Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 283 of 332
Found at i:94518269 original size:9 final size:10
Alignment explanation
Indices: 94518250--94518279 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
94518240 ATAAAAGAAT
94518250 AAAGAAAAAA
1 AAAGAAAAAA
*
94518260 ATAGAAAAAA
1 AAAGAAAAAA
94518270 AAAGAAAAAA
1 AAAGAAAAAA
94518280 CAGGGAAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:94525705 original size:27 final size:27
Alignment explanation
Indices: 94525650--94525714 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 27
94525640 TTTAAAACAT
* * *
94525650 AATAATAATGATATAAAATAACAATAA
1 AATAATAAAGAAATAAAATAACAAAAA
*
94525677 AATAATAAAGAAATAAAAT-AGAAAAA
1 AATAATAAAGAAATAAAATAACAAAAA
*
94525703 AA-AAGAAAGAAA
1 AATAATAAAGAAA
94525715 GAACAGGGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
25 9 0.27
26 7 0.21
27 17 0.52
ACGTcount: A:0.74, C:0.02, G:0.08, T:0.17
Consensus pattern (27 bp):
AATAATAAAGAAATAAAATAACAAAAA
Found at i:94525707 original size:21 final size:22
Alignment explanation
Indices: 94525665--94525710 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
94525655 TAATGATATA
*
94525665 AAATAACAATAAAATAATAAAG
1 AAATAACAATAAAATAAAAAAG
94525687 AAATAA-AATAGAAA-AAAAAAG
1 AAATAACAATA-AAATAAAAAAG
94525708 AAA
1 AAA
94525711 GAAAGAACAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.13
Consensus pattern (22 bp):
AAATAACAATAAAATAAAAAAG
Found at i:94530469 original size:5 final size:5
Alignment explanation
Indices: 94530459--94530507 Score: 57
Period size: 5 Copynumber: 10.0 Consensus size: 5
94530449 ATAGAAGATA
* *
94530459 TTATT TTATT TTGTT TTATT AT-TT TTATT TT-TAT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTAT-T TTATT TTATT TTATT
94530508 ATTTTAGGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
4 4 0.11
5 32 0.86
6 1 0.03
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:94530490 original size:15 final size:14
Alignment explanation
Indices: 94530467--94530512 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
94530457 TATTATTTTA
*
94530467 TTTTGTTTTATTAT
1 TTTTATTTTATTAT
94530481 TTTTATTTTTATT-T
1 TTTTA-TTTTATTAT
94530495 ATTTTATTTTATTAT
1 -TTTTATTTTATTAT
94530510 TTT
1 TTT
94530513 AGGATTAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 15 0.54
15 13 0.46
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (14 bp):
TTTTATTTTATTAT
Found at i:94530513 original size:13 final size:13
Alignment explanation
Indices: 94530464--94530513 Score: 64
Period size: 13 Copynumber: 3.6 Consensus size: 13
94530454 AGATATTATT
*
94530464 TTATTTTGTTTTA
1 TTATTTTATTTTA
94530477 TTATTTTTATTTTTA
1 TTA-TTTTA-TTTTA
94530492 TTTATTTTATTTTA
1 -TTATTTTATTTTA
94530506 TTATTTTA
1 TTATTTTA
94530514 GGATTAAGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 11 0.33
14 9 0.27
15 10 0.30
16 3 0.09
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (13 bp):
TTATTTTATTTTA
Found at i:94537428 original size:18 final size:18
Alignment explanation
Indices: 94537407--94537441 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
94537397 AAATAAACCA
*
94537407 ACAACACCCAATACCCAC
1 ACAAAACCCAATACCCAC
94537425 ACAAAACCCAATACCCA
1 ACAAAACCCAATACCCA
94537442 AGGTTGGCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.46, G:0.00, T:0.06
Consensus pattern (18 bp):
ACAAAACCCAATACCCAC
Found at i:94540834 original size:4 final size:5
Alignment explanation
Indices: 94540802--94540849 Score: 64
Period size: 5 Copynumber: 10.0 Consensus size: 5
94540792 ATAGAAGATA
* *
94540802 TTATT TTATT TTGTT TTATT AT-TT TTA-T TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT
94540850 ATTTTAGGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
4 7 0.19
5 30 0.81
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:94542263 original size:22 final size:22
Alignment explanation
Indices: 94542226--94542282 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
94542216 AATAAATAAT
94542226 AAATG-AAAA-AGAAACAAAAG-
1 AAATGAAAAAGAGAAAC-AAAGC
94542246 AAATGAAAAAGAGAAACAAAGC
1 AAATGAAAAAGAGAAACAAAGC
* *
94542268 AAAGGAAACAGAGAA
1 AAATGAAAAAGAGAA
94542283 GAACAGGGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 5 0.16
21 8 0.25
22 19 0.59
ACGTcount: A:0.70, C:0.07, G:0.19, T:0.04
Consensus pattern (22 bp):
AAATGAAAAAGAGAAACAAAGC
Found at i:94542327 original size:30 final size:31
Alignment explanation
Indices: 94542263--94542320 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
94542253 AAAGAGAAAC
*
94542263 AAAGCAAAGGAAACAGAGAAGAACAGGGGAG
1 AAAGCAAAGGAAACAAAGAAGAACAGGGGAG
*
94542294 AAAG-AAAGGAAAGAAAGAAAGAA-AGGG
1 AAAGCAAAGGAAACAAAG-AAGAACAGGG
94542321 AGGAAAGGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 15 0.62
31 9 0.38
ACGTcount: A:0.60, C:0.05, G:0.34, T:0.00
Consensus pattern (31 bp):
AAAGCAAAGGAAACAAAGAAGAACAGGGGAG
Found at i:94543451 original size:18 final size:18
Alignment explanation
Indices: 94543428--94543471 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
94543418 TAAATAAAGG
94543428 TACTGAATAATTGACTGC
1 TACTGAATAATTGACTGC
* *
94543446 TACTGAATATTTGACTGT
1 TACTGAATAATTGACTGC
94543464 TACTGAAT
1 TACTGAAT
94543472 TACTAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (18 bp):
TACTGAATAATTGACTGC
Found at i:94548294 original size:35 final size:35
Alignment explanation
Indices: 94548248--94548317 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
94548238 TGAAACAAAG
94548248 TAACCGGAAGATTGATTACCACAAGCATGGAAGGC
1 TAACCGGAAGATTGATTACCACAAGCATGGAAGGC
94548283 TAACCGGAAGATTGATTACCACAAGCATGGAAGGC
1 TAACCGGAAGATTGATTACCACAAGCATGGAAGGC
94548318 ATTACGTTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.20, G:0.26, T:0.17
Consensus pattern (35 bp):
TAACCGGAAGATTGATTACCACAAGCATGGAAGGC
Found at i:94556722 original size:50 final size:50
Alignment explanation
Indices: 94556647--94556745 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
94556637 CCATGGCAAC
94556647 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAG-GAAAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGA-CAAGTGAAAAGTGA
94556697 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGACAAGTGAAAAGTG
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGACAAGTGAAAAGTG
94556746 GTAGCTTTAG
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
49 4 0.08
50 44 0.92
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGACAAGTGAAAAGTGA
Found at i:94556773 original size:31 final size:31
Alignment explanation
Indices: 94556735--94556883 Score: 203
Period size: 31 Copynumber: 4.8 Consensus size: 31
94556725 TTATCTGACA
* *
94556735 AGTGAAAAGTGGTAGCTTTAGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTTGGCTACCTGATC
94556766 AGTGAAAAGTGGTAGCTTCT-GCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-TGGCTACCTGATC
*
94556797 AGTGAAAAGTGGTAGCTCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTTGGCTACCTGATC
**
94556828 AGTGAAAAGTGGTAG-TACCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCT-TTGGCTACCTGATC
* *
94556859 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTTGGCTAC
94556884 AAGAGACAAG
Statistics
Matches: 109, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
30 2 0.02
31 105 0.96
32 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTTGGCTACCTGATC
Found at i:94556978 original size:47 final size:46
Alignment explanation
Indices: 94556909--94557072 Score: 169
Period size: 47 Copynumber: 3.6 Consensus size: 46
94556899 AGTGATTTCC
*
94556909 GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGCTACT
1 GTATAAGACCATAGCTGGGATATGGCATC-GTGAGATATATGCTACT
* * * *
94556956 GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATTC-
1 GTATAAGACCATAGCTGGGATATGGCATC-GTGAGATATATGCTACT
* * *
94557002 GTGTAAGACCATAGCTGGGCTACGGCATC----GATATATGACTA-T
1 GTATAAGACCATAGCTGGGATATGGCATCGTGAGATATATG-CTACT
* *
94557044 GTGTAAGACCATAGCTGGGCTATGGCATC
1 GTATAAGACCATAGCTGGGATATGGCATC
94557073 ATTATGTAAA
Statistics
Matches: 103, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
41 7 0.07
42 29 0.28
46 25 0.24
47 42 0.41
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (46 bp):
GTATAAGACCATAGCTGGGATATGGCATCGTGAGATATATGCTACT
Found at i:94557060 original size:42 final size:41
Alignment explanation
Indices: 94557002--94557098 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 41
94556992 TATGTGATTC
**
94557002 GTGTAAGACCATAGCTGGGCTACGGCATCGATATATG-ACTAT
1 GTGTAAGACCATAGCTGGGCTACGGCATC-AT-TATGAAAGAT
*
94557044 GTGTAAGACCATAGCTGGGCTATGGCATCATTATGTAAAGAT
1 GTGTAAGACCATAGCTGGGCTACGGCATCATTATG-AAAGAT
94557086 GTGTAAGACCATA
1 GTGTAAGACCATA
94557099 ATTGAACTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
40 4 0.08
41 2 0.04
42 44 0.88
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (41 bp):
GTGTAAGACCATAGCTGGGCTACGGCATCATTATGAAAGAT
Found at i:94559709 original size:42 final size:42
Alignment explanation
Indices: 94559650--94559769 Score: 213
Period size: 42 Copynumber: 2.9 Consensus size: 42
94559640 TTCGCAACAT
94559650 CTCCTCCGTTTTTTTCATCTTTGCTTCAGACTGTTGTAATTG
1 CTCCTCCGTTTTTTTCATCTTTGCTTCAGACTGTTGTAATTG
94559692 CTCCTCCGTTTTTTTCATCTTTGCTTCAGACTGTTGTAATTG
1 CTCCTCCGTTTTTTTCATCTTTGCTTCAGACTGTTGTAATTG
* * *
94559734 CTCCTCCATTTTTTTCATCTTTGCCTCATACTGTTG
1 CTCCTCCGTTTTTTTCATCTTTGCTTCAGACTGTTG
94559770 CAGTTGTTCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.12, C:0.26, G:0.12, T:0.50
Consensus pattern (42 bp):
CTCCTCCGTTTTTTTCATCTTTGCTTCAGACTGTTGTAATTG
Found at i:94561405 original size:26 final size:28
Alignment explanation
Indices: 94561376--94561429 Score: 85
Period size: 26 Copynumber: 2.0 Consensus size: 28
94561366 TTGGTGTGAC
*
94561376 ATTTTGAAAT-AAAAAAATT-ATATTAA
1 ATTTTAAAATAAAAAAAATTAATATTAA
94561402 ATTTTAAAATAAAAAAAATTAATATTAA
1 ATTTTAAAATAAAAAAAATTAATATTAA
94561430 CTTAGTAGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 9 0.36
27 9 0.36
28 7 0.28
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (28 bp):
ATTTTAAAATAAAAAAAATTAATATTAA
Found at i:94561681 original size:96 final size:95
Alignment explanation
Indices: 94561558--94561749 Score: 375
Period size: 96 Copynumber: 2.0 Consensus size: 95
94561548 TTTCTAAAAA
94561558 TAGAAATACAGAGAATAAATTCCAAATTTACGAATAGTACTAGAACTTATGACATATTTTAACCT
1 TAGAAATACAGAGAATAAATTCCAAATTTACGAATAGTACTAGAACTTATGACATATTTTAACCT
94561623 AATTTCTCTCGGTCTTTTACTATGGGCAGTT
66 AATTTCTCTCGGTCTTTTACTATGGGC-GTT
94561654 TAGAAATACAGAGAATAAATTCCAAATTTACGAATAGTACTAGAACTTATGACATATTTTAACCT
1 TAGAAATACAGAGAATAAATTCCAAATTTACGAATAGTACTAGAACTTATGACATATTTTAACCT
94561719 AATTTCTCTCGGTCTTTTACTATGGGCGTT
66 AATTTCTCTCGGTCTTTTACTATGGGCGTT
94561749 T
1 T
94561750 TAACCTAATC
Statistics
Matches: 96, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
95 4 0.04
96 92 0.96
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.36
Consensus pattern (95 bp):
TAGAAATACAGAGAATAAATTCCAAATTTACGAATAGTACTAGAACTTATGACATATTTTAACCT
AATTTCTCTCGGTCTTTTACTATGGGCGTT
Found at i:94567953 original size:33 final size:33
Alignment explanation
Indices: 94567911--94568034 Score: 203
Period size: 33 Copynumber: 3.8 Consensus size: 33
94567901 TTTCTTCTTG
* *
94567911 ACATTCCAGCTACTATCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
94567944 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
*
94567977 ACATTCCAGCTCCCGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
* *
94568010 ATATTCTAGCTCCTGTCCAGCAACC
1 ACATTCCAGCTCCTGTCCAGCAACC
94568035 TGAAACAGAG
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 85 1.00
ACGTcount: A:0.31, C:0.41, G:0.09, T:0.19
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
Found at i:94573031 original size:30 final size:30
Alignment explanation
Indices: 94572995--94573056 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
94572985 TTATGTCAAG
94572995 TTAAATGGATATGTTGAGGGGTTCTGGCAT
1 TTAAATGGATATGTTGAGGGGTTCTGGCAT
*
94573025 TTAAATGGATATGTTGAGGGGTTCTGGTAT
1 TTAAATGGATATGTTGAGGGGTTCTGGCAT
94573055 TT
1 TT
94573057 TAACATAGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.23, C:0.05, G:0.32, T:0.40
Consensus pattern (30 bp):
TTAAATGGATATGTTGAGGGGTTCTGGCAT
Found at i:94576435 original size:9 final size:9
Alignment explanation
Indices: 94576421--94576479 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
94576411 ATAAGTATAA
94576421 AATTAACCG
1 AATTAACCG
*
94576430 AATTAATCG
1 AATTAACCG
94576439 AATTAACCG
1 AATTAACCG
*
94576448 AATTACCCG
1 AATTAACCG
* *
94576457 AATTACCCA
1 AATTAACCG
94576466 AATTAACCG
1 AATTAACCG
94576475 AATTA
1 AATTA
94576480 TTTGTATAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 44 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:94580449 original size:17 final size:19
Alignment explanation
Indices: 94580413--94580450 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
94580403 TTTTAATTCG
94580413 TATTATGAGATAAAATTAT
1 TATTATGAGATAAAATTAT
*
94580432 TATTATTAGA-AAAA-TAT
1 TATTATGAGATAAAATTAT
94580449 TA
1 TA
94580451 CTGTAAGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 4 0.22
19 9 0.50
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (19 bp):
TATTATGAGATAAAATTAT
Found at i:94581316 original size:38 final size:38
Alignment explanation
Indices: 94581265--94581341 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
94581255 ACGGGGTTGA
94581265 AACGCTACCAGCTGCAGGAGTAGTCGGCTAAGTGGTGG
1 AACGCTACCAGCTGCAGGAGTAGTCGGCTAAGTGGTGG
94581303 AACGCTACCAGCTGCAGGAGTAGTCGGCTAAGTGGTGG
1 AACGCTACCAGCTGCAGGAGTAGTCGGCTAAGTGGTGG
94581341 A
1 A
94581342 CTGCTGCTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.25, C:0.21, G:0.36, T:0.18
Consensus pattern (38 bp):
AACGCTACCAGCTGCAGGAGTAGTCGGCTAAGTGGTGG
Found at i:94582893 original size:25 final size:25
Alignment explanation
Indices: 94582865--94582912 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
94582855 TTATAATATG
* * *
94582865 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
94582890 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
94582913 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:94582979 original size:20 final size:20
Alignment explanation
Indices: 94582956--94583006 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
94582946 TAAACATGGT
94582956 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
94582976 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
94582996 ATGTATGATAT
1 ATGTATGATAT
94583007 TCATAAATGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:94583114 original size:23 final size:24
Alignment explanation
Indices: 94583051--94583133 Score: 132
Period size: 25 Copynumber: 3.4 Consensus size: 24
94583041 GGAGGAAGTG
94583051 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
94583075 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
94583100 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
94583123 TAAAAGAGGCT
1 TAAAAG-GGCT
94583134 AGGCCTCCAA
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
23 18 0.33
24 14 0.25
25 23 0.42
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:94583376 original size:31 final size:31
Alignment explanation
Indices: 94583341--94583404 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
94583331 CGTTTACAGT
*
94583341 AAAGGCTTCGGCCCAGTAATGTGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* **
94583372 AAAGGTTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
94583403 AA
1 AA
94583405 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:94587378 original size:20 final size:20
Alignment explanation
Indices: 94587353--94587401 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
94587343 TTATAATTTT
94587353 GTATCGATATCGTATCACGA
1 GTATCGATATCGTATCACGA
94587373 GTATCGATATCGTATCACGA
1 GTATCGATATCGTATCACGA
*
94587393 GTATTGATA
1 GTATCGATA
94587402 CTTGTGGTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (20 bp):
GTATCGATATCGTATCACGA
Found at i:94588480 original size:12 final size:12
Alignment explanation
Indices: 94588460--94588489 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
94588450 TTCTTTATTA
*
94588460 TTCTGAGATGTT
1 TTCTTAGATGTT
94588472 TTCTTAGATGTT
1 TTCTTAGATGTT
94588484 TTCTTA
1 TTCTTA
94588490 TTTAGTTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.10, G:0.17, T:0.57
Consensus pattern (12 bp):
TTCTTAGATGTT
Found at i:94588605 original size:14 final size:14
Alignment explanation
Indices: 94588586--94588624 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
94588576 ATATTTGACT
94588586 TGTTCTTAATTATG
1 TGTTCTTAATTATG
94588600 TGTTCTTAATTATG
1 TGTTCTTAATTATG
94588614 TGTTCTTAATT
1 TGTTCTTAATT
94588625 CTTGTTTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.21, C:0.08, G:0.13, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:94596198 original size:23 final size:23
Alignment explanation
Indices: 94596171--94596217 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
94596161 GTATTTGATA
94596171 AACCGTAATTTATACATATTTTT
1 AACCGTAATTTATACATATTTTT
94596194 AACCGTAATTTATACATATTTTT
1 AACCGTAATTTATACATATTTTT
94596217 A
1 A
94596218 CCCCATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (23 bp):
AACCGTAATTTATACATATTTTT
Found at i:94600528 original size:21 final size:20
Alignment explanation
Indices: 94600500--94600540 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
94600490 AGGTATAATG
94600500 GCCAAGCTTA-ATCATATTCA
1 GCCAAGCTTATAT-ATATTCA
94600520 GCCATAGCTTATATATATTCA
1 GCCA-AGCTTATATATATTCA
94600541 CAAATTTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 13 0.68
22 2 0.11
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (20 bp):
GCCAAGCTTATATATATTCA
Found at i:94601985 original size:84 final size:84
Alignment explanation
Indices: 94601808--94602016 Score: 219
Period size: 84 Copynumber: 2.5 Consensus size: 84
94601798 TGCACTACTT
* * * * *
94601808 ATGCTAGTATATTTGCTTTGGCTT-ATTTGATGATGCACTTACGTGCCAGTATGTTTGCTTTGAT
1 ATGCTAGTATATTTGCTTTGG-TTCATTCGATGATGCACTTACATGCCAATATATTTGCTTAGAT
* * * *
94601872 TTATCTAATAGTGCATTTAT
65 TCATCCAATAGTGCACTTAA
* * * * *
94601892 GTACCAGTATAATTGCTCTGGTTCATTCGATGATGCACTTACATGCCAATATATTTGCTTCAG-T
1 ATGCTAGTATATTTGCTTTGGTTCATTCGATGATGCACTTACATGCCAATATATTTGCTT-AGAT
94601956 TCATCCAATTA-TGCACTTAA
65 TCATCCAA-TAGTGCACTTAA
*
94601976 ATGCTAGTATATTTGTTTTGGTTCA-TCTGATGATGCACTTA
1 ATGCTAGTATATTTGCTTTGGTTCATTC-GATGATGCACTTA
94602017 TGTACTAGTA
Statistics
Matches: 101, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
83 4 0.04
84 94 0.93
85 3 0.03
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.43
Consensus pattern (84 bp):
ATGCTAGTATATTTGCTTTGGTTCATTCGATGATGCACTTACATGCCAATATATTTGCTTAGATT
CATCCAATAGTGCACTTAA
Found at i:94602025 original size:42 final size:42
Alignment explanation
Indices: 94601813--94602054 Score: 168
Period size: 42 Copynumber: 5.8 Consensus size: 42
94601803 TACTTATGCT
* *
94601813 AGTATATTTGCTTTGGCTT-ATTTGATGATGCACTTACGTGCC
1 AGTATATTTGCTTTGG-TTCATCTGATGATGCACTTATGTGCC
* * * * * *
94601855 AGTATGTTTGCTTTGATTTATCTAAT-AGTGCATTTATGTACC
1 AGTATATTTGCTTTGGTTCATCTGATGA-TGCACTTATGTGCC
* * **
94601897 AGTATAATTGCTCTGGTTCAT-TCGATGATGCACTTACATGCC
1 AGTATATTTGCTTTGGTTCATCT-GATGATGCACTTATGTGCC
* ** ** * ** *
94601939 AATATATTTGCTTCAGTTCATCCAATTATGCACTTAAATGCT
1 AGTATATTTGCTTTGGTTCATCTGATGATGCACTTATGTGCC
* * *
94601981 AGTATATTTGTTTTGGTTCATCTGATGATGCACTTATGTACT
1 AGTATATTTGCTTTGGTTCATCTGATGATGCACTTATGTGCC
* * **
94602023 AGTATGA-TTGCTTCGATTTTTCTGATGATGCA
1 AGTAT-ATTTGCTTTGGTTCATCTGATGATGCA
94602055 TTACATGTGT
Statistics
Matches: 152, Mismatches: 42, Indels: 12
0.74 0.20 0.06
Matches are distributed among these distances:
41 4 0.03
42 146 0.96
43 2 0.01
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.43
Consensus pattern (42 bp):
AGTATATTTGCTTTGGTTCATCTGATGATGCACTTATGTGCC
Found at i:94604823 original size:16 final size:16
Alignment explanation
Indices: 94604804--94604835 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
94604794 ATGTACAAAA
94604804 ATATATATGTGTTTAT
1 ATATATATGTGTTTAT
*
94604820 ATATATGTGTGTTTAT
1 ATATATATGTGTTTAT
94604836 TTGAAGTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (16 bp):
ATATATATGTGTTTAT
Found at i:94605294 original size:24 final size:24
Alignment explanation
Indices: 94605262--94605665 Score: 261
Period size: 24 Copynumber: 16.8 Consensus size: 24
94605252 GAAATGACTT
* *
94605262 TGGCACTATGTATGCTAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
*
94605286 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
94605310 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
*
94605335 -GGCACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* * *
94605358 TGGCACTATATGCGCGGATTT-ATA
1 TGGCACTATGTGTGCGAATTTGA-A
* *
94605382 TGGCACTATGTATGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * * ***
94605406 TGTCAATATGTATGTGAATTACTA
1 TGGCACTATGTGTGCGAATTTGAA
* *
94605430 GGGCACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* * *
94605454 TGGCACTATATGCGCGGATTT-ATA
1 TGGCACTATGTGTGCGAATTTGA-A
*
94605478 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
94605502 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
* *
94605527 -GGCACTATGTATGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* *
94605550 TGGCACTATATGTGCGGATTT-ATA
1 TGGCACTATGTGTGCGAATTTGA-A
*
94605574 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
94605598 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
** *
94605623 -GGCACTATGTGTGCG-GGTTAACA
1 TGGCACTATGTGTGCGAATTTGA-A
*
94605646 TGGCACTATGGGTGCGAATT
1 TGGCACTATGTGTGCGAATT
94605666 CCTTTCTTGA
Statistics
Matches: 291, Mismatches: 69, Indels: 39
0.73 0.17 0.10
Matches are distributed among these distances:
21 1 0.00
22 3 0.01
23 4 0.01
24 270 0.93
25 10 0.03
26 3 0.01
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.35
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:94605339 original size:48 final size:48
Alignment explanation
Indices: 94605287--94605638 Score: 374
Period size: 48 Copynumber: 7.3 Consensus size: 48
94605277 TAATTTGAAT
94605287 GGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAA
1 GGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAA
* * * *** * *
94605335 GGCACTATGTGTGCGAATTTGTATGGCACTATATGCGCG-GATTTA-TAT
1 GGCACTATGTGTGCGGATTTGAATGTCA--ATATGTATGTGAATTACTAA
* *
94605383 GGCACTATGTATGCGGATTTGAATGTCAATATGTATGTGAATTACTAG
1 GGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAA
* * * *** * *
94605431 GGCACTATGTGTGCGAATTTGTATGGCACTATATGCGCG-GATTTA-TAT
1 GGCACTATGTGTGCGGATTTGAATGTCA--ATATGTATGTGAATTACTAA
94605479 GGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAA
1 GGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAA
* * * * ** * *
94605527 GGCACTATGTATGCGAATTTGTATGGCACTATATGTGCG-GATTTA-TAT
1 GGCACTATGTGTGCGGATTTGAATGTCA--ATATGTATGTGAATTACTAA
94605575 GGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAA
1 GGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAA
94605623 GGCACTATGTGTGCGG
1 GGCACTATGTGTGCGG
94605639 GTTAACATGG
Statistics
Matches: 242, Mismatches: 50, Indels: 24
0.77 0.16 0.08
Matches are distributed among these distances:
46 19 0.08
47 15 0.06
48 174 0.72
49 15 0.06
50 19 0.08
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.35
Consensus pattern (48 bp):
GGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAA
Found at i:94605392 original size:72 final size:71
Alignment explanation
Indices: 94605263--94605637 Score: 290
Period size: 72 Copynumber: 5.2 Consensus size: 71
94605253 AAATGACTTT
* * * * * *
94605263 GGCACTATGTATGCTAATTTGAATGGCACTATGTGTGCGGATTTGA-ATGTCAATATGTATGTGA
1 GGCACTATGTGTGCGAATTTGTATGGCACTATGTGTGCGGATTT-ATATGGCACTATGTATGCGA
94605327 ATTACTAA
65 ATTA-TAA
* * *
94605335 GGCACTATGTGTGCGAATTTGTATGGCACTATATGCGCGGATTTATATGGCACTATGTATGCGGA
1 GGCACTATGTGTGCGAATTTGTATGGCACTATGTGTGCGGATTTATATGGCACTATGTATGCGAA
94605400 TT-TGAA
66 TTAT-AA
* * * * ** * * * * **
94605406 TGTCAATATGTATGTGAATTACTAGGGCACTATGTGTGCGAATTTGTATGGCACTATATGCGCGG
1 -GGCACTATGTGTGCGAATTTGTATGGCACTATGTGTGCGGATTTATATGGCACTATGTATGC-G
* *
94605471 ATTTATAT
64 AATTATAA
* * * * * * * *
94605479 GGCACTATGTGTGCGGATTTGAATGTCAATATGTATG-TGAATTACTAAGGCACTATGTATGCGA
1 GGCACTATGTGTGCGAATTTGTATGGCACTATGTGTGCGGATTTA-TATGGCACTATGTATGCGA
* *
94605543 ATTTGTAT
65 A-TTATAA
* * * * * *
94605551 GGCACTATATGTGCGGATTTATATGGCACTATGTGTGCGGATTTGA-ATGTCAATATGTATGTGA
1 GGCACTATGTGTGCGAATTTGTATGGCACTATGTGTGCGGATTT-ATATGGCACTATGTATGCGA
94605615 ATTACTAA
65 ATTA-TAA
94605623 GGCACTATGTGTGCG
1 GGCACTATGTGTGCG
94605638 GGTTAACATG
Statistics
Matches: 230, Mismatches: 63, Indels: 20
0.73 0.20 0.06
Matches are distributed among these distances:
70 1 0.00
71 10 0.04
72 209 0.91
73 8 0.03
74 2 0.01
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.35
Consensus pattern (71 bp):
GGCACTATGTGTGCGAATTTGTATGGCACTATGTGTGCGGATTTATATGGCACTATGTATGCGAA
TTATAA
Found at i:94605661 original size:96 final size:96
Alignment explanation
Indices: 94605285--94605637 Score: 670
Period size: 96 Copynumber: 3.7 Consensus size: 96
94605275 GCTAATTTGA
94605285 ATGGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAAGGCACTATGTGTGCG
1 ATGGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAAGGCACTATGTGTGCG
94605350 AATTTGTATGGCACTATATGCGCGGATTTAT
66 AATTTGTATGGCACTATATGCGCGGATTTAT
* *
94605381 ATGGCACTATGTATGCGGATTTGAATGTCAATATGTATGTGAATTACTAGGGCACTATGTGTGCG
1 ATGGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAAGGCACTATGTGTGCG
94605446 AATTTGTATGGCACTATATGCGCGGATTTAT
66 AATTTGTATGGCACTATATGCGCGGATTTAT
*
94605477 ATGGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAAGGCACTATGTATGCG
1 ATGGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAAGGCACTATGTGTGCG
*
94605542 AATTTGTATGGCACTATATGTGCGGATTTAT
66 AATTTGTATGGCACTATATGCGCGGATTTAT
94605573 ATGGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAAGGCACTATGTGTGCG
1 ATGGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAAGGCACTATGTGTGCG
94605638 GGTTAACATG
Statistics
Matches: 250, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 250 1.00
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.35
Consensus pattern (96 bp):
ATGGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAAGGCACTATGTGTGCG
AATTTGTATGGCACTATATGCGCGGATTTAT
Found at i:94608204 original size:18 final size:18
Alignment explanation
Indices: 94608164--94608206 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
94608154 TCTAAATCCA
94608164 TCTCTTCATCGCCTTCTT
1 TCTCTTCATCGCCTTCTT
* *
94608182 CCTCTTCATC-CTTTCCTT
1 TCTCTTCATCGCCTT-CTT
94608200 TCTCTTC
1 TCTCTTC
94608207 GTTTTCTTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.05, C:0.42, G:0.02, T:0.51
Consensus pattern (18 bp):
TCTCTTCATCGCCTTCTT
Found at i:94610229 original size:32 final size:32
Alignment explanation
Indices: 94610188--94610251 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
94610178 CCCTTGATCC
94610188 GGGAATGTTAGAAATAAATACTTTTTTACACT
1 GGGAATGTTAGAAATAAATACTTTTTTACACT
94610220 GGGAATGTTAGAAATAAATACTTTTTTACACT
1 GGGAATGTTAGAAATAAATACTTTTTTACACT
94610252 ATTCTCTTAA
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:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (32 bp):
GGGAATGTTAGAAATAAATACTTTTTTACACT
Found at i:94613922 original size:47 final size:47
Alignment explanation
Indices: 94613852--94613945 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 47
94613842 GGGATATGTC
* * *
94613852 GCGACACCCTCATTTTGTTTCACAACATCGAAGGTAGTTTTGAGTTT
1 GCGACACCCTCAGTTTGTGTCACAACATCGAAGGTAGTCTTGAGTTT
94613899 GCGACACCCTCAGTTTGTGTCACAACATCGAAGGTAGTCTTGAGTTT
1 GCGACACCCTCAGTTTGTGTCACAACATCGAAGGTAGTCTTGAGTTT
94613946 TCTATGTTCT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.33
Consensus pattern (47 bp):
GCGACACCCTCAGTTTGTGTCACAACATCGAAGGTAGTCTTGAGTTT
Found at i:94615111 original size:7 final size:7
Alignment explanation
Indices: 94615102--94615140 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
94615092 TTATTTTTAT
94615102 TTTTAG-
1 TTTTAGA
94615108 TTTTAGA
1 TTTTAGA
94615115 TTTTAGA
1 TTTTAGA
94615122 TTTTAGA
1 TTTTAGA
94615129 TTTTAGA
1 TTTTAGA
94615136 TTTTA
1 TTTTA
94615141 TTTTTATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 6 0.19
7 26 0.81
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.62
Consensus pattern (7 bp):
TTTTAGA
Found at i:94615190 original size:13 final size:13
Alignment explanation
Indices: 94615174--94615198 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94615164 AATTTTTATG
94615174 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
94615187 ATTGGGTTGGGT
1 ATTGGGTTGGGT
94615199 TGGGTACTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:94615198 original size:18 final size:18
Alignment explanation
Indices: 94615175--94615212 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
94615165 ATTTTTATGA
94615175 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
*
94615193 TTGGGTTGGGTACTTGGG
1 TTGGGTTGGGTAATTGGG
94615211 TT
1 TT
94615213 AATATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.08, C:0.03, G:0.47, T:0.42
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:94618056 original size:33 final size:33
Alignment explanation
Indices: 94618019--94618105 Score: 102
Period size: 33 Copynumber: 2.6 Consensus size: 33
94618009 TACACTCTGT
**
94618019 TTGGTGTGTTGGTTGGATTAGCTTTTATGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCGTATGAGCA
** * *
94618052 TTGGTGTGTTGGCGGGATTGGCTCGTGTGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCGTATGAGCA
94618085 TCTGGTGTGTTTGGTTGGATT
1 T-TGGTGTG-TTGGTTGGATT
94618106 GGTGATGTAC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
33 28 0.64
34 7 0.16
35 9 0.20
ACGTcount: A:0.10, C:0.08, G:0.39, T:0.43
Consensus pattern (33 bp):
TTGGTGTGTTGGTTGGATTAGCTCGTATGAGCA
Found at i:94619068 original size:15 final size:16
Alignment explanation
Indices: 94619050--94619080 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
94619040 TTGGTGTCTT
94619050 TTTGAT-ATGTGTTAA
1 TTTGATAATGTGTTAA
94619065 TTTGATAATGTGTTAA
1 TTTGATAATGTGTTAA
94619081 AACATGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (16 bp):
TTTGATAATGTGTTAA
Found at i:94621029 original size:6 final size:6
Alignment explanation
Indices: 94621009--94621114 Score: 110
Period size: 6 Copynumber: 17.3 Consensus size: 6
94620999 AAAAAACATT
*
94621009 ATCAGA A-CTAGA ATCAAA ATCAGA ATCAGA ATCAGA ATCAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
94621056 GTGACAGA ATCAGA ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
94621107 ATCAGA AT
1 ATCAGA AT
94621115 GTGAATGCAA
Statistics
Matches: 84, Mismatches: 8, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
5 4 0.05
6 71 0.85
7 7 0.08
8 2 0.02
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:94621070 original size:37 final size:37
Alignment explanation
Indices: 94621026--94621114 Score: 151
Period size: 37 Copynumber: 2.4 Consensus size: 37
94621016 CTAGAATCAA
*
94621026 AATCAGAATCAGAATCAGAATCAGAATCAGGTGACAG
1 AATCAGAATCAGAATCAGAATCAGAATCAGGTAACAG
*
94621063 AATCAGAATCAGAATCAGAATCAGTATCAGGTAACAG
1 AATCAGAATCAGAATCAGAATCAGAATCAGGTAACAG
*
94621100 AATCAAAATCAGAAT
1 AATCAGAATCAGAAT
94621115 GTGAATGCAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (37 bp):
AATCAGAATCAGAATCAGAATCAGAATCAGGTAACAG
Found at i:94621528 original size:27 final size:27
Alignment explanation
Indices: 94621498--94621857 Score: 383
Period size: 27 Copynumber: 13.3 Consensus size: 27
94621488 GAGGCAAAAT
*
94621498 GGTAATTTTACTCC-ACAAGGGTATCTC
1 GGTAATTTTAC-CCTACAAGGGTATTTC
* * *
94621525 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
94621552 GGT-ATTACTACCCTACAAGGGTATTTC
1 GGTAATT-TTACCCTACAAGGGTATTTC
* * *
94621579 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
94621606 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
94621633 AGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
94621660 GATAATTTTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
94621687 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
94621714 GAT-ATTTCTACCCTATAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
94621741 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
94621768 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
94621795 GGT-ATTTCAACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
94621822 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
**
94621849 AATAATTTT
1 GGTAATTTT
94621858 GTAAATCAAG
Statistics
Matches: 286, Mismatches: 38, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
26 14 0.05
27 259 0.91
28 13 0.05
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:94621570 original size:54 final size:54
Alignment explanation
Indices: 94621512--94621848 Score: 451
Period size: 54 Copynumber: 6.2 Consensus size: 54
94621502 ATTTTACTCC
* * * *
94621512 ACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCGGT-ATTACTACCCT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGATAATT-CTACCCT
* * * *
94621566 ACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCT
* * *
94621620 ACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGATAATTTTACCCT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCT
* ** * *
94621674 ACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCT
* * *
94621728 ATAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCT
* * *
94621782 ACAGGGGTATTTCGGTATTTCAACCCTACAAGGGTATTTCGATAATTCTACCCT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCT
*
94621836 ACAGGGGTATTTC
1 ACAAGGGTATTTC
94621849 AATAATTTTG
Statistics
Matches: 253, Mismatches: 29, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
54 251 0.99
55 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (54 bp):
ACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCT
Found at i:94621638 original size:81 final size:81
Alignment explanation
Indices: 94621516--94621848 Score: 531
Period size: 81 Copynumber: 4.1 Consensus size: 81
94621506 TACTCCACAA
* * *
94621516 GGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCGGTATTACTACCCTACAAGGGTATTTCGA
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGA
94621581 TAATTCTACCCTACAG
66 TAATTCTACCCTACAG
* * *
94621597 GGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGA
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGA
*
94621662 TAATTTTACCCTACAG
66 TAATTCTACCCTACAG
** * * *
94621678 GGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTATAAGGGTATTTCGG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGA
* *
94621743 TATTTCTACCCTACAA
66 TAATTCTACCCTACAG
*
94621759 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCAACCCTACAAGGGTATTTCGA
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGA
94621824 TAATTCTACCCTACAG
66 TAATTCTACCCTACAG
94621840 GGGTATTTC
1 GGGTATTTC
94621849 AATAATTTTG
Statistics
Matches: 226, Mismatches: 26, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 226 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (81 bp):
GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGA
TAATTCTACCCTACAG
Found at i:94621924 original size:27 final size:26
Alignment explanation
Indices: 94621894--94622070 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 26
94621884 TGTAAATTGG
* *
94621894 GGGTACTTTGGTAATTTTACAAGTCAA
1 GGGTA-TTTGGTAATTTTACAAATCGA
* *
94621921 GGGTATTTTAGTAATTTTACAAATTGA
1 GGGTA-TTTGGTAATTTTACAAATCGA
*
94621948 GGGTATTTTGTAATTTTACAAA-CTGA
1 GGGTATTTGGTAATTTTACAAATC-GA
94621974 GGGTATTTTGGTAATTTTACAAATCGA
1 GGGTA-TTTGGTAATTTTACAAATCGA
*
94622001 GGGTATTTCAGTAATTTTAC-AATCGA
1 GGGTATTT-GGTAATTTTACAAATCGA
*
94622027 TGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTT-GGTAATTTTACAAATCGA
94622054 GGGTATTTGGGTAATTT
1 GGGTATTT-GGTAATTT
94622071 GGTAAACTAA
Statistics
Matches: 132, Mismatches: 13, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
26 50 0.38
27 81 0.61
28 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.41
Consensus pattern (26 bp):
GGGTATTTGGTAATTTTACAAATCGA
Found at i:94621979 original size:53 final size:54
Alignment explanation
Indices: 94621894--94622070 Score: 218
Period size: 53 Copynumber: 3.3 Consensus size: 54
94621884 TGTAAATTGG
* * * *
94621894 GGGTACTTT-GGTAATTTTAC-AAGTCAAGGGTATTTTAGTAATTTTACAAATTGA
1 GGGTA-TTTCGGTAATTTTACAAACT-GAGGGTATTTTGGTAATTTTACAAATCGA
*
94621948 GGGTATTT-TGTAATTTTACAAACTGAGGGTATTTTGGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAACTGAGGGTATTTTGGTAATTTTACAAATCGA
* * * *
94622001 GGGTATTTCAGTAATTTTACAATC-GATGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAACTGAGGGTATTTTGGTAATTTTACAAATCGA
*
94622054 GGGTATTTGGGTAATTT
1 GGGTATTTCGGTAATTT
94622071 GGTAAACTAA
Statistics
Matches: 110, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
53 89 0.81
54 21 0.19
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.41
Consensus pattern (54 bp):
GGGTATTTCGGTAATTTTACAAACTGAGGGTATTTTGGTAATTTTACAAATCGA
Found at i:94621990 original size:80 final size:80
Alignment explanation
Indices: 94621894--94622070 Score: 250
Period size: 80 Copynumber: 2.2 Consensus size: 80
94621884 TGTAAATTGG
* * * * *
94621894 GGGTACTTTGGTAATTTTACAAGTCAAGGGTATTTTAGTAATTTTACAAATTGAGGGTATTT-TG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTAC-AATCGAGGGTATTTCGG
94621958 TAATTTTACAAA-CTGA
65 TAATTTTACAAATC-GA
* *
94621974 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCGATGGTATTTCGGT
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAATCGAGGGTATTTCGGT
94622039 AATTTTACAAATCGA
66 AATTTTACAAATCGA
*
94622054 GGGTATTTGGGTAATTT
1 GGGTATTTTGGTAATTT
94622071 GGTAAACTAA
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 12 0.14
80 74 0.85
81 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.41
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAATCGAGGGTATTTCGGT
AATTTTACAAATCGA
Found at i:94634731 original size:40 final size:40
Alignment explanation
Indices: 94634687--94634795 Score: 191
Period size: 40 Copynumber: 2.7 Consensus size: 40
94634677 GCTACTTGCT
*
94634687 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTAGCA
* *
94634727 CAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTAGCA
94634767 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
94634796 CATCCGAATA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTAGCA
Found at i:94636709 original size:24 final size:24
Alignment explanation
Indices: 94636694--94636740 Score: 73
Period size: 21 Copynumber: 2.1 Consensus size: 24
94636684 AAGTATATAG
94636694 TATAATAATATATTAATATAATAA
1 TATAATAATATATTAATATAATAA
94636718 TATAAT-A-ATA-TAATATAATAA
1 TATAATAATATATTAATATAATAA
94636739 TA
1 TA
94636741 CATAAAGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 13 0.57
22 3 0.13
23 1 0.04
24 6 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
TATAATAATATATTAATATAATAA
Found at i:94636714 original size:13 final size:13
Alignment explanation
Indices: 94636698--94636740 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
94636688 ATATAGTATA
94636698 ATAATATATTAAT
1 ATAATATATTAAT
94636711 ATAATAATATAATAAT
1 ATAAT-ATAT--TAAT
*
94636727 ATAATATAATAAT
1 ATAATATATTAAT
94636740 A
1 A
94636741 CATAAAGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 10 0.38
14 4 0.15
15 3 0.12
16 9 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAATATATTAAT
Found at i:94636740 original size:8 final size:8
Alignment explanation
Indices: 94636694--94636732 Score: 69
Period size: 8 Copynumber: 4.9 Consensus size: 8
94636684 AAGTATATAG
94636694 TATAATAA
1 TATAATAA
*
94636702 TATATTAA
1 TATAATAA
94636710 TATAATAA
1 TATAATAA
94636718 TATAATAA
1 TATAATAA
94636726 TATAATA
1 TATAATA
94636733 TAATAATACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TATAATAA
Found at i:94638459 original size:91 final size:90
Alignment explanation
Indices: 94638361--94638542 Score: 346
Period size: 91 Copynumber: 2.0 Consensus size: 90
94638351 ATGAATTGTA
94638361 TAGATAATTTATGTTAGATACCTATGAATATATATGAGTTAGATCATTATATTGATAATTTTGAC
1 TAGATAATTTATGTTAGATACCTATGAATATATATGAGTTAGATCATTATATTGATAATTTTGAC
94638426 CTGTTTTAAATGTATTTAATTTATGT
66 CTGTTTTAAATGTATTTAA-TTATGT
*
94638452 TAGATAATTTATGTTAGATACCTATGAATATATATGAGTTAGATCATTATATTGATAGTTTTGAC
1 TAGATAATTTATGTTAGATACCTATGAATATATATGAGTTAGATCATTATATTGATAATTTTGAC
94638517 CTGTTTTAAATGTATTTAATTATGT
66 CTGTTTTAAATGTATTTAATTATGT
94638542 T
1 T
94638543 TTGGACTGGT
Statistics
Matches: 90, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
90 7 0.08
91 83 0.92
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.47
Consensus pattern (90 bp):
TAGATAATTTATGTTAGATACCTATGAATATATATGAGTTAGATCATTATATTGATAATTTTGAC
CTGTTTTAAATGTATTTAATTATGT
Found at i:94638461 original size:14 final size:14
Alignment explanation
Indices: 94638442--94638471 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
94638432 TAAATGTATT
94638442 TAATTTATGTTAGA
1 TAATTTATGTTAGA
94638456 TAATTTATGTTAGA
1 TAATTTATGTTAGA
94638470 TA
1 TA
94638472 CCTATGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (14 bp):
TAATTTATGTTAGA
Found at i:94639413 original size:16 final size:17
Alignment explanation
Indices: 94639392--94639426 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
94639382 AATTAATTTA
*
94639392 AATTAATTAATTTT-TC
1 AATTAAATAATTTTCTC
94639408 AATTAAATAATTTTCTC
1 AATTAAATAATTTTCTC
94639425 AA
1 AA
94639427 CTCAATTCTG
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:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTAAATAATTTTCTC
Found at i:94641607 original size:19 final size:19
Alignment explanation
Indices: 94641559--94641607 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
94641549 AAATCATTTT
94641559 ATGATAAAAAAATATAAAA
1 ATGATAAAAAAATATAAAA
* ** *
94641578 ATGGTTTAAAAATCTAAAA
1 ATGATAAAAAAATATAAAA
*
94641597 ATTATAAAAAA
1 ATGATAAAAAA
94641608 TAAAAAAACA
Statistics
Matches: 22, Mismatches: 8, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (19 bp):
ATGATAAAAAAATATAAAA
Found at i:94647228 original size:114 final size:113
Alignment explanation
Indices: 94647027--94647308 Score: 361
Period size: 114 Copynumber: 2.5 Consensus size: 113
94647017 ATTTCCAGCA
* * * *
94647027 GCAGCCGCCATGAGGAGGGACTGTTGATGCGCTAGCAAAGCTAGTTGTTGTTGAGTGGGTAAGCT
1 GCAGCAGCCATGAGAAGGGACTGTTGCTGTGCTAGCAAAGCTAGTTGTTGTTGAGTGGGTAA-CT
** * * * * *
94647092 TGTGGTGGTTGATGGAGGCTGTTGACCGTTTCCAGGAGCAGCTTTAGCT
65 CATGGTGATTGATGGAGACTGTTGACCATTTCCAGAAGCAGATTTAGCT
* * *
94647141 GCAGCAGCCATAAGAAGGGACTGTTGCTGTGCTAACATAGCTAGTTGTTGTTGAGTGGGT-A-TC
1 GCAGCAGCCATGAGAAGGGACTGTTGCTGTGCTAGCAAAGCTAGTTGTTGTTGAGTGGGTAACTC
*
94647204 ATGGTGCCATTGGATGGAGACTGTTGAGCATTTCCAGAAGCAGATTTAGCT
66 ATGGTG--ATT-GATGGAGACTGTTGACCATTTCCAGAAGCAGATTTAGCT
**
94647255 GCAGCAGCCATGAGAAGGGACTGTTGCTGTGCTAGCGCAGCTAGTTGTTGTTGA
1 GCAGCAGCCATGAGAAGGGACTGTTGCTGTGCTAGCAAAGCTAGTTGTTGTTGA
94647309 TGCATTGCAA
Statistics
Matches: 146, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
111 6 0.04
113 3 0.02
114 137 0.94
ACGTcount: A:0.21, C:0.17, G:0.34, T:0.28
Consensus pattern (113 bp):
GCAGCAGCCATGAGAAGGGACTGTTGCTGTGCTAGCAAAGCTAGTTGTTGTTGAGTGGGTAACTC
ATGGTGATTGATGGAGACTGTTGACCATTTCCAGAAGCAGATTTAGCT
Found at i:94650564 original size:2 final size:2
Alignment explanation
Indices: 94650559--94650593 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
94650549 GCGCGTGCGT
94650559 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
94650594 GATGGCAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:94652432 original size:13 final size:14
Alignment explanation
Indices: 94652414--94652442 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
94652404 ACCTCTGTAA
94652414 GTTCCCCTT-TTTT
1 GTTCCCCTTGTTTT
94652427 GTTCCCCTTGTTTT
1 GTTCCCCTTGTTTT
94652441 GT
1 GT
94652443 AATTTCAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.00, C:0.28, G:0.14, T:0.59
Consensus pattern (14 bp):
GTTCCCCTTGTTTT
Found at i:94653677 original size:65 final size:66
Alignment explanation
Indices: 94653594--94653742 Score: 162
Period size: 65 Copynumber: 2.3 Consensus size: 66
94653584 GCATCATAAC
** * ** *
94653594 TTGTAAGTTACCAATTAATCTGCATAGGGTAATGCTCATTATTTCTTACAATG-ATCATAACTTG
1 TTGTAAGTTACCAATTAATCCACATAGGATAATGCTCATTACATCTTACAATGCACCATAACTTG
94653658 T
66 T
*** *
94653659 TTGTAAGTTACTGCTTAATCCACATAGGATAATGCTCATTACATCTTATAATGCACCATAAC-T-
1 TTGTAAGTTACCAATTAATCCACATAGGATAATGCTCATTACATCTTACAATGCACCATAACTTG
94653722 T
66 T
* *
94653723 TTCTAAGCTACC-ATTAATCC
1 TTGTAAGTTACCAATTAATCC
94653743 CGCCTGCCAC
Statistics
Matches: 69, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
63 7 0.10
64 10 0.14
65 45 0.65
66 7 0.10
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (66 bp):
TTGTAAGTTACCAATTAATCCACATAGGATAATGCTCATTACATCTTACAATGCACCATAACTTG
T
Found at i:94655963 original size:15 final size:15
Alignment explanation
Indices: 94655933--94655977 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 15
94655923 GGAAAAAAAA
94655933 AAGAAGAAGAA-GAG
1 AAGAAGAAGAAGGAG
*
94655947 AAGCAG--GAA-GAG
1 AAGAAGAAGAAGGAG
94655959 AAGAAGAAGAAGGAG
1 AAGAAGAAGAAGGAG
94655974 AAGA
1 AAGA
94655978 GGAAAAATGG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 11 0.42
14 8 0.31
15 7 0.27
ACGTcount: A:0.60, C:0.02, G:0.38, T:0.00
Consensus pattern (15 bp):
AAGAAGAAGAAGGAG
Found at i:94655966 original size:18 final size:18
Alignment explanation
Indices: 94655935--94655977 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
94655925 AAAAAAAAAA
*
94655935 GAAGAAGAAGAGAAGCAG
1 GAAGAAGAAGAGAAGAAG
94655953 GAAG-AGAAGAAGAAGAAG
1 GAAGAAGAAG-AGAAGAAG
94655971 G-AGAAGA
1 GAAGAAGA
94655978 GGAAAAATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.58, C:0.02, G:0.40, T:0.00
Consensus pattern (18 bp):
GAAGAAGAAGAGAAGAAG
Found at i:94656605 original size:56 final size:56
Alignment explanation
Indices: 94656538--94656649 Score: 165
Period size: 56 Copynumber: 2.0 Consensus size: 56
94656528 TACAAATTGC
*
94656538 TTAACATTTGGTATACATGGCTGCT-GATTAGAAAAGATAACAATT-GATATACAAAT
1 TTAACAGTTGGTATACATGGCTGCTAG-TTAGAAAAGATAACAATTGGATA-ACAAAT
* *
94656594 TTAACAGTTGGTATACATGGTTGCTAGTTAGAAAAGATAACAGTTGGATAACAAAT
1 TTAACAGTTGGTATACATGGCTGCTAGTTAGAAAAGATAACAATTGGATAACAAAT
94656650 AGCATGATAA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
56 46 0.90
57 5 0.10
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (56 bp):
TTAACAGTTGGTATACATGGCTGCTAGTTAGAAAAGATAACAATTGGATAACAAAT
Found at i:94657879 original size:83 final size:84
Alignment explanation
Indices: 94657790--94657967 Score: 245
Period size: 83 Copynumber: 2.1 Consensus size: 84
94657780 AAAAAAAAAC
*
94657790 TCATTGCATGCATATTAAAAAATA-TGCAAC-AC-ACCAACAATCATTGCATGCATATTAAAAAA
1 TCATTGCATGCATATTAAAAAATAGT-CAACAACTACCAACAATCATTGCATACATATTAAAAAA
94657852 TAGCCAACAGCTTTCCAACAA
65 -AGCCAACAGCTTTCCAACAA
* *
94657873 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAATAATCATTGCATACATATTAAAAAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAAC-TACCAACAATCATTGCATACATATTAAAAAA
* *
94657938 AGTCAATAGCTTTCCAACAA
65 AGCCAACAGCTTTCCAACAA
* *
94657958 TTACTGCATG
1 TCATTGCATG
94657968 TGATCAGCAA
Statistics
Matches: 84, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
83 28 0.33
84 3 0.04
85 26 0.31
86 27 0.32
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (84 bp):
TCATTGCATGCATATTAAAAAATAGTCAACAACTACCAACAATCATTGCATACATATTAAAAAAA
GCCAACAGCTTTCCAACAA
Found at i:94657951 original size:42 final size:43
Alignment explanation
Indices: 94657790--94657967 Score: 240
Period size: 43 Copynumber: 4.2 Consensus size: 43
94657780 AAAAAAAAAC
*
94657790 TCATTGCATGCATATTAAAAAATA-TGCAACA-C--ACCAACAA
1 TCATTGCATGCATATTAAAAAATAGT-CAACAGCTTTCCAACAA
*
94657830 TCATTGCATGCATATTAAAAAATAGCCAACAGCTTTCCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
* *
94657873 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAATAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
* *
94657916 TCATTGCATACATATTAAAAAA-AGTCAATAGCTTTCCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
* *
94657958 TTACTGCATG
1 TCATTGCATG
94657968 TGATCAGCAA
Statistics
Matches: 122, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
40 29 0.24
41 1 0.01
42 24 0.20
43 68 0.56
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (43 bp):
TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
Found at i:94659610 original size:15 final size:16
Alignment explanation
Indices: 94659585--94659633 Score: 75
Period size: 15 Copynumber: 3.2 Consensus size: 16
94659575 TCAGATGCAT
94659585 CACTATCACTACTAGA
1 CACTATCACTACTAGA
94659601 CACT-TCACTACTAGA
1 CACTATCACTACTAGA
*
94659616 CA-TATCACTACCAGA
1 CACTATCACTACTAGA
94659631 CAC
1 CAC
94659634 GTTTTCTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 1 0.03
15 25 0.83
16 4 0.13
ACGTcount: A:0.37, C:0.35, G:0.06, T:0.22
Consensus pattern (16 bp):
CACTATCACTACTAGA
Found at i:94660064 original size:64 final size:64
Alignment explanation
Indices: 94659918--94660181 Score: 397
Period size: 64 Copynumber: 4.2 Consensus size: 64
94659908 TAGGAGCCTG
* * * * **
94659918 GATACAAACAATGACAGATATACACAATAAACATCAGTTTAATAAT-GTA-TAATTTAATGGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGGCATTCATACAATGGCA
* *
94659980 GATACAAACAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCATACAATGGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGGCATTCATACAATGGCA
* * *
94660044 GATACAAACAATGGCAGATATACACAATAAAGATCAGTTTGATAATGGTATTCATACAATGACA
1 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGGCATTCATACAATGGCA
* *
94660108 GATACAAACAATGGCAGATACACACAATAAAGATCAGTTTGATAATGGCATTCATACAATGGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGGCATTCATACAATGGCA
94660172 GATACAAACA
1 GATACAAACA
94660182 CATCAAAATC
Statistics
Matches: 184, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
62 43 0.23
63 1 0.01
64 140 0.76
ACGTcount: A:0.47, C:0.16, G:0.14, T:0.24
Consensus pattern (64 bp):
GATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGGCATTCATACAATGGCA
Found at i:94660091 original size:34 final size:34
Alignment explanation
Indices: 94660053--94660157 Score: 80
Period size: 32 Copynumber: 3.2 Consensus size: 34
94660043 AGATACAAAC
94660053 AATGGCAGATATACACAATAAAGATCAGTTTGAT
1 AATGGCAGATATACACAATAAAGATCAGTTTGAT
* * * * *
94660087 AATGG--TAT-TCATACAATGACAGATACA----AAC
1 AATGGCAGATAT-ACACAAT-AAAGAT-CAGTTTGAT
*
94660117 AATGGCAGATACACACAATAAAGATCAGTTTGAT
1 AATGGCAGATATACACAATAAAGATCAGTTTGAT
94660151 AATGGCA
1 AATGGCA
94660158 TTCATACAAT
Statistics
Matches: 50, Mismatches: 11, Indels: 20
0.62 0.14 0.25
Matches are distributed among these distances:
30 8 0.16
31 6 0.12
32 16 0.32
33 5 0.10
34 15 0.30
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.24
Consensus pattern (34 bp):
AATGGCAGATATACACAATAAAGATCAGTTTGAT
Found at i:94660120 original size:16 final size:16
Alignment explanation
Indices: 94660099--94660135 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
94660089 TGGTATTCAT
94660099 ACAATGACAGATACAA
1 ACAATGACAGATACAA
* *
94660115 ACAATGGCAGATACAC
1 ACAATGACAGATACAA
94660131 ACAAT
1 ACAAT
94660136 AAAGATCAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.22, G:0.14, T:0.14
Consensus pattern (16 bp):
ACAATGACAGATACAA
Found at i:94661301 original size:31 final size:29
Alignment explanation
Indices: 94661262--94661335 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 29
94661252 GGTAACTGTT
94661262 AGTTAGTGACTGATTTGTCACTTTTTT-ATA
1 AGTTAGTGACTGATTTGTCA-TTTTTTGA-A
* * *
94661292 ACGTTAGTGACCGTTTTGTTATTTTTTGAA
1 A-GTTAGTGACTGATTTGTCATTTTTTGAA
94661322 AGTTAAGTGACTGA
1 AGTT-AGTGACTGA
94661336 AATGAAACCT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
29 3 0.08
30 16 0.44
31 17 0.47
ACGTcount: A:0.24, C:0.09, G:0.20, T:0.46
Consensus pattern (29 bp):
AGTTAGTGACTGATTTGTCATTTTTTGAA
Found at i:94663166 original size:25 final size:25
Alignment explanation
Indices: 94663138--94663188 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
94663128 AAAAGAAGAA
94663138 AAGCTTATAGCAGGAATCTTCATAT
1 AAGCTTATAGCAGGAATCTTCATAT
* *
94663163 AAGCTTTTAGGAGGAATCTTCATAT
1 AAGCTTATAGCAGGAATCTTCATAT
94663188 A
1 A
94663189 TCTTTGCACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (25 bp):
AAGCTTATAGCAGGAATCTTCATAT
Found at i:94671533 original size:21 final size:20
Alignment explanation
Indices: 94671496--94671546 Score: 79
Period size: 21 Copynumber: 2.6 Consensus size: 20
94671486 ATTCTGACAT
94671496 GAAACAGT--AAAAAAAAAA
1 GAAACAGTAGAAAAAAAAAA
94671514 GAAACAGTAGAAAGAAAAAAA
1 GAAACAGTAGAAA-AAAAAAA
94671535 GAAACAGTAGAA
1 GAAACAGTAGAA
94671547 GGATGCTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.27
20 3 0.10
21 19 0.63
ACGTcount: A:0.71, C:0.06, G:0.18, T:0.06
Consensus pattern (20 bp):
GAAACAGTAGAAAAAAAAAA
Found at i:94671653 original size:27 final size:27
Alignment explanation
Indices: 94671595--94671659 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
94671585 GGCCTGCCAC
* * * *
94671595 AGGCGGCACCAATGGTGCTAGTGCCAG
1 AGGCGGCACCGATGGTGCCACTACCAG
*
94671622 AGGCGGCACCGATGGTGCCACTACCAT
1 AGGCGGCACCGATGGTGCCACTACCAG
*
94671649 CGGCGGCACCG
1 AGGCGGCACCG
94671660 TGACATGACC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.20, C:0.32, G:0.35, T:0.12
Consensus pattern (27 bp):
AGGCGGCACCGATGGTGCCACTACCAG
Found at i:94671772 original size:8 final size:8
Alignment explanation
Indices: 94671740--94671789 Score: 61
Period size: 8 Copynumber: 6.6 Consensus size: 8
94671730 CTCATTTGGG
94671740 GAAGA-AA
1 GAAGAGAA
*
94671747 GGAGAGAA
1 GAAGAGAA
94671755 -AAGA-AA
1 GAAGAGAA
94671761 GAAGAGAA
1 GAAGAGAA
*
94671769 GAAGAAAA
1 GAAGAGAA
94671777 GAAGAGAA
1 GAAGAGAA
94671785 GAAGA
1 GAAGA
94671790 AGAAAGAGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
6 2 0.06
7 11 0.31
8 23 0.64
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (8 bp):
GAAGAGAA
Found at i:94671777 original size:16 final size:15
Alignment explanation
Indices: 94671740--94671790 Score: 77
Period size: 16 Copynumber: 3.4 Consensus size: 15
94671730 CTCATTTGGG
*
94671740 GAAGAAAGGAGAGAA
1 GAAGAAAGAAGAGAA
94671755 -AAGAAAGAAGAGAA
1 GAAGAAAGAAGAGAA
94671769 GAAGAAAAGAAGAGAA
1 GAAG-AAAGAAGAGAA
94671785 GAAGAA
1 GAAGAA
94671791 GAAAGAGCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
14 13 0.39
15 5 0.15
16 15 0.45
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (15 bp):
GAAGAAAGAAGAGAA
Found at i:94672276 original size:16 final size:16
Alignment explanation
Indices: 94672255--94672324 Score: 106
Period size: 16 Copynumber: 4.4 Consensus size: 16
94672245 TGATGTGAAG
94672255 AAAATATGAAAAAAAT
1 AAAATATGAAAAAAAT
94672271 AAAATATG-AAAAAAT
1 AAAATATGAAAAAAAT
*
94672286 AAAATACGAAAAGAAAT
1 AAAATATGAAAA-AAAT
*
94672303 AAACTATGAAAAAAAT
1 AAAATATGAAAAAAAT
94672319 AAAATA
1 AAAATA
94672325 AAATACAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
15 14 0.29
16 20 0.42
17 14 0.29
ACGTcount: A:0.73, C:0.03, G:0.07, T:0.17
Consensus pattern (16 bp):
AAAATATGAAAAAAAT
Found at i:94672297 original size:14 final size:15
Alignment explanation
Indices: 94672264--94672324 Score: 68
Period size: 15 Copynumber: 3.9 Consensus size: 15
94672254 GAAAATATGA
*
94672264 AAAAAATAAAATATG
1 AAAAAATAAAATACG
94672279 AAAAAATAAAATACG
1 AAAAAATAAAATACG
* *
94672294 AAAAGAAATAAACTATG
1 -AAA-AAATAAAATACG
94672311 AAAAAAATAAAATA
1 -AAAAAATAAAATA
94672325 AAATACAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
15 14 0.35
16 12 0.30
17 14 0.35
ACGTcount: A:0.74, C:0.03, G:0.07, T:0.16
Consensus pattern (15 bp):
AAAAAATAAAATACG
Found at i:94672311 original size:32 final size:32
Alignment explanation
Indices: 94672255--94672324 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 32
94672245 TGATGTGAAG
*
94672255 AAAATATGAAAAAAATAAAATATG-AAAAAAT
1 AAAATACGAAAAAAATAAAATATGAAAAAAAT
*
94672286 AAAATACGAAAAGAAATAAACTATGAAAAAAAT
1 AAAATACGAAAA-AAATAAAATATGAAAAAAAT
94672319 AAAATA
1 AAAATA
94672325 AAATACAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 11 0.31
32 11 0.31
33 13 0.37
ACGTcount: A:0.73, C:0.03, G:0.07, T:0.17
Consensus pattern (32 bp):
AAAATACGAAAAAAATAAAATATGAAAAAAAT
Found at i:94672335 original size:13 final size:13
Alignment explanation
Indices: 94672319--94672373 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
94672309 TGAAAAAAAT
94672319 AAAATAAAATACA
1 AAAATAAAATACA
*
94672332 AAAATAGAAT--A
1 AAAATAAAATACA
*
94672343 AAAAT--AATATA
1 AAAATAAAATACA
*
94672354 AAAATAAATTACA
1 AAAATAAAATACA
94672367 AAAATAA
1 AAAATAA
94672374 TATATTTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
9 3 0.09
11 12 0.34
13 20 0.57
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.20
Consensus pattern (13 bp):
AAAATAAAATACA
Found at i:94672345 original size:11 final size:11
Alignment explanation
Indices: 94672326--94672377 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
94672316 AATAAAATAA
*
94672326 AATACAAAAAT
1 AATATAAAAAT
94672337 AGA-ATAAAAAT
1 A-ATATAAAAAT
94672348 AATATAAAAAT
1 AATATAAAAAT
*
94672359 AAATTACAAAAAT
1 -AA-TATAAAAAT
94672372 AATATA
1 AATATA
94672378 TTTTAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
10 1 0.03
11 20 0.59
12 5 0.15
13 8 0.24
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (11 bp):
AATATAAAAAT
Found at i:94672516 original size:138 final size:138
Alignment explanation
Indices: 94672343--94673239 Score: 1378
Period size: 138 Copynumber: 6.5 Consensus size: 138
94672333 AAATAGAATA
* * * * *
94672343 AAAATAATAT-AAAAATAAATTACAAAAATAATATATTTTAAAAAATAAAATCTGAGA-ATTTTA
1 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGA-ATATTTTA
* *
94672406 GAAATACAAACAAAGTGACAAAATCAATGTTATTTAAAAAACACTAAAATAATATATTTGAAACA
65 GAAATACAAACAAAGTGACAAAATCAAGGTTATTTAAAAAACACTAAAATAATACATTTGAAACA
94672471 TTATGTACT
130 TTATGTACT
94672480 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAG
1 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAG
*
94672545 AAATACAAACAAAGTGACAAAATC-AGGTTTATTTAAAAAAACACTAAAATATTACATTTGAAAC
66 AAATACAAACAAAGTGACAAAATCAAGG-TTATTT-AAAAAACACTAAAATAATACATTTGAAAC
94672609 ATTATGTACT
129 ATTATGTACT
* * *
94672619 AAAATAAGATAAAAAAATAAAATACAAAAATATTATATTCTAAAAAATAAAATCCGAATATTTTA
1 AAAATAAGAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTA
* * *
94672684 GAAATAGAAACAAAAG-GACAAAATCAGGGTTATTTAAAAAA-ATTAAAATAATACATTTGAAAC
65 GAAATACAAAC-AAAGTGACAAAATCAAGGTTATTTAAAAAACACTAAAATAATACATTTGAAAC
94672747 ATTATGTACT
129 ATTATGTACT
* *
94672757 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAGAATCTGAATATTTTAG
1 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAG
*
94672822 AAATACAAACAAAGTGACAAAATC-AGAGTTATTTAAAAAACACTAAAATAGTACATTTGAAACA
66 AAATACAAACAAAGTGACAAAATCAAG-GTTATTTAAAAAACACTAAAATAATACATTTGAAACA
94672886 TTATGTACT
130 TTATGTACT
94672895 AAAATAAGAT-AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAG
1 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAG
* * *
94672959 AAATACAAACAAAGGGACAAAATC-AGAATTATTTAAAAAATACTAAAATAATACATTTGAAACA
66 AAATACAAACAAAGTGACAAAATCAAG-GTTATTTAAAAAACACTAAAATAATACATTTGAAACA
94673023 TTATGTACT
130 TTATGTACT
** *
94673032 AAAATAAGATAAAAAATAAAATAAAAAAATAGTATATTTTAAAAAATAAAATCTGAATATTTTAG
1 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAG
* * * * *
94673097 AAATATAAACAAAGGGACAAAATCAGGGTTATTTAAAAAATACTAAAATAATATATTTGAAACAT
66 AAATACAAACAAAGTGACAAAATCAAGGTTATTTAAAAAACACTAAAATAATACATTTGAAACAT
94673162 TATGTACT
131 TATGTACT
* * *
94673170 AAAATGAGATAAAAAAATAAAATACGAAAATAGTATATTTTAAAGAATAGAATCCGAATATTTTA
1 AAAATAAGAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTA
*
94673235 AAAAT
65 GAAAT
94673240 TTTAGAAATA
Statistics
Matches: 703, Mismatches: 44, Indels: 24
0.91 0.06 0.03
Matches are distributed among these distances:
136 5 0.01
137 224 0.32
138 285 0.41
139 107 0.15
140 76 0.11
141 6 0.01
ACGTcount: A:0.57, C:0.07, G:0.08, T:0.28
Consensus pattern (138 bp):
AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAG
AAATACAAACAAAGTGACAAAATCAAGGTTATTTAAAAAACACTAAAATAATACATTTGAAACAT
TATGTACT
Found at i:94673074 original size:23 final size:24
Alignment explanation
Indices: 94673048--94673101 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
94673038 AGATAAAAAA
*
94673048 TAAAATAAAAAAAT-AGTATATTT
1 TAAAATAAAAAAATCAGAATATTT
* *
94673071 TAAAA-AATAAAATCTGAATATTT
1 TAAAATAAAAAAATCAGAATATTT
94673094 TAGAAATA
1 TA-AAATA
94673102 TAAACAAAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 7 0.28
23 14 0.56
24 3 0.12
25 1 0.04
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (24 bp):
TAAAATAAAAAAATCAGAATATTT
Found at i:94675047 original size:267 final size:267
Alignment explanation
Indices: 94674557--94675155 Score: 575
Period size: 266 Copynumber: 2.3 Consensus size: 267
94674547 CAAAGAGACA
* * ** ** *
94674557 TTCGATTATTTTGAACAAATGGGGGATTGCAACCCAGCACGACAGGGCACTATTCCCCGAATTGC
1 TTCGATTATTTTGAACAAACGAGAAATCACAACCCAGCACGACAGGGCACTATTCCCCAAATTGC
* * * *
94674622 CAAACATCGAACATTTCTTCCGTTTTCAAGAGTTTTTAGAAAACGTGAGTGAAATTCCAAAGGGA
66 CAAACACCGAACATTCCTTCCGTTTTAAAGAGTTTTTAGAAAACCTGAGTGAAATTCCAAAGGGA
* * * * * *
94674687 TCTTCGATCGTTTTGAACAAATGAAAAAGCGCAACCCAGCACGATAGGGCACGATTCTCGAATTG
131 TATTCGATCATTTTGAACAAACGAAAAAGCGCAACCCAACACGATAGGGCACAATTCGCGAATTG
* *
94674752 CCAAACATCGAACATCGCATTTGTTTTAAAGGGTTTTCTTAAAAAAAACATGAATGAAAACTTAA
196 CCAAACATCAAACATCGCATTCGTTTTAAAGGGTTTTCTTAAAAAAAACATGAATGAAAACTTAA
94674817 AGGAACG
261 AGGAACG
* *
94674824 TTCGATTATTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGTA-TGATT-CCCAAATTG
1 TTCGATTATTTTGAACAAACGAGAAATCACAACCCAGCACGACAGGGCACT-ATTCCCCAAATTG
* ** * *
94674887 TCAAACACCGAGTATTGCCTT-CGTTTTAAAG-GATTTTTAGAAGACCTGAGTGAAATTTCAAAG
65 CCAAACACCGAACATT-CCTTCCGTTTTAAAGAG-TTTTTAGAAAACCTGAGTGAAATTCCAAAG
* * * * ** * *
94674950 GGATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCGCAATTCCGCGA
128 GGATATTCGATCATTTTGAACAAACGAAAAAGCGCAACCCAACACGATAGGGCACAATT-CGCGA
* ** * * ** ** * * **
94675015 ATTGCCAAATATCAAATTTTGCCTTCGTTTTAAA-GAATTT-TT--AAAAGGCACGAGTGAAATT
192 ATTGCCAAACATCAAACATCGCATTCGTTTTAAAGGGTTTTCTTAAAAAAAACATGAATGAAAAC
* * **
94675076 TTGAAGGGATA
257 TTAAAGGAACG
* ** * ** * *
94675087 TTCGATTATTTTGAACAAACGCGAAATTGCAACCCAACACGTTAGGGCACTATTCCGCGAATTGC
1 TTCGATTATTTTGAACAAACGAGAAATCACAACCCAGCACGACAGGGCACTATTCCCCAAATTGC
94675152 CAAA
66 CAAA
94675156 TATCGAATCT
Statistics
Matches: 266, Mismatches: 60, Indels: 15
0.78 0.18 0.04
Matches are distributed among these distances:
263 66 0.25
264 12 0.05
265 3 0.01
266 107 0.40
267 78 0.29
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (267 bp):
TTCGATTATTTTGAACAAACGAGAAATCACAACCCAGCACGACAGGGCACTATTCCCCAAATTGC
CAAACACCGAACATTCCTTCCGTTTTAAAGAGTTTTTAGAAAACCTGAGTGAAATTCCAAAGGGA
TATTCGATCATTTTGAACAAACGAAAAAGCGCAACCCAACACGATAGGGCACAATTCGCGAATTG
CCAAACATCAAACATCGCATTCGTTTTAAAGGGTTTTCTTAAAAAAAACATGAATGAAAACTTAA
AGGAACG
Found at i:94675083 original size:132 final size:132
Alignment explanation
Indices: 94674536--94675191 Score: 531
Period size: 132 Copynumber: 5.0 Consensus size: 132
94674526 TAGAAAATAC
* * * * ** * **
94674536 GAGTGAAATTTCAAAGAGACATTCGATTATTTTGAACAAATGGGGGATTGCAACCCAGCACGACA
1 GAGTGAAATTTCAAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGTTA
* * * * *
94674601 GGGCACTATTCCCCGAATTGCCAAACATCGAACAT-TT--CTTCCGTTTTCAAGAGTTTTTAGAA
66 GGGCACAATTCCGCGAATTGCCAAATATC-AA-ATCTTGCCTT-CGTTTTAAAGAATTTTTA-AA
*
94674663 A-ACGT
127 AGACCT
* * ** * * ** * *
94674668 GAGTGAAATTCCAAAGGGATCTTCGATCGTTTTGAACAAATGAAAAAGCGCAACCCAGCACGATA
1 GAGTGAAATTTCAAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGTTA
* * * * * **
94674733 GGGCACGATT-CTCGAATTGCCAAACATCGAACATC--GCATTTGTTTTAAAGGGTTTTCTTAAA
66 GGGCACAATTCCGCGAATTGCCAAATATC-AA-ATCTTGCCTTCGTTTTAAA-GAATTT-TT--A
* *
94674795 AAAAACAT
125 AAAGACCT
* * * ** ** * *
94674803 GAATGAAAACTT-AAAGGAACGTTCGATTATTTTGAACAAACGAGAAATCACAACCCAGCACGAT
1 GAGTG-AAATTTCAAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGTT
* ** * * * * * * * * *
94674867 AGGGTATGATTCC-CAAATTGTCAAACACCGAGTATTGCCTTCGTTTTAAAGGATTTTTAGAAGA
65 AGGGCACAATTCCGCGAATTGCCAAATATCAAATCTTGCCTTCGTTTTAAAGAATTTTTAAAAGA
94674931 CCT
130 CCT
* *
94674934 GAGTGAAATTTCAAAGGGATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTA
1 GAGTGAAATTTCAAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGTTA
* * *
94674999 GGGCGCAATTCCGCGAATTGCCAAATATCAAATTTTGCCTTCGTTTTAAAGAATTTTTAAAAGGC
66 GGGCACAATTCCGCGAATTGCCAAATATCAAATCTTGCCTTCGTTTTAAAGAATTTTTAAAAGAC
94675064 AC-
131 -CT
** *
94675066 GAGTGAAATTTTGAAGGGATATTCGATTATTTTGAACAAACGCGAAATTGCAACCCAACACGTTA
1 GAGTGAAATTTCAAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGTTA
* * * *
94675131 GGGCACTATTCCGCGAATTGCCAAATATCGAATCTCGTCTTCGTTTTAAAGAATTTTTAAA
66 GGGCACAATTCCGCGAATTGCCAAATATCAAATCTTGCCTTCGTTTTAAAGAATTTTTAAA
94675192 TGAATACTTA
Statistics
Matches: 426, Mismatches: 83, Indels: 30
0.79 0.15 0.06
Matches are distributed among these distances:
130 5 0.01
131 92 0.22
132 224 0.53
133 6 0.01
134 9 0.02
135 85 0.20
136 5 0.01
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (132 bp):
GAGTGAAATTTCAAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGTTA
GGGCACAATTCCGCGAATTGCCAAATATCAAATCTTGCCTTCGTTTTAAAGAATTTTTAAAAGAC
CT
Found at i:94679674 original size:17 final size:17
Alignment explanation
Indices: 94679654--94679692 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
94679644 AATACATTAC
94679654 AACATTAATCT-AATTGG
1 AACATTAAT-TAAATTGG
94679671 AACATTAATTAAATTGG
1 AACATTAATTAAATTGG
94679688 AACAT
1 AACAT
94679693 ACTATTACCG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (17 bp):
AACATTAATTAAATTGG
Found at i:94683132 original size:39 final size:39
Alignment explanation
Indices: 94683088--94683189 Score: 159
Period size: 39 Copynumber: 2.6 Consensus size: 39
94683078 AATTATATTA
* *
94683088 CCAGCACAAAGCCTGCGAGACTTTAGCTCGGATACATTT
1 CCAGCACGAAGCCTGCGAGACTTTAGCCCGGATACATTT
*
94683127 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGAGACTTTAGCCCGGATACATTT
* *
94683166 CCAGCATGAAGCCTGCGATACTTT
1 CCAGCACGAAGCCTGCGAGACTTT
94683190 TCCAACATGA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGAGACTTTAGCCCGGATACATTT
Found at i:94683185 original size:25 final size:25
Alignment explanation
Indices: 94683157--94683207 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
94683147 CTTTAGCCCG
*
94683157 GATACATTTCCAGCATGAAGCCTGC
1 GATACATTTCCAACATGAAGCCTGC
*
94683182 GATACTTTTCCAACATGAAGCCTGC
1 GATACATTTCCAACATGAAGCCTGC
94683207 G
1 G
94683208 GGACTTTAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (25 bp):
GATACATTTCCAACATGAAGCCTGC
Found at i:94683213 original size:25 final size:25
Alignment explanation
Indices: 94683163--94683214 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
94683153 CCCGGATACA
* *
94683163 TTTCCAGCATGAAGCCTGCGATACT
1 TTTCCAACATGAAGCCTGCGAGACT
*
94683188 TTTCCAACATGAAGCCTGCGGGACT
1 TTTCCAACATGAAGCCTGCGAGACT
94683213 TT
1 TT
94683215 AGCCCTGATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (25 bp):
TTTCCAACATGAAGCCTGCGAGACT
Found at i:94683219 original size:64 final size:64
Alignment explanation
Indices: 94683118--94683246 Score: 204
Period size: 64 Copynumber: 2.0 Consensus size: 64
94683108 CTTTAGCTCG
* * *
94683118 GATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCATGAAGCCTGC
1 GATACATTTCCAACACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAACACGAAGCCTGC
* * *
94683182 GATACTTTTCCAACATGAAGCCTGCGGGACTTTAGCCCTGATACATTTCCAACACGAAGCCTGC
1 GATACATTTCCAACACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAACACGAAGCCTGC
94683246 G
1 G
94683247 GGACTTTAGC
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (64 bp):
GATACATTTCCAACACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAACACGAAGCCTGC
Found at i:94683280 original size:103 final size:103
Alignment explanation
Indices: 94683096--94683285 Score: 335
Period size: 103 Copynumber: 1.8 Consensus size: 103
94683086 TACCAGCACA
* *
94683096 AAGCCTGCGAGACTTTAGCTCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATA
1 AAGCCTGCGAGACTTTAGCCCGGATACATTTCCAACACGAAGCCTGCGGGACTTTAGCCCGGATA
*
94683161 CATTTCCAGCATGAAGCCTGCGATACTTTTCCAACATG
66 CATTTCCAGCACGAAGCCTGCGATACTTTTCCAACATG
* *
94683199 AAGCCTGCGGGACTTTAGCCCTGATACATTTCCAACACGAAGCCTGCGGGACTTTAGCCCGGATA
1 AAGCCTGCGAGACTTTAGCCCGGATACATTTCCAACACGAAGCCTGCGGGACTTTAGCCCGGATA
94683264 CATTTCCAGCACGAAGCCTGCG
66 CATTTCCAGCACGAAGCCTGCG
94683286 GGACTTTAGC
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 82 1.00
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (103 bp):
AAGCCTGCGAGACTTTAGCCCGGATACATTTCCAACACGAAGCCTGCGGGACTTTAGCCCGGATA
CATTTCCAGCACGAAGCCTGCGATACTTTTCCAACATG
Found at i:94683332 original size:38 final size:39
Alignment explanation
Indices: 94683182--94683346 Score: 278
Period size: 39 Copynumber: 4.3 Consensus size: 39
94683172 TGAAGCCTGC
* * *
94683182 GATACTTTTCCAACATGAAGCCTGCGGGACTTTAGCCCT
1 GATACATTTCCAACACGAAGCCTGCGGGACTTTAGCCCG
94683221 GATACATTTCCAACACGAAGCCTGCGGGACTTTAGCCCG
1 GATACATTTCCAACACGAAGCCTGCGGGACTTTAGCCCG
*
94683260 GATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCG
1 GATACATTTCCAACACGAAGCCTGCGGGACTTTAGCCCG
*
94683299 GATACATTTCCAGCACGAAG-CTGCGGGACTTTAGCCCG
1 GATACATTTCCAACACGAAGCCTGCGGGACTTTAGCCCG
94683337 GATACATTTC
1 GATACATTTC
94683347 TAATGTCTTG
Statistics
Matches: 122, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
38 28 0.23
39 94 0.77
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (39 bp):
GATACATTTCCAACACGAAGCCTGCGGGACTTTAGCCCG
Found at i:94688935 original size:39 final size:39
Alignment explanation
Indices: 94688881--94689154 Score: 458
Period size: 39 Copynumber: 7.0 Consensus size: 39
94688871 AATAGTATTA
* *
94688881 CCAGCACAAAGCCTGCGGGACTTTAGCTCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
94688920 CCAGCACGAAGCCTGCGGGACTTTAGCTCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
94688959 CCAGCACGAAGCCTGCGAGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* * *
94688998 CCAACATGAAGCCTACGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
94689037 CTAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
94689076 CCAACACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
94689115 CCAGCACGAAGCCTGCAGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
94689154 C
1 C
94689155 TAGTGTCTTG
Statistics
Matches: 220, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 220 1.00
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.22
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:94694598 original size:4 final size:4
Alignment explanation
Indices: 94694591--94694665 Score: 53
Period size: 4 Copynumber: 18.2 Consensus size: 4
94694581 TTTTTATTTA
* ** * * *
94694591 TTTC TTTC TTTC CTTC TTTC TTTC TCAC ATTTGC TCTC TGTTA GT-C TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C TTTC T-TTC TTTC TTTC
*
94694641 TATC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC T
94694666 CACGTTTGCT
Statistics
Matches: 53, Mismatches: 14, Indels: 8
0.71 0.19 0.11
Matches are distributed among these distances:
3 1 0.02
4 47 0.89
5 4 0.08
6 1 0.02
ACGTcount: A:0.05, C:0.27, G:0.04, T:0.64
Consensus pattern (4 bp):
TTTC
Found at i:94694697 original size:50 final size:51
Alignment explanation
Indices: 94694592--94694697 Score: 162
Period size: 50 Copynumber: 2.1 Consensus size: 51
94694582 TTTTATTTAT
* *
94694592 TTCTTTCTTTCCTTCTTTCTTTCTCACATTTGCTCTCTGTTAGTCTTTCTA
1 TTCTTTCTTTCCTTCTTTCTTTCTCACATTTGCTCTCTGTAACTCTTTCTA
* *
94694643 -TCTTTCTTTCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAACT-TTTCTA
1 TTCTTTCTTTCCTTCTTTCTTTCTCACATTTGCTCTCTGTAACTCTTTCTA
94694692 TTCTTT
1 TTCTTT
94694698 ACTCATTATT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
49 6 0.12
50 44 0.88
ACGTcount: A:0.08, C:0.26, G:0.06, T:0.60
Consensus pattern (51 bp):
TTCTTTCTTTCCTTCTTTCTTTCTCACATTTGCTCTCTGTAACTCTTTCTA
Found at i:94694709 original size:14 final size:14
Alignment explanation
Indices: 94694690--94694720 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
94694680 GTAACTTTTC
94694690 TATTCTTTACTCAT
1 TATTCTTTACTCAT
*
94694704 TATTCTTTATTCAT
1 TATTCTTTACTCAT
94694718 TAT
1 TAT
94694721 ACTATATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (14 bp):
TATTCTTTACTCAT
Found at i:94696937 original size:87 final size:87
Alignment explanation
Indices: 94696836--94697071 Score: 262
Period size: 87 Copynumber: 2.7 Consensus size: 87
94696826 ACAACGCAGA
* * * * * *
94696836 GATGCCAAACCATCTTAGATTTGCTTCAGCATAAACA-CGTGAAAGCCAAATCTGCTGTGTTTTC
1 GATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATC-TGAAAGCCAAATCTGCTATGTATTC
*
94696900 GATTT-TCTCCTTGTGAACACAAG
65 GATTTGT-TCCTTGTAAACACAAG
* ** *
94696923 GATGCCAAATCATCTTGGATCTGCTTCAGTA-AAATCATCTGAAGGTTAGATCTGCTATGTATTC
1 GATGCCAAATCATCTTGGATCTGCTTCAGTATAAA-CATCTGAAAGCCAAATCTGCTATGTATTC
*
94696987 GATTTGTTCCTTGTAAACACAAT
65 GATTTGTTCCTTGTAAACACAAG
* * * ** *
94697010 AATGCCAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGGTTAGATCTGCTATGTAT
1 GATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCCAAATCTGCTATGTAT
94697072 CTACTCTCCA
Statistics
Matches: 131, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
86 3 0.02
87 123 0.94
88 5 0.04
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (87 bp):
GATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCCAAATCTGCTATGTATTCG
ATTTGTTCCTTGTAAACACAAG
Found at i:94697236 original size:146 final size:146
Alignment explanation
Indices: 94696972--94697243 Score: 490
Period size: 146 Copynumber: 1.9 Consensus size: 146
94696962 TGAAGGTTAG
* * *
94696972 ATCTGCTATGTATTCGATTTGTTCCTTGTAAACACAATAATGCCAAATCATCTTGGATCTGCTTC
1 ATCTGCTATGTATTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGAATCTGCTTC
94697037 AATATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCATCGAAATGGAGATGCCTGAG
66 AATATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCATCGAAATGGAGATGCCTGAG
94697102 AACATTCAAAAGTCAA
131 AACATTCAAAAGTCAA
*
94697118 ATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGAATCTGCTTC
1 ATCTGCTATGTATTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGAATCTGCTTC
* *
94697183 AGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTCGAAATGGAGATGCC
66 AATATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCATCGAAATGGAGATGCC
94697244 AGATCTGTTA
Statistics
Matches: 120, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
146 120 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (146 bp):
ATCTGCTATGTATTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGAATCTGCTTC
AATATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCATCGAAATGGAGATGCCTGAG
AACATTCAAAAGTCAA
Found at i:94697489 original size:174 final size:175
Alignment explanation
Indices: 94697098--94697738 Score: 1097
Period size: 175 Copynumber: 3.7 Consensus size: 175
94697088 TGGAGATGCC
* *
94697098 TGAGAACATTCAAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCA
1 TGAGAACATCCAAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCA
* *
94697163 AATCATCTTGAATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCG
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCG
* *
94697228 TCGAAATGGAGATGCCAGATCTGTTATCTTAGATCTACTTTGGTG
131 TCGAAATGGAGATGCCAGATCTGTTATCTTGGATCTGCTTTGGTG
94697273 TGAGAACATCCAAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCA
1 TGAGAACATCCAAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCA
* *
94697338 AATCATCTTGGATCTGCTTCAGTATAAATATCTGAAGGTTAGATCTGCTATGTATCTGCTCT-CA
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCG
*
94697402 TCGAAATGGAGATGCCAAATCTGTTATCTTGGATCTGCTTTGGTG
131 TCGAAATGGAGATGCCAGATCTGTTATCTTGGATCTGCTTTGGTG
*
94697447 TGAGAACATCCAAAAGTCAAATCTGCTATGTCTTCAATTTGTTCCTTGTAAACACAAGAATGCCA
1 TGAGAACATCCAAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCA
*
94697512 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTTCTATGTATCTGCTCTCCG
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCG
*
94697577 TTGAAATGGAGATGCCAGATCTGTTATCTTGGATCTGCTTTGGTG
131 TCGAAATGGAGATGCCAGATCTGTTATCTTGGATCTGCTTTGGTG
** *
94697622 TGAGAACATCTGAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACATAAGAATGCCA
1 TGAGAACATCCAAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCA
* * *
94697687 AATCATCTTGGCTATGCTTCAGTATAAACA-CGTGAAGGCTAGATCTGCTATG
66 AATCATCTTGGATCTGCTTCAGTATAAACATC-TGAAGGTTAGATCTGCTATG
94697739 CTTTGGTCTG
Statistics
Matches: 441, Mismatches: 23, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
174 168 0.38
175 273 0.62
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (175 bp):
TGAGAACATCCAAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCA
AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCG
TCGAAATGGAGATGCCAGATCTGTTATCTTGGATCTGCTTTGGTG
Found at i:94697529 original size:89 final size:88
Alignment explanation
Indices: 94697110--94697697 Score: 355
Period size: 87 Copynumber: 6.7 Consensus size: 88
94697100 AGAACATTCA
* *
94697110 AAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGAA
1 AAAGTCAAATCTGCTATGTCTTC-ATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGA
** *
94697175 TCTGCTTCAGTAT-A-AACATCTG
65 TCTGCTTTGGTGTGAGAACATCTG
* * * * * * * *** *
94697197 AAGGTTAGATCTGCTATGT-ATC-TACT-CTCCGTCG-AAA-TGGAG-ATGCCAGATCTGTTATC
1 AAAGTCAAATCTGCTATGTCTTCAT-TTGTTCC-TTGTAAACACAAGAATGCCAAATC----ATC
* * **
94697256 TTAGATCTACTTTGGTGTGAGAACATCCA
60 TTGGATCTGCTTTGGTGTGAGAACATCTG
94697285 AAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGA
1 AAAGTCAAATCTGCTATGTCTTC-ATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGA
** * *
94697350 TCTGCTTCAGTAT-A-AATATCTG
65 TCTGCTTTGGTGTGAGAACATCTG
* * * * * * ***
94697372 AAGGTTAGATCTGCTATG---T-ATCTGCTCTCATCG-AAA-TGGAG-ATGCCAAATCTGTTATC
1 AAAGTCAAATCTGCTATGTCTTCATTTG-T-TCCTTGTAAACACAAGAATGCCAAATC----ATC
**
94697430 TTGGATCTGCTTTGGTGTGAGAACATCCA
60 TTGGATCTGCTTTGGTGTGAGAACATCTG
94697459 AAAGTCAAATCTGCTATGTCTTCAATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGA
1 AAAGTCAAATCTGCTATGTCTTC-ATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGA
** *
94697524 TCTGCTTCAGTAT-A-AACATCTG
65 TCTGCTTTGGTGTGAGAACATCTG
* * * * * *** *
94697546 AAGGTTAGATCTTCTATG---T-ATCTGCTCTCCGTTG-AAA-TGGAG-ATGCCAGATCTGTTAT
1 AAAGTCAAATCTGCTATGTCTTCATTTG-T-TCC-TTGTAAACACAAGAATGCCAAATC----AT
94697604 CTTGGATCTGCTTTGGTGTGAGAACATCTG
59 CTTGGATCTGCTTTGGTGTGAGAACATCTG
*
94697634 AAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACATAAGAATGCCAAATCATCTTGG
1 AAAGTCAAATCTGCTATGTCTTC-ATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
94697698 CTATGCTTCA
Statistics
Matches: 366, Mismatches: 87, Indels: 94
0.67 0.16 0.17
Matches are distributed among these distances:
81 10 0.03
82 28 0.08
83 9 0.02
84 20 0.05
85 24 0.07
86 36 0.10
87 78 0.21
88 46 0.13
89 43 0.12
90 11 0.03
91 18 0.05
92 11 0.03
93 32 0.09
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (88 bp):
AAAGTCAAATCTGCTATGTCTTCATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGAT
CTGCTTTGGTGTGAGAACATCTG
Found at i:94697737 original size:349 final size:349
Alignment explanation
Indices: 94697098--94697738 Score: 1122
Period size: 349 Copynumber: 1.8 Consensus size: 349
94697088 TGGAGATGCC
* *
94697098 TGAGAACATTCAAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCA
1 TGAGAACATCCAAAAGTCAAATCTGCTATGTCTTCAATTTGCTCCTTGTAAACACAAGAATGCCA
94697163 AATCATCTTGAATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCG
66 AATCATCTTGAATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCG
94697228 TCGAAATGGAGATGCCAGATCTGTTATCTTAGATCTACTTTGGTGTGAGAACATCCAAAAGTCAA
131 TCGAAATGGAGATGCCAGATCTGTTATCTTAGATCTACTTTGGTGTGAGAACATCCAAAAGTCAA
*
94697293 ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
196 ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATATGCTTC
* *
94697358 AGTATAAATATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCATCGAAATGGAGATGCCAAATC
261 AGTATAAACATCTGAAGGCTAGATCTGCTATGTATCTGCTCTCATCGAAATGGAGATGCCAAATC
94697423 TGTTATCTTGGATCTGCTTTGGTG
326 TGTTATCTTGGATCTGCTTTGGTG
*
94697447 TGAGAACATCCAAAAGTCAAATCTGCTATGTCTTCAATTTGTTCCTTGTAAACACAAGAATGCCA
1 TGAGAACATCCAAAAGTCAAATCTGCTATGTCTTCAATTTGCTCCTTGTAAACACAAGAATGCCA
* * *
94697512 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTTCTATGTATCTGCTCTCCG
66 AATCATCTTGAATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCG
* * * **
94697577 TTGAAATGGAGATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCTGAAAGTCAA
131 TCGAAATGGAGATGCCAGATCTGTTATCTTAGATCTACTTTGGTGTGAGAACATCCAAAAGTCAA
* *
94697642 ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACATAAGAATGCCAAATCATCTTGGCTATGCTTC
196 ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATATGCTTC
94697707 AGTATAAACA-CGTGAAGGCTAGATCTGCTATG
261 AGTATAAACATC-TGAAGGCTAGATCTGCTATG
94697739 CTTTGGTCTG
Statistics
Matches: 275, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
348 1 0.00
349 274 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (349 bp):
TGAGAACATCCAAAAGTCAAATCTGCTATGTCTTCAATTTGCTCCTTGTAAACACAAGAATGCCA
AATCATCTTGAATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCG
TCGAAATGGAGATGCCAGATCTGTTATCTTAGATCTACTTTGGTGTGAGAACATCCAAAAGTCAA
ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATATGCTTC
AGTATAAACATCTGAAGGCTAGATCTGCTATGTATCTGCTCTCATCGAAATGGAGATGCCAAATC
TGTTATCTTGGATCTGCTTTGGTG
Found at i:94710127 original size:11 final size:10
Alignment explanation
Indices: 94710095--94710142 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 10
94710085 TATTAATATC
94710095 AAAAAATAAT
1 AAAAAATAAT
*
94710105 AACAAAAGAAT
1 AA-AAAATAAT
94710116 AAAATAATAAT
1 AAAA-AATAAT
*
94710127 AAATAAAAAAT
1 AAA-AAATAAT
94710138 AAAAA
1 AAAAA
94710143 TTAGGTTGCC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
10 6 0.19
11 25 0.78
12 1 0.03
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (10 bp):
AAAAAATAAT
Found at i:94710127 original size:22 final size:21
Alignment explanation
Indices: 94710095--94710142 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
94710085 TATTAATATC
*
94710095 AAAAAATAATAACA-AAAGAAT
1 AAAAAATAATAA-ATAAAAAAT
94710116 AAAATAATAATAAATAAAAAAT
1 AAAA-AATAATAAATAAAAAAT
94710138 AAAAA
1 AAAAA
94710143 TTAGGTTGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (21 bp):
AAAAAATAATAAATAAAAAAT
Found at i:94712553 original size:34 final size:34
Alignment explanation
Indices: 94712513--94712579 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
94712503 GTTTGAGTAG
94712513 GGTTTTCGTTAACCCTAGACTCTACTTCGTCGTA
1 GGTTTTCGTTAACCCTAGACTCTACTTCGTCGTA
*
94712547 GGTTTTCGTTAATCCTAGACTCTACTTCGTCGT
1 GGTTTTCGTTAACCCTAGACTCTACTTCGTCGT
94712580 CGATTATGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.40
Consensus pattern (34 bp):
GGTTTTCGTTAACCCTAGACTCTACTTCGTCGTA
Found at i:94713756 original size:10 final size:9
Alignment explanation
Indices: 94713742--94713790 Score: 53
Period size: 10 Copynumber: 5.0 Consensus size: 9
94713732 TAAATTCTAA
94713742 AAAATAAAT
1 AAAATAAAT
94713751 ACAAATAAAT
1 A-AAATAAAT
*
94713761 AAAGATAATT
1 AAA-ATAAAT
94713771 AAAGATAAAT
1 AAA-ATAAAT
94713781 GAAAATAAAT
1 -AAAATAAAT
94713791 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 3 0.09
10 29 0.83
11 3 0.09
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.22
Consensus pattern (9 bp):
AAAATAAAT
Found at i:94713840 original size:14 final size:13
Alignment explanation
Indices: 94713804--94713841 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
94713794 AAAATTAAAT
94713804 CTAAATAATTATC
1 CTAAATAATTATC
*
94713817 CTTAATAATTATC
1 CTAAATAATTATC
94713830 CTAATATAATTA
1 CTAA-ATAATTA
94713842 AACATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:94714893 original size:15 final size:14
Alignment explanation
Indices: 94714873--94714902 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
94714863 ATTTTTTATA
94714873 ATTTTTAATATTTTT
1 ATTTTTAAT-TTTTT
94714888 ATTTTTAATTTTTT
1 ATTTTTAATTTTTT
94714902 A
1 A
94714903 ATAATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
ATTTTTAATTTTTT
Found at i:94714898 original size:22 final size:23
Alignment explanation
Indices: 94714866--94714913 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
94714856 TGAACCAATT
*
94714866 TTTTATAA-TTTTTAATATTTTTA
1 TTTTATAATTTTTTAATA-ATTTA
94714889 TTTT-TAATTTTTTAATAATTTA
1 TTTTATAATTTTTTAATAATTTA
94714911 TTT
1 TTT
94714914 ATTTTGAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTTATAATTTTTTAATAATTTA
Found at i:94715161 original size:14 final size:15
Alignment explanation
Indices: 94715142--94715174 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
94715132 AGTTTAAAGT
94715142 AAAT-AAAATATTAA
1 AAATAAAAATATTAA
94715156 AAATAAAAATATTAA
1 AAATAAAAATATTAA
94715171 AAAT
1 AAAT
94715175 TGATAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATAAAAATATTAA
Found at i:94717986 original size:18 final size:18
Alignment explanation
Indices: 94717965--94718007 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
94717955 TCCGGTGAGA
94717965 ATGATGAGGAGTTATCAG
1 ATGATGAGGAGTTATCAG
** *
94717983 ATGATGCTGAGTTTTCAG
1 ATGATGAGGAGTTATCAG
94718001 ATGATGA
1 ATGATGA
94718008 AAAGGAGGCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.33
Consensus pattern (18 bp):
ATGATGAGGAGTTATCAG
Found at i:94724755 original size:13 final size:13
Alignment explanation
Indices: 94724737--94724779 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
94724727 TTTAATAATA
94724737 AAATAAAGAAATG
1 AAATAAAGAAATG
94724750 AAATAAAGAAAT-
1 AAATAAAGAAATG
* *
94724762 AAATGAAATAAAAG
1 AAAT-AAAGAAATG
94724776 AAAT
1 AAAT
94724780 GAAAAAGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 4 0.15
13 18 0.69
14 4 0.15
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (13 bp):
AAATAAAGAAATG
Found at i:94724767 original size:17 final size:18
Alignment explanation
Indices: 94724733--94724779 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
94724723 ATAGTTTAAT
* *
94724733 AATAAAATAAAGAAATGA
1 AATAAAAGAAATAAATGA
94724751 AAT-AAAGAAATAAATGA
1 AATAAAAGAAATAAATGA
94724768 AATAAAAGAAAT
1 AATAAAAGAAAT
94724780 GAAAAAGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (18 bp):
AATAAAAGAAATAAATGA
Found at i:94724771 original size:9 final size:9
Alignment explanation
Indices: 94724745--94724779 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
94724735 TAAAATAAAG
94724745 AAATGAAAT
1 AAATGAAAT
94724754 AAA-GAAAT
1 AAATGAAAT
94724762 AAATGAAAT
1 AAATGAAAT
*
94724771 AAAAGAAAT
1 AAATGAAAT
94724780 GAAAAAGGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.17
Consensus pattern (9 bp):
AAATGAAAT
Done.