Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 35 of 311
Found at i:9965764 original size:15 final size:15
Alignment explanation
Indices: 9965744--9965772 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9965734 TTGATTAAAA
9965744 TGTAAGTATTTATGC
1 TGTAAGTATTTATGC
9965759 TGTAAGTATTTATG
1 TGTAAGTATTTATG
9965773 TTGTCTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.48
Consensus pattern (15 bp):
TGTAAGTATTTATGC
Found at i:9967588 original size:83 final size:83
Alignment explanation
Indices: 9967449--9967617 Score: 338
Period size: 83 Copynumber: 2.0 Consensus size: 83
9967439 ATAAAAGATA
9967449 AAAGAAATTTAGTAAAGGAAGAAAAAGAGTGCAAGGAAAAAATAAATGGATAATGGAACATTTAG
1 AAAGAAATTTAGTAAAGGAAGAAAAAGAGTGCAAGGAAAAAATAAATGGATAATGGAACATTTAG
9967514 CACATTAAATATGTGTTT
66 CACATTAAATATGTGTTT
9967532 AAAGAAATTTAGTAAAGGAAGAAAAAGAGTGCAAGGAAAAAATAAATGGATAATGGAACATTTAG
1 AAAGAAATTTAGTAAAGGAAGAAAAAGAGTGCAAGGAAAAAATAAATGGATAATGGAACATTTAG
9967597 CACATTAAATATGTGTTT
66 CACATTAAATATGTGTTT
9967615 AAA
1 AAA
9967618 AATAATAAAG
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 86 1.00
ACGTcount: A:0.51, C:0.05, G:0.20, T:0.24
Consensus pattern (83 bp):
AAAGAAATTTAGTAAAGGAAGAAAAAGAGTGCAAGGAAAAAATAAATGGATAATGGAACATTTAG
CACATTAAATATGTGTTT
Found at i:9968039 original size:16 final size:16
Alignment explanation
Indices: 9967984--9968039 Score: 69
Period size: 16 Copynumber: 3.6 Consensus size: 16
9967974 ACAACTGAAT
*
9967984 TATT-CATTACAGGTC
1 TATTCCATTACAGCTC
* *
9967999 TATTCTATTACAACTC
1 TATTCCATTACAGCTC
*
9968015 TATTACATTACAGCTC
1 TATTCCATTACAGCTC
9968031 TATTCCATT
1 TATTCCATT
9968040 CCTCCCAACC
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
15 4 0.12
16 29 0.88
ACGTcount: A:0.29, C:0.23, G:0.05, T:0.43
Consensus pattern (16 bp):
TATTCCATTACAGCTC
Found at i:9974850 original size:16 final size:16
Alignment explanation
Indices: 9974817--9974850 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9974807 AACTACTGTT
* *
9974817 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
9974833 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
9974849 AA
1 AA
9974851 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:9977672 original size:21 final size:21
Alignment explanation
Indices: 9977646--9977686 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9977636 AGACGAGCAA
* *
9977646 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
9977667 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
9977687 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:9992418 original size:22 final size:23
Alignment explanation
Indices: 9992384--9992427 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
9992374 ATTGTGACAA
*
9992384 AAAAAAATCTTTAAGTATCAAATT
1 AAAAAAA-CTTTAAGTACCAAATT
*
9992408 AAAAAAA-TTTATGTACCAAA
1 AAAAAAACTTTAAGTACCAAA
9992428 GTGAGTGAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
24 7 0.39
ACGTcount: A:0.57, C:0.09, G:0.05, T:0.30
Consensus pattern (23 bp):
AAAAAAACTTTAAGTACCAAATT
Found at i:9996219 original size:27 final size:26
Alignment explanation
Indices: 9996174--9996235 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
9996164 TATTTTCTCG
9996174 AAATTTTACCAAGGGTAAAATCATCAA
1 AAATTTTACCAAGGGTAAAATCATC-A
* * **
9996201 AAATTTTACCGAGGTTAAAATTGTCA
1 AAATTTTACCAAGGGTAAAATCATCA
9996227 AAATTTTAC
1 AAATTTTAC
9996236 TAGGATAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 10 0.32
27 21 0.68
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (26 bp):
AAATTTTACCAAGGGTAAAATCATCA
Found at i:9998942 original size:10 final size:10
Alignment explanation
Indices: 9998927--9998953 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
9998917 AAATTTTAAT
9998927 CTCCTAATAA
1 CTCCTAATAA
9998937 CTCCTAATAA
1 CTCCTAATAA
9998947 CTCCTAA
1 CTCCTAA
9998954 AATAGGCGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.37, C:0.33, G:0.00, T:0.30
Consensus pattern (10 bp):
CTCCTAATAA
Found at i:10003185 original size:22 final size:23
Alignment explanation
Indices: 10003158--10003210 Score: 92
Period size: 22 Copynumber: 2.4 Consensus size: 23
10003148 TCTTGTAGTA
10003158 GTCTTCAACACTCCTACTCCCCT
1 GTCTTCAACACTCCTACTCCCCT
10003181 -TCTTCAACACTCCTACTCCCCT
1 GTCTTCAACACTCCTACTCCCCT
10003203 GT-TTCAAC
1 GTCTTCAAC
10003211 GTCTGCAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.19, C:0.45, G:0.04, T:0.32
Consensus pattern (23 bp):
GTCTTCAACACTCCTACTCCCCT
Found at i:10005106 original size:55 final size:55
Alignment explanation
Indices: 10005040--10005151 Score: 206
Period size: 55 Copynumber: 2.0 Consensus size: 55
10005030 ATTATATGGC
* *
10005040 AGCCTTGTATTTGAAATTTGAAATTCAAATACAAACTACTTGTTCTTATCCTTGA
1 AGCCTTGTATTTGAAATTTGAAATTCAAACACAAACTACTTGATCTTATCCTTGA
10005095 AGCCTTGTATTTGAAATTTGAAATTCAAACACAAACTACTTGATCTTATCCTTGA
1 AGCCTTGTATTTGAAATTTGAAATTCAAACACAAACTACTTGATCTTATCCTTGA
10005150 AG
1 AG
10005152 TTGACGCTAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.38
Consensus pattern (55 bp):
AGCCTTGTATTTGAAATTTGAAATTCAAACACAAACTACTTGATCTTATCCTTGA
Found at i:10008024 original size:44 final size:44
Alignment explanation
Indices: 10007961--10008049 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
10007951 CTCATAGATG
*
10007961 TAAGAAAATTGCACTATGTAGACATATCGCAATATTCTTATTTT
1 TAAGAAAATTGAACTATGTAGACATATCGCAATATTCTTATTTT
10008005 TAAGAAAATTGAACTATGTAGACATATCGCAATATTCTTATTTT
1 TAAGAAAATTGAACTATGTAGACATATCGCAATATTCTTATTTT
10008049 T
1 T
10008050 TCTTTATCAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.39
Consensus pattern (44 bp):
TAAGAAAATTGAACTATGTAGACATATCGCAATATTCTTATTTT
Found at i:10010060 original size:15 final size:15
Alignment explanation
Indices: 10010040--10010091 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
10010030 ACTACAAAAC
10010040 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
10010055 ATTTATAATTGTAATAATT
1 ATTTATTA-T-TAAT-A-T
*
10010074 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
10010089 ATT
1 ATT
10010092 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 11 0.37
16 2 0.07
17 7 0.23
18 2 0.07
19 8 0.27
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:10010257 original size:7 final size:7
Alignment explanation
Indices: 10010245--10010273 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
10010235 TCATATTTTT
10010245 TTTATTC
1 TTTATTC
10010252 TTTATTC
1 TTTATTC
10010259 TTTATTC
1 TTTATTC
10010266 TTTATTC
1 TTTATTC
10010273 T
1 T
10010274 CTCCATCTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTATTC
Found at i:10014192 original size:16 final size:16
Alignment explanation
Indices: 10014161--10014197 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
10014151 ACATGAATAA
10014161 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
10014177 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
10014193 TATTA
1 TATTA
10014198 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:10014249 original size:22 final size:22
Alignment explanation
Indices: 10014205--10014264 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
10014195 TTAAAATAAA
*
10014205 ATTAAAATATTAAA-TA-ATTT
1 ATTAAAATAATAAATTATATTT
10014225 ATTAAAATAATAAATTATATTT
1 ATTAAAATAATAAATTATATTT
* * *
10014247 ATTATATTAATAATTTAT
1 ATTAAAATAATAAATTAT
10014265 TATAAGACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.38
21 2 0.06
22 19 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTAAAATAATAAATTATATTT
Found at i:10018445 original size:26 final size:21
Alignment explanation
Indices: 10018393--10018434 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
10018383 TTGAATTTGT
10018393 TATTATTATTAATTAATTTCA
1 TATTATTATTAATTAATTTCA
*
10018414 AATTATATGATTAATTAATTT
1 TATTAT-T-ATTAATTAATTT
10018435 TTACATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 1 0.06
23 12 0.67
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (21 bp):
TATTATTATTAATTAATTTCA
Found at i:10022061 original size:29 final size:29
Alignment explanation
Indices: 10022015--10022075 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
10022005 ACAATTATGT
10022015 TACTACATTTACACCTGAACTTACCTCGG
1 TACTACATTTACACCTGAACTTACCTCGG
*
10022044 TACTACATTTACATCTGAACTTACCTCGG
1 TACTACATTTACACCTGAACTTACCTCGG
10022073 TAC
1 TAC
10022076 AAAATAAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (29 bp):
TACTACATTTACACCTGAACTTACCTCGG
Found at i:10024624 original size:39 final size:39
Alignment explanation
Indices: 10024578--10024744 Score: 253
Period size: 39 Copynumber: 4.3 Consensus size: 39
10024568 TATGAGATTG
*
10024578 AAAATATCCGGACATGTGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
10024617 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* *
10024656 AAAATATCCGGACATGAGGTCCGTAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* ** * **
10024695 AATATATCTAGACTTGAGGTCCGCAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
10024734 AAAATATCCGG
1 AAAATATCCGG
10024745 GTTAAAGACC
Statistics
Matches: 114, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 114 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.23
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:10024762 original size:78 final size:78
Alignment explanation
Indices: 10024578--10024770 Score: 201
Period size: 78 Copynumber: 2.5 Consensus size: 78
10024568 TATGAGATTG
*** * * *
10024578 AAAATATCCGGACATGTGGTCCGCAGGCTATATGCTGGAAAAATATCCGGACATGAGGTCCGCAG
1 AAAATATCCGGACATAAAGACCGCAGGCTATATGCTAGAAAAATATCCAGACATGAGGTCCGCAG
*
10024643 GCTATATGCTGGA
66 GCTACATGCTGGA
* * * * * * *
10024656 AAAATATCCGGACATGAGGTCCGTAGGCTATATGCTAGAAATATATCTAGACTTGAGGTCCGCAG
1 AAAATATCCGGACATAAAGACCGCAGGCTATATGCTAGAAAAATATCCAGACATGAGGTCCGCAG
*
10024721 GCTACGTGCTGGA
66 GCTACATGCTGGA
** *
10024734 AAAATATCCGG-GTTAAAGACCTGCAGGCT-TACGCTAG
1 AAAATATCCGGACATAAAGACC-GCAGGCTATATGCTAG
10024771 TGATGTATTC
Statistics
Matches: 98, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
77 12 0.12
78 86 0.88
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (78 bp):
AAAATATCCGGACATAAAGACCGCAGGCTATATGCTAGAAAAATATCCAGACATGAGGTCCGCAG
GCTACATGCTGGA
Found at i:10032701 original size:39 final size:39
Alignment explanation
Indices: 10032634--10032757 Score: 166
Period size: 39 Copynumber: 3.3 Consensus size: 39
10032624 TATGAGATTG
10032634 AAAATAT-CGGACATGAGG-CCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
*
10032671 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * * **
10032710 AATATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGG-
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
10032748 -AAATATCCGG
1 AAAATATCCGG
10032758 GTTAAAGACC
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
37 16 0.21
38 11 0.14
39 50 0.65
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:10037445 original size:28 final size:28
Alignment explanation
Indices: 10037392--10037446 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
10037382 CTTAAAGAGG
* *
10037392 TAAAGCCACTTTAAAGAAGTGTGTTATT
1 TAAAGCCACTTTAAAGAAATGAGTTATT
*
10037420 TAAATCCACTTTAATA-AAATGAGTTAT
1 TAAAGCCACTTTAA-AGAAATGAGTTAT
10037447 CTTTAAAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 22 0.96
29 1 0.04
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (28 bp):
TAAAGCCACTTTAAAGAAATGAGTTATT
Found at i:10039290 original size:18 final size:17
Alignment explanation
Indices: 10039249--10039293 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
10039239 TGTTTTAACG
*
10039249 AATTTAATATTATATTT
1 AATTTAATATTATATCT
10039266 AATTTAATATT-TATCT
1 AATTTAATATTATATCT
10039282 ATATATTAATAT
1 A-AT-TTAATAT
10039294 GAGATATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 5 0.20
17 13 0.52
18 7 0.28
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTTAATATTATATCT
Found at i:10051198 original size:24 final size:23
Alignment explanation
Indices: 10051166--10051212 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
10051156 AGAAGACAAT
10051166 AGAAAATAAAGAAAAAAAATTAAA
1 AGAAAATAAA-AAAAAAAATTAAA
* *
10051190 AGAACATAAAATAAAAAATTAAA
1 AGAAAATAAAAAAAAAAATTAAA
10051213 TTGCTCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (23 bp):
AGAAAATAAAAAAAAAAATTAAA
Found at i:10052118 original size:25 final size:24
Alignment explanation
Indices: 10052097--10052148 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 24
10052087 AATAAAAGTT
10052097 TTATATTAATATTAAACAAAAAAAA
1 TTATATTAATA-TAAACAAAAAAAA
10052122 TTATATTAATATAAACTAAAATAAAA
1 TTATATTAATATAAAC-AAAA-AAAA
10052148 T
1 T
10052149 CCTCACTTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 5 0.20
25 15 0.60
26 5 0.20
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (24 bp):
TTATATTAATATAAACAAAAAAAA
Found at i:10061547 original size:35 final size:35
Alignment explanation
Indices: 10061450--10061540 Score: 119
Period size: 35 Copynumber: 2.6 Consensus size: 35
10061440 ATTTTCTATT
* * *
10061450 TTGGTGTATTTCGGTTGGACTAGCTCTTATGAGCA
1 TTGGTGTGTTTCGGATGGATTAGCTCTTATGAGCA
* ** *
10061485 TTGGTATGTTTCATAGGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTTCGGATGGATTAGCTCTTATGAGCA
10061520 TTGGTGTGTTTCGGATGGATT
1 TTGGTGTGTTTCGGATGGATT
10061541 GACTCTTGTG
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.18, C:0.11, G:0.30, T:0.42
Consensus pattern (35 bp):
TTGGTGTGTTTCGGATGGATTAGCTCTTATGAGCA
Found at i:10063329 original size:19 final size:20
Alignment explanation
Indices: 10063305--10063353 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
10063295 GGATTTTATT
*
10063305 TTATTTTATTTTCATAT-AA
1 TTATTTTATTTTAATATAAA
* *
10063324 TTATTTAATATTAATATAAA
1 TTATTTTATTTTAATATAAA
10063344 TT-TTTTATTT
1 TTATTTTATTT
10063354 AATTTTTATA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TTATTTTATTTTAATATAAA
Found at i:10063369 original size:24 final size:25
Alignment explanation
Indices: 10063324--10063387 Score: 64
Period size: 24 Copynumber: 2.7 Consensus size: 25
10063314 TTTCATATAA
* * *
10063324 TTATTTAATATTAAT-ATAAATTTT
1 TTATTTAATTTTTATAATAAATTAT
10063348 TTATTTAATTTTTATAAT-AATTAT
1 TTATTTAATTTTTATAATAAATTAT
*
10063372 TTA--TAATTTATATAAT
1 TTATTTAATTTTTATAAT
10063388 TCATTTTACT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
22 12 0.34
24 21 0.60
25 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
TTATTTAATTTTTATAATAAATTAT
Found at i:10072320 original size:23 final size:21
Alignment explanation
Indices: 10072282--10072346 Score: 66
Period size: 18 Copynumber: 3.1 Consensus size: 21
10072272 AATTAAAAAA
10072282 AATTAAATTTCGAGTTAATT-G
1 AATTAAATTTCGAGTT-ATTCG
10072303 AATTAAATTATTCGAGTTATTCG
1 AATTAAA-T-TTCGAGTTATTCG
*
10072326 AATT--A-TTCGAGTTACTCG
1 AATTAAATTTCGAGTTATTCG
10072344 AAT
1 AAT
10072347 AAGAAATTTC
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
18 15 0.38
21 8 0.20
22 4 0.10
23 13 0.32
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (21 bp):
AATTAAATTTCGAGTTATTCG
Found at i:10072322 original size:9 final size:9
Alignment explanation
Indices: 10072310--10072344 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
10072300 TTGAATTAAA
10072310 TTATTCGAG
1 TTATTCGAG
*
10072319 TTATTCGAA
1 TTATTCGAG
10072328 TTATTCGAG
1 TTATTCGAG
*
10072337 TTACTCGA
1 TTATTCGA
10072345 ATAAGAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (9 bp):
TTATTCGAG
Found at i:10072331 original size:18 final size:18
Alignment explanation
Indices: 10072308--10072346 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
10072298 AATTGAATTA
*
10072308 AATTATTCGAGTTATTCG
1 AATTATTCGAGTTACTCG
10072326 AATTATTCGAGTTACTCG
1 AATTATTCGAGTTACTCG
10072344 AAT
1 AAT
10072347 AAGAAATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (18 bp):
AATTATTCGAGTTACTCG
Found at i:10072509 original size:19 final size:19
Alignment explanation
Indices: 10072485--10072548 Score: 76
Period size: 20 Copynumber: 3.4 Consensus size: 19
10072475 CAAAAATTAA
*
10072485 AAAAATCAAAATAATTTTT
1 AAAAATTAAAATAATTTTT
*
10072504 AAAAATTTAAAATAATCTTT
1 AAAAA-TTAAAATAATTTTT
* *
10072524 AAAATTTAAAAT-ATTTAT
1 AAAAATTAAAATAATTTTT
10072542 AAAAATT
1 AAAAATT
10072549 CTAAATTTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
18 10 0.26
19 12 0.32
20 16 0.42
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAAATTAAAATAATTTTT
Found at i:10072515 original size:20 final size:20
Alignment explanation
Indices: 10072492--10072553 Score: 83
Period size: 19 Copynumber: 3.1 Consensus size: 20
10072482 TAAAAAAATC
10072492 AAAATAATTTTTAAAAATTT
1 AAAATAATTTTTAAAAATTT
*
10072512 AAAATAATCTTT-AAAATTT
1 AAAATAATTTTTAAAAATTT
*
10072531 AAAAT-ATTTATAAAAATTCT
1 AAAATAATTTTTAAAAATT-T
10072551 AAA
1 AAA
10072554 TTTTGTATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 4 0.11
19 18 0.49
20 15 0.41
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAATAATTTTTAAAAATTT
Found at i:10072573 original size:19 final size:21
Alignment explanation
Indices: 10072551--10072594 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
10072541 TAAAAATTCT
10072551 AAATTT-TG-TATTTTTAAAA
1 AAATTTATGATATTTTTAAAA
*
10072570 AAATTTATGATTTTTTTAAAA
1 AAATTTATGATATTTTTAAAA
10072591 AAAT
1 AAAT
10072595 CTAAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.27
20 2 0.09
21 14 0.64
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (21 bp):
AAATTTATGATATTTTTAAAA
Found at i:10072619 original size:8 final size:8
Alignment explanation
Indices: 10072589--10072631 Score: 50
Period size: 8 Copynumber: 5.0 Consensus size: 8
10072579 ATTTTTTTAA
*
10072589 AAAAATCT
1 AAAAATTT
10072597 AAAAATTT
1 AAAAATTT
10072605 AAAAAAAATTT
1 ---AAAAATTT
10072616 AAAAATTT
1 AAAAATTT
10072624 AAAAATTT
1 AAAAATTT
10072632 TATAAAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
8 23 0.74
11 8 0.26
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (8 bp):
AAAAATTT
Found at i:10072638 original size:19 final size:19
Alignment explanation
Indices: 10072587--10072628 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
10072577 TGATTTTTTT
*
10072587 AAAAAAATCTAAAAATTTA
1 AAAAAAATTTAAAAATTTA
10072606 AAAAAAATTTAAAAATTTA
1 AAAAAAATTTAAAAATTTA
10072625 AAAA
1 AAAA
10072629 TTTTATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAAAAATTTAAAAATTTA
Found at i:10072706 original size:3 final size:3
Alignment explanation
Indices: 10072698--10072740 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
10072688 CTAAAATATC
10072698 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
10072741 GCTTTAAAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:10072983 original size:21 final size:21
Alignment explanation
Indices: 10072957--10072997 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
10072947 ACCTTATCTA
10072957 AAGTTAAAA-GTCAAAACTATC
1 AAGTTAAAAGGT-AAAACTATC
10072978 AAGTTAAAAGGTAAAACTAT
1 AAGTTAAAAGGTAAAACTAT
10072998 GTTGTTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.54, C:0.10, G:0.12, T:0.24
Consensus pattern (21 bp):
AAGTTAAAAGGTAAAACTATC
Found at i:10078087 original size:37 final size:37
Alignment explanation
Indices: 10078034--10078136 Score: 152
Period size: 37 Copynumber: 2.8 Consensus size: 37
10078024 CGAATAGTCG
* *
10078034 CCACATGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTAATCGGGTCTTACCCGGACAAAATCT
* *
10078071 CCACACGTAGTAATCGGGACTTACCCGGACATAATCT
1 CCACACGTAGTAATCGGGTCTTACCCGGACAAAATCT
* *
10078108 CCACACGTAGTCATCGGGTCTTATCCGGA
1 CCACACGTAGTAATCGGGTCTTACCCGGA
10078137 ATACATTTCC
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTAATCGGGTCTTACCCGGACAAAATCT
Found at i:10078362 original size:48 final size:48
Alignment explanation
Indices: 10078308--10078665 Score: 671
Period size: 48 Copynumber: 7.4 Consensus size: 48
10078298 GCCGAATCAC
*
10078308 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCGCAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* * *
10078356 TAGCCATTCGGCTTTACCACGTATACATATCTCATACATAGTTCACAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
10078404 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA-T
10078453 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
10078501 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
10078549 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
10078597 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
10078645 TAGCCATTCGGCTTTACCACA
1 TAGCCATTCGGCTTTACCACA
10078666 CACATATATA
Statistics
Matches: 302, Mismatches: 7, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
48 255 0.84
49 47 0.16
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.35
Consensus pattern (48 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
Found at i:10078637 original size:193 final size:192
Alignment explanation
Indices: 10078308--10078665 Score: 671
Period size: 193 Copynumber: 1.9 Consensus size: 192
10078298 GCCGAATCAC
*
10078308 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCGCATTAGCCATTCGGCTTTAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTAC
*
10078373 CACGTATACATATCTCATACATAGTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
66 CACATATACATATCTCATACATAGTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
10078438 TACATATTTCACATTTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
131 TACATATTTCACA-TTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
10078501 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTAC
* *
10078566 CACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
66 CACATATACATATCTCATACATAGTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
10078631 TACATATTTCACATTAGCCATTCGGCTTTACCACA
131 TACATATTTCACATTAGCCATTCGGCTTTACCACA
10078666 CACATATATA
Statistics
Matches: 161, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
192 22 0.14
193 139 0.86
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.35
Consensus pattern (192 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTAC
CACATATACATATCTCATACATAGTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
Found at i:10082241 original size:28 final size:28
Alignment explanation
Indices: 10082199--10082267 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
10082189 GACTGATTTC
*
10082199 GCACACATAGCGCTCGATTGAAGAACTT
1 GCACACATAGTGCTCGATTGAAGAACTT
*
10082227 GTACACATAGTGCTCGATTGAAGAACTT
1 GCACACATAGTGCTCGATTGAAGAACTT
*
10082255 GCACACACAGTGC
1 GCACACATAGTGC
10082268 CTCATAATTC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.22
Consensus pattern (28 bp):
GCACACATAGTGCTCGATTGAAGAACTT
Found at i:10082344 original size:40 final size:40
Alignment explanation
Indices: 10082279--10082433 Score: 278
Period size: 40 Copynumber: 3.9 Consensus size: 40
10082269 TCATAATTCC
*
10082279 AGCACGAATGC-CTTCGAGG-TTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCG-GGACTTAGCCCGGATATATCACT
10082318 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
10082358 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
10082398 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
10082434 AACTCTCAAT
Statistics
Matches: 113, Mismatches: 1, Indels: 3
0.97 0.01 0.03
Matches are distributed among these distances:
39 13 0.12
40 100 0.88
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
Found at i:10083998 original size:48 final size:48
Alignment explanation
Indices: 10083944--10084299 Score: 696
Period size: 48 Copynumber: 7.4 Consensus size: 48
10083934 GCCGAATCAC
*
10083944 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCGCAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
10083992 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
10084040 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA-
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
10084087 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
10084135 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
10084183 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
10084231 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
10084279 TAGCCATTCGGCTTTACCACA
1 TAGCCATTCGGCTTTACCACA
10084300 CACATATATT
Statistics
Matches: 306, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
47 47 0.15
48 259 0.85
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
Found at i:10084268 original size:191 final size:192
Alignment explanation
Indices: 10083944--10084299 Score: 696
Period size: 191 Copynumber: 1.9 Consensus size: 192
10083934 GCCGAATCAC
*
10083944 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCGCATTAGCCATTCGGCTTTAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTAC
10084009 CACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
66 CACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
10084074 TACATATTTCACA-TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
131 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
10084135 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTAC
10084200 CACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
66 CACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
10084265 TACATATTTCACATTAGCCATTCGGCTTTACCACA
131 TACATATTTCACATTAGCCATTCGGCTTTACCACA
10084300 CACATATATT
Statistics
Matches: 163, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
191 142 0.87
192 21 0.13
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.35
Consensus pattern (192 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTAC
CACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
Found at i:10089138 original size:12 final size:12
Alignment explanation
Indices: 10089121--10089155 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
10089111 TGAGACAAGA
10089121 TATTCTTTAAAT
1 TATTCTTTAAAT
10089133 TATTCTTTTAAAT
1 TATTC-TTTAAAT
*
10089146 TATTTTTTAA
1 TATTCTTTAA
10089156 GTAACATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (12 bp):
TATTCTTTAAAT
Found at i:10089144 original size:13 final size:13
Alignment explanation
Indices: 10089121--10089155 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
10089111 TGAGACAAGA
10089121 TATTC-TTTAAAT
1 TATTCTTTTAAAT
10089133 TATTCTTTTAAAT
1 TATTCTTTTAAAT
10089146 TATT-TTTTAA
1 TATTCTTTTAA
10089156 GTAACATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (13 bp):
TATTCTTTTAAAT
Found at i:10089303 original size:17 final size:15
Alignment explanation
Indices: 10089281--10089368 Score: 53
Period size: 14 Copynumber: 6.0 Consensus size: 15
10089271 ATATTCATTT
10089281 TAATTAATTCATATTAA
1 TAATT-ATT-ATATTAA
10089298 TAATTATTATATTAA
1 TAATTATTATATTAA
*
10089313 GAA-TA-T-TATTAA
1 TAATTATTATATTAA
* **
10089325 TTATATATTATTATTGT
1 TAAT-TATTA-TATTAA
10089342 TAA--ATTATATTAA
1 TAATTATTATATTAA
*
10089355 TAATAATT-TATTAA
1 TAATTATTATATTAA
10089369 AATAGGATTA
Statistics
Matches: 56, Mismatches: 8, Indels: 17
0.69 0.10 0.21
Matches are distributed among these distances:
12 7 0.12
13 8 0.14
14 14 0.25
15 13 0.23
16 3 0.05
17 11 0.20
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.51
Consensus pattern (15 bp):
TAATTATTATATTAA
Found at i:10089371 original size:25 final size:26
Alignment explanation
Indices: 10089286--10089449 Score: 70
Period size: 25 Copynumber: 5.9 Consensus size: 26
10089276 CATTTTAATT
*
10089286 AATTCATATTAATAATTAT-TATATTAA
1 AATT-ATATTAATAATAATAT-TATTAA
* *
10089313 GAA-TATTATTAATTATATATTATTATTGTTA
1 -AATTA-TATTAA-TA-ATAATATTA-T-TAA
10089344 AATTATATTAATAATAAT-TTATTAA
1 AATTATATTAATAATAATATTATTAA
* * *
10089369 AA-TAGGATTAATTATGTATTATTATTATTA
1 AATTA-TATTAA-TA-ATAATATTATTA--A
10089399 AATTATATTTAATAATAATCA-TATTAA
1 AATTATA-TTAATAATAAT-ATTATTAA
* *
10089426 AATT-TAATAACAATAATCATTATT
1 AATTATATTAATAATAAT-ATTATT
10089450 CTAACAAAAT
Statistics
Matches: 106, Mismatches: 13, Indels: 36
0.68 0.08 0.23
Matches are distributed among these distances:
24 2 0.02
25 20 0.19
26 10 0.09
27 18 0.17
28 14 0.13
29 15 0.14
30 17 0.16
31 10 0.09
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (26 bp):
AATTATATTAATAATAATATTATTAA
Found at i:10089389 original size:55 final size:55
Alignment explanation
Indices: 10089270--10089428 Score: 187
Period size: 55 Copynumber: 2.8 Consensus size: 55
10089260 TTGTCAATAT
* **
10089270 TATATTCATT-TTAATT-AATTCATATTAATAATTATTATATTAAGAATATTATTAATTA
1 TATATT-ATTATT-ATTAAATT-ATATTAATAATAATT-TATTAA-AATAGGATTAATTA
*
10089328 TATATTATTATTGTTAAATTATATTAATAATAATTTATTAAAATAGGATTAATTA
1 TATATTATTATTATTAAATTATATTAATAATAATTTATTAAAATAGGATTAATTA
* *
10089383 TGTATTATTATTATTAAATTATATTTAATAATAATCATATTAAAAT
1 TATATTATTATTATTAAATTATA-TTAATAATAAT-TTATTAAAAT
10089429 TTAATAACAA
Statistics
Matches: 90, Mismatches: 7, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
55 33 0.37
56 17 0.19
57 28 0.31
58 12 0.13
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (55 bp):
TATATTATTATTATTAAATTATATTAATAATAATTTATTAAAATAGGATTAATTA
Found at i:10089620 original size:16 final size:16
Alignment explanation
Indices: 10089597--10089642 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
10089587 CTACTACAGT
*
10089597 TCTATTCTATTATAAC
1 TCTATTCTATTACAAC
*
10089613 TTTATTCTATTACAAC
1 TCTATTCTATTACAAC
*
10089629 TCTATTCCATTACA
1 TCTATTCTATTACA
10089643 CTGAACCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.30, C:0.22, G:0.00, T:0.48
Consensus pattern (16 bp):
TCTATTCTATTACAAC
Found at i:10091136 original size:45 final size:45
Alignment explanation
Indices: 10091087--10091179 Score: 134
Period size: 45 Copynumber: 2.1 Consensus size: 45
10091077 GTCTAAACTC
* * *
10091087 AAAAAA-GTAAATCTTATTTTCTTCAAAATAAAAAATAAAACAATT
1 AAAAAATGT-AATATTATTTGCCTCAAAATAAAAAATAAAACAATT
*
10091132 AAAAAATGTAATATTATTTGCCTCAAAATAAAAAATAAAATAATT
1 AAAAAATGTAATATTATTTGCCTCAAAATAAAAAATAAAACAATT
10091177 AAA
1 AAA
10091180 TTAAATTCGG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
45 41 0.95
46 2 0.05
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.30
Consensus pattern (45 bp):
AAAAAATGTAATATTATTTGCCTCAAAATAAAAAATAAAACAATT
Found at i:10091225 original size:5 final size:5
Alignment explanation
Indices: 10091187--10091221 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
10091177 AAATTAAATT
*
10091187 CGGGG CGGGG CGGGG CGGGG CGGGG CGGGG TGGGG
1 CGGGG CGGGG CGGGG CGGGG CGGGG CGGGG CGGGG
10091222 TGGGTCAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.00, C:0.17, G:0.80, T:0.03
Consensus pattern (5 bp):
CGGGG
Found at i:10094696 original size:24 final size:25
Alignment explanation
Indices: 10094650--10094697 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
10094640 TATATATTTA
* *
10094650 AAAATTTTAAAAAATTAATATAAAT
1 AAAATTTTAAAAAATAAAAATAAAT
*
10094675 AAAA-TTTAAAACATAAAAATAAA
1 AAAATTTTAAAAAATAAAAATAAA
10094698 AAATTAGTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (25 bp):
AAAATTTTAAAAAATAAAAATAAAT
Found at i:10100487 original size:32 final size:32
Alignment explanation
Indices: 10100441--10100520 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
10100431 TGTTAATCAT
*
10100441 TTCAATATCCAACAAGCTT-AAAACATAATAAA
1 TTCAATATCCAACAA-ATTCAAAACATAATAAA
** * *
10100473 TTCAATATGTAACAAATTCAAGACATAATAAT
1 TTCAATATCCAACAAATTCAAAACATAATAAA
*
10100505 TTCAAAATCCAACAAA
1 TTCAATATCCAACAAA
10100521 CTAAATTTTC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 2 0.05
32 37 0.95
ACGTcount: A:0.53, C:0.17, G:0.04, T:0.26
Consensus pattern (32 bp):
TTCAATATCCAACAAATTCAAAACATAATAAA
Found at i:10104500 original size:19 final size:20
Alignment explanation
Indices: 10104456--10104501 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
10104446 AGATTACCAG
*
10104456 CTCAAAATAAATTTTGGATT
1 CTCAAAATAAATTTTGGAAT
10104476 CTCAAAAT-AATTTTCGGAAT
1 CTCAAAATAAATTTT-GGAAT
10104496 C-CAAAA
1 CTCAAAA
10104502 ATGAGAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (20 bp):
CTCAAAATAAATTTTGGAAT
Found at i:10107450 original size:26 final size:27
Alignment explanation
Indices: 10107399--10107451 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
10107389 TTTCTATACC
*
10107399 TAAAATATTATTTATTCATTTGATTAAT
1 TAAAATA-TATTTATTCATTTAATTAAT
10107427 TAAAATA-ATTTATT-ATGTTAATTAA
1 TAAAATATATTTATTCAT-TTAATTAA
10107452 ATTATTTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 2 0.09
26 14 0.61
28 7 0.30
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (27 bp):
TAAAATATATTTATTCATTTAATTAAT
Found at i:10109945 original size:15 final size:15
Alignment explanation
Indices: 10109922--10109953 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10109912 TGACGTGGGT
*
10109922 TTTTTTGGAAATTGG
1 TTTTCTGGAAATTGG
10109937 TTTTCTGGAAATTGG
1 TTTTCTGGAAATTGG
10109952 TT
1 TT
10109954 CACTTGGGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.25, T:0.53
Consensus pattern (15 bp):
TTTTCTGGAAATTGG
Found at i:10115771 original size:16 final size:16
Alignment explanation
Indices: 10115750--10115820 Score: 115
Period size: 16 Copynumber: 4.4 Consensus size: 16
10115740 GTTTGGTTCA
10115750 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGGG
*
10115766 CTGTAATTGAATAGGG
1 CTGTAATGGAATAGGG
*
10115782 CTGTAATTGAATAGGG
1 CTGTAATGGAATAGGG
*
10115798 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGGG
10115814 CTGTAAT
1 CTGTAAT
10115821 CAGTAATTCA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.30
Consensus pattern (16 bp):
CTGTAATGGAATAGGG
Found at i:10116411 original size:13 final size:12
Alignment explanation
Indices: 10116393--10116447 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 12
10116383 CACACACCGG
10116393 AAGAGAGAAAGAA
1 AAGA-AGAAAGAA
10116406 AAGAGAGAAAGGAA
1 AAGA-AGAAA-GAA
10116420 AAGAAGAGAAGAA
1 AAGAAGA-AAGAA
10116433 GAAGAAGAAAGAA
1 -AAGAAGAAAGAA
10116446 AA
1 AA
10116448 AAAATAAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.05
13 21 0.54
14 16 0.41
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (12 bp):
AAGAAGAAAGAA
Found at i:10116440 original size:17 final size:16
Alignment explanation
Indices: 10116392--10116445 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 16
10116382 CCACACACCG
10116392 GAAGAG-AGAAAGAAAA
1 GAAGAGAAG-AAGAAAA
*
10116408 G-AGAGAA-AGGAAAA
1 GAAGAGAAGAAGAAAA
10116422 GAAGAGAAGAAGAAGAA
1 GAAGAGAAGAAGAA-AA
10116439 GAA-AGAA
1 GAAGAGAA
10116446 AAAAAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
14 7 0.22
15 10 0.31
16 10 0.31
17 5 0.16
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (16 bp):
GAAGAGAAGAAGAAAA
Found at i:10116665 original size:33 final size:33
Alignment explanation
Indices: 10116622--10116728 Score: 86
Period size: 33 Copynumber: 3.4 Consensus size: 33
10116612 GTTTTTTATA
*
10116622 ATTATTTTAAAATTAATTTGTTAGTAATTTAAG
1 ATTATGTTAAAATTAATTTGTTAGTAATTTAAG
*
10116655 ATTATGTT-AAATT-TTTTG-T-GT--TTGT-A-
1 ATTATGTTAAAATTAATTTGTTAGTAATT-TAAG
* * *
10116681 ATTATTTTAAAATTAATTTATTAGTAATTTAGG
1 ATTATGTTAAAATTAATTTGTTAGTAATTTAAG
*
10116714 ATTAAGTTATAAATT
1 ATTATGTTA-AAATT
10116729 GTTGTGTTTA
Statistics
Matches: 56, Mismatches: 8, Indels: 19
0.67 0.10 0.23
Matches are distributed among these distances:
26 7 0.12
27 8 0.14
28 4 0.07
29 3 0.05
30 3 0.05
31 5 0.09
32 7 0.12
33 14 0.25
34 5 0.09
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.53
Consensus pattern (33 bp):
ATTATGTTAAAATTAATTTGTTAGTAATTTAAG
Found at i:10116697 original size:59 final size:60
Alignment explanation
Indices: 10116606--10116738 Score: 187
Period size: 59 Copynumber: 2.2 Consensus size: 60
10116596 GAATGTAATT
* * *
10116606 TTTTTTGTTTTTTATAATTATTTTAAAATTAATTTGTTAGTAATTTAAGATTATGTTA-AA
1 TTTTTTG-TGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAAGATTAAGTTATAA
* *
10116666 TTTTTTGTGTTTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAA
1 TTTTTTGTGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAAGATTAAGTTATAA
* *
10116726 ATTGTTGTGTTTA
1 TTTTTTGTGTTTA
10116739 GTTTAGTATT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 45 0.70
60 19 0.30
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (60 bp):
TTTTTTGTGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAAGATTAAGTTATAA
Found at i:10123342 original size:27 final size:27
Alignment explanation
Indices: 10123303--10123370 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
10123293 TGTGGGCCCC
*
10123303 ACCATTTGCGCCTCTGGGATAGGCACA
1 ACCATTTGCGCCTCTGAGATAGGCACA
* *
10123330 ACCATTTGTGCCTCTGAGATAGGCATA
1 ACCATTTGCGCCTCTGAGATAGGCACA
10123357 ACCATTTGCGCCTC
1 ACCATTTGCGCCTC
10123371 AGGAAAAGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.26
Consensus pattern (27 bp):
ACCATTTGCGCCTCTGAGATAGGCACA
Found at i:10123380 original size:27 final size:26
Alignment explanation
Indices: 10123303--10123380 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 26
10123293 TGTGGGCCCC
*
10123303 ACCATTTGCGCCTCTGGGATAGGCACA
1 ACCATTTGCGCCTC-GGAATAGGCACA
* * *
10123330 ACCATTTGTGCCTCTGAGATAGGCATA
1 ACCATTTGCGCCTCGGA-ATAGGCACA
*
10123357 ACCATTTGCGCCTCAGGAAAAGGC
1 ACCATTTGCGCCTC-GGAATAGGC
10123381 TCAATTAGTC
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
26 1 0.02
27 39 0.93
28 2 0.05
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (26 bp):
ACCATTTGCGCCTCGGAATAGGCACA
Found at i:10123855 original size:58 final size:57
Alignment explanation
Indices: 10123720--10123857 Score: 163
Period size: 58 Copynumber: 2.4 Consensus size: 57
10123710 ATTGTTATTG
*
10123720 TTATTAAATTTTAATA-AGATTATTATTAAAAATAATTTAATAAAAATAATAAATAAT
1 TTATTAAATTTTAATATA-ATTACTATTAAAAATAATTTAATAAAAATAATAAATAAT
** * * * *
10123777 TTAACCATATTTTAACATAATTACTATTAAATATAATTTAAT-AAAATAATATATAAT
1 TT-ATTAAATTTTAATATAATTACTATTAAAAATAATTTAATAAAAATAATAAATAAT
10123834 TTATTAAAATTCTTAATATAATTA
1 TTATT-AAATT-TTAATATAATTA
10123858 TTATATGAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
56 1 0.02
57 22 0.33
58 42 0.64
59 1 0.02
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (57 bp):
TTATTAAATTTTAATATAATTACTATTAAAAATAATTTAATAAAAATAATAAATAAT
Found at i:10132298 original size:135 final size:135
Alignment explanation
Indices: 10132056--10132321 Score: 397
Period size: 135 Copynumber: 2.0 Consensus size: 135
10132046 CCAATTTACT
* * * * *
10132056 TGCAGGGGAAGAGTTTCAACTTTGCTTGGCAGTGATTTCCGAGATACAATGGACCGATTAATGAC
1 TGCAGGGGAAGAGTTTCAACTTTACTTGACAGTGATTTCCGAGAGAAAATGAACCGATTAATGAC
* *
10132121 TTCTCGTGTACAGATCCAAGCGGATGCGGCAGAAAGTCAACAAGAAGTGGATGATAAGGAAGGAA
66 TTCTCGTGTACAAATCCAAGCGGATGCGGCAGAAAGTCAACAAGAAGTGGAGGATAAGGAAGGAA
10132186 TTATA
131 TTATA
* *
10132191 TGCAGGGGAAGAGTTTCAACTTTATTTGACAGTGATTTCCTAGAGAAAATGAACCGATTAATGAC
1 TGCAGGGGAAGAGTTTCAACTTTACTTGACAGTGATTTCCGAGAGAAAATGAACCGATTAATGAC
* * ** * *
10132256 TTCTCGTGTACAAATGCAAGCTGATGTTGCTGAAAGTCAACAAGAAGTTGAGGATAAGGAAGGAA
66 TTCTCGTGTACAAATCCAAGCGGATGCGGCAGAAAGTCAACAAGAAGTGGAGGATAAGGAAGGAA
10132321 T
131 T
10132322 GGTCCAACGA
Statistics
Matches: 116, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
135 116 1.00
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (135 bp):
TGCAGGGGAAGAGTTTCAACTTTACTTGACAGTGATTTCCGAGAGAAAATGAACCGATTAATGAC
TTCTCGTGTACAAATCCAAGCGGATGCGGCAGAAAGTCAACAAGAAGTGGAGGATAAGGAAGGAA
TTATA
Found at i:10132394 original size:3 final size:3
Alignment explanation
Indices: 10132341--10132376 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
10132331 AGTGTCTTAC
10132341 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
10132377 TACGACGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:10135437 original size:9 final size:9
Alignment explanation
Indices: 10135400--10135447 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
10135390 TTTATTGTAA
10135400 TTTTA-ATT
1 TTTTATATT
*
10135408 TTTTAATAAT
1 TTTT-ATATT
*
10135418 TTATATATT
1 TTTTATATT
*
10135427 TTTTGTATT
1 TTTTATATT
10135436 TTTTATATT
1 TTTTATATT
10135445 TTT
1 TTT
10135448 CAAGCAGAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
8 4 0.12
9 23 0.72
10 5 0.16
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (9 bp):
TTTTATATT
Found at i:10135936 original size:28 final size:28
Alignment explanation
Indices: 10135904--10135966 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
10135894 TCCTATATTA
10135904 ATGGGGTATAGGAAAAATCTCATAACTT
1 ATGGGGTATAGGAAAAATCTCATAACTT
* * * *
10135932 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAATCTCATAACTT
10135960 ATGGGGT
1 ATGGGGT
10135967 TGACAATGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAATCTCATAACTT
Found at i:10141353 original size:28 final size:28
Alignment explanation
Indices: 10141322--10141384 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
10141312 TCCCATATTA
10141322 ATGGGGTATAGGAAAAG-TCTCATAACTT
1 ATGGGGTATAGGAAAAGAT-TCATAACTT
* *
10141350 ATGGGGTATAGGAAGAGATTTATAACTT
1 ATGGGGTATAGGAAAAGATTCATAACTT
10141378 ATGGGGT
1 ATGGGGT
10141385 TGATAATGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 31 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.06, G:0.30, T:0.30
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGATTCATAACTT
Found at i:10149446 original size:31 final size:31
Alignment explanation
Indices: 10149384--10149449 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
10149374 TAACATCCTT
* *
10149384 ATAACTTAAATAAAAACTTCTGAGTAGTTTA
1 ATAACTTAAATAAAAACTTCTGAATAATTTA
** *
10149415 ATAACTTAAATAAAATTTTTTGAATAATTTA
1 ATAACTTAAATAAAAACTTCTGAATAATTTA
10149446 ATAA
1 ATAA
10149450 TTATTTTGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (31 bp):
ATAACTTAAATAAAAACTTCTGAATAATTTA
Found at i:10156544 original size:13 final size:14
Alignment explanation
Indices: 10156526--10156555 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
10156516 TCATCCACCA
10156526 AAAAAGAAA-AAAG
1 AAAAAGAAAGAAAG
10156539 AAAAAGAAAGAAAG
1 AAAAAGAAAGAAAG
10156553 AAA
1 AAA
10156556 CCTAGCCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAGAAAG
Found at i:10158437 original size:53 final size:53
Alignment explanation
Indices: 10158356--10158506 Score: 196
Period size: 53 Copynumber: 2.8 Consensus size: 53
10158346 CTTACACGGT
* *
10158356 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
10158411 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
* ** * *
10158464 TTACATTGCACCGATGTCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
10158507 GCGCACTTAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
52 1 0.01
53 79 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:10161139 original size:25 final size:25
Alignment explanation
Indices: 10161110--10161164 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
10161100 TATGAAAGGT
* *
10161110 ATAACATTCTTTTATGGTGGGTGCA
1 ATAACATTCTTTTATAGTGGATGCA
*
10161135 ATAACTTTCTTTTATAGTGGATGCA
1 ATAACATTCTTTTATAGTGGATGCA
10161160 ATAAC
1 ATAAC
10161165 CTTTAGATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (25 bp):
ATAACATTCTTTTATAGTGGATGCA
Found at i:10177236 original size:40 final size:40
Alignment explanation
Indices: 10177191--10177272 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
10177181 TAAGAAAATA
10177191 TCTTATCAAATAATAAAGAACCTTAGACGCATTAATGTAC
1 TCTTATCAAATAATAAAGAACCTTAGACGCATTAATGTAC
10177231 TCTTATCAAATAATAAAGAACCTTAGACGCATTAATGTAC
1 TCTTATCAAATAATAAAGAACCTTAGACGCATTAATGTAC
10177271 TC
1 TC
10177273 CAAATACTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.30
Consensus pattern (40 bp):
TCTTATCAAATAATAAAGAACCTTAGACGCATTAATGTAC
Found at i:10184597 original size:14 final size:15
Alignment explanation
Indices: 10184576--10184621 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
10184566 TTACAATGGT
10184576 TGAATTGAATGTATA
1 TGAATTGAATGTATA
*
10184591 T-AATTGAAT-TATT
1 TGAATTGAATGTATA
10184604 TGAGATATGAATGTATA
1 TGA-AT-TGAATGTATA
10184621 T
1 T
10184622 TTACAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 4 0.16
14 9 0.36
15 3 0.12
16 5 0.20
17 4 0.16
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.43
Consensus pattern (15 bp):
TGAATTGAATGTATA
Found at i:10185688 original size:30 final size:31
Alignment explanation
Indices: 10185654--10185722 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
10185644 TGGCCCAAGA
*
10185654 GTAAATATTCAAAATTT-AAGGGATTAA-AGT
1 GTAAATATTCAAAATTTGAA-GGACTAATAGT
*
10185684 GTAAATA-TGAAAATTTGAAGGACTAATAGT
1 GTAAATATTCAAAATTTGAAGGACTAATAGT
*
10185714 GCAAATATT
1 GTAAATATT
10185723 TTAAGGTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
29 14 0.42
30 18 0.55
31 1 0.03
ACGTcount: A:0.46, C:0.04, G:0.17, T:0.32
Consensus pattern (31 bp):
GTAAATATTCAAAATTTGAAGGACTAATAGT
Found at i:10189679 original size:33 final size:33
Alignment explanation
Indices: 10189554--10189679 Score: 82
Period size: 33 Copynumber: 3.8 Consensus size: 33
10189544 ATCGTTTTCT
* *
10189554 TGATGCCATAGTCCAACTATGGTCTTA-CA-CGTA
1 TGATGCCATAGCCCAGCTATGGTCTTATCATC--A
* * *
10189587 T-ATTGCCAT-GGCCATGCCATGGTCTTAT-ACTCG
1 TGA-TGCCATAGCCCA-GCTATGGTCTTATCA-TCA
* * * * *
10189620 TAATGCCATAACCTAGTTATGATCTTATCATCA
1 TGATGCCATAGCCCAGCTATGGTCTTATCATCA
10189653 TGATGCCATAGCCCAGCTATGGTCTTA
1 TGATGCCATAGCCCAGCTATGGTCTTA
10189680 CACATGTACA
Statistics
Matches: 69, Mismatches: 16, Indels: 16
0.68 0.16 0.16
Matches are distributed among these distances:
32 5 0.07
33 59 0.86
34 4 0.06
35 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (33 bp):
TGATGCCATAGCCCAGCTATGGTCTTATCATCA
Found at i:10193015 original size:17 final size:17
Alignment explanation
Indices: 10192993--10193029 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
10192983 AAGACCAATA
10192993 GTGCAAATATTTTAAAG
1 GTGCAAATATTTTAAAG
*
10193010 GTGCAAATATTTTAAGG
1 GTGCAAATATTTTAAAG
10193027 GTG
1 GTG
10193030 GAATGATCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.35
Consensus pattern (17 bp):
GTGCAAATATTTTAAAG
Found at i:10193274 original size:11 final size:11
Alignment explanation
Indices: 10193260--10193303 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
10193250 AGATAAATAT
10193260 TATTTTATTAA
1 TATTTTATTAA
*
10193271 TATTTTGATGAGA
1 TATTTT-ATTA-A
*
10193284 TATTTTATTAT
1 TATTTTATTAA
10193295 TATTTTATT
1 TATTTTATT
10193304 TAGTATATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 15 0.54
12 6 0.21
13 7 0.25
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:10194703 original size:25 final size:27
Alignment explanation
Indices: 10194666--10194716 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
10194656 TCAAACATGC
10194666 ATTTAGGTCAATTTA-ATCCTAGGGGT
1 ATTTAGGTCAATTTATATCCTAGGGGT
* *
10194692 ATTTCGGT-AATTTATCTCCTAGGGG
1 ATTTAGGTCAATTTATATCCTAGGGG
10194717 GTAAAACTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.39
Consensus pattern (27 bp):
ATTTAGGTCAATTTATATCCTAGGGGT
Found at i:10206022 original size:29 final size:30
Alignment explanation
Indices: 10205980--10206038 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
10205970 TATGATTTAA
*
10205980 TGTGTAATTCTATACATG-AATTTTGATTT
1 TGTGCAATTCTATACATGAAATTTTGATTT
* *
10206009 TGTGCAATTTTATACTTGAAATTTTGATTT
1 TGTGCAATTCTATACATGAAATTTTGATTT
10206039 GATCCAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.27, C:0.07, G:0.14, T:0.53
Consensus pattern (30 bp):
TGTGCAATTCTATACATGAAATTTTGATTT
Found at i:10206047 original size:30 final size:29
Alignment explanation
Indices: 10205985--10206053 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
10205975 TTTAATGTGT
* *
10205985 AATTCTATACATGAATTTTGATTTTGTGC
1 AATTTTATACATGAATTTTGATTTTGTCC
*
10206014 AATTTTATACTTGAAATTTTGA-TTTGATCC
1 AATTTTATACATG-AATTTTGATTTTG-TCC
10206044 AATTCTTATA
1 AATT-TTATA
10206054 AATTATTAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 15 0.44
30 14 0.41
31 5 0.15
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.49
Consensus pattern (29 bp):
AATTTTATACATGAATTTTGATTTTGTCC
Found at i:10209318 original size:5 final size:6
Alignment explanation
Indices: 10209303--10209328 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
10209293 CTTCTTCATG
10209303 TTTTTC TTTTTC TTTTTC TTTTTC TT
1 TTTTTC TTTTTC TTTTTC TTTTTC TT
10209329 CCCCATCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:10209922 original size:21 final size:21
Alignment explanation
Indices: 10209866--10209922 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
10209856 TCATGGGCTG
* *
10209866 TTCACATGGGCATGTGTCCCA
1 TTCACATGGGCGTGTGTACCA
* * *
10209887 TTTACACGGGTGTGTGTGACC-
1 TTCACATGGGCGTGTGT-ACCA
10209908 TTCACATGGGCGTGT
1 TTCACATGGGCGTGT
10209923 AGACCTCTAC
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.16, C:0.23, G:0.30, T:0.32
Consensus pattern (21 bp):
TTCACATGGGCGTGTGTACCA
Found at i:10218039 original size:6 final size:6
Alignment explanation
Indices: 10218023--10218055 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
10218013 CTGTCGTGAC
10218023 AGAAAA A-AAAA AGAAAA AGAAAA AGAAAGA AGA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAA-A AGA
10218056 GTGTTTAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 5 0.20
6 16 0.64
7 4 0.16
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:10226229 original size:8 final size:8
Alignment explanation
Indices: 10226187--10226211 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
10226177 ATATAGACTA
10226187 AATAAAAT
1 AATAAAAT
10226195 AATAAAAT
1 AATAAAAT
10226203 AATAAAAT
1 AATAAAAT
10226211 A
1 A
10226212 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:10226235 original size:29 final size:31
Alignment explanation
Indices: 10226184--10226252 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
10226174 TATATATAGA
*
10226184 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* *
10226213 CTTATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAATTAT
10226244 CTAATTAAA
1 CTAATTAAA
10226253 TAACTATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 6 0.18
29 14 0.42
30 2 0.06
31 11 0.33
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:10226529 original size:30 final size:30
Alignment explanation
Indices: 10226464--10226521 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
10226454 TACCCTTAAA
* *
10226464 ATATTTGCACTATTAGTCCTTAAACTTTTC
1 ATATTTGCACTATTAATCCTCAAACTTTTC
10226494 ATATTTGCACT-TTAATCCCTCAAA-TTTT
1 ATATTTGCACTATTAAT-CCTCAAACTTTT
10226522 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.28, C:0.21, G:0.05, T:0.47
Consensus pattern (30 bp):
ATATTTGCACTATTAATCCTCAAACTTTTC
Found at i:10227437 original size:29 final size:30
Alignment explanation
Indices: 10227395--10227462 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
10227385 TGGCCCAAGA
* *
10227395 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
10227425 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
10227455 GAAAATAT
1 GTAAATAT
10227463 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.49, C:0.04, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:10229944 original size:46 final size:46
Alignment explanation
Indices: 10229887--10230068 Score: 267
Period size: 46 Copynumber: 4.0 Consensus size: 46
10229877 AGTGTGCTCT
* *
10229887 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
10229933 CTGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
10229979 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
10230025 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
10230069 TCATGTCAAA
Statistics
Matches: 125, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 124 0.99
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:10232318 original size:30 final size:30
Alignment explanation
Indices: 10232282--10232380 Score: 198
Period size: 30 Copynumber: 3.3 Consensus size: 30
10232272 GCCTATGTTA
10232282 GCCCGTGTGCCACACACGGCCAGTAGACAC
1 GCCCGTGTGCCACACACGGCCAGTAGACAC
10232312 GCCCGTGTGCCACACACGGCCAGTAGACAC
1 GCCCGTGTGCCACACACGGCCAGTAGACAC
10232342 GCCCGTGTGCCACACACGGCCAGTAGACAC
1 GCCCGTGTGCCACACACGGCCAGTAGACAC
10232372 GCCCGTGTG
1 GCCCGTGTG
10232381 TCTAAGCCGT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 69 1.00
ACGTcount: A:0.21, C:0.39, G:0.28, T:0.11
Consensus pattern (30 bp):
GCCCGTGTGCCACACACGGCCAGTAGACAC
Found at i:10233465 original size:33 final size:34
Alignment explanation
Indices: 10233428--10233504 Score: 106
Period size: 33 Copynumber: 2.3 Consensus size: 34
10233418 CCATAACTTG
10233428 GTTATGGTCTTT-TTAGTCGATTGCCATAGTCCC-
1 GTTATGGTCTTTATTAGTCGATTGCCATAG-CCCA
*
10233461 GTTATGGT-TTTATTATTCGATTGCCATAGCCCA
1 GTTATGGTCTTTATTAGTCGATTGCCATAGCCCA
*
10233494 GCTATGGTCTT
1 GTTATGGTCTT
10233505 ATTCGACAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
32 6 0.15
33 31 0.79
34 2 0.05
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.43
Consensus pattern (34 bp):
GTTATGGTCTTTATTAGTCGATTGCCATAGCCCA
Found at i:10234006 original size:43 final size:43
Alignment explanation
Indices: 10233982--10234096 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 43
10233972 ATCTCATATC
* *
10233982 GATGCCAATGTCCTAGACATGGTCTTAAACGAAATCATATAAT
1 GATGCCAATGTCCCAGACATGGTCTTACACGAAATCATATAAT
*
10234025 GATGCCAATGTCCCAGACATGGTCTTACAC-ATAATAATAGTACA-
1 GATGCCAATGTCCCAGACATGGTCTTACACGA-AATCATA-TA-AT
**
10234069 -ATGCCAATGTCCCAGACATTTTCTTACA
1 GATGCCAATGTCCCAGACATGGTCTTACA
10234097 TGTAATCTCA
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
42 1 0.02
43 60 0.94
44 2 0.03
45 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.28
Consensus pattern (43 bp):
GATGCCAATGTCCCAGACATGGTCTTACACGAAATCATATAAT
Found at i:10235004 original size:12 final size:13
Alignment explanation
Indices: 10234979--10235016 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
10234969 ATATATATTT
* *
10234979 TAAAAATTTTATA
1 TAAAAAATTAATA
10234992 TAAAAAA-TAATA
1 TAAAAAATTAATA
10235004 TAAAAAATTAATA
1 TAAAAAATTAATA
10235017 CTCGTGGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TAAAAAATTAATA
Found at i:10243273 original size:26 final size:26
Alignment explanation
Indices: 10243244--10243351 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
10243234 TGGTACAAAT
10243244 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
10243270 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10243296 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
10243322 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10243348 TGAT
1 TGAT
10243352 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:10247520 original size:19 final size:19
Alignment explanation
Indices: 10247484--10247522 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
10247474 TTTTCATCAT
* *
10247484 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
10247503 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
10247522 A
1 A
10247523 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:10248049 original size:27 final size:27
Alignment explanation
Indices: 10247985--10248064 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
10247975 GTGACAGAGT
*
10247985 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGGGC
*
10248014 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGGGC
** *
10248041 CACTGGAACAAATAATTTGTGGCA
1 CACCAGAACAGAT-ATTTGTGGCA
10248065 TAGCCACTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 21 0.48
28 16 0.36
29 7 0.16
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.23
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGGGC
Found at i:10248227 original size:28 final size:28
Alignment explanation
Indices: 10248180--10248244 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
10248170 AAATTAACCC
*
10248180 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
10248208 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
10248236 TAGGGGTAT
1 TAGGGGTAT
10248245 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:10249329 original size:12 final size:13
Alignment explanation
Indices: 10249310--10249342 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
10249300 GGGTTCGGCT
10249310 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
10249323 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
10249335 ATGGAGAA
1 ATGGAGAA
10249343 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:10252834 original size:13 final size:13
Alignment explanation
Indices: 10252816--10252840 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10252806 TAGTAACATT
10252816 TTAAATATATGTG
1 TTAAATATATGTG
10252829 TTAAATATATGT
1 TTAAATATATGT
10252841 TATATTCATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAAATATATGTG
Found at i:10259663 original size:50 final size:49
Alignment explanation
Indices: 10259501--10259673 Score: 182
Period size: 48 Copynumber: 3.6 Consensus size: 49
10259491 ATTGAGACAA
* *
10259501 GAGCTAGTGTAAGA-CATGTCTGGGACAT-ACATCGGCTAC-AAGATGT-
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-TACGAATATGTG
* * * * * *
10259547 G-TC-AGTGTAAGACCATATCTGGGACATGGCATCAGCACGTATA-GAG
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGTACGAATATGTG
*
10259593 GTG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGTACGAATATGTG
1 GAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGTACGAATATGTG
10259642 AGAGCTAGTGTAAGACCATGTCTGGGACATGG
1 -GAGCTAGTGTAAGACCATGTCTGGGACATGG
10259674 TGTCGGCCTT
Statistics
Matches: 102, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
44 9 0.09
45 17 0.17
46 9 0.09
48 36 0.35
49 2 0.02
50 28 0.27
51 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (49 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGTACGAATATGTG
Found at i:10260757 original size:28 final size:29
Alignment explanation
Indices: 10260721--10260775 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
10260711 CACGGGCTGA
* *
10260721 GACATGGGCGTGT-CAAGGCCGTGTGAGG
1 GACACGGGCATGTGCAAGGCCGTGTGAGG
* *
10260749 GACACGGGCATGTGCCAGGCTGTGTGA
1 GACACGGGCATGTGCAAGGCCGTGTGA
10260776 AAACCCCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 11 0.50
29 11 0.50
ACGTcount: A:0.18, C:0.20, G:0.44, T:0.18
Consensus pattern (29 bp):
GACACGGGCATGTGCAAGGCCGTGTGAGG
Found at i:10262531 original size:15 final size:15
Alignment explanation
Indices: 10262481--10262530 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
10262471 AAAAAGACAA
10262481 AAGAAAATCAAACAA-
1 AAGAAAATCAAA-AAG
*
10262496 AAGAAAATAAAAAAG
1 AAGAAAATCAAAAAG
*
10262511 AAGAATATCAAAAAG
1 AAGAAAATCAAAAAG
10262526 AAGAA
1 AAGAA
10262531 TTTGAGAGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
14 2 0.06
15 29 0.94
ACGTcount: A:0.74, C:0.06, G:0.12, T:0.08
Consensus pattern (15 bp):
AAGAAAATCAAAAAG
Found at i:10264595 original size:3 final size:3
Alignment explanation
Indices: 10264580--10264653 Score: 62
Period size: 3 Copynumber: 24.7 Consensus size: 3
10264570 TGCAGCAGCA
* *
10264580 AAG AGAG AA- AAG AAG AAG AAG AAA AAG AA- AAA AAG AAG AAG AAG
1 AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* * * *
10264624 AAG GAG AAG GAG AAG GAG GAG AAAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG -AAG AAG AA
10264654 AAAAATGTTA
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
2 4 0.07
3 49 0.84
4 5 0.09
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:10264610 original size:20 final size:20
Alignment explanation
Indices: 10264585--10264622 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
10264575 CAGCAAAGAG
*
10264585 AGAAAAGAAGAAGAAGAAAA
1 AGAAAAAAAGAAGAAGAAAA
10264605 AGAAAAAAAGAAGAAGAA
1 AGAAAAAAAGAAGAAGAA
10264623 GAAGGAGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (20 bp):
AGAAAAAAAGAAGAAGAAAA
Found at i:10267358 original size:12 final size:12
Alignment explanation
Indices: 10267338--10267404 Score: 73
Period size: 12 Copynumber: 5.6 Consensus size: 12
10267328 TGCACCAACT
10267338 CCGGAGCCAGAG
1 CCGGAGCCAGAG
*
10267350 CCAGAGCCAGAG
1 CCGGAGCCAGAG
* *
10267362 CCGGAGGCAGTG
1 CCGGAGCCAGAG
*
10267374 CCGGACCCAGAG
1 CCGGAGCCAGAG
*
10267386 -CGGCGGCCAGAG
1 CCGG-AGCCAGAG
10267398 CCGGAGC
1 CCGGAGC
10267405 TACACTCAGG
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
11 3 0.07
12 37 0.86
13 3 0.07
ACGTcount: A:0.22, C:0.34, G:0.42, T:0.01
Consensus pattern (12 bp):
CCGGAGCCAGAG
Found at i:10271324 original size:5 final size:5
Alignment explanation
Indices: 10271300--10271334 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
10271290 AAAAATGATA
*
10271300 GGCCC GAGCCC GGCCT GGCCC GGCCC GGCCC GGCC
1 GGCCC G-GCCC GGCCC GGCCC GGCCC GGCCC GGCC
10271335 ATATTAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.03, C:0.54, G:0.40, T:0.03
Consensus pattern (5 bp):
GGCCC
Found at i:10271858 original size:2 final size:2
Alignment explanation
Indices: 10271851--10271889 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
10271841 TCTAGCCACA
10271851 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
10271890 TTTAAGATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:10273509 original size:23 final size:23
Alignment explanation
Indices: 10273483--10273532 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
10273473 ATATAAAAAC
10273483 AAATTTTAAAAATATAATATATT
1 AAATTTTAAAAATATAATATATT
10273506 AAATTTTAAAAATATAATATATT
1 AAATTTTAAAAATATAATATATT
10273529 AAAT
1 AAAT
10273533 ACACTAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AAATTTTAAAAATATAATATATT
Found at i:10273540 original size:25 final size:23
Alignment explanation
Indices: 10273489--10273545 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
10273479 AAACAAATTT
**
10273489 TAAAAATATAATATATTAAATTT
1 TAAAAATATAATATATTAAATAC
10273512 TAAAAATATAATATATTAAATACAC
1 TAAAAATATAATATATTAAAT--AC
10273537 TAAAAATAT
1 TAAAAATAT
10273546 TAAAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 21 0.70
25 9 0.30
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (23 bp):
TAAAAATATAATATATTAAATAC
Found at i:10273685 original size:19 final size:19
Alignment explanation
Indices: 10273639--10273685 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
10273629 AAGTAAATAT
*
10273639 TTATAAAATAATAACAAAA
1 TTATATAATAATAACAAAA
10273658 TTA-ATAATAA-AACAAGAA
1 TTATATAATAATAACAA-AA
10273676 TTATATAATA
1 TTATATAATA
10273686 TTCAAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 5 0.20
18 11 0.44
19 9 0.36
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (19 bp):
TTATATAATAATAACAAAA
Found at i:10273699 original size:14 final size:14
Alignment explanation
Indices: 10273680--10273711 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
10273670 CAAGAATTAT
*
10273680 ATAATATTCAAATA
1 ATAATATTAAAATA
10273694 ATAATATTAAAATA
1 ATAATATTAAAATA
10273708 ATAA
1 ATAA
10273712 CAATATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATATTAAAATA
Found at i:10274253 original size:21 final size:21
Alignment explanation
Indices: 10274224--10274264 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10274214 TGAATGAACT
10274224 GATTAAATTAATAATTTAATC
1 GATTAAATTAATAATTTAATC
* *
10274245 GATTTAATTATTAATTTAAT
1 GATTAAATTAATAATTTAAT
10274265 TTTAAAAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (21 bp):
GATTAAATTAATAATTTAATC
Found at i:10277857 original size:23 final size:23
Alignment explanation
Indices: 10277799--10277859 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
10277789 ACTTTTTACT
*
10277799 TAGTTTTAATTTTCCTTTCAATTT
1 TAGTTTTAA-TTTCCTTTCAATTG
* *
10277823 TA-ATTTAGATTTCTTTTCAATTG
1 TAGTTTTA-ATTTCCTTTCAATTG
*
10277846 TAGTTTTTATTTCC
1 TAGTTTTAATTTCC
10277860 ATTTTCTATC
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
23 23 0.79
24 6 0.21
ACGTcount: A:0.21, C:0.11, G:0.07, T:0.61
Consensus pattern (23 bp):
TAGTTTTAATTTCCTTTCAATTG
Found at i:10282517 original size:18 final size:18
Alignment explanation
Indices: 10282494--10282536 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
10282484 TCACAGTAGT
*
10282494 CTTTGCTGATGACGATGC
1 CTTTGCCGATGACGATGC
10282512 CTTTGCCGATGACGATGC
1 CTTTGCCGATGACGATGC
10282530 CTTTGCC
1 CTTTGCC
10282537 ATTTTTCTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.14, C:0.28, G:0.26, T:0.33
Consensus pattern (18 bp):
CTTTGCCGATGACGATGC
Found at i:10283587 original size:34 final size:34
Alignment explanation
Indices: 10283503--10283589 Score: 129
Period size: 34 Copynumber: 2.6 Consensus size: 34
10283493 GTGGAATGCC
10283503 AATAGGCCCTGCTAGGTTAATGACTAGTTCATTG
1 AATAGGCCCTGCTAGGTTAATGACTAGTTCATTG
** * *
10283537 AATAGAACTTGCTAGGTTAATGACTAGTTGATTG
1 AATAGGCCCTGCTAGGTTAATGACTAGTTCATTG
*
10283571 AATAGGCCCTGATAGGTTA
1 AATAGGCCCTGCTAGGTTA
10283590 GTAGTTCTTG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (34 bp):
AATAGGCCCTGCTAGGTTAATGACTAGTTCATTG
Found at i:10285720 original size:30 final size:30
Alignment explanation
Indices: 10285686--10285752 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
10285676 AATCAAAGAT
*
10285686 AGATTCATATTTAGATTCAAATATGTGTGA
1 AGATTCATATTTAAATTCAAATATGTGTGA
10285716 AGATTCATATTTAAATTCAAATATGTGTGA
1 AGATTCATATTTAAATTCAAATATGTGTGA
*
10285746 AGTTTCA
1 AGATTCA
10285753 AATCCAGTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.40
Consensus pattern (30 bp):
AGATTCATATTTAAATTCAAATATGTGTGA
Found at i:10285721 original size:18 final size:18
Alignment explanation
Indices: 10285698--10285755 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
10285688 ATTCATATTT
10285698 AGATTCAAATATGTGTGA
1 AGATTCAAATATGTGTGA
10285716 AGATTC--ATAT-T-T-A
1 AGATTCAAATATGTGTGA
10285729 A-ATTCAAATATGTGTGA
1 AGATTCAAATATGTGTGA
*
10285746 AGTTTCAAAT
1 AGATTCAAAT
10285756 CCAGTGGTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
12 4 0.12
13 2 0.06
14 5 0.15
15 2 0.06
16 5 0.15
17 2 0.06
18 13 0.39
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.38
Consensus pattern (18 bp):
AGATTCAAATATGTGTGA
Found at i:10297226 original size:16 final size:16
Alignment explanation
Indices: 10297205--10297237 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10297195 GTATGAGGGC
10297205 AACTATCCAACGCATG
1 AACTATCCAACGCATG
*
10297221 AACTATCCAATGCATG
1 AACTATCCAACGCATG
10297237 A
1 A
10297238 TCTTGAGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.27, G:0.12, T:0.21
Consensus pattern (16 bp):
AACTATCCAACGCATG
Done.