, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
175 4 0.01
177 21 0.04
178 487 0.95
179 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (178 bp):
ATCTACTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTCCTACCTC
AGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCT
AAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCATTTTCG
Found at i:6245531 original size:45 final size:44
Alignment explanation
Indices: 6245443--6245537 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 44
6245433 TGATAGCTAA
6245443 AATCTACTCCATAACCGATACATAGAGATAAGACTCACCATTTTC
1 AATCTACTCCATAACCGATACATAGAGATAAGACTCA-CATTTTC
* * * *
6245488 GATCTACTCCATAGCCGATACATGGAGATAAGATCTGTA-ATTTTC
1 AATCTACTCCATAACCGATACATAGAGATAAGA-CT-CACATTTTC
6245533 AATCT
1 AATCT
6245538 GCTTCCTTGC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
45 40 0.93
46 2 0.05
47 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (44 bp):
AATCTACTCCATAACCGATACATAGAGATAAGACTCACATTTTC
Found at i:6245584 original size:44 final size:45
Alignment explanation
Indices: 6245512--6245608 Score: 121
Period size: 44 Copynumber: 2.2 Consensus size: 45
6245502 CCGATACATG
* *
6245512 GAGATAAGATCTGTAATTTTCAATCTGCT-TCCTTGCTACCTCAG-
1 GAGATAAGATCTGTAATCTTCAACCTGCTCT-CTTGCTACCTCAGA
6245556 GAAGATAAGA-CTTGT-ATCTTCAACCTGCTCTCTTGCTACCTCAGA
1 G-AGATAAGATC-TGTAATCTTCAACCTGCTCTCTTGCTACCTCAGA
6245601 GAGATAAG
1 GAGATAAG
6245609 GCTGGTGGCT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
44 34 0.72
45 13 0.28
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.32
Consensus pattern (45 bp):
GAGATAAGATCTGTAATCTTCAACCTGCTCTCTTGCTACCTCAGA
Found at i:6251768 original size:65 final size:62
Alignment explanation
Indices: 6251694--6251830 Score: 154
Period size: 65 Copynumber: 2.2 Consensus size: 62
6251684 TATGCACATA
* ** *
6251694 TGGTTCGAATATATATATTTAAAGTTC-TTGAGCTGAA-TTTAATGTATG-AATTTTACTTACAT
1 TGGTTCGAATATAGAT-TACAAA-TTCTTTGAGCTGAATTTTAATGT-TGTAA-ATTA--TACAT
6251756 ATG
60 ATG
*
6251759 TGGTTCGAATATAGGTTACAAATTCTTTGAGCTGAATTTTAATGTTGTAAATTATACATATG
1 TGGTTCGAATATAGATTACAAATTCTTTGAGCTGAATTTTAATGTTGTAAATTATACATATG
6251821 TGGTTCGAAT
1 TGGTTCGAAT
6251831 GTTTGTTTGC
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
62 18 0.28
63 3 0.05
64 19 0.30
65 24 0.38
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (62 bp):
TGGTTCGAATATAGATTACAAATTCTTTGAGCTGAATTTTAATGTTGTAAATTATACATATG
Found at i:6252002 original size:41 final size:41
Alignment explanation
Indices: 6251945--6252226 Score: 370
Period size: 41 Copynumber: 6.9 Consensus size: 41
6251935 TATATGAGAT
*
6251945 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
*
6251986 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
*
6252027 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
6252068 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
* * * *
6252109 TTTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
* * * * * *
6252150 ATTCCGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAAATGA
1 TTTCAGGCTTAATGCCTAGCAGGC-TTGATGCCGGTG-AATTA
* * ** *
6252192 -ATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
6252227 TTTTATATAG
Statistics
Matches: 223, Mismatches: 15, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
40 2 0.01
41 214 0.96
42 7 0.03
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (41 bp):
TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
Found at i:6252917 original size:14 final size:15
Alignment explanation
Indices: 6252893--6252927 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
6252883 TACTTTAATC
6252893 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
6252908 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
6252923 ATGGT
1 ATGGT
6252928 AATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:6258199 original size:65 final size:62
Alignment explanation
Indices: 6258125--6258261 Score: 154
Period size: 65 Copynumber: 2.2 Consensus size: 62
6258115 TATGCACATA
* ** *
6258125 TGGTTCGAATATATATATTTAAAGTTC-TTGAGCTGAA-TTTAATGTATG-AATTTTACTTACAT
1 TGGTTCGAATATAGAT-TACAAA-TTCTTTGAGCTGAATTTTAATGT-TGTAA-ATTA--TACAT
6258187 ATG
60 ATG
*
6258190 TGGTTCGAATATAGGTTACAAATTCTTTGAGCTGAATTTTAATGTTGTAAATTATACATATG
1 TGGTTCGAATATAGATTACAAATTCTTTGAGCTGAATTTTAATGTTGTAAATTATACATATG
6258252 TGGTTCGAAT
1 TGGTTCGAAT
6258262 GTTTGTTTGC
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
62 18 0.28
63 3 0.05
64 19 0.30
65 24 0.38
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (62 bp):
TGGTTCGAATATAGATTACAAATTCTTTGAGCTGAATTTTAATGTTGTAAATTATACATATG
Found at i:6258433 original size:41 final size:41
Alignment explanation
Indices: 6258376--6258657 Score: 370
Period size: 41 Copynumber: 6.9 Consensus size: 41
6258366 TATATGAGAT
*
6258376 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
*
6258417 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
*
6258458 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
6258499 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
* * * *
6258540 TTTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
* * * * * *
6258581 ATTCCGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAAATGA
1 TTTCAGGCTTAATGCCTAGCAGGC-TTGATGCCGGTG-AATTA
* * ** *
6258623 -ATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
6258658 TTTTATATAG
Statistics
Matches: 223, Mismatches: 15, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
40 2 0.01
41 214 0.96
42 7 0.03
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (41 bp):
TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
Found at i:6259349 original size:14 final size:15
Alignment explanation
Indices: 6259325--6259359 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
6259315 TACTTTAATC
6259325 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
6259340 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
6259355 ATGGT
1 ATGGT
6259360 AATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:6266948 original size:3 final size:3
Alignment explanation
Indices: 6266924--6267056 Score: 61
Period size: 3 Copynumber: 43.7 Consensus size: 3
6266914 ACTATGGTAT
* * * * *
6266924 ATA AAA ATA ATT ATA A-A ATA ATA ATA GTGA AAA ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
* * * * * * **
6266969 ATG ATGT ATA AAA ATA ATA GTA ATA AAA ATA GTA ACG ATA ATA ATA
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
6267015 ACA TATA ATA GTA AGA ATA ATA ATA ACA ATG ATA ATA TTA AT
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
6267057 TAGCAATCCA
Statistics
Matches: 89, Mismatches: 37, Indels: 8
0.66 0.28 0.06
Matches are distributed among these distances:
2 2 0.02
3 82 0.92
4 5 0.06
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:6266961 original size:13 final size:12
Alignment explanation
Indices: 6266925--6267036 Score: 68
Period size: 13 Copynumber: 8.9 Consensus size: 12
6266915 CTATGGTATA
6266925 TAAAAATAATTA-
1 TAAAAATAA-TAG
6266937 TAAAATAATAATAG
1 T-AAA-AATAATAG
6266951 TGAAAAATAATAG
1 T-AAAAATAATAG
* *
6266964 TAATAATGAT-G
1 TAAAAATAATAG
6266975 TATAAAAATAATAG
1 --TAAAAATAATAG
6266989 TAATAAA-AATAG
1 TAA-AAATAATAG
** *
6267001 TAACGATAATAA
1 TAAAAATAATAG
*
6267013 TAACATATAATAG
1 TAA-AAATAATAG
*
6267026 TAAGAATAATA
1 TAAAAATAATA
6267037 ATAACAATGA
Statistics
Matches: 78, Mismatches: 13, Indels: 18
0.72 0.12 0.17
Matches are distributed among these distances:
11 2 0.03
12 32 0.41
13 34 0.44
14 10 0.13
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.29
Consensus pattern (12 bp):
TAAAAATAATAG
Found at i:6267027 original size:25 final size:27
Alignment explanation
Indices: 6266929--6267051 Score: 84
Period size: 25 Copynumber: 4.8 Consensus size: 27
6266919 GGTATATAAA
* * *
6266929 AATAATTATAA-AATAATAATAGTGAAA
1 AATAATAATAACAATGATAATAGT-AAG
* * * *
6266956 AATAATAGTAATAATGAT-GTA-TAAA
1 AATAATAATAACAATGATAATAGTAAG
* *
6266981 AATAATAGTAATAA--A-AATAGTAACG
1 AATAATAATAACAATGATAATAGTAA-G
6267006 -ATAATAATAAC-AT-ATAATAGTAAG
1 AATAATAATAACAATGATAATAGTAAG
6267030 AATAATAATAACAATGATAATA
1 AATAATAATAACAATGATAATA
6267052 TTAATTAGCA
Statistics
Matches: 79, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
23 4 0.05
24 14 0.18
25 36 0.46
26 3 0.04
27 17 0.22
28 5 0.06
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.28
Consensus pattern (27 bp):
AATAATAATAACAATGATAATAGTAAG
Found at i:6267049 original size:40 final size:39
Alignment explanation
Indices: 6266930--6267051 Score: 103
Period size: 37 Copynumber: 3.2 Consensus size: 39
6266920 GTATATAAAA
* *
6266930 ATAATTATAAAATAATAATAGTGAAAAATAATAGTAATAATG
1 ATAATAAT-AAAT-ATAATAGT-AAAAATAATAGTAACAATG
* *
6266972 AT-GT-ATAAAAATAATAGTAATAAA-AATAGTAAC---G
1 ATAATAATAAATATAATAGTAA-AAATAATAGTAACAATG
* *
6267006 ATAATAATAACATATAATAGTAAGAATAATAATAACAATG
1 ATAATAATAA-ATATAATAGTAAAAATAATAGTAACAATG
6267046 ATAATA
1 ATAATA
6267052 TTAATTAGCA
Statistics
Matches: 65, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
34 3 0.05
35 1 0.02
36 6 0.09
37 29 0.45
38 11 0.17
39 3 0.05
40 9 0.14
41 1 0.02
42 2 0.03
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (39 bp):
ATAATAATAAATATAATAGTAAAAATAATAGTAACAATG
Found at i:6269973 original size:50 final size:50
Alignment explanation
Indices: 6269894--6269992 Score: 153
Period size: 50 Copynumber: 2.0 Consensus size: 50
6269884 GCCTTATTCT
* * * *
6269894 AATCAATGTCAAATAGAAGGAGAGAAGTTCTATATGGATTCTACTTGTAC
1 AATCAATATCAAATAGAAGAAGAGAAGTTCTATACGAATTCTACTTGTAC
*
6269944 AATCAATATCAAATAGAAGAAGAGTAGTTCTATACGAATTCTACTTGTA
1 AATCAATATCAAATAGAAGAAGAGAAGTTCTATACGAATTCTACTTGTA
6269993 TTTTATTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.30
Consensus pattern (50 bp):
AATCAATATCAAATAGAAGAAGAGAAGTTCTATACGAATTCTACTTGTAC
Found at i:6275236 original size:13 final size:14
Alignment explanation
Indices: 6275194--6275238 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
6275184 TACTAATGAT
6275194 TAAAGTATATTATAA
1 TAAAGTA-ATTATAA
6275209 TAATA-TAA-TATAA
1 TAA-AGTAATTATAA
6275222 TAAAGTAATTA-AA
1 TAAAGTAATTATAA
6275235 TAAA
1 TAAA
6275239 ATAAAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 3 0.11
15 5 0.19
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTATAA
Found at i:6285455 original size:21 final size:23
Alignment explanation
Indices: 6285413--6285466 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
6285403 TCATCTGTTA
6285413 CTTCC-TTTCTATTATCAGATCT
1 CTTCCTTTTCTATTATCAGATCT
* *
6285435 -TTCCTTTTCTA-TATTATATCT
1 CTTCCTTTTCTATTATCAGATCT
*
6285456 CTGCCTTTTCT
1 CTTCCTTTTCT
6285467 TTCCGTCCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.15, C:0.26, G:0.04, T:0.56
Consensus pattern (23 bp):
CTTCCTTTTCTATTATCAGATCT
Found at i:6286116 original size:27 final size:27
Alignment explanation
Indices: 6286086--6286141 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
6286076 TAAATTATGA
6286086 ATCTGTACCCAGAAAACTGTAGCCCAT
1 ATCTGTACCCAGAAAACTGTAGCCCAT
6286113 ATCTGTACCCAGAAAACTGTAGCCCAT
1 ATCTGTACCCAGAAAACTGTAGCCCAT
6286140 AT
1 AT
6286142 GAGACTGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.34, C:0.29, G:0.14, T:0.23
Consensus pattern (27 bp):
ATCTGTACCCAGAAAACTGTAGCCCAT
Found at i:6286992 original size:29 final size:29
Alignment explanation
Indices: 6286949--6287011 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
6286939 TAAATGGTAC
* *
6286949 TAAAGTTTCACAATTATTATTATTTAAAA
1 TAAAATTTCAAAATTATTATTATTTAAAA
6286978 TAAAATTTCAAAATTATTATTATTTAAAA
1 TAAAATTTCAAAATTATTATTATTTAAAA
6287007 TAAAA
1 TAAAA
6287012 ATTATAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (29 bp):
TAAAATTTCAAAATTATTATTATTTAAAA
Found at i:6309301 original size:20 final size:18
Alignment explanation
Indices: 6309255--6309306 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
6309245 ATAATATAAT
*
6309255 AAAAGAAATAATAAAAGA
1 AAAAGAAATAAAAAAAGA
6309273 ATAAAGAAATAAAATAAAGA
1 A-AAAGAAATAAAA-AAAGA
6309293 AAAAGGAAA-AAAAA
1 AAAA-GAAATAAAAA
6309307 GAAGGACGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
18 2 0.07
19 18 0.60
20 10 0.33
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.10
Consensus pattern (18 bp):
AAAAGAAATAAAAAAAGA
Found at i:6310217 original size:6 final size:6
Alignment explanation
Indices: 6310206--6310248 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
6310196 CCTGACTATA
* *
6310206 ACTGTT ACTGTT ACTGTT ACTGTC ATTGTT ACTGTT ACTGTT A
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT A
6310249 TCCTATGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (6 bp):
ACTGTT
Found at i:6311563 original size:13 final size:13
Alignment explanation
Indices: 6311545--6311577 Score: 52
Period size: 11 Copynumber: 2.7 Consensus size: 13
6311535 GCTACACTAG
6311545 TTTAGTTTTTTGC
1 TTTAGTTTTTTGC
6311558 TTTAG--TTTTGC
1 TTTAGTTTTTTGC
6311569 TTTAGTTTT
1 TTTAGTTTT
6311578 CTCTTAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
11 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.06, G:0.15, T:0.70
Consensus pattern (13 bp):
TTTAGTTTTTTGC
Found at i:6315244 original size:20 final size:18
Alignment explanation
Indices: 6315210--6315246 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
6315200 GCAACTCATA
6315210 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
6315228 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
6315247 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:6317823 original size:39 final size:39
Alignment explanation
Indices: 6317760--6317860 Score: 141
Period size: 39 Copynumber: 2.6 Consensus size: 39
6317750 ATCGTGATCT
* * * *
6317760 GAAA-CCCGAAGTCTAGCTGCAGCACATAAGTGCTAAAC
1 GAAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAAC
6317798 GAAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAAC
1 GAAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAAC
* *
6317837 GGAAGCCCGAAGGCTAACTAAAGC
1 GAAAGCCCGAAGGCTAACTGAAGC
6317861 TCATTAGAGC
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
38 4 0.07
39 52 0.93
ACGTcount: A:0.39, C:0.26, G:0.24, T:0.12
Consensus pattern (39 bp):
GAAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAAC
Found at i:6326304 original size:2 final size:2
Alignment explanation
Indices: 6326297--6326333 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
6326287 ACCAAAATTT
6326297 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6326334 TCATGTCGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6326822 original size:89 final size:88
Alignment explanation
Indices: 6326632--6326874 Score: 297
Period size: 90 Copynumber: 2.7 Consensus size: 88
6326622 TTAACGATGT
** *
6326632 AAAAAGCCCTCAAAGTTTTTCAAGAAAAGCAATTAAGCCCCTATTTTATTTTTTACACTCAATTG
1 AAAAAGCCCTCAAA-TTTTAAAAAAAAAGCAATTAAGCCCCTATTTT-TTTTTTACACTCAATTG
* * ** *
6326697 AATACTTAAACTTTTAAAATGTATT
64 AATACTTAAACTGTCAAAATACATA
* * * * * *
6326722 AAAAAGACCCTCAAACTTTAAAAAAAAAGTAATTAAGCCCCTACTTTTTTTTTGCACTAAATTGG
1 AAAAAG-CCCTCAAATTTTAAAAAAAAAGCAATTAAGCCCCTATTTTTTTTTTACACTCAATTGA
*
6326787 ATACTTGAACTGTCAAAATACACTA
65 ATACTTAAACTGTCAAAATACA-TA
*
6326812 AAAAAGCCCTCAAAATTTTAAAAAAAAAGCAATTAAGCCCCTGTTTTTTTTTTACACTCAATT
1 AAAAAGCCCTC-AAATTTTAAAAAAAAAGCAATTAAGCCCCTATTTTTTTTTTACACTCAATT
6326875 TTCAAAATGC
Statistics
Matches: 129, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
89 37 0.29
90 84 0.65
91 8 0.06
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (88 bp):
AAAAAGCCCTCAAATTTTAAAAAAAAAGCAATTAAGCCCCTATTTTTTTTTTACACTCAATTGAA
TACTTAAACTGTCAAAATACATA
Found at i:6327101 original size:11 final size:11
Alignment explanation
Indices: 6327076--6327108 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
6327066 ATTTTTTATT
*
6327076 AAAAATTA-GA
1 AAAAATTATAA
6327086 AAAAATTATAA
1 AAAAATTATAA
6327097 AAAAATTATAA
1 AAAAATTATAA
6327108 A
1 A
6327109 TTATATAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 8 0.38
11 13 0.62
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:6327394 original size:21 final size:21
Alignment explanation
Indices: 6327368--6327414 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
6327358 TTAAAGGGCC
6327368 TTTTTTTATGCA-TTTTATAAA
1 TTTTTTTATG-ATTTTTATAAA
6327389 TTTTTTTATGATTTTTATAAA
1 TTTTTTTATGATTTTTATAAA
*
6327410 ATTTT
1 TTTTT
6327415 ATATTTTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (21 bp):
TTTTTTTATGATTTTTATAAA
Found at i:6327421 original size:29 final size:28
Alignment explanation
Indices: 6327388--6327477 Score: 87
Period size: 29 Copynumber: 3.2 Consensus size: 28
6327378 CATTTTATAA
*
6327388 ATTTTTTTATGATTTTTATAAAATTTTAT
1 ATTTTTTTAT-ATTTTTATAAAATTTAAT
* *
6327417 ATTTTTTCTA-ATATTTAATAAAATTAAAT
1 ATTTTTT-TATAT-TTTTATAAAATTTAAT
* *
6327446 A-TTTTATATATTTTT-TAATATTTAAT
1 ATTTTTTTATATTTTTATAAAATTTAAT
6327472 ATTTTT
1 ATTTTT
6327478 ATGTTTTTTA
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
26 10 0.20
27 9 0.18
28 8 0.16
29 21 0.42
30 2 0.04
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (28 bp):
ATTTTTTTATATTTTTATAAAATTTAAT
Found at i:6327432 original size:19 final size:18
Alignment explanation
Indices: 6327399--6327477 Score: 61
Period size: 19 Copynumber: 4.3 Consensus size: 18
6327389 TTTTTTTATG
* * *
6327399 ATTTTTATAAAATTTTAT
1 ATTTTTTTAATATTTAAT
6327417 ATTTTTTCTAATATTTAAT
1 ATTTTTT-TAATATTTAAT
*** * *
6327436 A-AAATTAAATATTTTAT
1 ATTTTTTTAATATTTAAT
6327453 ATATTTTTTAATATTTAAT
1 AT-TTTTTTAATATTTAAT
6327472 ATTTTT
1 ATTTTT
6327478 ATGTTTTTTA
Statistics
Matches: 45, Mismatches: 13, Indels: 6
0.70 0.20 0.09
Matches are distributed among these distances:
17 10 0.22
18 12 0.27
19 23 0.51
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTTTTAATATTTAAT
Found at i:6327501 original size:25 final size:25
Alignment explanation
Indices: 6327387--6327501 Score: 79
Period size: 25 Copynumber: 4.4 Consensus size: 25
6327377 GCATTTTATA
*
6327387 AATTTTTTTATGATTTTTATAAAATTTT
1 AATTTTTTTAT-ATTTTT-TAATA-TTT
** * *
6327415 ATATTTTTTCTAATATTTAATAAAATTA
1 A-ATTTTTT-T-ATATTTTTTAATATTT
*
6327443 AATATTTTATATATTTTTTAATATTT
1 AAT-TTTTTTATATTTTTTAATATTT
* * *
6327469 AATATTTTTATGTTTTTTATTATTT
1 AATTTTTTTATATTTTTTAATATTT
6327494 -ATTTTTTT
1 AATTTTTTT
6327502 GGCACATGTC
Statistics
Matches: 70, Mismatches: 13, Indels: 12
0.74 0.14 0.13
Matches are distributed among these distances:
24 7 0.10
25 18 0.26
26 15 0.21
27 3 0.04
28 8 0.11
29 12 0.17
30 5 0.07
31 2 0.03
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (25 bp):
AATTTTTTTATATTTTTTAATATTT
Found at i:6329221 original size:10 final size:11
Alignment explanation
Indices: 6329203--6329227 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6329193 ACTCTTTCAC
6329203 TTTCTTTTTTT
1 TTTCTTTTTTT
6329214 TTTCTTTTTTT
1 TTTCTTTTTTT
6329225 TTT
1 TTT
6329228 TTGTAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:6329448 original size:22 final size:22
Alignment explanation
Indices: 6329387--6329451 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
6329377 AAAAACAATG
* **
6329387 ATCTTAATTTTTTTATATTTTT
1 ATCTTAATTTTTTTAAATAATT
6329409 AT-TTATTATTATTTTTAAATAATT
1 ATCTTA--ATT-TTTTTAAATAATT
6329433 ATCTTAATTTTTTTAAATA
1 ATCTTAATTTTTTTAAATA
6329452 TTTACATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
21 3 0.08
22 12 0.33
23 6 0.17
24 12 0.33
25 3 0.08
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (22 bp):
ATCTTAATTTTTTTAAATAATT
Found at i:6329789 original size:12 final size:13
Alignment explanation
Indices: 6329770--6329807 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
6329760 TTGGTCAATA
6329770 ATTAGTTTTAATT
1 ATTAGTTTTAATT
* *
6329783 ATT-GTTTGATTT
1 ATTAGTTTTAATT
6329795 ATTAGTTTTAATT
1 ATTAGTTTTAATT
6329808 CTTTTTCAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (13 bp):
ATTAGTTTTAATT
Found at i:6331746 original size:50 final size:51
Alignment explanation
Indices: 6331669--6331777 Score: 184
Period size: 50 Copynumber: 2.2 Consensus size: 51
6331659 GACCATGGCA
* * *
6331669 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTG
1 ACAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
6331720 A-AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
6331770 ACAAGTGA
1 ACAAGTGA
6331778 AAATGCAACA
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
50 47 0.87
51 7 0.13
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:6332680 original size:46 final size:46
Alignment explanation
Indices: 6332604--6333055 Score: 609
Period size: 46 Copynumber: 9.8 Consensus size: 46
6332594 TGATGTCATA
* * * * * *
6332604 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGTCGTG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATATCATGTTGCCATG
* ***
6332650 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCATGTTGCCATG
* **
6332697 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCCGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
* *
6332743 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
* *
6332789 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
* * ***
6332835 GTATCTTTCAACCATAGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCATGTTGCCATG
*
6332882 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
*
6332928 GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
* * *
6332974 GTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGTCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
* *
6333020 GTATCTTTCAACCATGGTCTTACACATTCCATATCA
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCA
6333056 GAGAGCACAC
Statistics
Matches: 367, Mismatches: 36, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
46 290 0.79
47 77 0.21
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
Found at i:6332877 original size:139 final size:138
Alignment explanation
Indices: 6332604--6333055 Score: 627
Period size: 139 Copynumber: 3.3 Consensus size: 138
6332594 TGATGTCATA
* * * * * * *
6332604 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGTCGTGGTATCTTTCAACCATGGT
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGT
** *** *
6332668 CTTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCC
65 CTTACACA-TTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCA
*
6332733 GGTTGCCATG
129 AGTTGCCATG
*
6332743 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
* * * ** *
6332808 TTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATAGTCTTATTCATTTTCCCGTCAT
66 TTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCAA
6332873 GTTGCCATG
130 GTTGCCATG
*
6332882 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
* *
6332947 TTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAG
66 TTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAAG
*
6333012 TTGTCATG
131 TTGCCATG
* *
6333020 GTATCTTTCAACCATGGTCTTACACATTCCATATCA
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCA
6333056 GAGAGCACAC
Statistics
Matches: 278, Mismatches: 33, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
138 93 0.33
139 185 0.67
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (138 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
TTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAAG
TTGCCATG
Found at i:6332924 original size:185 final size:185
Alignment explanation
Indices: 6332604--6333041 Score: 725
Period size: 185 Copynumber: 2.4 Consensus size: 185
6332594 TGATGTCATA
* * * * * * *
6332604 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGTCGTGGTATCTTTCAACCATGGT
1 GTATCTTTCAACCATGGTCTTACAC-ATTTCATATCAAGTTGTCATGGTATCTTTCAACCATGGT
* *
6332668 CTTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCC
65 CTTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
**
6332733 GGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATG
130 GGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
* * *
6332789 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATAGTC
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGTCATGGTATCTTTCAACCATGGTC
6332854 TTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
66 TTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
*
6332919 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
131 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
6332974 GTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGTCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGTCATGGTATCTTTCAACCATGGTC
6333039 TTA
66 TTA
6333042 CACATTCCAT
Statistics
Matches: 235, Mismatches: 17, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
184 4 0.02
185 231 0.98
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (185 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGTCATGGTATCTTTCAACCATGGTC
TTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
Found at i:6335467 original size:31 final size:31
Alignment explanation
Indices: 6335429--6335512 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 31
6335419 GGCTATTACA
*
6335429 GAAAAGTGGTAGCTTCGGCTACCTGATCAGT
1 GAAAAGTGGTAGCTTCGGCTACCTAATCAGT
*
6335460 GAAAAGTGGTAGCTTCTGCTACCTAATCAGT
1 GAAAAGTGGTAGCTTCGGCTACCTAATCAGT
* *
6335491 TAATAGTGGTAGCTTCGGCTAC
1 GAAAAGTGGTAGCTTCGGCTAC
6335513 AAGTGACAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (31 bp):
GAAAAGTGGTAGCTTCGGCTACCTAATCAGT
Found at i:6335600 original size:47 final size:46
Alignment explanation
Indices: 6335530--6335700 Score: 164
Period size: 47 Copynumber: 3.6 Consensus size: 46
6335520 AAGTGATTTC
* * * *
6335530 CGTATAAGACCATATCCGGGATATGACATCCGTGTGATATATGCTA
1 CGTATAAGACCATAGCTGGGATATGACATCCGTGTGATATGTGATA
* * * * *
6335576 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATAGCTGGGATATGACATCCGTGTGATATGTGATA
* * *
6335623 CGTGTAAGACCATAGCTGGGCTATGGCAT-CGATATGTGATATGTGATTA
1 CGTATAAGACCATAGCTGGGATATGACATCCG---TGTGATATGTGA-TA
* *
6335672 CGTGTAAGACCATAGCTGGGCTATGACAT
1 CGTATAAGACCATAGCTGGGATATGACAT
6335701 TGATATATGA
Statistics
Matches: 106, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
45 1 0.01
46 26 0.25
47 39 0.37
48 11 0.10
49 29 0.27
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATAGCTGGGATATGACATCCGTGTGATATGTGATA
Found at i:6335685 original size:49 final size:48
Alignment explanation
Indices: 6335581--6335706 Score: 175
Period size: 49 Copynumber: 2.6 Consensus size: 48
6335571 TGCTACTGTA
* * *
6335581 TAAGACCATATCTGGGATATGGCATC-A-GTGAGATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGAGATATGTGATTCGTG
*
6335627 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGAGATATGTGATT-CGTG
* *
6335676 TAAGACCATAGCTGGGCTATGACATTGATAT
1 TAAGACCATAGCTGGGCTATGGCATCGATAT
6335707 ATGAAGATGT
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
46 24 0.34
47 1 0.01
48 13 0.18
49 33 0.46
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (48 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATGAGATATGTGATTCGTG
Found at i:6345568 original size:43 final size:43
Alignment explanation
Indices: 6345466--6345570 Score: 129
Period size: 43 Copynumber: 2.4 Consensus size: 43
6345456 CCTTGCTATA
* * *
6345466 ATCTTACACAAAATCAAATAACGATGTCAATGTCCCAAACATG
1 ATCTTACACATAATCACATAACGATGCCAATGTCCCAAACATG
* ** * * *
6345509 GTCTTACATGTAATCACATAATGATGCCGATGTCCCAGACATG
1 ATCTTACACATAATCACATAACGATGCCAATGTCCCAAACATG
6345552 ATCTTACACATAATCACAT
1 ATCTTACACATAATCACAT
6345571 CTCGTTAATC
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.27
Consensus pattern (43 bp):
ATCTTACACATAATCACATAACGATGCCAATGTCCCAAACATG
Found at i:6350959 original size:48 final size:48
Alignment explanation
Indices: 6350903--6351000 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
6350893 CATATGTTCC
6350903 ACCAGAGAACATTGAGAACATTACTTCTGCTCATGCATCACAGTATCA
1 ACCAGAGAACATTGAGAACATTACTTCTGCTCATGCATCACAGTATCA
6350951 ACCAGAGAACATTGAGAACATTACTTCTGCTCATGCATCACAGTATCA
1 ACCAGAGAACATTGAGAACATTACTTCTGCTCATGCATCACAGTATCA
6350999 AC
1 AC
6351001 GAAATCCTGC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (48 bp):
ACCAGAGAACATTGAGAACATTACTTCTGCTCATGCATCACAGTATCA
Found at i:6352464 original size:17 final size:18
Alignment explanation
Indices: 6352429--6352468 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
6352419 TACCTCTTAG
*
6352429 AAGTATTTTTGGGATTAA
1 AAGTATTTTTGAGATTAA
6352447 AAGTATTTTTGAGA-TAA
1 AAGTATTTTTGAGATTAA
6352464 AAGTA
1 AAGTA
6352469 ATGTTAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (18 bp):
AAGTATTTTTGAGATTAA
Found at i:6355659 original size:18 final size:18
Alignment explanation
Indices: 6355636--6355672 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
6355626 TTATTCTTCT
6355636 TATTCGGTAACCATTGGA
1 TATTCGGTAACCATTGGA
*
6355654 TATTCGGTAACTATTGGA
1 TATTCGGTAACCATTGGA
6355672 T
1 T
6355673 TTTCCTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.38
Consensus pattern (18 bp):
TATTCGGTAACCATTGGA
Found at i:6359980 original size:12 final size:13
Alignment explanation
Indices: 6359955--6359983 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
6359945 TGGTGGCGCA
6359955 GTGGTGGCTGCTG
1 GTGGTGGCTGCTG
6359968 GTGGTGG-TGCTG
1 GTGGTGGCTGCTG
6359980 GTGG
1 GTGG
6359984 CGAAGCCTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.00, C:0.10, G:0.59, T:0.31
Consensus pattern (13 bp):
GTGGTGGCTGCTG
Found at i:6360745 original size:3 final size:3
Alignment explanation
Indices: 6360737--6360765 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6360727 AGAATGCCAA
6360737 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
6360766 GGTGTTTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:6370868 original size:37 final size:38
Alignment explanation
Indices: 6370805--6370882 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 38
6370795 GAAGATTTCC
6370805 ATTTAAACCCTTTAAAATCTTTAATTATATCAGTTTTA
1 ATTTAAACCCTTTAAAATCTTTAATTATATCAGTTTTA
* * **
6370843 ATTTAATCTCTTT-AAATCTTTAATTATATTGGTTTTA
1 ATTTAAACCCTTTAAAATCTTTAATTATATCAGTTTTA
6370880 ATT
1 ATT
6370883 AGAATAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 25 0.69
38 11 0.31
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.53
Consensus pattern (38 bp):
ATTTAAACCCTTTAAAATCTTTAATTATATCAGTTTTA
Found at i:6371946 original size:31 final size:29
Alignment explanation
Indices: 6371797--6371935 Score: 93
Period size: 29 Copynumber: 4.7 Consensus size: 29
6371787 GATAGTTCAA
*
6371797 GTACCACATTAGAGATTTTCAAAGTATAG
1 GTACCACATTAGACATTTTCAAAGTATAG
* * * * *
6371826 ATATCACATTAGACATATTATGAAAGTACAT
1 GTACCACATTAGACAT-TT-TCAAAGTATAG
* * ** * * *
6371857 GTACCAAATAATACACAAATTGATAGT-TCAA
1 GTACCACAT--TAGACATTTTCAAAGTAT-AG
6371888 GTACCACATTAGACATTTTCAAAGTATAG
1 GTACCACATTAGACATTTTCAAAGTATAG
6371917 GTACCACATT-GAACATTTT
1 GTACCACATTAG-ACATTTT
6371936 ATGAAAGTAT
Statistics
Matches: 81, Mismatches: 22, Indels: 14
0.69 0.19 0.12
Matches are distributed among these distances:
28 1 0.01
29 42 0.52
30 3 0.04
31 29 0.36
32 1 0.01
33 5 0.06
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (29 bp):
GTACCACATTAGACATTTTCAAAGTATAG
Done.