Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 21 of 218
Found at i:7001895 original size:5 final size:5
Alignment explanation
Indices: 7001885--7001909 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
7001875 TAAAGATAAA
7001885 AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT
7001910 TTCTATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:7007138 original size:33 final size:33
Alignment explanation
Indices: 7007094--7007169 Score: 111
Period size: 33 Copynumber: 2.3 Consensus size: 33
7007084 AATTAATCTA
*
7007094 AATCCT-AAACCCTAACCCGACCCTAAATCCCT
1 AATCCTCAAACCCTAACCCGACCCCAAATCCCT
*
7007126 AATCCTCAAACCCTAACCTGACCCCAAATCCCT
1 AATCCTCAAACCCTAACCCGACCCCAAATCCCT
7007159 AA-CCTCTAAAC
1 AATCCTC-AAAC
7007170 ATTATTTAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
32 10 0.25
33 30 0.75
ACGTcount: A:0.36, C:0.43, G:0.03, T:0.18
Consensus pattern (33 bp):
AATCCTCAAACCCTAACCCGACCCCAAATCCCT
Found at i:7007160 original size:19 final size:19
Alignment explanation
Indices: 7007103--7007163 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
7007093 AAATCCTAAA
* *
7007103 CCCTAACCCGACCCTAAAT
1 CCCTAACCTGACCCCAAAT
*
7007122 CCCTAA--T--CCTCAAA-
1 CCCTAACCTGACCCCAAAT
7007136 CCCTAACCTGACCCCAAAT
1 CCCTAACCTGACCCCAAAT
7007155 CCCTAACCT
1 CCCTAACCT
7007164 CTAAACATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
14 6 0.18
15 5 0.15
16 1 0.03
18 6 0.18
19 15 0.45
ACGTcount: A:0.31, C:0.48, G:0.03, T:0.18
Consensus pattern (19 bp):
CCCTAACCTGACCCCAAAT
Found at i:7008039 original size:41 final size:41
Alignment explanation
Indices: 7007982--7008223 Score: 380
Period size: 41 Copynumber: 5.9 Consensus size: 41
7007972 ATTTATTATT
* *
7007982 ATTAGCAGCGCTTTTTCAAAAACGCCGCTAAAGGCCTGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
7008023 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
*
7008064 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
* * *
7008105 ATTAGCGGCGC-TTCTCAAAAAATGCCGCTAAAGGCCTGAGC
1 ATTAGCGGCGCTTTTTC-AAAAACGCCGCTAAAGGCCCGAGC
*
7008146 ATTAGGGGCGCTTCTTT-AAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTT-TTTCAAAAACGCCGCTAAAGGCCCGAGC
*
7008187 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCC
7008224 CAAAAACTCA
Statistics
Matches: 184, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
40 5 0.03
41 176 0.96
42 1 0.01
43 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.19
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
Found at i:7009909 original size:20 final size:19
Alignment explanation
Indices: 7009886--7009928 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
7009876 TTAGGTTTTT
*
7009886 TTTTGCAGTTTTTAATGAAA
1 TTTTACAGTTTTTAA-GAAA
* *
7009906 TTTTATATTTTTTAAGAAA
1 TTTTACAGTTTTTAAGAAA
7009925 TTTT
1 TTTT
7009929 TACATTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.58
Consensus pattern (19 bp):
TTTTACAGTTTTTAAGAAA
Found at i:7009959 original size:16 final size:17
Alignment explanation
Indices: 7009933--7009967 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
7009923 AATTTTTACA
*
7009933 TTAATTTTTTTACTAAT
1 TTAATTTTTTTAATAAT
7009950 TTAA-TTTTTTAATAAT
1 TTAATTTTTTTAATAAT
7009966 TT
1 TT
7009968 CATAATAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
TTAATTTTTTTAATAAT
Found at i:7010015 original size:17 final size:17
Alignment explanation
Indices: 7009977--7010023 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
7009967 TCATAATAGA
*
7009977 TTATGAATTTGTTAGTTG
1 TTAT-AATTTTTTAGTTG
7009995 TTATAATTTTTTAAGTT-
1 TTATAATTTTTT-AGTTG
*
7010012 TTATGATTTTTT
1 TTATAATTTTTT
7010024 GAAGGATTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.64
Consensus pattern (17 bp):
TTATAATTTTTTAGTTG
Found at i:7011400 original size:247 final size:247
Alignment explanation
Indices: 7010955--7011445 Score: 741
Period size: 247 Copynumber: 2.0 Consensus size: 247
7010945 AATGGCAAAC
* * *
7010955 CTCTCATCTATGTCAAGTAAGTGGTTTTGATTGTTCAAGCTTGTAAGATCTTAGGCTCTCAAGTG
1 CTCTCACCTATGTCAAGTAAGTGGTTTTGATCGTTCAAGCTTGTAAGATCTCAGGCTCTCAAGTG
* * * * * * *
7011020 TCTTAGCTCATAGCGTGATCTTGGTCAAAAAAGCTAACTAGCAAGGCATGAGCTTGCAAGGTGGC
66 TCTTAGCTCACAACATAATCTTGGTCAAAAAAGCTAACCAACAAGGCATGAGCTCGCAAGGTGGC
* * *
7011085 TCACAATTGTAACAACTCAATTTTTAGTAGTACTGAAAAAGGATATTTTTGAACCTTATTTCTGT
131 TCACAATTGTAACAACTCAATTTTTAGTAGTACTGAAAAAGGAGATTTTGGAACCTCATTTCTGT
*
7011150 AACCGAGTCCGTAAATATTAAATATGAATATTTACGAGGTTAATATAAAGAT
196 AACCGAGTCCATAAATATTAAATATGAATATTTACGAGGTTAATATAAAGAT
*
7011202 CTCTCACCTATGTCAAGTAAGTGGTTTTGATCGTTCAAGCTTGTAAGATCTCGGGCTCTCAAGTG
1 CTCTCACCTATGTCAAGTAAGTGGTTTTGATCGTTCAAGCTTGTAAGATCTCAGGCTCTCAAGTG
* * *
7011267 TCTTAGCTTACAACATAATCTTGGTCAAAAGAGCTAACCAACAAGGTATGAGCTCGCAAGGTGGC
66 TCTTAGCTCACAACATAATCTTGGTCAAAAAAGCTAACCAACAAGGCATGAGCTCGCAAGGTGGC
* * * * *
7011332 TCACAATTGTAACAGCTCGATTTTTAGTAGTACCT-AAAAAGGCGGTTTTGGAACCTCATTTTTG
131 TCACAATTGTAACAACTCAATTTTTAGTAGTA-CTGAAAAAGGAGATTTTGGAACCTCATTTCTG
* *
7011396 TAACCGAGTCCATAAATATTAAATATGAATATTTATGGGGTTAATATAAA
195 TAACCGAGTCCATAAATATTAAATATGAATATTTACGAGGTTAATATAAA
7011446 TGTATATAGA
Statistics
Matches: 218, Mismatches: 25, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
247 216 0.99
248 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (247 bp):
CTCTCACCTATGTCAAGTAAGTGGTTTTGATCGTTCAAGCTTGTAAGATCTCAGGCTCTCAAGTG
TCTTAGCTCACAACATAATCTTGGTCAAAAAAGCTAACCAACAAGGCATGAGCTCGCAAGGTGGC
TCACAATTGTAACAACTCAATTTTTAGTAGTACTGAAAAAGGAGATTTTGGAACCTCATTTCTGT
AACCGAGTCCATAAATATTAAATATGAATATTTACGAGGTTAATATAAAGAT
Found at i:7015594 original size:46 final size:46
Alignment explanation
Indices: 7015527--7015619 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
7015517 AAAGGAAAAG
7015527 TATGTTTTGATTTGCCATCGATTTGGGATAAGCCATATTTTGTGAC
1 TATGTTTTGATTTGCCATCGATTTGGGATAAGCCATATTTTGTGAC
7015573 TATGTTTTGATTTGCCATCGATTTGGGATAAGCCATATTTTGTGAC
1 TATGTTTTGATTTGCCATCGATTTGGGATAAGCCATATTTTGTGAC
7015619 T
1 T
7015620 GATTTTGAAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.44
Consensus pattern (46 bp):
TATGTTTTGATTTGCCATCGATTTGGGATAAGCCATATTTTGTGAC
Found at i:7019264 original size:27 final size:25
Alignment explanation
Indices: 7019213--7019264 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
7019203 GAACCAACGA
*
7019213 ATTTTATAAAAACAATACCATTATT
1 ATTTTATAAAAACAATACCACTATT
* *
7019238 ATTTTATACAAAAGAATATCACCTATT
1 ATTTTATA-AAAACAATACCA-CTATT
7019265 TTATTTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 8 0.36
26 10 0.45
27 4 0.18
ACGTcount: A:0.46, C:0.13, G:0.02, T:0.38
Consensus pattern (25 bp):
ATTTTATAAAAACAATACCACTATT
Found at i:7022762 original size:63 final size:63
Alignment explanation
Indices: 7022695--7022900 Score: 157
Period size: 63 Copynumber: 3.1 Consensus size: 63
7022685 AAATCTTGCT
*
7022695 AATTTACGATCAAGGCTTCAGTTAATTGATTTACGATCATAAAAACTTCATTAAGAGTTCGCC
1 AATTTACGATCAAGGCTTCAGTTAATTAATTTACGATCATAAAAACTTCATTAAGAGTTCGCC
* * * * * *
7022758 AATTTACGATTGCAA--CTCCACTTAAATAATTCACTGATTTACTACCACAACTATCATTTTCAA
1 AATTTACGA-T-CAAGGCTTCAGTTAATTAATTTAC-GA-TCA-TA--AAAACT-TCA--TT-AA
* *
7022821 -AGCTCGCT
55 GAGTTCGCC
* * ** * *
7022829 AATTTACAATCACGGCTTCAGTTCTTTAATTTACGATCATAAACACTTCATTAAGAGTTCACC
1 AATTTACGATCAAGGCTTCAGTTAATTAATTTACGATCATAAAAACTTCATTAAGAGTTCGCC
7022892 AATTTACGA
1 AATTTACGA
7022901 GCACAACTCC
Statistics
Matches: 105, Mismatches: 24, Indels: 28
0.67 0.15 0.18
Matches are distributed among these distances:
62 2 0.02
63 38 0.36
64 3 0.03
65 8 0.08
66 6 0.06
68 7 0.07
69 7 0.07
70 3 0.03
71 29 0.28
72 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (63 bp):
AATTTACGATCAAGGCTTCAGTTAATTAATTTACGATCATAAAAACTTCATTAAGAGTTCGCC
Found at i:7022763 original size:134 final size:134
Alignment explanation
Indices: 7022515--7023011 Score: 557
Period size: 134 Copynumber: 3.7 Consensus size: 134
7022505 TACAAATCTC
* * ** * *
7022515 ACAGTTCGCTGATTTACGATCACAATTGTCATTTTTTAAGCTCGCCGATTTACGAACACGGCTTA
1 ACAGTTCGCTGATTTACGATCACAACTGTCATTTTTAAAGCTCGCTAATTTACGATCACGGCTTC
* * * * *
7022580 AGTTCATTGATTTACGATCATAAACAGTACATTAAGAGTTTGTCGATTTACGGTCGCAACTCCAC
66 AGTTCATTGATTTACGATCATAAACACTTCATTAAGAGTTCGCCAATTTACGGTCGCAACTCCAC
7022645 TTAA
131 TTAA
* * * * *
7022649 ACAGGTCGCTGATTTACGATCACAATTGTCATTTTTAAATCTTGCTAATTTACGATCAAGGCTTC
1 ACAGTTCGCTGATTTACGATCACAACTGTCATTTTTAAAGCTCGCTAATTTACGATCACGGCTTC
* * * *
7022714 AGTTAATTGATTTACGATCATAAAAACTTCATTAAGAGTTCGCCAATTTACGATTGCAACTCCAC
66 AGTTCATTGATTTACGATCATAAACACTTCATTAAGAGTTCGCCAATTTACGGTCGCAACTCCAC
7022779 TTAA
131 TTAA
* * * * * * * *
7022783 ATAATTCACTGATTTACTACCACAACTATCATTTTCAAAGCTCGCTAATTTACAATCACGGCTTC
1 ACAGTTCGCTGATTTACGATCACAACTGTCATTTTTAAAGCTCGCTAATTTACGATCACGGCTTC
* * * *
7022848 AGTTCTTTAATTTACGATCATAAACACTTCATTAAGAGTTCACCAATTTACGAG-CACAACTCCG
66 AGTTCATTGATTTACGATCATAAACACTTCATTAAGAGTTCGCCAATTTACG-GTCGCAACTCC-
*
7022912 A-TTAG
129 ACTTAA
* * * * * * * * *
7022917 ACAGTTCGTTGATTTACGATCACAACTGTCATTTGTAAAACTCGTTGATTTCCAATCACGACTTT
1 ACAGTTCGCTGATTTACGATCACAACTGTCATTTTTAAAGCTCGCTAATTTACGATCACGGCTTC
* * *
7022982 AGTTCATTGATTTATGATCTTGAACACTTC
66 AGTTCATTGATTTACGATCATAAACACTTC
7023012 TTAGTTCATA
Statistics
Matches: 301, Mismatches: 60, Indels: 4
0.82 0.16 0.01
Matches are distributed among these distances:
134 300 1.00
135 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (134 bp):
ACAGTTCGCTGATTTACGATCACAACTGTCATTTTTAAAGCTCGCTAATTTACGATCACGGCTTC
AGTTCATTGATTTACGATCATAAACACTTCATTAAGAGTTCGCCAATTTACGGTCGCAACTCCAC
TTAA
Found at i:7024192 original size:134 final size:134
Alignment explanation
Indices: 7023911--7024210 Score: 313
Period size: 134 Copynumber: 2.2 Consensus size: 134
7023901 TAATCAAAGA
* * * *
7023911 TTCAGTTCATTGATTTACAATCATGAAAACTTTATTATGAGTTCACTGATTTACGATCACAACTC
1 TTCAGTTCATTGATTTACGATCATGAAAACTTTATTAAGAGTTCACTGATTTACAATCACAACGC
* * *
7023976 CATTTAAACACTTCGCTGATTTACGATCACAACTTTCATTTTCAAAGCTCGATAATTTACAATAA
66 CATTTAAACAATTCACTGATTTACAATCACAACTTTCATTTTCAAAGCTCGATAATTTACAATAA
*
7024041 CGGC
131 CGAC
* * * * * * *
7024045 TTCAATTCTTTGATTTATGATCATGAATATTTTATTAAGAGTTC-GTCGATTTACAATCGCAACG
1 TTCAGTTCATTGATTTACGATCATGAAAACTTTATTAAGAGTTCACT-GATTTACAATCACAACG
* * *
7024109 CCGA-TTAAACAATTCACTGATTTACAATCACAA-TTGTCATCTTT-AAAGCT-TACTGATTTCC
65 CC-ATTTAAACAATTCACTGATTTACAATCACAACTT-TCAT-TTTCAAAGCTCGA-TAATTTAC
* *
7024170 AATCATGAC
126 AATAACGAC
* * *
7024179 TTTAGTTCATTGATTTACGATCTTGAACACTT
1 TTCAGTTCATTGATTTACGATCATGAAAACTT
7024211 CTTGTTTCAC
Statistics
Matches: 134, Mismatches: 27, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
133 4 0.03
134 126 0.94
135 4 0.03
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (134 bp):
TTCAGTTCATTGATTTACGATCATGAAAACTTTATTAAGAGTTCACTGATTTACAATCACAACGC
CATTTAAACAATTCACTGATTTACAATCACAACTTTCATTTTCAAAGCTCGATAATTTACAATAA
CGAC
Found at i:7024309 original size:17 final size:17
Alignment explanation
Indices: 7024287--7024328 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
7024277 AAATGTTTTT
* *
7024287 TTAAAAATATATTATAA
1 TTAAAAATATATAAAAA
7024304 TTAAAAA-ATATAAAAA
1 TTAAAAATATATAAAAA
*
7024320 TTTAAAATA
1 TTAAAAATA
7024329 AATATGTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TTAAAAATATATAAAAA
Found at i:7024321 original size:16 final size:18
Alignment explanation
Indices: 7024286--7024349 Score: 51
Period size: 21 Copynumber: 3.4 Consensus size: 18
7024276 AAAATGTTTT
* *
7024286 TTTAAAAATATATTATAA
1 TTTAAAAATATATAAAAA
7024304 -TTAAAAA-ATATAAAAA
1 TTTAAAAATATATAAAAA
*
7024320 TTTAAAATAAATATGTAAAAA
1 TTT--AA-AAATATATAAAAA
7024341 TTTATAAAA
1 TTTA-AAAA
7024350 AAAATTGATT
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
16 7 0.19
17 9 0.24
19 6 0.16
20 4 0.11
21 11 0.30
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (18 bp):
TTTAAAAATATATAAAAA
Found at i:7025202 original size:19 final size:18
Alignment explanation
Indices: 7025178--7025230 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
7025168 GTGTTTTAAT
7025178 ATAATTTTTAATATTTTTA
1 ATAATTTTT-ATATTTTTA
*
7025197 ATAATTTATATATTTTTA
1 ATAATTTTTATATTTTTA
7025215 A-AGATTTTT-TATTTTT
1 ATA-ATTTTTATATTTTT
7025231 TAGAATTACT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 8 0.26
18 15 0.48
19 8 0.26
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
ATAATTTTTATATTTTTA
Found at i:7030049 original size:17 final size:16
Alignment explanation
Indices: 7030029--7030083 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 16
7030019 AGAGAGAAGC
*
7030029 AAAAGAGAATAAAAAG
1 AAAAAAGAATAAAAAG
*
7030045 AAAAAAAGAAAAAAAAG
1 -AAAAAAGAATAAAAAG
**
7030062 TTAAAAGAATATAAAAG
1 AAAAAAGAATA-AAAAG
7030079 AAAAA
1 AAAAA
7030084 TTTTAAATTG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
16 8 0.27
17 22 0.73
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (16 bp):
AAAAAAGAATAAAAAG
Found at i:7042801 original size:60 final size:61
Alignment explanation
Indices: 7042727--7042852 Score: 152
Period size: 60 Copynumber: 2.1 Consensus size: 61
7042717 AATCAAATTC
*
7042727 AGGTATCAATTTGAACC-AAGAAGCCAAGTTC-AGATACCTAATTGGACCAAA-ATAAACT-TT
1 AGGTATCAAATTGAACCTAA-AAGCCAAGTTCAAG-TACCTAATTGGACCAAAGA-AAACTCTT
* * * *
7042787 AGGTATTAAATTGAACCTTAAAGTCAAGTTCAAGTACCTAATTGGACTAAAGAAAACTCTT
1 AGGTATCAAATTGAACCTAAAAGCCAAGTTCAAGTACCTAATTGGACCAAAGAAAACTCTT
7042848 AGGTA
1 AGGTA
7042853 CCAATATGCA
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
60 46 0.81
61 11 0.19
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (61 bp):
AGGTATCAAATTGAACCTAAAAGCCAAGTTCAAGTACCTAATTGGACCAAAGAAAACTCTT
Found at i:7042874 original size:20 final size:20
Alignment explanation
Indices: 7042846--7042883 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7042836 AAGAAAACTC
* *
7042846 TTAGGTACCAATATGCATCT
1 TTAGATACCAAAATGCATCT
7042866 TTAGATACCAAAATGCAT
1 TTAGATACCAAAATGCAT
7042884 AATTACCCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (20 bp):
TTAGATACCAAAATGCATCT
Found at i:7044834 original size:10 final size:11
Alignment explanation
Indices: 7044818--7044884 Score: 66
Period size: 12 Copynumber: 5.7 Consensus size: 11
7044808 CACAAAATGT
7044818 TTTTTATTTTA
1 TTTTTATTTTA
7044829 -TTTTATTTTA
1 TTTTTATTTTA
7044839 TTTTTATTTTTA
1 TTTTTA-TTTTA
7044851 TCGTTATTATTTTA
1 T--TT-TTATTTTA
7044865 TTTTTAATTTT-
1 TTTTT-ATTTTA
7044876 TTTATTATT
1 TTT-TTATT
7044885 CTCGTTGTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 14
0.78 0.00 0.22
Matches are distributed among these distances:
10 10 0.20
11 13 0.27
12 15 0.31
14 8 0.16
15 3 0.06
ACGTcount: A:0.19, C:0.01, G:0.01, T:0.78
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:7044876 original size:7 final size:6
Alignment explanation
Indices: 7044818--7044876 Score: 54
Period size: 5 Copynumber: 9.8 Consensus size: 6
7044808 CACAAAATGT
7044818 TTTTTA -TTTTA -TTTTA -TTTTA TTTTTA TTTTTA TCGTTATTA -TTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T--TT-TTA TTTTTA
7044865 TTTTTAA TTTTT
1 TTTTT-A TTTTT
7044877 TTATTATTCT
Statistics
Matches: 47, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
5 18 0.38
6 18 0.38
7 6 0.13
8 2 0.04
9 3 0.06
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:7044883 original size:26 final size:25
Alignment explanation
Indices: 7044824--7044884 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 25
7044814 ATGTTTTTTA
7044824 TTTTATT-TTATTTTATTTTTATTT
1 TTTTATTATTATTTTATTTTTATTT
**
7044848 TTATCGTTATTATTTTATTTTTAATTT
1 TT-TTATTATTATTTTATTTTT-ATTT
7044875 TTTTATTATT
1 TTTTATTATT
7044885 CTCGTTGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 2 0.07
25 3 0.10
26 19 0.63
27 6 0.20
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (25 bp):
TTTTATTATTATTTTATTTTTATTT
Found at i:7047443 original size:18 final size:17
Alignment explanation
Indices: 7047418--7047460 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
7047408 AGTGCTTTAA
*
7047418 ATTT-TTTTATTTGTTT
1 ATTTCTTTTATTTGTTG
7047434 ATTTACTTTTATTTGTTG
1 ATTT-CTTTTATTTGTTG
7047452 ATTTCTTTT
1 ATTTCTTTT
7047461 CATTATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 5 0.21
18 15 0.62
ACGTcount: A:0.14, C:0.05, G:0.07, T:0.74
Consensus pattern (17 bp):
ATTTCTTTTATTTGTTG
Found at i:7047954 original size:219 final size:218
Alignment explanation
Indices: 7047570--7048050 Score: 827
Period size: 219 Copynumber: 2.2 Consensus size: 218
7047560 TCAAAAACGA
* *
7047570 AAAAATTTTCAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAATATGCCCTAAGGTGCTG
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
* * * *
7047635 GGTGTCGATTTTTCTCGTTCAACCAAATGACTTAATATCCTTTTAGAAATTTTAAAATAAGGCAA
66 GGTGTCAATTTTTCTCGTTCAACCAAATGACTAAATATCCTTTAAAAAATTTTAAAATAAGGCAA
*
7047700 TGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCA
131 TGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCA
* *
7047765 ACCAAATGGCTTAATATCTTTTT
196 ACCAAATGGCTAAATATCCTTTT
*
7047788 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCTCTAAGGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCT
*
7047853 GGGTGTCAATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTAAAAAATTTTAAAATAAGGCA
65 GGGTGTCAATTTTTCTCGTTCAACCAAATGACTAAATATCCTTTAAAAAATTTTAAAATAAGGCA
* *
7047918 ATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTGTCGATTTTTCTCATTC
130 ATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTC
7047983 AACCAAATGGCTAAATATCCTTTT
195 AACCAAATGGCTAAATATCCTTTT
*
7048007 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG
7048051 GAACGTGCCA
Statistics
Matches: 248, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
218 43 0.17
219 205 0.83
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.35
Consensus pattern (218 bp):
AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTCAATTTTTCTCGTTCAACCAAATGACTAAATATCCTTTAAAAAATTTTAAAATAAGGCAA
TGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCA
ACCAAATGGCTAAATATCCTTTT
Found at i:7048084 original size:109 final size:109
Alignment explanation
Indices: 7047570--7048050 Score: 827
Period size: 109 Copynumber: 4.4 Consensus size: 109
7047560 TCAAAAACGA
* *
7047570 AAAAATTTTCAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAATATGCCCTAAGGTGCTG
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
* *
7047635 GGTGTCGATTTTTCTCGTTCAACCAAATGACTTAATATCCTTTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTT
*
7047679 AGAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
* *
7047744 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCTTTTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTT
*
7047788 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCTCTAAGGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCT
* *
7047853 GGGTGTCAATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTA
65 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTT
* *
7047898 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTG
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
*
7047963 GGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTT
*
7048007 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG
7048051 GAACGTGCCA
Statistics
Matches: 353, Mismatches: 18, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
109 249 0.71
110 104 0.29
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.35
Consensus pattern (109 bp):
AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTT
Found at i:7049807 original size:24 final size:24
Alignment explanation
Indices: 7049780--7049830 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
7049770 AAAGAGTCTA
*
7049780 TAACGGGTAGCTCCAAAAAGCAAT
1 TAACAGGTAGCTCCAAAAAGCAAT
* *
7049804 TAACAGGTAGCTCTAAAGAGCAAT
1 TAACAGGTAGCTCCAAAAAGCAAT
7049828 TAA
1 TAA
7049831 TAGTGTAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.20
Consensus pattern (24 bp):
TAACAGGTAGCTCCAAAAAGCAAT
Found at i:7050813 original size:103 final size:104
Alignment explanation
Indices: 7050569--7050834 Score: 419
Period size: 103 Copynumber: 2.6 Consensus size: 104
7050559 GTTGTACATA
** *
7050569 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
7050634 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
7050673 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
7050737 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
7050776 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
7050835 AATAACGGTT
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:7052157 original size:26 final size:26
Alignment explanation
Indices: 7052106--7052164 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
7052096 CACTAACGGG
* * * *
7052106 AAGCTCACAAAGAGCCTTTAATCAGA
1 AAGCTCACAAAGAGACATAAAACAGA
7052132 AAGCTCACAAAGAGACATAAAACAGA
1 AAGCTCACAAAGAGACATAAAACAGA
*
7052158 ACGCTCA
1 AAGCTCA
7052165 TAAGAGCTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.47, C:0.24, G:0.15, T:0.14
Consensus pattern (26 bp):
AAGCTCACAAAGAGACATAAAACAGA
Found at i:7052454 original size:21 final size:19
Alignment explanation
Indices: 7052429--7052468 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
7052419 CCGGCCCGAT
7052429 TTTTAATAAACACAAAAAATA
1 TTTTAA-AAACA-AAAAAATA
*
7052450 TTTTAAAAATAAAAAAATA
1 TTTTAAAAACAAAAAAATA
7052469 AAAATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
TTTTAAAAACAAAAAAATA
Found at i:7054191 original size:18 final size:18
Alignment explanation
Indices: 7054168--7054204 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
7054158 TCAATCTAAA
*
7054168 ACCAAACCAAGGCATACC
1 ACCAAACCAACGCATACC
7054186 ACCAAACCAACGCATACC
1 ACCAAACCAACGCATACC
7054204 A
1 A
7054205 AAGTATCATT
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:0.46, C:0.41, G:0.08, T:0.05
Consensus pattern (18 bp):
ACCAAACCAACGCATACC
Found at i:7055385 original size:43 final size:42
Alignment explanation
Indices: 7055215--7055421 Score: 206
Period size: 42 Copynumber: 4.9 Consensus size: 42
7055205 AACTCGCACA
* * * * * *
7055215 ATGCC-ATATCCCAGATATGGTCGTACATGCTATCATATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AATCACATATCG
*
7055257 ATGCCAATAG--CCAG-CTATGGTCTTACACGAATCTCATATCG
1 ATGCCAAT-GTCCCAGAC-ATGGTCTTACACGAATCACATATCG
* ***
7055298 ATGCCAATGTTCCAGACATGGTCTTACACGAATCTTGTATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAATCACATATCG
* * *
7055340 ATGCCAATGTCCCAGACATGGGTTTTACATGAATCACATAACG
1 ATGCCAATGTCCCAGACAT-GGTCTTACACGAATCACATATCG
*
7055383 ATGCCAATGTCCCAAACATGGTCTTACACGTAATCACAT
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AATCACAT
7055422 CTCAGTATCC
Statistics
Matches: 138, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
40 1 0.01
41 17 0.12
42 74 0.54
43 46 0.33
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAATCACATATCG
Found at i:7062345 original size:91 final size:91
Alignment explanation
Indices: 7062190--7062373 Score: 341
Period size: 91 Copynumber: 2.0 Consensus size: 91
7062180 TTAATGGAAA
7062190 AATAATATTCAAGTAAAAAGATTTCTGCATATTGCTCTGAAAGGTTTTCTAAATAGTACAAGGAC
1 AATAATATTCAAGTAAAAAGATTTCTGCATATTGCTCTGAAAGGTTTTCTAAATAGTACAAGGAC
7062255 CTGAAACAAGACCACTAGTCAGAACT
66 CTGAAACAAGACCACTAGTCAGAACT
* **
7062281 AATAATATTCAAGTAAAAGGATTTCTGCATATTGCTCTGAAAGGTTTTCTAAATAGTGTAAGGAC
1 AATAATATTCAAGTAAAAAGATTTCTGCATATTGCTCTGAAAGGTTTTCTAAATAGTACAAGGAC
7062346 CTGAAACAAGACCACTAGTCAGAACT
66 CTGAAACAAGACCACTAGTCAGAACT
7062372 AA
1 AA
7062374 CCAAATTTAA
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 90 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (91 bp):
AATAATATTCAAGTAAAAAGATTTCTGCATATTGCTCTGAAAGGTTTTCTAAATAGTACAAGGAC
CTGAAACAAGACCACTAGTCAGAACT
Found at i:7062828 original size:96 final size:95
Alignment explanation
Indices: 7062659--7063166 Score: 549
Period size: 96 Copynumber: 5.4 Consensus size: 95
7062649 AATTATTGCG
* * * * * * * *
7062659 AATCTTATTTTCTTGAAATTGCAGTGGAGCAGATTAAAAATAACGAATCTTATTTCCCTGAAGTT
1 AATCTTATCTCCTTG-AGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTTCCTGAAGTT
* *
7062724 GCAATGGAACAGATTAAAGTTACAAGTTACA
65 GCAGTGGAACAGATTAAAGCTACAAGTTACA
* * * *
7062755 AATCTTATCTCCTTGAGCTTGTAGTGGAGCAGATTGAATATAGCGAATCTTATTTTCCTAAAGTT
1 AATCTTATCTCCTTGAG-TTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTTCCTGAAGTT
* * *
7062820 ACAGTGGAACAGATTAAAGCTACAAGGTATA
65 GCAGTGGAACAGATTAAAGCTACAAGTTACA
* *
7062851 AATCTTATCTCCCTGAAGTTGAAGTGGAGCAGATTGAAGATAGCAAATCTTATTTTCCTGAAGTT
1 AATCTTATCTCCTTG-AGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTTCCTGAAGTT
*
7062916 GCAGTGGAACAAATTAAAGCTACAAGTTACA
65 GCAGTGGAACAGATTAAAGCTACAAGTTACA
* * * * *
7062947 AATCTTATCTCCCTGAACG-TGCAATGGAGCAGATT--A-A-AGCCAACCTTA-TCTCCTTGAAG
1 AATCTTATCTCCTTG-A-GTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTTCC-TGAAG
*
7063006 TTGCAGTGGAGCTAG-TTAAAG---C----TACA
63 TTGCAGTGGAAC-AGATTAAAGCTACAAGTTACA
** * * *
7063032 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTAAAGTT
1 AATCTTATCT-CCTTGAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTTCCTGAAGTT
*
7063097 ACAGTGGAACAGATTAAAGCTACAAGTTACA
65 GCAGTGGAACAGATTAAAGCTACAAGTTACA
7063128 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAG
1 AATCTTATCTCCTTG-AGTTGCAGTGGAGCAGATTGAAG
7063167 CGACAAGTCC
Statistics
Matches: 346, Mismatches: 45, Indels: 42
0.80 0.10 0.10
Matches are distributed among these distances:
84 1 0.00
85 29 0.08
86 2 0.01
87 1 0.00
88 3 0.01
89 30 0.09
90 3 0.01
91 4 0.01
92 32 0.09
93 2 0.01
94 1 0.00
95 4 0.01
96 231 0.67
97 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.30
Consensus pattern (95 bp):
AATCTTATCTCCTTGAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTTCCTGAAGTTG
CAGTGGAACAGATTAAAGCTACAAGTTACA
Found at i:7062877 original size:51 final size:48
Alignment explanation
Indices: 7062704--7063293 Score: 301
Period size: 51 Copynumber: 12.4 Consensus size: 48
7062694 AAAAATAACG
* * *
7062704 AATCTTATTTCCCTGAAGTTGCAA-TGGAACAGATTAAAGTTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTG-AAGTGGAGCAGATTAAAGCTACAAG---CA
* * * * *
7062755 AATCTTATCTCCTTG-AGCTTGTAGTGGAGCAGATTGAA--TA-TAGCG
1 AATCTTATCTCCCTGAAG-TTGAAGTGGAGCAGATTAAAGCTACAAGCA
* * * * *
7062800 AATCTTATTTTCCTAAAGTT-ACAGTGGAACAGATTAAAGCTACAAGGTATA
1 AATCTTATCTCCCTGAAGTTGA-AGTGGAGCAGATTAAAGCTACAA-G--CA
* *
7062851 AATCTTATCTCCCTGAAGTTGAAGTGGAGCAGATTGAAG--A-TAGCA
1 AATCTTATCTCCCTGAAGTTGAAGTGGAGCAGATTAAAGCTACAAGCA
* * * * *
7062896 AATCTTATTTTCCTGAAGTTGCAGTGGAACAAATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGAAGTGGAGCAGATTAAAGCTACAAG---CA
7062947 AATCTTATCTCCCTGAACG-TGCAA-TGGAGCAGATTAAAGC--CAA-C-
1 AATCTTATCTCCCTGAA-GTTG-AAGTGGAGCAGATTAAAGCTACAAGCA
* *
7062991 ---CTTATCTCCTTGAAGTTGCAGTGGAGCTAG-TTAAAGCT---A-CA
1 AATCTTATCTCCCTGAAGTTGAAGTGGAGC-AGATTAAAGCTACAAGCA
* * * *
7063032 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAG--A-TAGCA
1 AATCTTATCTCCCTGAAGTTGAAGTGGAGCAGATTAAAGCTACAAGCA
* * *
7063077 AATCTTATTTCCCTAAAGTT-ACAGTGGAACAGATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGA-AGTGGAGCAGATTAAAGCTACAAG---CA
* * * *
7063128 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCGACAAG--
1 AATCTTATCTCCCTGAAGTTGAAGTGGAGCAGATTAAAGCTACAAGCA
* * * * * *
7063174 --TCCTATAC-CTCTGAGGTTGCAGTGGATCGGATT-AAGTCTACCATAGCA
1 AATCTTAT-CTCCCTGAAGTTGAAGTGGAGCAGATTAAAG-CTA-CA-AGCA
* * * ** * *
7063222 AATCTTATTTCCCTAAAGTTGCAGTGGAATAGACTAAAGTTACAAGCTACA
1 AATCTTATCTCCCTGAAGTTGAAGTGGAGCAGATTAAAGCTACAAG---CA
7063273 AATCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTG
7063294 CAGCGGAATA
Statistics
Matches: 414, Mismatches: 73, Indels: 104
0.70 0.12 0.18
Matches are distributed among these distances:
40 4 0.01
41 28 0.07
42 2 0.00
43 5 0.01
44 57 0.14
45 102 0.25
46 4 0.01
47 5 0.01
48 10 0.02
49 9 0.02
50 28 0.07
51 157 0.38
52 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (48 bp):
AATCTTATCTCCCTGAAGTTGAAGTGGAGCAGATTAAAGCTACAAGCA
Found at i:7063132 original size:181 final size:182
Alignment explanation
Indices: 7062681--7063167 Score: 613
Period size: 181 Copynumber: 2.6 Consensus size: 182
7062671 TTGAAATTGC
* * * * * *
7062681 AGTGGAGCAGATTAAAAATAACGAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTAAAGTTA
1 AGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTA
* * * * * *
7062746 CAAGTTACAAATCTTATCTCCTTGAGCTTGTAGTGGAGCAGATTGAATATAGCGAATCTTATTTT
66 CAAGTTACAAATCTTATCTCCTTGAACGTGCAGTGGAGCAGATT--A-A-AGCCAACCTTATTCT
*
7062811 CCTAAAGTTACAGTGGAACAGATTAAAGCTACAAGGTATAAATCTTATCTCCCTGAAGTTGA
127 CCTAAAGTTACAGTGGAACAGATTAAAGCTAC-----A-AAATCTTATCTCCCTAAAGTTGA
* *
7062873 AGTGGAGCAGATTGAAGATAGCAAATCTTATTTTCCTGAAGTTGCAGTGGAACAAATTAAAGCTA
1 AGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTA
* *
7062938 CAAGTTACAAATCTTATCTCCCTGAACGTGCAATGGAGCAGATTAAAGCCAACCTTA-TCTCCTT
66 CAAGTTACAAATCTTATCTCCTTGAACGTGCAGTGGAGCAGATTAAAGCCAACCTTATTCTCC-T
* * * *
7063002 GAAGTTGCAGTGGAGCTAG-TTAAAGCTAC-AAATCTTATCTCCCTAAAGTTGT
130 AAAGTTACAGTGGAAC-AGATTAAAGCTACAAAATCTTATCTCCCTAAAGTTGA
* *
7063054 AGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTAAAGTTACAGTGGAACAGATTAAAGCTA
1 AGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTA
*
7063119 CAAGTTACAAATCTTATCTCCTTGAA-GTTGCAGTGGAGCAGATTGAAGC
66 CAAGTTACAAATCTTATCTCCTTGAACG-TGCAGTGGAGCAGATTAAAGC
7063168 GACAAGTCCT
Statistics
Matches: 264, Mismatches: 28, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
180 1 0.00
181 126 0.48
187 4 0.02
188 33 0.12
189 3 0.01
190 1 0.00
192 96 0.36
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (182 bp):
AGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTA
CAAGTTACAAATCTTATCTCCTTGAACGTGCAGTGGAGCAGATTAAAGCCAACCTTATTCTCCTA
AAGTTACAGTGGAACAGATTAAAGCTACAAAATCTTATCTCCCTAAAGTTGA
Found at i:7064766 original size:10 final size:10
Alignment explanation
Indices: 7064753--7064777 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
7064743 TTATTTTGTT
7064753 TTATTAATTA
1 TTATTAATTA
7064763 TTATTAATTA
1 TTATTAATTA
7064773 TTATT
1 TTATT
7064778 TACAATTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TTATTAATTA
Found at i:7064995 original size:39 final size:39
Alignment explanation
Indices: 7064940--7065018 Score: 115
Period size: 39 Copynumber: 2.0 Consensus size: 39
7064930 TTGTGCATTT
*
7064940 TTATTATTATTGTTATTATCATTATTATT-TTATTTTTAA
1 TTATTATTATTATTATTATCATTATT-TTATTATTTTTAA
* *
7064979 TTATTATTATTATTATTCTCGTTATTTTATTATTTTTAA
1 TTATTATTATTATTATTATCATTATTTTATTATTTTTAA
7065018 T
1 T
7065019 ATCTTCATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 2 0.06
39 34 0.94
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.67
Consensus pattern (39 bp):
TTATTATTATTATTATTATCATTATTTTATTATTTTTAA
Found at i:7065004 original size:36 final size:35
Alignment explanation
Indices: 7064936--7065009 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 35
7064926 TTATTTGTGC
* *
7064936 ATTTTTATTATTATTGTTATTATCATTATTATTTT
1 ATTTTTATTATTATTATTATTATCATCATTATTTT
*
7064971 ATTTTTAATTATTATTATTATTATTC-TCGTTATTTT
1 ATTTTT-ATTATTATTATTATTA-TCATCATTATTTT
7065007 ATT
1 ATT
7065010 ATTTTTAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
35 6 0.18
36 26 0.76
37 2 0.06
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.68
Consensus pattern (35 bp):
ATTTTTATTATTATTATTATTATCATCATTATTTT
Found at i:7065012 original size:3 final size:3
Alignment explanation
Indices: 7064940--7064995 Score: 69
Period size: 3 Copynumber: 18.7 Consensus size: 3
7064930 TTGTGCATTT
* * *
7064940 TTA TTA TTA TTG TTA TTA TCA TTA TTA TT- TTA TTT TTAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA
7064985 TTA TTA TTA TT
1 TTA TTA TTA TT
7064996 CTCGTTATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
2 2 0.04
3 41 0.91
4 2 0.04
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7066339 original size:13 final size:13
Alignment explanation
Indices: 7066321--7066351 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
7066311 TTGTTAATAA
7066321 CAAAATTTGACCC
1 CAAAATTTGACCC
7066334 CAAAATTTGACCC
1 CAAAATTTGACCC
7066347 CAAAA
1 CAAAA
7066352 ATATTGGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.45, C:0.29, G:0.06, T:0.19
Consensus pattern (13 bp):
CAAAATTTGACCC
Found at i:7068717 original size:3 final size:3
Alignment explanation
Indices: 7068709--7068742 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
7068699 CTAAAATTGG
7068709 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
7068743 TATTATTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7068902 original size:18 final size:16
Alignment explanation
Indices: 7068858--7068903 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 16
7068848 AAGGTAGTTA
7068858 AAATATTATGTATAAT
1 AAATATTATGTATAAT
7068874 AATATAGTTATGTATTAAT
1 AA-ATA-TTATGTA-TAAT
7068893 ATAATATTATG
1 A-AATATTATG
7068904 ATAGATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 2 0.08
17 3 0.12
18 12 0.46
19 8 0.31
20 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (16 bp):
AAATATTATGTATAAT
Found at i:7076902 original size:49 final size:49
Alignment explanation
Indices: 7076809--7076919 Score: 118
Period size: 49 Copynumber: 2.3 Consensus size: 49
7076799 CCAGTTCATG
* * *
7076809 GTGGTTATACGATCACATGTTCAAGTATAACTAGGGTTTTTAGTTGACA
1 GTGGTTATACGATCACATGTTCAAGTATAACTAGAGCTTCTAGTTGACA
* * *
7076858 GTGGTTATACGATCACGA-GTTTAAGTATAATTCA-AGCTTCTAGTTGATA
1 GTGGTTATACGATCAC-ATGTTCAAGTATAACT-AGAGCTTCTAGTTGACA
* *
7076907 GTGATTATGCGAT
1 GTGGTTATACGAT
7076920 TACGGATTCA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
49 50 0.96
50 2 0.04
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.37
Consensus pattern (49 bp):
GTGGTTATACGATCACATGTTCAAGTATAACTAGAGCTTCTAGTTGACA
Found at i:7082572 original size:23 final size:21
Alignment explanation
Indices: 7082542--7082601 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 21
7082532 TAGTATGATA
**
7082542 AATTTTTTTAAAATATTCTTTT
1 AATTTTTTTAAAATATT-TCAT
*
7082564 GAATTTTTTTAAAAAATTTCAT
1 -AATTTTTTTAAAATATTTCAT
7082586 AATTTTTTTAAAATAT
1 AATTTTTTTAAAATAT
7082602 AAATTTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 15 0.45
22 2 0.06
23 16 0.48
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (21 bp):
AATTTTTTTAAAATATTTCAT
Found at i:7082617 original size:44 final size:44
Alignment explanation
Indices: 7082542--7082635 Score: 102
Period size: 44 Copynumber: 2.1 Consensus size: 44
7082532 TAGTATGATA
** **
7082542 AATTTTTTTAAAATATTCTTTTGAATTTTTTTA-AAAAATTTCAT
1 AATTTTTTTAAAATATAATTTTGAAAATTTTTATAAAAATTT-AT
* *
7082586 AATTTTTTTAAAATATAAATTTT-AAAATTTTTATAAATATTTTT
1 AATTTTTTTAAAATAT-AATTTTGAAAATTTTTATAAAAATTTAT
7082630 AATTTT
1 AATTTT
7082636 AAAAATTATT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
44 31 0.74
45 11 0.26
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.57
Consensus pattern (44 bp):
AATTTTTTTAAAATATAATTTTGAAAATTTTTATAAAAATTTAT
Found at i:7082635 original size:19 final size:19
Alignment explanation
Indices: 7082611--7082665 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 19
7082601 TAAATTTTAA
7082611 AATTTTTATAAATATTTTT
1 AATTTTTATAAATATTTTT
*
7082630 AA-TTTTAAAAAT-TATTTT
1 AATTTTTATAAATAT-TTTT
*
7082648 AATTTTTTTAAA-ATTTTT
1 AATTTTTATAAATATTTTT
7082666 GTTGGGTTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
17 1 0.03
18 19 0.63
19 10 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
AATTTTTATAAATATTTTT
Found at i:7082658 original size:21 final size:21
Alignment explanation
Indices: 7082542--7082660 Score: 88
Period size: 21 Copynumber: 5.6 Consensus size: 21
7082532 TAGTATGATA
*
7082542 AATTTTTTTAAAATATTCTTTT
1 AATTTTTTTAAAA-ATTATTTT
7082564 GAATTTTTTTAAAAA--ATTTCAT
1 -AATTTTTTTAAAAATTATTT--T
*
7082586 AATTTTTTTAAAATATAAATTTT
1 AATTTTTTTAAAA-AT-TATTTT
** *
7082609 AAAATTTTTATAAA-TATTTTT
1 AATTTTTTTAAAAATTA-TTTT
7082630 AA---TTTTAAAAATTATTTT
1 AATTTTTTTAAAAATTATTTT
7082648 AATTTTTTTAAAA
1 AATTTTTTTAAAA
7082661 TTTTTGTTGG
Statistics
Matches: 79, Mismatches: 6, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
18 14 0.18
19 2 0.03
20 4 0.05
21 27 0.34
22 4 0.05
23 24 0.30
25 4 0.05
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.56
Consensus pattern (21 bp):
AATTTTTTTAAAAATTATTTT
Found at i:7089228 original size:23 final size:23
Alignment explanation
Indices: 7089202--7089289 Score: 94
Period size: 23 Copynumber: 4.0 Consensus size: 23
7089192 AAAGTTAGAC
7089202 GAGTGAAGAGACTTGAATATGAA
1 GAGTGAAGAGACTTGAATATGAA
*
7089225 GAGTGAAGAGACTTGAAGATGAA
1 GAGTGAAGAGACTTGAATATGAA
* * * * *
7089248 AAGT-TACACAC---ATTATGAA
1 GAGTGAAGAGACTTGAATATGAA
7089267 GAGTGAAGAGACTTGAATATGAA
1 GAGTGAAGAGACTTGAATATGAA
7089290 AGGTTACACA
Statistics
Matches: 49, Mismatches: 12, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
19 9 0.18
20 4 0.08
22 4 0.08
23 32 0.65
ACGTcount: A:0.44, C:0.07, G:0.27, T:0.22
Consensus pattern (23 bp):
GAGTGAAGAGACTTGAATATGAA
Found at i:7089278 original size:42 final size:42
Alignment explanation
Indices: 7089219--7089302 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
7089209 GAGACTTGAA
7089219 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
* *
7089261 TATGAAGAGTGAAGAGACTTGAATATGAAAGGTTACACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
7089303 GCATGAATAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.44, C:0.10, G:0.24, T:0.23
Consensus pattern (42 bp):
TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
Found at i:7093113 original size:101 final size:101
Alignment explanation
Indices: 7092938--7093141 Score: 408
Period size: 101 Copynumber: 2.0 Consensus size: 101
7092928 TTAGCGTTAA
7092938 TTTGAACGAACCCTTAATAGTATCGTTAGAATTGATGGACGATTTCAATGTGTGGAATATGAGTC
1 TTTGAACGAACCCTTAATAGTATCGTTAGAATTGATGGACGATTTCAATGTGTGGAATATGAGTC
7093003 TATCCCTAACATCTGTTTTGAATGTGGATGTTATGG
66 TATCCCTAACATCTGTTTTGAATGTGGATGTTATGG
7093039 TTTGAACGAACCCTTAATAGTATCGTTAGAATTGATGGACGATTTCAATGTGTGGAATATGAGTC
1 TTTGAACGAACCCTTAATAGTATCGTTAGAATTGATGGACGATTTCAATGTGTGGAATATGAGTC
7093104 TATCCCTAACATCTGTTTTGAATGTGGATGTTATGG
66 TATCCCTAACATCTGTTTTGAATGTGGATGTTATGG
7093140 TT
1 TT
7093142 ATCTACGAGA
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 103 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (101 bp):
TTTGAACGAACCCTTAATAGTATCGTTAGAATTGATGGACGATTTCAATGTGTGGAATATGAGTC
TATCCCTAACATCTGTTTTGAATGTGGATGTTATGG
Found at i:7099443 original size:15 final size:15
Alignment explanation
Indices: 7099423--7099456 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
7099413 CAAAAAATAT
7099423 ATTAAAAATTAAAAA
1 ATTAAAAATTAAAAA
* *
7099438 ATTAAAATTTCAAAA
1 ATTAAAAATTAAAAA
7099453 ATTA
1 ATTA
7099457 TATAATATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (15 bp):
ATTAAAAATTAAAAA
Found at i:7104567 original size:9 final size:9
Alignment explanation
Indices: 7104550--7104586 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
7104540 TAAGTTTTCG
7104550 AATTCGAAT
1 AATTCGAAT
*
7104559 AACTCGAAT
1 AATTCGAAT
7104568 AATTCGAAT
1 AATTCGAAT
7104577 AATTCGAAT
1 AATTCGAAT
7104586 A
1 A
7104587 TTAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:7104805 original size:30 final size:31
Alignment explanation
Indices: 7104771--7104830 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
7104761 AACCTTTTAT
*
7104771 TTTTCCCCCAAAGTTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAATTTTTACTCCCTTCCCAC
* *
7104801 TTTTCCCCTAAAATTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAATTTTTACTCCCTTCCCA
7104831 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.18, C:0.38, G:0.02, T:0.42
Consensus pattern (31 bp):
TTTTCCCCCAAAATTTTTACTCCCTTCCCAC
Found at i:7104948 original size:17 final size:16
Alignment explanation
Indices: 7104914--7104944 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7104904 CCTATTTACT
*
7104914 TTCCCTCAAACTTTTA
1 TTCCCCCAAACTTTTA
7104930 TTCCCCCAAACTTTT
1 TTCCCCCAAACTTTT
7104945 TATTTTTCCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.35, G:0.00, T:0.42
Consensus pattern (16 bp):
TTCCCCCAAACTTTTA
Found at i:7109620 original size:21 final size:21
Alignment explanation
Indices: 7109594--7109635 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
7109584 TTAGCTCAGA
7109594 CGGGTAACCTGATATATTTAT
1 CGGGTAACCTGATATATTTAT
*
7109615 CGGGTAACCTGATGTATTTAT
1 CGGGTAACCTGATATATTTAT
7109636 ACTCTTCTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.38
Consensus pattern (21 bp):
CGGGTAACCTGATATATTTAT
Found at i:7111112 original size:160 final size:160
Alignment explanation
Indices: 7110848--7111167 Score: 604
Period size: 160 Copynumber: 2.0 Consensus size: 160
7110838 ATGGACACCA
7110848 TAGAAGGATTTATCAAAAAAGGCTTACTAGGATAACTTGTAAAGAGGAAACCTAGATAGTAAGAA
1 TAGAAGGATTTATCAAAAAAGGCTTACTAGGATAACTTGTAAAGAGGAAACCTAGATAGTAAGAA
7110913 TATCAAGAAGAAAAGATATCCAAGAGAAGAGAGACAAGTTATAAAGAGTAATTGAAGGGAACTAT
66 TATCAAGAAGAAAAGATATCCAAGAGAAGAGAGACAAGTTATAAAGAGTAATTGAAGGGAACTAT
*
7110978 TTATGATAGTAAGTGCTAAAAAAGAGTGGG
131 TTATGATAGCAAGTGCTAAAAAAGAGTGGG
*
7111008 TAGAAGGATTTATCAGAAAAGGCTTACTAGGATAACTTGTAAAGAGGAAACCTAGATAGTAAGAA
1 TAGAAGGATTTATCAAAAAAGGCTTACTAGGATAACTTGTAAAGAGGAAACCTAGATAGTAAGAA
* *
7111073 TATCGAGAAGAAAAGATATCCAAGAGAAGAGAGACAAGTTATAGAGAGTAATTGAAGGGAACTAT
66 TATCAAGAAGAAAAGATATCCAAGAGAAGAGAGACAAGTTATAAAGAGTAATTGAAGGGAACTAT
7111138 TTATGATAGCAAGTGCTAAAAAAGAGTGGG
131 TTATGATAGCAAGTGCTAAAAAAGAGTGGG
7111168 ATACCTTGAA
Statistics
Matches: 156, Mismatches: 4, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
160 156 1.00
ACGTcount: A:0.46, C:0.08, G:0.25, T:0.22
Consensus pattern (160 bp):
TAGAAGGATTTATCAAAAAAGGCTTACTAGGATAACTTGTAAAGAGGAAACCTAGATAGTAAGAA
TATCAAGAAGAAAAGATATCCAAGAGAAGAGAGACAAGTTATAAAGAGTAATTGAAGGGAACTAT
TTATGATAGCAAGTGCTAAAAAAGAGTGGG
Found at i:7112155 original size:29 final size:29
Alignment explanation
Indices: 7112113--7112171 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
7112103 TGTCCTAGAG
*
7112113 ATTGGTTTGGATTTGGATCAAAGGCATCA
1 ATTGGTTTGGATTTGGATCAAAGACATCA
*
7112142 ATTGGTTTGGATTTGGTTCAAAGACATCA
1 ATTGGTTTGGATTTGGATCAAAGACATCA
7112171 A
1 A
7112172 CTTCTCAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.36
Consensus pattern (29 bp):
ATTGGTTTGGATTTGGATCAAAGACATCA
Found at i:7114239 original size:31 final size:30
Alignment explanation
Indices: 7114177--7114242 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
7114167 TTTAGTCATA
*
7114177 TAATAAATTATTAATATAATTTATTATTTT
1 TAATAAATTATTAATATAAATTATTATTTT
7114207 TAATAAATTATTTAATATTTAAATT-TTA-TTT
1 TAATAAATTA-TTAATA--TAAATTATTATTTT
7114238 TAATA
1 TAATA
7114243 GTAAATTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
30 10 0.31
31 14 0.44
32 3 0.09
33 5 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (30 bp):
TAATAAATTATTAATATAAATTATTATTTT
Found at i:7114863 original size:14 final size:14
Alignment explanation
Indices: 7114827--7114864 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
7114817 CCAGAAAAGT
7114827 AAGTCATTTTCCAG
1 AAGTCATTTTCCAG
* *
7114841 AAATTATTTTCCAG
1 AAGTCATTTTCCAG
7114855 AAGTCATTTT
1 AAGTCATTTT
7114865 TAGTGAAACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.42
Consensus pattern (14 bp):
AAGTCATTTTCCAG
Found at i:7120285 original size:18 final size:18
Alignment explanation
Indices: 7120258--7120298 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
7120248 TTAAATAATT
* *
7120258 TTTTATTAAGTAAAAATA
1 TTTTAATAAGCAAAAATA
7120276 TTTTAATAAGCAAAAATA
1 TTTTAATAAGCAAAAATA
7120294 TTTTA
1 TTTTA
7120299 TTAATTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (18 bp):
TTTTAATAAGCAAAAATA
Found at i:7124581 original size:23 final size:23
Alignment explanation
Indices: 7124554--7124629 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
7124544 AGTGTTATTG
7124554 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
7124577 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
7124600 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
7124623 ATCAGTG
1 ATCAGTG
7124630 TTGCACTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:7129377 original size:21 final size:19
Alignment explanation
Indices: 7129334--7129378 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
7129324 ACATCGTTTT
* *
7129334 CAGAAGCTCGAAGGCTGAA
1 CAGAAGCTCGAAAGCTAAA
7129353 CAGAAGCTCATGAAAGCTAAA
1 CAGAAGCTC--GAAAGCTAAA
7129374 CAGAA
1 CAGAA
7129379 TACCATCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 9 0.41
21 13 0.59
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.11
Consensus pattern (19 bp):
CAGAAGCTCGAAAGCTAAA
Found at i:7129608 original size:101 final size:101
Alignment explanation
Indices: 7129420--7129659 Score: 345
Period size: 101 Copynumber: 2.4 Consensus size: 101
7129410 AATTCATCCT
* * * *
7129420 TTACATTCGTAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCACAGCCCAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCACAGCCCAACTATAGT
* * * **
7129485 CTTACGTATAAACATTGTCATGGTTCAACCATGGTC
66 CTTACATATAAACACTGCCATGGGCCAACCATGGTC
* *
7129521 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATTAGAATGCCATAGCCCAACTATAGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCACAGCCCAACTATAGT
*
7129586 CTTACATATAAACACTGCCATGGGCCAACCTTGGTC
66 CTTACATATAAACACTGCCATGGGCCAACCATGGTC
* * *
7129622 TTACGTTCATAGTGCCATAACCTAGCTATGGTTTTATC
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATC
7129660 CGTCAATTCA
Statistics
Matches: 124, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 124 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.32
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCACAGCCCAACTATAGT
CTTACATATAAACACTGCCATGGGCCAACCATGGTC
Found at i:7131624 original size:11 final size:11
Alignment explanation
Indices: 7131571--7131628 Score: 62
Period size: 11 Copynumber: 5.1 Consensus size: 11
7131561 TTTTATACTA
7131571 AATAAAATAAT
1 AATAAAATAAT
*
7131582 AACAAAATAAT
1 AATAAAATAAT
*
7131593 AATAAAATATCTT
1 AATAAAATA--AT
* *
7131606 ATTAAAATATT
1 AATAAAATAAT
7131617 AATAAAATAAT
1 AATAAAATAAT
7131628 A
1 A
7131629 TTTATCTAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
11 30 0.77
13 9 0.23
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:7133031 original size:44 final size:44
Alignment explanation
Indices: 7132979--7133122 Score: 252
Period size: 44 Copynumber: 3.3 Consensus size: 44
7132969 TTTTAATTTT
*
7132979 TATTATTAAATGAGATAATTAATTTAGCGTGGATATCTTTTCAA
1 TATTATTAAATGAGATAATTAATTTAGCGTGAATATCTTTTCAA
*
7133023 TACTATTAAATGAGATAATTAATTTAGCGTGAATATCTTTTCAA
1 TATTATTAAATGAGATAATTAATTTAGCGTGAATATCTTTTCAA
* *
7133067 TATTATTAAATGAGATAATTAATTTAGTGTAAATATCTTTTCAA
1 TATTATTAAATGAGATAATTAATTTAGCGTGAATATCTTTTCAA
7133111 TATTATTAAATG
1 TATTATTAAATG
7133123 GGTTGTATGA
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 95 1.00
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (44 bp):
TATTATTAAATGAGATAATTAATTTAGCGTGAATATCTTTTCAA
Found at i:7133121 original size:21 final size:21
Alignment explanation
Indices: 7133054--7133121 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 21
7133044 ATTTAGCGTG
7133054 AATATCTTTTCAATATTATTA
1 AATATCTTTTCAATATTATTA
** *
7133075 AATGAGATAATT-AAT-TTAGTGTA
1 AAT-ATCT-TTTCAATATTA-T-TA
7133098 AATATCTTTTCAATATTATTA
1 AATATCTTTTCAATATTATTA
7133119 AAT
1 AAT
7133122 GGGTTGTATG
Statistics
Matches: 35, Mismatches: 6, Indels: 12
0.66 0.11 0.23
Matches are distributed among these distances:
21 13 0.37
22 12 0.34
23 10 0.29
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (21 bp):
AATATCTTTTCAATATTATTA
Found at i:7139416 original size:88 final size:88
Alignment explanation
Indices: 7139237--7139418 Score: 206
Period size: 88 Copynumber: 2.1 Consensus size: 88
7139227 AGCCTTTATA
* * * * **
7139237 TTTTTTGCACTTAATTGAGTACTTAAACTTTCAAAATGCATCGAAAAGCCCCTTGAACTTTTCAA
1 TTTTTTGCACTCAATTGAGTACTTAAACTTTCAAAATACATCAAAAAGACCCTAAAACTTTTCAA
* **
7139302 AATAAGCAATGATGCCCCTATTT
66 AATAAGCAATGAAGCCCCTAGCT
* * * *
7139325 TTTTTTGCACTCAATTGCGTACTTAAATTTTCAAAATATATCAAAAAGACCCTCAAAATTTTTCA
1 TTTTTTGCACTCAATTGAGTACTTAAACTTTCAAAATACATCAAAAAGACCCT-AAAACTTTTCA
*
7139390 ATAA-AAGCAATTAAGCCCCT-GCT
65 A-AATAAGCAATGAAGCCCCTAGCT
7139413 TTTTTT
1 TTTTTT
7139419 TTTTTACACT
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
88 53 0.68
89 23 0.29
90 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.37
Consensus pattern (88 bp):
TTTTTTGCACTCAATTGAGTACTTAAACTTTCAAAATACATCAAAAAGACCCTAAAACTTTTCAA
AATAAGCAATGAAGCCCCTAGCT
Found at i:7139679 original size:21 final size:20
Alignment explanation
Indices: 7139596--7139786 Score: 74
Period size: 21 Copynumber: 9.7 Consensus size: 20
7139586 AAAAATCAAT
* *
7139596 AAAAATTA-AAAAAATTATT
1 AAAAATTATAAAAAATTGTA
** *
7139615 AAATTTTAATAAAAAAATGTA
1 AAAAATT-ATAAAAAATTGTA
* *
7139636 AAAATTTATTAAAAATTAG-A
1 AAAAATTATAAAAAATT-GTA
7139656 AAATAATTATAAAAAATTGTA
1 AAA-AATTATAAAAAATTGTA
* * * *
7139677 AAAAAATATAATATA-TAT-
1 AAAAATTATAAAAAATTGTA
* *
7139695 AGAAA-TATAGAAAAAAT-TA
1 AAAAATTATA-AAAAATTGTA
* * * * **
7139714 TAAAATTTTATAAAGTCATA
1 AAAAATTATAAAAAATTGTA
*
7139734 AGAAAATTATAAAAAAATGTA
1 A-AAAATTATAAAAAATTGTA
*
7139755 AAAAATTAT--CAAATTCGTA
1 AAAAATTATAAAAAATT-GTA
*
7139774 AAAGATTATAAAA
1 AAAAATTATAAAA
7139787 TTTATCGTAC
Statistics
Matches: 123, Mismatches: 35, Indels: 26
0.67 0.19 0.14
Matches are distributed among these distances:
17 4 0.03
18 12 0.10
19 25 0.20
20 36 0.29
21 46 0.37
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (20 bp):
AAAAATTATAAAAAATTGTA
Found at i:7139718 original size:10 final size:10
Alignment explanation
Indices: 7139567--7139763 Score: 88
Period size: 10 Copynumber: 20.1 Consensus size: 10
7139557 TGACATGTTG
*
7139567 TAAAAAATGA
1 TAAAAAATTA
7139577 TAAAAAA--A
1 TAAAAAATTA
*
7139585 T-AAAAATCA
1 TAAAAAATTA
7139594 -ATAAAAATTA
1 TA-AAAAATTA
7139604 -AAAAAATTA
1 TAAAAAATTA
* **
7139613 TTAAATTTTAA
1 TAAAAAATT-A
* *
7139624 TAAAAAAATG
1 TAAAAAATTA
*
7139634 TAAAAATTTA
1 TAAAAAATTA
*
7139644 TTAAAAATTA
1 TAAAAAATTA
*
7139654 GAAAATAATTA
1 TAAAA-AATTA
*
7139665 TAAAAAATTG
1 TAAAAAATTA
*
7139675 TAAAAAAATA
1 TAAAAAATTA
* *
7139685 TAATATA-TA
1 TAAAAAATTA
*
7139694 T-AGAAATATA
1 TAAAAAAT-TA
*
7139704 GAAAAAATTA
1 TAAAAAATTA
*
7139714 T--AAAATTT
1 TAAAAAATTA
* * *
7139722 TATAAAGTCA
1 TAAAAAATTA
7139732 TAAGAAAATTA
1 TAA-AAAATTA
* *
7139743 TAAAAAAATG
1 TAAAAAATTA
7139753 TAAAAAATTA
1 TAAAAAATTA
7139763 T
1 T
7139764 CAAATTCGTA
Statistics
Matches: 136, Mismatches: 38, Indels: 26
0.68 0.19 0.13
Matches are distributed among these distances:
7 5 0.04
8 12 0.09
9 12 0.09
10 79 0.58
11 28 0.21
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:7139774 original size:19 final size:19
Alignment explanation
Indices: 7139752--7139788 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7139742 ATAAAAAAAT
*
7139752 GTAAAAAATTATCAAATTC
1 GTAAAAAATTATAAAATTC
*
7139771 GTAAAAGATTATAAAATT
1 GTAAAAAATTATAAAATT
7139789 TATCGTACCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.32
Consensus pattern (19 bp):
GTAAAAAATTATAAAATTC
Found at i:7142179 original size:23 final size:23
Alignment explanation
Indices: 7142115--7142202 Score: 92
Period size: 23 Copynumber: 4.0 Consensus size: 23
7142105 CCTGATCAAT
*
7142115 ATACGACTCAT-AAGTGCCT-AA
1 ATACGACACATAAAGTGCCTGAA
* ** *
7142136 A-ACGACGCACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
* *
7142158 ATACGACACATAAAGTGTCTGAT
1 ATACGACACATAAAGTGCCTGAA
7142181 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
7142203 TCGGCAAAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
20 7 0.13
21 8 0.15
22 3 0.06
23 36 0.67
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAA
Found at i:7142556 original size:26 final size:25
Alignment explanation
Indices: 7142525--7142574 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
7142515 TAGTTCAATA
7142525 ATTCAATTCAA-ACCATTTCAATTTCT
1 ATTCAATT-AACA-CATTTCAATTTCT
*
7142551 ATTCAATTATCACATTTCAATTTC
1 ATTCAATTAACACATTTCAATTTC
7142575 ACTTTCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.34, C:0.22, G:0.00, T:0.44
Consensus pattern (25 bp):
ATTCAATTAACACATTTCAATTTCT
Found at i:7161497 original size:120 final size:120
Alignment explanation
Indices: 7161332--7161913 Score: 950
Period size: 120 Copynumber: 4.8 Consensus size: 120
7161322 GCCAATTGCT
7161332 TATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
1 TATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
* * *
7161397 TTTTTATTAAATTATATTTAATATTAATTATTTTAAATTATATTATATAGTATTA
66 TTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
7161452 TATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
1 TATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
*
7161517 TTTTTATTAAATTATATTCAATAATAATTATGTTAAATTATATTTTATAGTATTA
66 TTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
* *
7161572 TATATTATGATTTTTTTAAATTCATGTAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
1 TATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
*
7161637 TTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTACAGTATTA
66 TTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
* * *
7161692 TATATTATGATTTTATAAAATTCATAAAAGAATATTTAATATTAAGAATTTTATTAAATCATATA
1 TATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
* * * *
7161757 TTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTATAGTATCA
66 TTTTTATTAAATTATATTTAATAATAATTATGTT-AAATTATATTTTATAGTATTA
* * * * *
7161812 TATATTATGATTTGAGTAAATTCATATAATAATATTGATTATTAAGAATTTTATTAAATTATATA
1 TATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
* * *
7161877 TTCTAATTAAAATATATTTAATAATAATTATGTTAAA
66 TTTTTATTAAATTATATTTAATAATAATTATGTTAAA
7161914 ATATGATTAA
Statistics
Matches: 432, Mismatches: 28, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
119 2 0.00
120 428 0.99
121 2 0.00
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (120 bp):
TATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
TTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
Found at i:7162151 original size:16 final size:16
Alignment explanation
Indices: 7162126--7162163 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
7162116 TTGATTTGCT
*
7162126 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
7162142 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
7162158 AATACA
1 ATTACA
7162164 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.29, C:0.34, G:0.03, T:0.34
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:7162433 original size:56 final size:56
Alignment explanation
Indices: 7162318--7162446 Score: 145
Period size: 56 Copynumber: 2.3 Consensus size: 56
7162308 AATAAAATTA
* *
7162318 TTAATATAAATAATAAATAATTTAATCATATTTTAACATAATTATTATTAAATATAAT
1 TTAATA-AAATAATAAATAATTTAATAAAATTTTAACATAATTATTATT-AATATAAT
* * *
7162376 TTAATAAAA-AATATATAATTTAATAAAATTCTTAATATAATTATTCTT-ATATGAAT
1 TTAATAAAATAATAAATAATTTAATAAAATT-TTAACATAATTATTATTAATAT-AAT
* *
7162432 TTACTAAAATCATAA
1 TTAATAAAATAATAA
7162447 TATATAAAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
55 4 0.07
56 29 0.48
57 21 0.35
58 6 0.10
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (56 bp):
TTAATAAAATAATAAATAATTTAATAAAATTTTAACATAATTATTATTAATATAAT
Found at i:7173094 original size:6 final size:6
Alignment explanation
Indices: 7173080--7173111 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
7173070 TATAGATATA
7173080 TTTTC- TTTTCT TTTTCT TTTTCT TTTTCT TTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTT
7173112 GAACATGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTCT
Found at i:7174113 original size:18 final size:17
Alignment explanation
Indices: 7174082--7174142 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 17
7174072 AAATAATTCT
7174082 AAGAAAAT-AAAAATAA
1 AAGAAAATAAAAAATAA
7174098 ACAGAAAATAAAAAATAA
1 A-AGAAAATAAAAAATAA
*
7174116 AA-AATAATAAGAAAAGAA
1 AAGAA-AATAA-AAAATAA
7174134 AAGAAAATA
1 AAGAAAATA
7174143 GACTCAATGG
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
16 3 0.08
17 13 0.33
18 21 0.54
19 2 0.05
ACGTcount: A:0.79, C:0.02, G:0.08, T:0.11
Consensus pattern (17 bp):
AAGAAAATAAAAAATAA
Found at i:7174118 original size:25 final size:24
Alignment explanation
Indices: 7174085--7174135 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
7174075 TAATTCTAAG
*
7174085 AAAATAAAAATAA-ACAGAAAATAA
1 AAAATAAAAATAATA-AGAAAAGAA
7174109 AAAATAAAAAATAATAAGAAAAGAA
1 AAAAT-AAAAATAATAAGAAAAGAA
7174134 AA
1 AA
7174136 GAAAATAGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 5 0.21
25 18 0.75
26 1 0.04
ACGTcount: A:0.80, C:0.02, G:0.06, T:0.12
Consensus pattern (24 bp):
AAAATAAAAATAATAAGAAAAGAA
Found at i:7179277 original size:14 final size:15
Alignment explanation
Indices: 7179253--7179287 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
7179243 TATATATATT
7179253 ACCATATAAATACTA
1 ACCATATAAATACTA
7179268 ACCATA-AAATACTA
1 ACCATATAAATACTA
7179282 ATCCAT
1 A-CCAT
7179288 GATTAAAGTA
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:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:7179986 original size:41 final size:41
Alignment explanation
Indices: 7179955--7180236 Score: 345
Period size: 41 Copynumber: 6.9 Consensus size: 41
7179945 CTATATAAAA
* * * * * *
7179955 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCG-ATTCATTT
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAAT-AATC
* * * * *
7179996 CACCGGCA-CAAAGCCTGCTAGACATAAAGTCGGAATTAATT
1 CACCGGCATC-AAGCCTGCTAGGCATAAAGCCTGAAATAATC
* * * * *
7180037 CACCGGCATCAAACCTGCTAGACATAAAGTCTAAAATAATT
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATC
*
7180078 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATC
*
7180119 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATC
*
7180160 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATC
7180201 CACCGGCATCAAGCCTGCTAGGCATTAAA-CCTGAAA
1 CACCGGCATCAAGCCTGCTAGGCA-TAAAGCCTGAAA
7180237 ATCTCATATA
Statistics
Matches: 220, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
41 213 0.97
42 7 0.03
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.20
Consensus pattern (41 bp):
CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATC
Found at i:7180427 original size:62 final size:61
Alignment explanation
Indices: 7180351--7180530 Score: 247
Period size: 64 Copynumber: 2.9 Consensus size: 61
7180341 GCAAACAAAC
*
7180351 ATTCGAACCACATATGTATAATTTACA-ACATTAAAATTCAGCTCAAAGAA-TTTGTAACCTAT
1 ATTCGAACCACATATGTATAAATT-CATACATT-AAATTCAGCTC-AAGAACTTTGTAACCTAT
7180413 ATTCGAACCACATATGTAAGTAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
1 ATTCGAACCACATATGT-A-TAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
* *
7180476 ATTTGAACCACATATGTATATAAAATTCATACATTAAATACAGCTCAAGAACTTT
1 ATTCGAACCACATATG--TAT-AAATTCATACATTAAATTCAGCTCAAGAACTTT
7180531 AAATATATAT
Statistics
Matches: 108, Mismatches: 3, Indels: 12
0.88 0.02 0.10
Matches are distributed among these distances:
62 22 0.20
63 42 0.39
64 43 0.40
65 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (61 bp):
ATTCGAACCACATATGTATAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
Found at i:7180473 original size:63 final size:62
Alignment explanation
Indices: 7180351--7180530 Score: 258
Period size: 63 Copynumber: 2.9 Consensus size: 62
7180341 GCAAACAAAC
*
7180351 ATTCGAACCACATATGT-ATAATTTACA-ACATTAAAATTCAGCTCAAAGAA-TTTGTAACCTAT
1 ATTCGAACCACATATGTAATAAATT-CATACATT-AAATTCAGCTC-AAGAACTTTGTAACCTAT
7180413 ATTCGAACCACATATGTAAGTAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
1 ATTCGAACCACATATGTAA-TAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
* *
7180476 ATTTGAACCACATATGTATATAAAATTCATACATTAAATACAGCTCAAGAACTTT
1 ATTCGAACCACATATGTA-AT-AAATTCATACATTAAATTCAGCTCAAGAACTTT
7180531 AAATATATAT
Statistics
Matches: 109, Mismatches: 3, Indels: 10
0.89 0.02 0.08
Matches are distributed among these distances:
62 22 0.20
63 44 0.40
64 43 0.39
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (62 bp):
ATTCGAACCACATATGTAATAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
Found at i:7180540 original size:63 final size:63
Alignment explanation
Indices: 7180355--7180550 Score: 206
Period size: 63 Copynumber: 3.1 Consensus size: 63
7180345 ACAAACATTC
* * * *
7180355 GAACCACATATGT-A-TAATTTACA-ACATTAAAATTCAGCTCAAAGAA-TTTGTAACCTATATT
1 GAACCACATATGTAAGTAAATT-CATACATT-AAATACAGCTC-AAGAACTTTGAAACATATATT
*
7180416 C
63 T
* * *
7180417 GAACCACATATGTAAGTAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATATTT
1 GAACCACATATGTAAGTAAATTCATACATTAAATACAGCTCAAGAACTTTGAAACATATATTT
*
7180480 GAACCACATATGTATA-TAAAATTCATACATTAAATACAGCTCAAGAACTTT-AAATATATATAT
1 GAACCACATATGTA-AGT-AAATTCATACATTAAATACAGCTCAAGAACTTTGAAACATATAT-T
7180543 T
63 T
7180544 CGAACCA
1 -GAACCA
7180551 TATGTGCATA
Statistics
Matches: 120, Mismatches: 6, Indels: 13
0.86 0.04 0.09
Matches are distributed among these distances:
62 18 0.15
63 51 0.43
64 45 0.38
65 6 0.05
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (63 bp):
GAACCACATATGTAAGTAAATTCATACATTAAATACAGCTCAAGAACTTTGAAACATATATTT
Found at i:7186228 original size:14 final size:15
Alignment explanation
Indices: 7186204--7186238 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
7186194 TATATATATT
7186204 ACCATATAAATACTA
1 ACCATATAAATACTA
7186219 ACCATA-AAATACTA
1 ACCATATAAATACTA
7186233 ATCCAT
1 A-CCAT
7186239 GATTAAAGTA
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:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:7186936 original size:41 final size:41
Alignment explanation
Indices: 7186905--7187187 Score: 347
Period size: 41 Copynumber: 6.9 Consensus size: 41
7186895 CTATATAAAA
* * * * * *
7186905 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCG-ATTCATTT
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAAT-AATC
* * * * *
7186946 CACCGGCA-CAAAGCCTGCTAGACATAAAGTCGGAATTAATT
1 CACCGGCATC-AAGCCTGCTAGGCATAAAGCCTGAAATAATC
* * * * *
7186987 CACCGGCATCAAACCTGCTAGACATAAAGTCTAAAATAATT
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATC
*
7187028 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATC
*
7187069 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATC
*
7187110 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATC
7187151 CACCGGCATCAAGCCTGCTAGGCATTAAA-CCTGAAAT
1 CACCGGCATCAAGCCTGCTAGGCA-TAAAGCCTGAAAT
7187188 CTCATATACA
Statistics
Matches: 221, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
41 214 0.97
42 7 0.03
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.20
Consensus pattern (41 bp):
CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATC
Found at i:7187418 original size:64 final size:63
Alignment explanation
Indices: 7187300--7187480 Score: 253
Period size: 64 Copynumber: 2.9 Consensus size: 63
7187290 GCAAACAAAC
* *
7187300 ATTCGAACCACATATGT-AT-AATTTACA-GCATTAAAATTCAGCTCAAAGAA-TTTGTAACCTA
1 ATTCGAACCACATATGTAATAAAATT-CATACATT-AAATTCAGCTC-AAGAACTTTGTAACCTA
7187361 T
63 T
7187362 ATTCGAACCACATATGTAAGTAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
1 ATTCGAACCACATATGTAA-TAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
* *
7187426 ATTTGAACCACATATGTATATAAAATTCATACATTAAATACAGCTCAAGAACTTT
1 ATTCGAACCACATATGTA-ATAAAATTCATACATTAAATTCAGCTCAAGAACTTT
7187481 AAATATATAT
Statistics
Matches: 109, Mismatches: 4, Indels: 10
0.89 0.03 0.08
Matches are distributed among these distances:
62 17 0.16
63 6 0.06
64 77 0.71
65 9 0.08
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (63 bp):
ATTCGAACCACATATGTAATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
Found at i:7191271 original size:24 final size:24
Alignment explanation
Indices: 7191225--7191272 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
7191215 CATGTAAGCA
* * *
7191225 TATAAACGAGTAGCTCTTTCGAGC
1 TATAAACGAGAAGCTCATACGAGC
*
7191249 TATAATCGAGAAGCTCATACGAGC
1 TATAAACGAGAAGCTCATACGAGC
7191273 CAATATTGAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (24 bp):
TATAAACGAGAAGCTCATACGAGC
Found at i:7191310 original size:25 final size:25
Alignment explanation
Indices: 7191269--7191357 Score: 74
Period size: 25 Copynumber: 3.5 Consensus size: 25
7191259 AAGCTCATAC
*
7191269 GAGCCA-ATATTGAGAAGCTCCGGA
1 GAGCCATATATCGAGAAGCTCCGGA
* * *
7191293 GAGCCATATATCGGGAAGCTCATGAAA
1 GAGCCATATATCGAGAAGCTC-CG-GA
*
7191320 GAGCC-TTTAATCGAGAAGCTCCGGA
1 GAGCCATAT-ATCGAGAAGCTCCGGA
* *
7191345 AAGTCATATATCG
1 GAGCCATATATCG
7191358 GGACGCTCAT
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
24 6 0.12
25 20 0.41
26 6 0.12
27 17 0.35
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (25 bp):
GAGCCATATATCGAGAAGCTCCGGA
Found at i:7191346 original size:27 final size:27
Alignment explanation
Indices: 7191269--7191347 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
7191259 AAGCTCATAC
*
7191269 GAGCCA-ATATTGAGAAGCTCCGG--A
1 GAGCCATATATCGAGAAGCTCCGGAAA
* **
7191293 GAGCCATATATCGGGAAGCTCATGAAA
1 GAGCCATATATCGAGAAGCTCCGGAAA
*
7191320 GAGCC-TTTAATCGAGAAGCTCCGGAAA
1 GAGCCATAT-ATCGAGAAGCTCCGGAAA
7191347 G
1 G
7191348 TCATATATCG
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
24 6 0.14
25 13 0.30
26 2 0.05
27 22 0.51
ACGTcount: A:0.34, C:0.20, G:0.28, T:0.18
Consensus pattern (27 bp):
GAGCCATATATCGAGAAGCTCCGGAAA
Found at i:7191526 original size:24 final size:24
Alignment explanation
Indices: 7191473--7191527 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
7191463 GGTAGATCAA
* * *
7191473 GAGAGCAAATATCGGGATGCTCAT
1 GAGAGCTAATAACGGGACGCTCAT
*
7191497 GAGAGCTAATAACGGGACGCTCTT
1 GAGAGCTAATAACGGGACGCTCAT
*
7191521 GGGAGCT
1 GAGAGCT
7191528 GTGGTATGTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.29, C:0.18, G:0.33, T:0.20
Consensus pattern (24 bp):
GAGAGCTAATAACGGGACGCTCAT
Found at i:7194528 original size:29 final size:29
Alignment explanation
Indices: 7194491--7194549 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
7194481 CACCTTGACA
* * *
7194491 CGAATTCTTAACGAATAAGTTCTTCATCT
1 CGAACTCTTAACGAACAAGTTCTCCATCT
7194520 CGAACTCTTAACGAACAAGTTCTCCATCT
1 CGAACTCTTAACGAACAAGTTCTCCATCT
7194549 C
1 C
7194550 TTCCATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.32
Consensus pattern (29 bp):
CGAACTCTTAACGAACAAGTTCTCCATCT
Found at i:7199560 original size:31 final size:31
Alignment explanation
Indices: 7199522--7199590 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
7199512 CCTTAACCAT
*
7199522 ATTAAATTACCACAATAGTTAGTACATCCCA
1 ATTAAATTACCACAATAGTTAGTACATCACA
* * *
7199553 ATTAAATTACCATATTAGTTAGTATATCACA
1 ATTAAATTACCACAATAGTTAGTACATCACA
7199584 ATTAAAT
1 ATTAAAT
7199591 AAAAAATAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.35
Consensus pattern (31 bp):
ATTAAATTACCACAATAGTTAGTACATCACA
Found at i:7200533 original size:26 final size:27
Alignment explanation
Indices: 7200484--7200543 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 27
7200474 AAAAATAACT
7200484 AAAATATTATAACTTTTTTTATTTACC
1 AAAATATTATAACTTTTTTTATTTACC
7200511 AAAATATTATAA-TTTTTTTATTTACC
1 AAAATATTATAACTTTTTTTATTTACC
7200537 AAAATAT
1 AAAATAT
7200544 ACCAAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 21 0.64
27 12 0.36
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (27 bp):
AAAATATTATAACTTTTTTTATTTACC
Found at i:7200721 original size:23 final size:23
Alignment explanation
Indices: 7200690--7200742 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
7200680 TTGGGGGCGG
7200690 AGAAGGAGAGGGAAAGAAAGA-AA
1 AGAAGGAGA-GGAAAGAAAGACAA
*
7200713 GGAAGGAGAGGAAAGAAAGACAA
1 AGAAGGAGAGGAAAGAAAGACAA
7200736 AGAAGGA
1 AGAAGGA
7200743 AAGAAAAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 11 0.41
23 16 0.59
ACGTcount: A:0.58, C:0.02, G:0.40, T:0.00
Consensus pattern (23 bp):
AGAAGGAGAGGAAAGAAAGACAA
Found at i:7200726 original size:18 final size:18
Alignment explanation
Indices: 7200705--7200759 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
7200695 GAGAGGGAAA
7200705 GAAAGAAAGGAAGGAGAG
1 GAAAGAAAGGAAGGAGAG
* *
7200723 GAAAGAAAGACAAAGA-AG
1 GAAAGAAAG-GAAGGAGAG
7200741 GAAAGAAAAGGAAAGGAGA
1 GAAAG-AAAGG-AAGGAGA
7200760 AGAGTAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
18 16 0.55
19 12 0.41
20 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.36, T:0.00
Consensus pattern (18 bp):
GAAAGAAAGGAAGGAGAG
Found at i:7201623 original size:27 final size:27
Alignment explanation
Indices: 7201593--7201648 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
7201583 AAAGAGGGTG
* *
7201593 ATGGAGGGGAATAAAAAGGCGGCAGCA
1 ATGGAGAGGAATAAAAAGGCGGCACCA
7201620 ATGGAGAGGAATAAAAAGGCGGCACCA
1 ATGGAGAGGAATAAAAAGGCGGCACCA
7201647 AT
1 AT
7201649 ATGTGGCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.43, C:0.12, G:0.36, T:0.09
Consensus pattern (27 bp):
ATGGAGAGGAATAAAAAGGCGGCACCA
Found at i:7201934 original size:16 final size:15
Alignment explanation
Indices: 7201908--7201937 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
7201898 GTACTGAAAT
7201908 AATATAAAATAATAA
1 AATATAAAATAATAA
7201923 AATATGAAAATAATA
1 AATAT-AAAATAATA
7201938 TATTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (15 bp):
AATATAAAATAATAA
Found at i:7204403 original size:11 final size:11
Alignment explanation
Indices: 7204387--7204413 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
7204377 TTTATAACTT
7204387 AATTTGGATAC
1 AATTTGGATAC
7204398 AATTTGGATAC
1 AATTTGGATAC
7204409 AATTT
1 AATTT
7204414 AAGCATAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (11 bp):
AATTTGGATAC
Found at i:7206681 original size:18 final size:18
Alignment explanation
Indices: 7206658--7206702 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
7206648 ATCCCAATGA
* *
7206658 TCGCCACCTCTTTCTTCT
1 TCGCCACCACATTCTTCT
7206676 TCGCCACCACATTCTTCT
1 TCGCCACCACATTCTTCT
*
7206694 TCACCACCA
1 TCGCCACCA
7206703 ACCATATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.47, G:0.04, T:0.33
Consensus pattern (18 bp):
TCGCCACCACATTCTTCT
Found at i:7207503 original size:3 final size:3
Alignment explanation
Indices: 7207495--7207535 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
7207485 GCTTAATACT
7207495 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
7207536 TAATAATAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:7207684 original size:11 final size:11
Alignment explanation
Indices: 7207664--7207695 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
7207654 AAAAAAAATA
7207664 CTTCTTTTTCT
1 CTTCTTTTTCT
*
7207675 CTTCTCTTTCT
1 CTTCTTTTTCT
7207686 CTTCTTTTTC
1 CTTCTTTTTC
7207696 GCAGCACCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (11 bp):
CTTCTTTTTCT
Found at i:7207814 original size:27 final size:26
Alignment explanation
Indices: 7207776--7207869 Score: 100
Period size: 27 Copynumber: 3.5 Consensus size: 26
7207766 AACACGAGTA
*
7207776 GTGCCGTCAATCAGTATGGCACCATTG
1 GTGCCGCCAATCAGT-TGGCACCATTG
**
7207803 GTGCCGCCAATCTCCTTGGCACCATTG
1 GTGCCGCCAATC-AGTTGGCACCATTG
* *
7207830 GTGCCGCCAATGGC-TTTGGCACCTTTG
1 GTGCCGCCAAT--CAGTTGGCACCATTG
7207857 GTGCCGCCAATCA
1 GTGCCGCCAATCA
7207870 CCTTGGCCTG
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
25 1 0.02
27 55 0.95
28 1 0.02
29 1 0.02
ACGTcount: A:0.17, C:0.32, G:0.26, T:0.26
Consensus pattern (26 bp):
GTGCCGCCAATCAGTTGGCACCATTG
Found at i:7207875 original size:27 final size:27
Alignment explanation
Indices: 7207792--7207876 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
7207782 TCAATCAGTA
*
7207792 TGGCACCATTGGTGCCGCCAATCTCCT
1 TGGCACCATTGGTGCCGCCAATCACCT
** *
7207819 TGGCACCATTGGTGCCGCCAATGGCTT
1 TGGCACCATTGGTGCCGCCAATCACCT
*
7207846 TGGCACCTTTGGTGCCGCCAATCACCT
1 TGGCACCATTGGTGCCGCCAATCACCT
7207873 TGGC
1 TGGC
7207877 CTGACCAGGG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.14, C:0.34, G:0.26, T:0.26
Consensus pattern (27 bp):
TGGCACCATTGGTGCCGCCAATCACCT
Found at i:7222003 original size:31 final size:29
Alignment explanation
Indices: 7221968--7222037 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
7221958 ATACTAAAAT
*
7221968 TATACATGAACTATGGTTTAATGTGCAATTG
1 TATACATGAACTATGATTT--TGTGCAATTG
* * *
7221999 TATACATGAACTTTGATTTTGTTCAATTT
1 TATACATGAACTATGATTTTGTGCAATTG
7222028 TATACATGAA
1 TATACATGAA
7222038 ATTTTGATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 18 0.51
31 17 0.49
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (29 bp):
TATACATGAACTATGATTTTGTGCAATTG
Found at i:7222034 original size:29 final size:30
Alignment explanation
Indices: 7221967--7222047 Score: 92
Period size: 31 Copynumber: 2.7 Consensus size: 30
7221957 AATACTAAAA
* *
7221967 TTATACATGAACTATGGTTTAATGTGCAATT
1 TTATACATGAACTTTGATTT-ATGTGCAATT
* *
7221998 GTATACATGAACTTTGATTT-TGTTCAATT
1 TTATACATGAACTTTGATTTATGTGCAATT
*
7222027 TTATACATGAAATTTTGATTT
1 TTATACATG-AACTTTGATTT
7222048 GATCTAGTTC
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
29 16 0.37
30 10 0.23
31 17 0.40
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.47
Consensus pattern (30 bp):
TTATACATGAACTTTGATTTATGTGCAATT
Found at i:7222303 original size:29 final size:27
Alignment explanation
Indices: 7222237--7222303 Score: 62
Period size: 31 Copynumber: 2.3 Consensus size: 27
7222227 TAGTTTCACG
*
7222237 TGTATAATTGCATCAAATTAAAGTTAA
1 TGTATAATTGCATCAAATCAAAGTTAA
* * *
7222264 TATATACAATTGCACATTAAATCAAAGTTCA
1 TGTAT--AATTG--CATCAAATCAAAGTTAA
7222295 TGTATAATT
1 TGTATAATT
7222304 TTGAGATTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
27 4 0.13
29 9 0.29
31 18 0.58
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.37
Consensus pattern (27 bp):
TGTATAATTGCATCAAATCAAAGTTAA
Found at i:7225045 original size:20 final size:20
Alignment explanation
Indices: 7225020--7225064 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
7225010 TCCTATATTG
* *
7225020 ATACAAGTTCACTTTTATCC
1 ATACAAGTTCACTTCTACCC
7225040 ATACAAGTTCACTTCTACCC
1 ATACAAGTTCACTTCTACCC
7225060 ATACA
1 ATACA
7225065 TCTTGTGAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.33
Consensus pattern (20 bp):
ATACAAGTTCACTTCTACCC
Found at i:7232964 original size:18 final size:18
Alignment explanation
Indices: 7232941--7232985 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
7232931 TCACATGCGC
7232941 ATTTTTTTATAATTTTC-T
1 ATTTTTTT-TAATTTTCAT
**
7232959 ATTTTTTTTCCTTTTCAT
1 ATTTTTTTTAATTTTCAT
7232977 ATTTTTTTT
1 ATTTTTTTT
7232986 TTATAAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.76
Consensus pattern (18 bp):
ATTTTTTTTAATTTTCAT
Found at i:7235562 original size:17 final size:18
Alignment explanation
Indices: 7235540--7235573 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7235530 GAACGGGGGA
7235540 AAAAGAA-AAAGGGAAAG
1 AAAAGAAGAAAGGGAAAG
7235557 AAAAGAAGAAAGGGAAA
1 AAAAGAAGAAAGGGAAA
7235574 ATTGGGGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (18 bp):
AAAAGAAGAAAGGGAAAG
Found at i:7236201 original size:16 final size:16
Alignment explanation
Indices: 7236180--7236218 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
7236170 TTATGTGTAT
7236180 GGTAAG-CAAATAATAA
1 GGTAAGTCAAAT-ATAA
*
7236196 GGTAAGTGAAATATAA
1 GGTAAGTCAAATATAA
7236212 GGTAAGT
1 GGTAAGT
7236219 ATTATTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.49, C:0.03, G:0.26, T:0.23
Consensus pattern (16 bp):
GGTAAGTCAAATATAA
Found at i:7236551 original size:23 final size:22
Alignment explanation
Indices: 7236524--7236611 Score: 81
Period size: 23 Copynumber: 4.0 Consensus size: 22
7236514 GGCTTTGCCG
*
7236524 ATCAGGCACTTTATGTGTCGTA
1 ATCAGACACTTTATGTGTCGTA
7236546 CATCAGACACTTTATGTGTCGTA
1 -ATCAGACACTTTATGTGTCGTA
* * **
7236569 TTTCAGACAATTCGTGTGTCGT-
1 -ATCAGACACTTTATGTGTCGTA
* *
7236591 TTCAGGCAC-TTATGTGTCGTA
1 ATCAGACACTTTATGTGTCGTA
7236612 TACTGATCAG
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
20 9 0.17
21 7 0.13
23 38 0.70
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.38
Consensus pattern (22 bp):
ATCAGACACTTTATGTGTCGTA
Found at i:7239845 original size:25 final size:25
Alignment explanation
Indices: 7239802--7239869 Score: 91
Period size: 25 Copynumber: 2.6 Consensus size: 25
7239792 AAAATTAAGA
*
7239802 TTAGAACTTAGAACTTAAGTTTAGAAC
1 TTAGAA-TTAG-ATTTAAGTTTAGAAC
*
7239829 TTCGAATTAGATTTAAGTTTAGAAC
1 TTAGAATTAGATTTAAGTTTAGAAC
*
7239854 TTAGGATTAGATTTAA
1 TTAGAATTAGATTTAA
7239870 TAAGGATTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
25 28 0.76
26 4 0.11
27 5 0.14
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.38
Consensus pattern (25 bp):
TTAGAATTAGATTTAAGTTTAGAAC
Found at i:7244884 original size:28 final size:29
Alignment explanation
Indices: 7244830--7244884 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
7244820 AATTGTAAAT
* *
7244830 GGTTTCTAGTTAAGCCATTAAAGCTAGAG
1 GGTTTCTAGTTAAGCCATAAAAACTAGAG
* *
7244859 GGTTT-TAGTTTAGGCATAAAAACTAG
1 GGTTTCTAGTTAAGCCATAAAAACTAG
7244885 GGGGAAGGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 17 0.77
29 5 0.23
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.33
Consensus pattern (29 bp):
GGTTTCTAGTTAAGCCATAAAAACTAGAG
Found at i:7245313 original size:29 final size:29
Alignment explanation
Indices: 7245271--7245343 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
7245261 ATTTCTTTTT
7245271 TGGTCACCCAACTATGAAAAGTTAAAAAA
1 TGGTCACCCAACTATGAAAAGTTAAAAAA
* * *
7245300 TGGTCACCTAACTATGAGAAGTTACAAAA
1 TGGTCACCCAACTATGAAAAGTTAAAAAA
** *
7245329 TAATCACCCAGCTAT
1 TGGTCACCCAACTAT
7245344 TCAATATTCT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.23
Consensus pattern (29 bp):
TGGTCACCCAACTATGAAAAGTTAAAAAA
Found at i:7246259 original size:48 final size:48
Alignment explanation
Indices: 7246204--7246300 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 48
7246194 CTCTTTTAAC
* *
7246204 CATGCCATATCAAAACATACTTAATTTATAATAGATTAAACATTACTA
1 CATGCCATATCAAAACATACTCAATTTATAATAGATTAAACATAACTA
*
7246252 CATGCCATATCAAAACATACTCAATTTATGATAGATTAAACATAACTA
1 CATGCCATATCAAAACATACTCAATTTATAATAGATTAAACATAACTA
7246300 C
1 C
7246301 GTGATACCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (48 bp):
CATGCCATATCAAAACATACTCAATTTATAATAGATTAAACATAACTA
Found at i:7251550 original size:9 final size:9
Alignment explanation
Indices: 7251536--7251563 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
7251526 TCTTGAATTC
7251536 TTGATAAGA
1 TTGATAAGA
7251545 TTGATAAGA
1 TTGATAAGA
7251554 TTGATAAGA
1 TTGATAAGA
7251563 T
1 T
7251564 AGGAGGGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (9 bp):
TTGATAAGA
Found at i:7253381 original size:111 final size:111
Alignment explanation
Indices: 7253159--7253372 Score: 419
Period size: 111 Copynumber: 1.9 Consensus size: 111
7253149 AAAACTGTAA
*
7253159 AAAACATTATACTTGAGCTAACAAAGACAACCTTTTCCTAGAATACCTGTCCACTTATCACCATC
1 AAAACATTATACTTGAGCTAACAAAGACAACCTTTTCCTAGAATAACTGTCCACTTATCACCATC
7253224 TTCTATGAAAGCATGCAATGCATTGACACCATTTTCAAATAACTGC
66 TTCTATGAAAGCATGCAATGCATTGACACCATTTTCAAATAACTGC
7253270 AAAACATTATACTTGAGCTAACAAAGACAACCTTTTCCTAGAATAACTGTCCACTTATCACCATC
1 AAAACATTATACTTGAGCTAACAAAGACAACCTTTTCCTAGAATAACTGTCCACTTATCACCATC
7253335 TTCTATGAAAGCATGCAATGCATTGACACCATTTTCAA
66 TTCTATGAAAGCATGCAATGCATTGACACCATTTTCAA
7253373 GACACTGCAT
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
111 102 1.00
ACGTcount: A:0.36, C:0.25, G:0.10, T:0.29
Consensus pattern (111 bp):
AAAACATTATACTTGAGCTAACAAAGACAACCTTTTCCTAGAATAACTGTCCACTTATCACCATC
TTCTATGAAAGCATGCAATGCATTGACACCATTTTCAAATAACTGC
Found at i:7270967 original size:22 final size:24
Alignment explanation
Indices: 7270941--7270984 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
7270931 GAAAAATATT
7270941 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
7270963 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
7270985 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:7271114 original size:59 final size:59
Alignment explanation
Indices: 7271051--7271215 Score: 321
Period size: 59 Copynumber: 2.8 Consensus size: 59
7271041 TCAAGTTTGT
*
7271051 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
7271110 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
7271169 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAA
7271216 CAACTAATAA
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
59 105 1.00
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (59 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
Found at i:7271252 original size:16 final size:16
Alignment explanation
Indices: 7271231--7271272 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
7271221 AATAATTTGA
*
7271231 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
7271247 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
7271263 TAGTTTTAAT
1 TAATTTTAAT
7271273 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Done.