Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 23 of 133
Found at i:5654185 original size:63 final size:60
Alignment explanation
Indices: 5654118--5654254 Score: 159
Period size: 61 Copynumber: 2.2 Consensus size: 60
5654108 TGATCAATTT
*
5654118 TAAACGTGATAATGTTCTCAACTACAAAAAAAAATATGTATTATAAATAAGCTAGATGATTGA
1 TAAAC-TGATAATGTTCTCAACT--AAAAAAAAATATGTATTATAAATAAGCTAGATGATCGA
* * * * * * *
5654181 TAAACCTGACAATATTCTCAAGTATAAGAAAATATGTATTCTAAGTAAGCTAGATGATCGA
1 TAAA-CTGATAATGTTCTCAACTAAAAAAAAATATGTATTATAAATAAGCTAGATGATCGA
5654242 T-AACTGATAATGT
1 TAAACTGATAATGT
5654255 AGATTAAATT
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
59 8 0.13
60 2 0.03
61 34 0.54
63 18 0.29
64 1 0.02
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.31
Consensus pattern (60 bp):
TAAACTGATAATGTTCTCAACTAAAAAAAAATATGTATTATAAATAAGCTAGATGATCGA
Found at i:5654870 original size:10 final size:10
Alignment explanation
Indices: 5654855--5654910 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
5654845 TAAGATAATA
*
5654855 TTATTTTATT
1 TTATTTTATC
5654865 TTATTTTAT-
1 TTATTTTATC
5654874 TTATAATATTATC
1 TTAT--T-TTATC
5654887 TTATTTTATC
1 TTATTTTATC
**
5654897 TTATCATATC
1 TTATTTTATC
5654907 TTAT
1 TTAT
5654911 ATACCAAATG
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 4 0.10
10 26 0.65
11 2 0.05
12 4 0.10
13 4 0.10
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (10 bp):
TTATTTTATC
Found at i:5654890 original size:27 final size:27
Alignment explanation
Indices: 5654849--5654900 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
5654839 GTAAAATAAG
* *
5654849 ATAATATTATTTTATTTTATTTTATTT
1 ATAATATTATCTTATTTTATCTTATTT
5654876 ATAATATTATCTTATTTTATCTTAT
1 ATAATATTATCTTATTTTATCTTAT
5654901 CATATCTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (27 bp):
ATAATATTATCTTATTTTATCTTATTT
Found at i:5656761 original size:2 final size:2
Alignment explanation
Indices: 5656726--5656750 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5656716 TCATGCATTA
5656726 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
5656751 CACACATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5660687 original size:27 final size:27
Alignment explanation
Indices: 5660656--5660708 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
5660646 TAACTATATA
* *
5660656 TTTCATTATTTA-TTTTTATTTTTATGC
1 TTTCATT-TTTACTATTTATTATTATGC
5660683 TTTCATTTTTACTATTTATTATTATG
1 TTTCATTTTTACTATTTATTATTATG
5660709 AAAAAAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.21, C:0.08, G:0.04, T:0.68
Consensus pattern (27 bp):
TTTCATTTTTACTATTTATTATTATGC
Found at i:5663181 original size:22 final size:20
Alignment explanation
Indices: 5663147--5663202 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 20
5663137 ATAATTATAA
5663147 TATTAAAAAAATTAATTATT
1 TATTAAAAAAATTAATTATT
5663167 TATTATAAAATAATTAATTAATT
1 TATTA-AAAA-AATTAATT-ATT
5663190 TATTAAAATAAAT
1 TATTAAAA-AAAT
5663203 ATTAATTAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.16
21 4 0.12
22 14 0.44
23 9 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TATTAAAAAAATTAATTATT
Found at i:5663215 original size:20 final size:21
Alignment explanation
Indices: 5663147--5663209 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
5663137 ATAATTATAA
5663147 TATTAAAA-AAATTAATT-ATT
1 TATTAAAATAAA-TAATTAATT
*
5663167 TATTATAAAATAATTAATTAATT
1 TA-T-TAAAATAAATAATTAATT
5663190 TATTAAAATAAAT-ATTAATT
1 TATTAAAATAAATAATTAATT
5663210 AGTTAATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
20 9 0.24
21 10 0.27
22 11 0.30
23 7 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TATTAAAATAAATAATTAATT
Found at i:5670403 original size:23 final size:24
Alignment explanation
Indices: 5670356--5670405 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
5670346 ATTACCCTAA
5670356 CCATAACTTTACCCAAGCCACCAC
1 CCATAACTTTACCCAAGCCACCAC
5670380 CCATAACTTTACCCAA-CCACCAC
1 CCATAACTTTACCCAAGCCACCAC
5670403 CCA
1 CCA
5670406 AAAATTCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 10 0.38
24 16 0.62
ACGTcount: A:0.34, C:0.48, G:0.02, T:0.16
Consensus pattern (24 bp):
CCATAACTTTACCCAAGCCACCAC
Found at i:5677054 original size:13 final size:13
Alignment explanation
Indices: 5677025--5677061 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
5677015 GGAGAATTAT
*
5677025 TAAATAATAA-GA
1 TAAATAATAATAA
5677037 TAAATAATAATAA
1 TAAATAATAATAA
5677050 TAAATAATAATA
1 TAAATAATAATA
5677062 GCAATAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (13 bp):
TAAATAATAATAA
Found at i:5679349 original size:112 final size:112
Alignment explanation
Indices: 5679148--5679362 Score: 367
Period size: 112 Copynumber: 1.9 Consensus size: 112
5679138 AATAAGCCCT
* *
5679148 TAGAGTCAATCTTGATTTAACAAAAAAGCAAAGAGATGTAGCATTAACCAGAATAGCAACTTACC
1 TAGAGTCAATCTTGATTTAACAAAAAAGCAAAAAGATGTAGCATTAACCAAAATAGCAACTTACC
* *
5679213 AATGGAAGGTAACCAATTTTTTCAATAGAAAAGTTTGATGTGAAAAA
66 AATAGAAGGTAACCAATTTCTTCAATAGAAAAGTTTGATGTGAAAAA
* *
5679260 TAGAGTCAATCTTGATTTAACAAAAGAGCAAAAAGATGTAGCATTGACCAAAATAGCAACTTACC
1 TAGAGTCAATCTTGATTTAACAAAAAAGCAAAAAGATGTAGCATTAACCAAAATAGCAACTTACC
*
5679325 AATAGAAGGTAACCAATTTCTTCAATAGGAAAGTTTGA
66 AATAGAAGGTAACCAATTTCTTCAATAGAAAAGTTTGA
5679363 CATAAAAATA
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
112 96 1.00
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.26
Consensus pattern (112 bp):
TAGAGTCAATCTTGATTTAACAAAAAAGCAAAAAGATGTAGCATTAACCAAAATAGCAACTTACC
AATAGAAGGTAACCAATTTCTTCAATAGAAAAGTTTGATGTGAAAAA
Found at i:5688686 original size:12 final size:11
Alignment explanation
Indices: 5688651--5688686 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 11
5688641 TTATTTAAAA
5688651 AATTATTTTTT
1 AATTATTTTTT
5688662 AATTAATTTTTT
1 AATT-ATTTTTT
5688674 AATTATTTATTT
1 AATTATTT-TTT
5688686 A
1 A
5688687 TATATATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 8 0.35
12 15 0.65
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
AATTATTTTTT
Found at i:5688725 original size:30 final size:30
Alignment explanation
Indices: 5688686--5688744 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
5688676 TTATTTATTT
* * *
5688686 ATATATATATTTATATAATGATATTTTTAA
1 ATATATATATTTAAAAAATAATATTTTTAA
*
5688716 ATATTTATATTTAAAAAATAATATTTTTA
1 ATATATATATTTAAAAAATAATATTTTTA
5688745 TTAATTTCAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (30 bp):
ATATATATATTTAAAAAATAATATTTTTAA
Found at i:5691542 original size:36 final size:35
Alignment explanation
Indices: 5691432--5691548 Score: 101
Period size: 36 Copynumber: 3.3 Consensus size: 35
5691422 GATCAACTAG
* *
5691432 ATGCTAAAGGTCATGTAGAGGATGAGGATGACAA-
1 ATGCTAAAGCTCATGTAGAGGAAGAGGATGACAAT
* * * * * * *
5691466 ATTCTCCGAAGCTCATTTGGAGGAGGAAGAGGACAGAT
1 ATGCT--AAAGCTCATGTAGAGGAAGAGGATGACA-AT
5691504 ATGCTAAAGCTCATGTAGAGGAAGAGGATGACCAAT
1 ATGCTAAAGCTCATGTAGAGGAAGAGGATGA-CAAT
*
5691540 ATGCCAAAG
1 ATGCTAAAG
5691549 TTCAACGGGA
Statistics
Matches: 62, Mismatches: 16, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
34 4 0.06
36 51 0.82
37 3 0.05
38 4 0.06
ACGTcount: A:0.37, C:0.14, G:0.30, T:0.20
Consensus pattern (35 bp):
ATGCTAAAGCTCATGTAGAGGAAGAGGATGACAAT
Found at i:5691582 original size:33 final size:33
Alignment explanation
Indices: 5691523--5691612 Score: 99
Period size: 33 Copynumber: 2.7 Consensus size: 33
5691513 CTCATGTAGA
* * * *
5691523 GGAAGAGGATGACCAATATGCCAAAGTTCAACG
1 GGAAGAAGATGAACAACATGCTAAAGTTCAACG
* * **
5691556 GGAGGAAGATGAAGAACATGCTAAAGTTCAATT
1 GGAAGAAGATGAACAACATGCTAAAGTTCAACG
*
5691589 GGAAGAAGATGAACAACTTGCTAA
1 GGAAGAAGATGAACAACATGCTAA
5691613 GGCCATTCAA
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.42, C:0.13, G:0.27, T:0.18
Consensus pattern (33 bp):
GGAAGAAGATGAACAACATGCTAAAGTTCAACG
Found at i:5694388 original size:15 final size:15
Alignment explanation
Indices: 5694364--5694428 Score: 60
Period size: 15 Copynumber: 4.3 Consensus size: 15
5694354 TGATGCTGCT
5694364 TCATCCTCATCCTCA
1 TCATCCTCATCCTCA
* *
5694379 TCATCTTCATCTTCA
1 TCATCCTCATCCTCA
* *
5694394 TCATCGTCA-CCATCT
1 TCATCCTCATCC-TCA
* *
5694409 TCATCCTCTTCCACA
1 TCATCCTCATCCTCA
5694424 TCATC
1 TCATC
5694429 AAAGAAAGGC
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
14 1 0.03
15 36 0.92
16 2 0.05
ACGTcount: A:0.20, C:0.42, G:0.02, T:0.37
Consensus pattern (15 bp):
TCATCCTCATCCTCA
Found at i:5705436 original size:15 final size:15
Alignment explanation
Indices: 5705390--5705439 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
5705380 ATTTTAATAT
5705390 TTTTATATAATAAAAA
1 TTTTATATAA-AAAAA
* *
5705406 TTTATGTATAACAAAA
1 TTT-TATATAAAAAAA
*
5705422 TTTTAAATAAAAAAA
1 TTTTATATAAAAAAA
5705437 TTT
1 TTT
5705440 AAGTTTTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 12 0.43
16 10 0.36
17 6 0.21
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (15 bp):
TTTTATATAAAAAAA
Found at i:5708652 original size:14 final size:14
Alignment explanation
Indices: 5708635--5708668 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
5708625 ATTTTAAATT
*
5708635 ATTATTTTTTATTA
1 ATTATTTTTTATCA
*
5708649 ATTAATTTTTATCA
1 ATTATTTTTTATCA
5708663 ATTATT
1 ATTATT
5708669 GTATATTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (14 bp):
ATTATTTTTTATCA
Found at i:5709454 original size:16 final size:17
Alignment explanation
Indices: 5709426--5709457 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
5709416 TGTATTTTTT
5709426 GGGTTTGTTTTTTAACA
1 GGGTTTGTTTTTTAACA
5709443 GGGTTT-TTTTTTAAC
1 GGGTTTGTTTTTTAAC
5709458 TAGTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.16, C:0.06, G:0.22, T:0.56
Consensus pattern (17 bp):
GGGTTTGTTTTTTAACA
Found at i:5709465 original size:16 final size:16
Alignment explanation
Indices: 5709427--5709468 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
5709417 GTATTTTTTG
*
5709427 GGTTTGTTTTTTAACA
1 GGTTTTTTTTTTAACA
*
5709443 GGGTTTTTTTTTAACTA
1 GGTTTTTTTTTTAAC-A
5709460 -GTTTTTTTT
1 GGTTTTTTTT
5709469 ATTTTTCAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 21 0.95
17 1 0.05
ACGTcount: A:0.14, C:0.05, G:0.17, T:0.64
Consensus pattern (16 bp):
GGTTTTTTTTTTAACA
Found at i:5711047 original size:22 final size:22
Alignment explanation
Indices: 5711022--5711087 Score: 53
Period size: 22 Copynumber: 3.0 Consensus size: 22
5711012 AAAATTAGTA
5711022 ATAACTTAATAGTAAATGAAT-G
1 ATAACTTAATAGTAAAT-AATAG
* * *
5711044 ATAATTTAGTAGTCAATAATAG
1 ATAACTTAATAGTAAATAATAG
* **
5711066 ATTACTTTTTAGTAAATCAATA
1 ATAACTTAATAGTAAAT-AATA
5711088 ATAGTACAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
21 3 0.09
22 27 0.79
23 4 0.12
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (22 bp):
ATAACTTAATAGTAAATAATAG
Found at i:5711263 original size:22 final size:22
Alignment explanation
Indices: 5711238--5711279 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
5711228 GTAATAAATC
5711238 AATGATAACTTAATAGTAAACT
1 AATGATAACTTAATAGTAAACT
*
5711260 AATGATAATTTAATAGTAAA
1 AATGATAACTTAATAGTAAA
5711280 TCAGTTTCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.33
Consensus pattern (22 bp):
AATGATAACTTAATAGTAAACT
Found at i:5711340 original size:22 final size:22
Alignment explanation
Indices: 5711295--5711355 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
5711285 TTCAGTTTAA
*
5711295 TAAT-AATCAATTAGAAA-TTAG
1 TAATAAAT-AATTAAAAACTTAG
*
5711316 TAATAAATAATTGAAAACTTAG
1 TAATAAATAATTAAAAACTTAG
* *
5711338 TAATTAATCATTAAAAAC
1 TAATAAATAATTAAAAAC
5711356 ATAAATGTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
21 11 0.33
22 22 0.67
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.33
Consensus pattern (22 bp):
TAATAAATAATTAAAAACTTAG
Found at i:5711544 original size:22 final size:22
Alignment explanation
Indices: 5711518--5711573 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
5711508 CAATGACTAA
5711518 ATAATAGTAAAT-ATATAAAAAT
1 ATAATAGTAAATCAT-TAAAAAT
* *
5711540 ATAATAGCAAATCATTAATAAT
1 ATAATAGTAAATCATTAAAAAT
* *
5711562 TTAGTAGTAAAT
1 ATAATAGTAAAT
5711574 TGATAACTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
22 26 0.93
23 2 0.07
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (22 bp):
ATAATAGTAAATCATTAAAAAT
Found at i:5712516 original size:22 final size:21
Alignment explanation
Indices: 5712488--5712552 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 21
5712478 TTAATTTTTT
5712488 TAGTAAATTATTAATAATTTAG
1 TAGTAAATTATT-ATAATTTAG
*
5712510 TAGTAAATAATTTATAATTTAG
1 TAGTAAATTA-TTATAATTTAG
5712532 TAGTAAATTACTTATAATTTA
1 TAGTAAATTA-TTATAATTTA
5712553 ATTGTCAATC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
22 37 0.95
23 2 0.05
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.46
Consensus pattern (21 bp):
TAGTAAATTATTATAATTTAG
Found at i:5712889 original size:22 final size:22
Alignment explanation
Indices: 5712859--5713315 Score: 141
Period size: 22 Copynumber: 20.8 Consensus size: 22
5712849 TTAGTAATTG
* *
5712859 ATAATTTAATAATAAATCAATA
1 ATAACTTAATAGTAAATCAATA
* *
5712881 ATAACTTAATAGTAAATTAATG
1 ATAACTTAATAGTAAATCAATA
* *
5712903 ATAACTTAATAGTAAATTAATT
1 ATAACTTAATAGTAAATCAATA
* * * *
5712925 TTAATTTAATAGT-AATTAATCG
1 ATAACTTAATAGTAAATCAAT-A
* **
5712947 ATAAACTTACTAGT-AATTTATAA
1 AT-AACTTAATAGTAAATCAAT-A
* *
5712970 ATAACTTAGTAGTAAATCAATG
1 ATAACTTAATAGTAAATCAATA
* * * *
5712992 ATAATTTAGTAGTTAATCATTGA
1 ATAACTTAATAGTAAATCAAT-A
* *
5713015 A-AACTTAAAAGTAAATCAA-C
1 ATAACTTAATAGTAAATCAATA
* *
5713035 ATAACTTAGTAGTAGCTAATCAATG
1 ATAACTTAATAGTA---AATCAATA
* *
5713060 ATAACTTAATAGCAAATCATTA
1 ATAACTTAATAGTAAATCAATA
* * * *
5713082 ATAATTTAGTA-TAAATTAATG
1 ATAACTTAATAGTAAATCAATA
* *
5713103 ATAAAC-TAATAATGAATC-ATGA
1 AT-AACTTAATAGTAAATCAAT-A
* * * * ** *
5713125 TTAATTTAGTA-AAAATCTGTG
1 ATAACTTAATAGTAAATCAATA
* ** *
5713146 ATAATTTTGTGGTAAAT-AATA
1 ATAACTTAATAGTAAATCAATA
* * *
5713167 AAAAC-TAAGTAGTAAATAAATG
1 ATAACTTAA-TAGTAAATCAATA
* *
5713189 ATAACATAGTTA-TAAATGC-ATA
1 ATAACTTA-ATAGTAAAT-CAATA
* * * * *
5713211 ATATCATAATAGTATAGT-ATTG
1 ATAACTTAATAGTA-AATCAATA
* * *
5713233 ATAATTTAGAT-GTAAATTATTA
1 ATAACTTA-ATAGTAAATCAATA
*
5713255 ATAACTTAATAGTAAATCATTA
1 ATAACTTAATAGTAAATCAATA
* * * *
5713277 ATAACTTAGTTGTAAATTAGTA
1 ATAACTTAATAGTAAATCAATA
*
5713299 ATAATTTAATAGTAAAT
1 ATAACTTAATAGTAAAT
5713316 TGAATAATTA
Statistics
Matches: 320, Mismatches: 89, Indels: 52
0.69 0.19 0.11
Matches are distributed among these distances:
20 2 0.01
21 62 0.19
22 207 0.65
23 31 0.10
24 6 0.02
25 12 0.04
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.37
Consensus pattern (22 bp):
ATAACTTAATAGTAAATCAATA
Found at i:5712912 original size:44 final size:44
Alignment explanation
Indices: 5712857--5713596 Score: 184
Period size: 44 Copynumber: 16.6 Consensus size: 44
5712847 AGTTAGTAAT
* * *
5712857 TGATAATTTAATAATAAATCAATAATAACTTAATAGTAAATTAA
1 TGATAACTTAATAGTAAATCAATAATAACTTAATAGTAAATCAA
* ** * *
5712901 TGATAACTTAATAGTAAATTAATTTTAATTTAATAGT-AATTAA
1 TGATAACTTAATAGTAAATCAATAATAACTTAATAGTAAATCAA
* ** *
5712944 TCGATAAACTTACTAGT-AATTTATAAATAACTTAGTAGTAAATCAA
1 T-GAT-AACTTAATAGTAAATCAAT-AATAACTTAATAGTAAATCAA
* * * * *
5712990 TGATAATTTAGTAGTTAATCATTGAA-AACTTAAAAGTAAATCAA
1 TGATAACTTAATAGTAAATCAAT-AATAACTTAATAGTAAATCAA
* * * * *
5713034 -CATAACTTAGTAGTAGCTAATCAATGATAACTTAATAGCAAATCAT
1 TGATAACTTAATAGTA---AATCAATAATAACTTAATAGTAAATCAA
* * * * * * *
5713080 TAATAATTTAGTA-TAAATTAATGATAAAC-TAATAATGAATC-A
1 TGATAACTTAATAGTAAATCAATAAT-AACTTAATAGTAAATCAA
* * * ** * * ** *
5713122 TGATTAATTTAGTA-AAAATCTGTGATAATTTTGTGGTAAAT-AA
1 TGA-TAACTTAATAGTAAATCAATAATAACTTAATAGTAAATCAA
* * * * * *
5713165 TAAAAAC-TAAGTAGTAAATAAATGATAACATAGTTA-TAAATGC-A
1 TGATAACTTAA-TAGTAAATCAATAATAACTTA-ATAGTAAAT-CAA
* * * * * * * * *
5713209 TAATATCATAATAGTATAGT-ATTGATAATTTAGAT-GTAAATTAT
1 TGATAACTTAATAGTA-AATCAATAATAACTTA-ATAGTAAATCAA
* * * * * *
5713253 TAATAACTTAATAGTAAATCATTAATAACTTAGTTGTAAATTAG
1 TGATAACTTAATAGTAAATCAATAATAACTTAATAGTAAATCAA
* * * ** * *
5713297 TAATAATTTAATAGTAAATTGAATAATTATTAATAACTTTGTAGTAAATTAT
1 TGATAACTTAATAGT--A---AATCA--A-TAATAACTTAATAGTAAATCAA
* * * * * * **
5713349 TGATAAATTAATAGTAAATTAGTTATAATTTTATAACAAAT-AA
1 TGATAACTTAATAGTAAATCAATAATAACTTAATAGTAAATCAA
* * * *
5713392 TCAATAACTTAATAGTAAATC-ATCAATAATTTAATAATAAATCAG
1 T-GATAACTTAATAGTAAATCAAT-AATAACTTAATAGTAAATCAA
* * * * * *
5713437 TCATAACTTAATAGTAAATCATTCATAAATTAGTAATAAATCAA
1 TGATAACTTAATAGTAAATCAATAATAACTTAATAGTAAATCAA
* * * * * * ** * *
5713481 TGTTAATTTAGTAGTAAATCATTGATAATTTAGCAGTACATCAT
1 TGATAACTTAATAGTAAATCAATAATAACTTAATAGTAAATCAA
* * ** * *
5713525 TTATAACTTAATATTAAATCGCTGATAA-TATAATAGTAAATTAA
1 TGATAACTTAATAGTAAATCAATAATAACT-TAATAGTAAATCAA
* * *
5713569 TAATAACTTAAATA-TCAATCATTAATAA
1 TGATAACTT-AATAGTAAATCAATAATAA
5713597 ATTTTTTTAC
Statistics
Matches: 524, Mismatches: 133, Indels: 78
0.71 0.18 0.11
Matches are distributed among these distances:
41 2 0.00
42 8 0.02
43 87 0.17
44 304 0.58
45 42 0.08
46 30 0.06
47 14 0.03
49 4 0.01
50 1 0.00
52 32 0.06
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (44 bp):
TGATAACTTAATAGTAAATCAATAATAACTTAATAGTAAATCAA
Found at i:5712934 original size:33 final size:33
Alignment explanation
Indices: 5712860--5712966 Score: 81
Period size: 33 Copynumber: 3.2 Consensus size: 33
5712850 TAGTAATTGA
*
5712860 TAATTTAATAATAAATCAATAATAACTTAATAG
1 TAATTTAATAATAAATCAATAATAAATTAATAG
* * * * * **
5712893 TAAATTAATGATAACTTAATAGTAAATTAATTT
1 TAATTTAATAATAAATCAATAATAAATTAATAG
* * * *
5712926 TAATTTAATAGT-AATTAATCGATAAACTTACTAG
1 TAATTTAATAATAAATCAAT-AATAAA-TTAATAG
5712960 TAATTTA
1 TAATTTA
5712967 TAAATAACTT
Statistics
Matches: 55, Mismatches: 17, Indels: 3
0.73 0.23 0.04
Matches are distributed among these distances:
32 6 0.11
33 38 0.69
34 11 0.20
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (33 bp):
TAATTTAATAATAAATCAATAATAAATTAATAG
Found at i:5712940 original size:11 final size:11
Alignment explanation
Indices: 5712864--5712944 Score: 67
Period size: 11 Copynumber: 7.5 Consensus size: 11
5712854 AATTGATAAT
*
5712864 TTAATAATAAA
1 TTAATAGTAAA
* * *
5712875 TCAATAATAAC
1 TTAATAGTAAA
5712886 TTAATAGTAAA
1 TTAATAGTAAA
*
5712897 TTAAT-GATAAC
1 TTAATAG-TAAA
5712908 TTAATAGTAAA
1 TTAATAGTAAA
** *
5712919 TTAATTTTAAT
1 TTAATAGTAAA
5712930 TTAATAGT-AA
1 TTAATAGTAAA
5712940 TTAAT
1 TTAAT
5712945 CGATAAACTT
Statistics
Matches: 55, Mismatches: 13, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
10 7 0.13
11 47 0.85
12 1 0.02
ACGTcount: A:0.51, C:0.04, G:0.05, T:0.41
Consensus pattern (11 bp):
TTAATAGTAAA
Found at i:5713113 original size:43 final size:43
Alignment explanation
Indices: 5713056--5713140 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 43
5713046 GTAGCTAATC
* * *
5713056 AATGATAACTTAATAGCAAATCATTAATAATTTAGTATAAATT
1 AATGATAACTTAATAACAAATCATGAATAATTTAGTAAAAATT
** *
5713099 AATGATAAAC-TAATAATGAATCATGATTAATTTAGTAAAAAT
1 AATGAT-AACTTAATAACAAATCATGAATAATTTAGTAAAAAT
5713141 CTGTGATAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
43 32 0.91
44 3 0.09
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.35
Consensus pattern (43 bp):
AATGATAACTTAATAACAAATCATGAATAATTTAGTAAAAATT
Found at i:5713303 original size:66 final size:66
Alignment explanation
Indices: 5713233--5713596 Score: 194
Period size: 66 Copynumber: 5.4 Consensus size: 66
5713223 TATAGTATTG
* * * * *
5713233 ATAATTTAGATGTAAATTATTAATAACTTAATAGTAAATCATTAATAACTTAGTTGTAAATTAGT
1 ATAATTTAGATGTAAATCATTAATAACTTAATAGTAAATCATTAATAATTTAATAGTAAATCAGT
5713298 A
66 A
* * ** * * *
5713299 ATAATTTAATAGTAAATTGAATAATTATTAATAACTTTGTAGTAAATTATTGATAAATTAATAGT
1 ATAA-TT--TAG---A-TGTA-AATCATTAATAACTTAATAGTAAATCATTAATAATTTAATAGT
* *
5713364 AAATTAGTT
58 AAATCAGTA
* ** * * * *
5713373 ATAATTT-TATAACAAATAATCAATAACTTAATAGTAAATCATCAATAATTTAATAATAAATCAG
1 ATAATTTAGAT-GTAAATCATTAATAACTTAATAGTAAATCATTAATAATTTAATAGTAAATCAG
*
5713437 TC
65 TA
* * * * * * ** * *
5713439 ATAACTTA-ATAGTAAATCATTCATAAATTAGTAATAAATCAATGTTAATTTAGTAGTAAATCAT
1 ATAATTTAGAT-GTAAATCATTAATAACTTAATAGTAAATCATTAATAATTTAATAGTAAATCAG
*
5713503 TG
65 TA
* * * ** * * * *
5713505 ATAATTTAGCA-GTACATCATTTATAACTTAATATTAAATCGCTGATAATATAATAGTAAATTAA
1 ATAATTTAG-ATGTAAATCATTAATAACTTAATAGTAAATCATTAATAATTTAATAGTAAATCAG
5713569 TA
65 TA
* * * *
5713571 ATAACTTAAATATCAATCATTAATAA
1 ATAATTTAGATGTAAATCATTAATAA
5713597 ATTTTTTTAC
Statistics
Matches: 225, Mismatches: 60, Indels: 26
0.72 0.19 0.08
Matches are distributed among these distances:
65 1 0.00
66 161 0.72
67 4 0.02
68 1 0.00
69 3 0.01
71 1 0.00
72 1 0.00
73 5 0.02
74 48 0.21
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (66 bp):
ATAATTTAGATGTAAATCATTAATAACTTAATAGTAAATCATTAATAATTTAATAGTAAATCAGT
A
Found at i:5713342 original size:118 final size:118
Alignment explanation
Indices: 5713220--5713433 Score: 263
Period size: 118 Copynumber: 1.8 Consensus size: 118
5713210 AATATCATAA
* * ** * *
5713220 TAGTATAGTATTGATAATTTAGAT-GTAAATTA-TTAATAACTTAATAGTAAATCATTAATAACT
1 TAGTAAAGTATTGATAAATTA-ATAGTAAATTAGTT-ATAACTTAATAACAAATAATCAATAACT
* * * *
5713283 TAGTTGTAAATTAGT-AATAATTTAATAGTAAATTGAATAATTATTAATAACTTTG
64 TAATAGTAAATCA-TCAATAATTTAATAATAAATTGAATAATTATTAATAACTTTG
* * *
5713338 TAGTAAATTATTGATAAATTAATAGTAAATTAGTTATAATTTTATAACAAATAATCAATAACTTA
1 TAGTAAAGTATTGATAAATTAATAGTAAATTAGTTATAACTTAATAACAAATAATCAATAACTTA
5713403 ATAGTAAATCATCAATAATTTAATAATAAAT
66 ATAGTAAATCATCAATAATTTAATAATAAAT
5713434 CAGTCATAAC
Statistics
Matches: 80, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
117 3 0.04
118 75 0.94
119 2 0.03
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.41
Consensus pattern (118 bp):
TAGTAAAGTATTGATAAATTAATAGTAAATTAGTTATAACTTAATAACAAATAATCAATAACTTA
ATAGTAAATCATCAATAATTTAATAATAAATTGAATAATTATTAATAACTTTG
Found at i:5713518 original size:22 final size:22
Alignment explanation
Indices: 5713329--5713565 Score: 120
Period size: 22 Copynumber: 10.8 Consensus size: 22
5713319 ATAATTATTA
*
5713329 ATAACTTT-GTAGTAAATTATTG
1 ATAA-TTTAGTAGTAAATCATTG
* * *
5713351 ATAAATTAATAGTAAATTAGTT-
1 ATAATTTAGTAGTAAATCA-TTG
** * **
5713373 ATAATTTTA-TAACAAATAATCA
1 ATAA-TTTAGTAGTAAATCATTG
* * **
5713395 ATAACTTAATAGTAAATCATCA
1 ATAATTTAGTAGTAAATCATTG
* * * *
5713417 ATAATTTAATAATAAATCAGTC
1 ATAATTTAGTAGTAAATCATTG
* * *
5713439 ATAACTTAATAGTAAATCATTC
1 ATAATTTAGTAGTAAATCATTG
* * *
5713461 ATAAATTAGTAATAAATCAATG
1 ATAATTTAGTAGTAAATCATTG
*
5713483 TTAATTTAGTAGTAAATCATTG
1 ATAATTTAGTAGTAAATCATTG
* * *
5713505 ATAATTTAGCAGTACATCATTT
1 ATAATTTAGTAGTAAATCATTG
* * * **
5713527 ATAACTTAATATTAAATCGCTG
1 ATAATTTAGTAGTAAATCATTG
* *
5713549 ATAATATAATAGTAAAT
1 ATAATTTAGTAGTAAAT
5713566 TAATAATAAC
Statistics
Matches: 167, Mismatches: 43, Indels: 10
0.76 0.20 0.05
Matches are distributed among these distances:
21 6 0.04
22 156 0.93
23 5 0.03
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (22 bp):
ATAATTTAGTAGTAAATCATTG
Found at i:5713941 original size:21 final size:19
Alignment explanation
Indices: 5713909--5713953 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
5713899 TACTGAAATT
5713909 TTATAAAAAATTA-CTAAAA
1 TTATAAAAAATTATC-AAAA
5713928 TTATAACAATAATTATCAAAA
1 TTATAA-AA-AATTATCAAAA
5713949 TTATA
1 TTATA
5713954 TGATAAGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.26
20 2 0.09
21 14 0.61
22 1 0.04
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.36
Consensus pattern (19 bp):
TTATAAAAAATTATCAAAA
Found at i:5714061 original size:27 final size:25
Alignment explanation
Indices: 5713996--5714061 Score: 62
Period size: 27 Copynumber: 2.6 Consensus size: 25
5713986 CAAATTTTTT
* *
5713996 TCAAAATTCAATT-TATATCAAAAA
1 TCAAAATTAAATTATATATAAAAAA
* * *
5714020 TTAAAATTTACTTATATTATAATAAAA
1 TCAAAATTAAATTATA-TATAA-AAAA
5714047 TCAAAATTAAATTAT
1 TCAAAATTAAATTAT
5714062 TAATATTTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
24 10 0.31
25 2 0.06
26 4 0.12
27 16 0.50
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (25 bp):
TCAAAATTAAATTATATATAAAAAA
Found at i:5714119 original size:14 final size:16
Alignment explanation
Indices: 5714088--5714124 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
5714078 TATCCTAATA
5714088 TAAAA-AATTATTTAT
1 TAAAATAATTATTTAT
5714103 TAAAATAATT-TTT-T
1 TAAAATAATTATTTAT
5714117 TAAAATAA
1 TAAAATAA
5714125 AAATTCTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.43
15 8 0.38
16 4 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TAAAATAATTATTTAT
Found at i:5720066 original size:22 final size:22
Alignment explanation
Indices: 5720034--5720078 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
5720024 ATACTTAAAC
5720034 TTATTTAAATA-TAT-TAAAAA
1 TTATTTAAATACTATATAAAAA
5720054 TTATATTACAATACTATATAAAAA
1 TTAT-TTA-AATACTATATAAAAA
5720078 T
1 T
5720079 AAAATTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 4 0.19
21 3 0.14
22 4 0.19
23 3 0.14
24 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (22 bp):
TTATTTAAATACTATATAAAAA
Found at i:5720537 original size:20 final size:20
Alignment explanation
Indices: 5720512--5720552 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
5720502 TTCAAAAGTG
*
5720512 ATTTTGATTGTTAAAATTAA
1 ATTTTGATTATTAAAATTAA
5720532 ATTTTGATTATTAAAATTAA
1 ATTTTGATTATTAAAATTAA
5720552 A
1 A
5720553 ATTATATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (20 bp):
ATTTTGATTATTAAAATTAA
Found at i:5724042 original size:3 final size:3
Alignment explanation
Indices: 5724034--5724063 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
5724024 AAGAAAAAAT
5724034 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
5724064 GTAACCTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:5732485 original size:2 final size:2
Alignment explanation
Indices: 5732478--5732509 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
5732468 GGACATGAAC
5732478 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5732510 GTAATCATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5733191 original size:19 final size:20
Alignment explanation
Indices: 5733146--5733191 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
5733136 TTTAAAGCAT
* *
5733146 ATTAA-AATATTTTTTCTAC
1 ATTAATAATATTTTATCTAA
*
5733165 ATTGATAATATTTTAT-TAA
1 ATTAATAATATTTTATCTAA
5733184 ATTAATAA
1 ATTAATAA
5733192 CATTCTCCCT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.50
Consensus pattern (20 bp):
ATTAATAATATTTTATCTAA
Found at i:5740161 original size:5 final size:5
Alignment explanation
Indices: 5740151--5740176 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
5740141 AAGCTTGATT
5740151 AAAAG AAAAG AAAAG AAAAG AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG A
5740177 TCAATTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:5746930 original size:19 final size:19
Alignment explanation
Indices: 5746875--5746953 Score: 54
Period size: 19 Copynumber: 4.2 Consensus size: 19
5746865 ACTAGACCCC
* * *
5746875 CTCAGCCAAAATAGCTCAA
1 CTCAACCAAAAAAGCTCAT
* *
5746894 CTCTACCAAAAGAA-CTTAT
1 CTCAACCAAAA-AAGCTCAT
* *
5746913 CTCAACCAAAAAAGCTTAC
1 CTCAACCAAAAAAGCTCAT
* *
5746932 CTCGATC-AAAAAGCTCAT
1 CTCAACCAAAAAAGCTCAT
5746950 CTCA
1 CTCA
5746954 GTAAATTACC
Statistics
Matches: 46, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
18 14 0.30
19 31 0.67
20 1 0.02
ACGTcount: A:0.42, C:0.30, G:0.08, T:0.20
Consensus pattern (19 bp):
CTCAACCAAAAAAGCTCAT
Found at i:5747625 original size:16 final size:16
Alignment explanation
Indices: 5747575--5747625 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
5747565 CAGATTCACC
5747575 AAATTCACCTCGATAA
1 AAATTCACCTCGATAA
* *
5747591 AAATT-ACCTCGACAT
1 AAATTCACCTCGATAA
*
5747606 AAATTCATCTCGATAA
1 AAATTCACCTCGATAA
5747622 AAAT
1 AAAT
5747626 CACTTTGGCA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
15 13 0.45
16 16 0.55
ACGTcount: A:0.45, C:0.22, G:0.06, T:0.27
Consensus pattern (16 bp):
AAATTCACCTCGATAA
Found at i:5747643 original size:31 final size:31
Alignment explanation
Indices: 5747574--5747675 Score: 114
Period size: 31 Copynumber: 3.3 Consensus size: 31
5747564 TCAGATTCAC
* * *
5747574 CAAATTCACCTCGATAAAAATTACCTCGACA
1 CAAATTCACCTCGATAAAAATCACCTTGGCA
* * *
5747605 TAAATTCATCTCGATAAAAATCACTTTGGCA
1 CAAATTCACCTCGATAAAAATCACCTTGGCA
* * **
5747636 CATATTCACCTCGTTGTAAATCACCTTGGCA
1 CAAATTCACCTCGATAAAAATCACCTTGGCA
5747667 CAAATTCAC
1 CAAATTCAC
5747676 TTTAGTATAA
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 57 1.00
ACGTcount: A:0.36, C:0.26, G:0.09, T:0.28
Consensus pattern (31 bp):
CAAATTCACCTCGATAAAAATCACCTTGGCA
Found at i:5751955 original size:30 final size:29
Alignment explanation
Indices: 5751889--5751964 Score: 80
Period size: 30 Copynumber: 2.6 Consensus size: 29
5751879 TTCATTTTTC
* *
5751889 TTAAATAAAGTTTTTATATTTTTATTGTAT
1 TTAAATAAA-TTTTTATACTTTAATTGTAT
** *
5751919 CAAAATAAATTTTTATACTTTAATTTGTGT
1 TTAAATAAATTTTTATACTTTAA-TTGTAT
*
5751949 TTAAATAAGTTTTTAT
1 TTAAATAAATTTTTAT
5751965 TTCAAATGAA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 12 0.32
30 25 0.68
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.55
Consensus pattern (29 bp):
TTAAATAAATTTTTATACTTTAATTGTAT
Found at i:5752030 original size:30 final size:30
Alignment explanation
Indices: 5751994--5752066 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
5751984 TATGTTAAGA
**
5751994 ATTTATTTAGGTACAAATTAAAGATTAAAG
1 ATTTATTTAAATACAAATTAAAGATTAAAG
** **
5752024 ATTTATTTAAATGTAAATTAAAGATTAATC
1 ATTTATTTAAATACAAATTAAAGATTAAAG
*
5752054 ATTTATATAAATA
1 ATTTATTTAAATA
5752067 TAATAAAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.41
Consensus pattern (30 bp):
ATTTATTTAAATACAAATTAAAGATTAAAG
Found at i:5752371 original size:2 final size:2
Alignment explanation
Indices: 5752364--5752401 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
5752354 GCATAACTAG
5752364 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5752402 TATTAAAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5754562 original size:15 final size:15
Alignment explanation
Indices: 5754542--5754573 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
5754532 TGCAAACTTG
5754542 AAAAAGAAAAAAGCT
1 AAAAAGAAAAAAGCT
*
5754557 AAAAAGGAAAAAGCT
1 AAAAAGAAAAAAGCT
5754572 AA
1 AA
5754574 TATATATCAA
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:0.72, C:0.06, G:0.16, T:0.06
Consensus pattern (15 bp):
AAAAAGAAAAAAGCT
Found at i:5759210 original size:42 final size:44
Alignment explanation
Indices: 5759151--5759235 Score: 156
Period size: 42 Copynumber: 2.0 Consensus size: 44
5759141 TTTAGAAAAC
5759151 ATAAGAAGCACTTACATGAAAAA-G-AAAAAAAATGAAATAGAG
1 ATAAGAAGCACTTACATGAAAAAGGAAAAAAAAATGAAATAGAG
5759193 ATAAGAAGCACTTACATGAAAAAGGAAAAAAAAATGAAATAGA
1 ATAAGAAGCACTTACATGAAAAAGGAAAAAAAAATGAAATAGA
5759236 TTTTTATACA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
42 23 0.56
43 1 0.02
44 17 0.41
ACGTcount: A:0.62, C:0.07, G:0.16, T:0.14
Consensus pattern (44 bp):
ATAAGAAGCACTTACATGAAAAAGGAAAAAAAAATGAAATAGAG
Found at i:5761070 original size:29 final size:29
Alignment explanation
Indices: 5761037--5761093 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
5761027 TGTATTTTTG
5761037 TAATTAT-AAT-ATGAAGTTATTTTAATAAA
1 TAATTATAAATAATG-AG-TATTTTAATAAA
5761066 TAATTATAAATAATGAGTATTTTAATAA
1 TAATTATAAATAATGAGTATTTTAATAA
5761094 TTATAATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 18 0.69
30 5 0.19
31 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (29 bp):
TAATTATAAATAATGAGTATTTTAATAAA
Found at i:5761737 original size:2 final size:2
Alignment explanation
Indices: 5761730--5761762 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
5761720 AGACACCATT
5761730 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5761763 TCTATATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5774282 original size:11 final size:11
Alignment explanation
Indices: 5774266--5774295 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
5774256 ATTTTGCTTA
5774266 AAAAAAAGAAC
1 AAAAAAAGAAC
*
5774277 AAAAAAAGAAT
1 AAAAAAAGAAC
5774288 AAAAAAAG
1 AAAAAAAG
5774296 TGAAAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.83, C:0.03, G:0.10, T:0.03
Consensus pattern (11 bp):
AAAAAAAGAAC
Found at i:5775162 original size:47 final size:47
Alignment explanation
Indices: 5775109--5775355 Score: 251
Period size: 47 Copynumber: 5.2 Consensus size: 47
5775099 AACATATAAG
* ** *
5775109 ATTTTTAAAGTTGTTAAATCTTTGCTTAGAGGAGCTTTTTCAAGATG
1 ATTTTTAAAGTTGTTGAGCCTTTGCTTAGAGGAGCTTTTTCAAGATA
* * * * *
5775156 ATTTTTAAAGTTATTAAGCCTTTACTTATAGAAGCTTTTTCAAGATA
1 ATTTTTAAAGTTGTTGAGCCTTTGCTTAGAGGAGCTTTTTCAAGATA
** * * * ** * *
5775203 AAGTTTAAAGTTATTGAACCTCTGCTTAGATAAACTTTTTCGAGATAA
1 ATTTTTAAAGTTGTTGAGCCTTTGCTTAGAGGAGCTTTTTCAAGAT-A
5775251 ATTTTTAAAGTTGTTGAGCCTTTGCTTAGAGGAGCTTTTTCAAGATA
1 ATTTTTAAAGTTGTTGAGCCTTTGCTTAGAGGAGCTTTTTCAAGATA
* * * * * * *
5775298 AATTTTAAAATTGTTGAGCCTTTACTTAGAAGAGCTTTTTTAATATGG
1 ATTTTTAAAGTTGTTGAGCCTTTGCTTAGAGGAGCTTTTTCAAGAT-A
5775346 ATTTTTAAAG
1 ATTTTTAAAG
5775356 CTGAATTTTA
Statistics
Matches: 163, Mismatches: 35, Indels: 3
0.81 0.17 0.01
Matches are distributed among these distances:
47 117 0.72
48 46 0.28
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (47 bp):
ATTTTTAAAGTTGTTGAGCCTTTGCTTAGAGGAGCTTTTTCAAGATA
Found at i:5775336 original size:95 final size:94
Alignment explanation
Indices: 5775128--5775355 Score: 260
Period size: 95 Copynumber: 2.4 Consensus size: 94
5775118 GTTGTTAAAT
* * *
5775128 CTTTGCTTAGAGGAGCTTTTTCAAGATGATTTTTAAAGTTATTAAGCCTTTACTTATAGAAGCTT
1 CTTTGCTTAGAAGAGCTTTTTCAAGATAATTTTTAAAGTTATTAAGCCTTTACTTAGAGAAGCTT
*
5775193 TTTCAAGATAAAGTTTAAAGTTATTGAAC
66 TTTCAAGATAAAGTTTAAAATTATTGAAC
* * * * * * *
5775222 CTCTGCTTAGATA-AACTTTTTCGAGATAAATTTTTAAAGTTGTTGAGCCTTTGCTTAGAGGAGC
1 CTTTGCTTAGA-AGAGCTTTTTCAAGAT-AATTTTTAAAGTTATTAAGCCTTTACTTAGAGAAGC
* * *
5775286 TTTTTCAAGATAAATTTTAAAATTGTTGAGC
64 TTTTTCAAGATAAAGTTTAAAATTATTGAAC
* * * *
5775317 CTTTACTTAGAAGAGCTTTTTTAATATGGATTTTTAAAG
1 CTTTGCTTAGAAGAGCTTTTTCAAGAT-AATTTTTAAAG
5775356 CTGAATTTTA
Statistics
Matches: 109, Mismatches: 22, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
94 23 0.21
95 86 0.79
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.42
Consensus pattern (94 bp):
CTTTGCTTAGAAGAGCTTTTTCAAGATAATTTTTAAAGTTATTAAGCCTTTACTTAGAGAAGCTT
TTTCAAGATAAAGTTTAAAATTATTGAAC
Found at i:5775438 original size:28 final size:28
Alignment explanation
Indices: 5775393--5775452 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
5775383 TTCAGAGGAG
* *
5775393 CTTTTTAAATTTTCAAAAGTCTTTGAAC
1 CTTTTTAAATTTTCAAAAGTCGTTAAAC
5775421 CTTTTTAAAATTTT-AAAAGTCGTTAAAC
1 CTTTTT-AAATTTTCAAAAGTCGTTAAAC
5775449 CTTT
1 CTTT
5775453 GCTTAAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 22 0.76
29 7 0.24
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (28 bp):
CTTTTTAAATTTTCAAAAGTCGTTAAAC
Found at i:5775590 original size:45 final size:43
Alignment explanation
Indices: 5775479--5775613 Score: 132
Period size: 42 Copynumber: 3.1 Consensus size: 43
5775469 TTAAATTTTT
* * *
5775479 AAAAGTCGTTAAGCCTCTGCTTAGAGAAGTTTTTTAAATTT-C-
1 AAAAGTTGTTGAG-CTCTGCTTAGAGAAGCTTTTTAAATTTACA
* *
5775521 AAAAGTTGTTGAGCTTTTGCTTAGAGAAACTTTTTAAATTTACA
1 AAAAGTTGTTGAGC-TCTGCTTAGAGAAGCTTTTTAAATTTACA
* * *
5775565 AAAATGTTGTTGAATCTCTGTTTAGA-ATAGCTTTTTAAATTTAAA
1 AAAA-GTTGTTG-AGCTCTGCTTAGAGA-AGCTTTTTAAATTTACA
5775610 AAAA
1 AAAA
5775614 ATAAATTTTA
Statistics
Matches: 77, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
41 1 0.01
42 34 0.44
43 1 0.01
44 5 0.06
45 34 0.44
46 2 0.03
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.40
Consensus pattern (43 bp):
AAAAGTTGTTGAGCTCTGCTTAGAGAAGCTTTTTAAATTTACA
Found at i:5775832 original size:22 final size:22
Alignment explanation
Indices: 5775804--5775845 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
5775794 TGCTAGTGGC
*
5775804 TCTGACAGCCATTGGCAGCCGT
1 TCTGACAGCCAGTGGCAGCCGT
*
5775826 TCTGACAGTCAGTGGCAGCC
1 TCTGACAGCCAGTGGCAGCC
5775846 TTAATCTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.31, G:0.29, T:0.21
Consensus pattern (22 bp):
TCTGACAGCCAGTGGCAGCCGT
Found at i:5777198 original size:20 final size:21
Alignment explanation
Indices: 5777169--5777213 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
5777159 TCTTTTTTTC
*
5777169 AAAAATTTAAATAATAAT-AAT
1 AAAAATTT-AATAAAAATCAAT
5777190 AAAAA-TTAATAAAAATCAAT
1 AAAAATTTAATAAAAATCAAT
5777210 AAAA
1 AAAA
5777214 TTTCTAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 9 0.41
21 5 0.23
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAAATTTAATAAAAATCAAT
Found at i:5784465 original size:13 final size:11
Alignment explanation
Indices: 5784429--5784482 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
5784419 CAACTCTCCA
5784429 TTTTCTTTTTT
1 TTTTCTTTTTT
5784440 TTTTCTCTATTTT
1 TTTTCT-T-TTTT
*
5784453 TTTATCTTCTTT
1 TTT-TCTTTTTT
* *
5784465 TTTCCTTGTTT
1 TTTTCTTTTTT
5784476 TTTTCTT
1 TTTTCTT
5784483 GGTTTACGAG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
11 18 0.50
12 7 0.19
13 8 0.22
14 3 0.08
ACGTcount: A:0.04, C:0.15, G:0.02, T:0.80
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:5784772 original size:24 final size:24
Alignment explanation
Indices: 5784725--5784772 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
5784715 ACCTTCACTT
**
5784725 CTGAATATATGTTTAGCCAGAGGA
1 CTGAATATATGTTTAAACAGAGGA
*
5784749 CTGAATATATGTTTAAACATAGGA
1 CTGAATATATGTTTAAACAGAGGA
5784773 AAGAGAGAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (24 bp):
CTGAATATATGTTTAAACAGAGGA
Found at i:5786671 original size:18 final size:18
Alignment explanation
Indices: 5786645--5786679 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5786635 TTCGGATCGT
*
5786645 AAAACGACGACGTTTCCC
1 AAAACGACGACGGTTCCC
*
5786663 AAAATGACGACGGTTCC
1 AAAACGACGACGGTTCC
5786680 AGATTCGTCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.29, G:0.20, T:0.17
Consensus pattern (18 bp):
AAAACGACGACGGTTCCC
Found at i:5793450 original size:17 final size:17
Alignment explanation
Indices: 5793401--5793454 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
5793391 TATAAAATTA
*
5793401 AAATTTAA-TGTATAAT
1 AAATTTAATTATATAAT
5793417 AAA-TTAATTA-ATAAAT
1 AAATTTAATTATAT-AAT
*
5793433 AAATTTTATTATATAAT
1 AAATTTAATTATATAAT
5793450 AAATT
1 AAATT
5793455 AATAAATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
15 6 0.19
16 10 0.31
17 14 0.44
18 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
AAATTTAATTATATAAT
Found at i:5793502 original size:19 final size:17
Alignment explanation
Indices: 5793470--5793516 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 17
5793460 ATATTTTTGA
5793470 ATTATTTATTAAAAACT
1 ATTATTTATTAAAAACT
5793487 ATTATTTGATTTAAAAAC-
1 ATTATTT-A-TTAAAAACT
5793505 ATTGATTTATTA
1 ATT-ATTTATTA
5793517 CTATTAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 10 0.37
18 5 0.19
19 12 0.44
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (17 bp):
ATTATTTATTAAAAACT
Found at i:5800145 original size:22 final size:22
Alignment explanation
Indices: 5800111--5800160 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
5800101 TTTATTTGAT
5800111 AAAA-AATTGATTGATCAATGA
1 AAAATAATTGATTGATCAATGA
*
5800132 AAAATAATTTATTGATCAATGA
1 AAAATAATTGATTGATCAATGA
5800154 AAAATAA
1 AAAATAA
5800161 AGACATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.56, C:0.04, G:0.10, T:0.30
Consensus pattern (22 bp):
AAAATAATTGATTGATCAATGA
Found at i:5800292 original size:18 final size:17
Alignment explanation
Indices: 5800271--5800465 Score: 125
Period size: 18 Copynumber: 11.8 Consensus size: 17
5800261 AATTTTACTG
5800271 ATAAATAATATTATATTA
1 ATAAATAATA-TATATTA
5800289 ATAAATAATATTATAATATATTA
1 AT--A-AATA--AT-ATATATTA
5800312 ATAAATAATATATTATTA
1 ATAAATAATATA-TATTA
5800330 ATAAATAATATA-A-TA
1 ATAAATAATATATATTA
*
5800345 ATAAATATTAT-TAATT-
1 ATAAATAATATAT-ATTA
* *
5800361 -TAAGTAATAAATATT-
1 ATAAATAATATATATTA
*
5800376 AT-AAT-A-ATATATGA
1 ATAAATAATATATATTA
*
5800390 ACAAATAATATATTATTA
1 ATAAATAATATA-TATTA
5800408 ATAAATAATATACTATTA
1 ATAAATAATATA-TATTA
*
5800426 AT--AT-A-ATATATCA
1 ATAAATAATATATATTA
5800439 ATAAA-AAT-TAT-TTA
1 ATAAATAATATATATTA
5800453 ATAAATAATATAT
1 ATAAATAATATAT
5800466 TAATATATTA
Statistics
Matches: 141, Mismatches: 13, Indels: 48
0.70 0.06 0.24
Matches are distributed among these distances:
13 11 0.08
14 12 0.09
15 36 0.26
16 10 0.07
17 7 0.05
18 43 0.30
20 5 0.04
21 5 0.04
23 11 0.08
24 1 0.01
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (17 bp):
ATAAATAATATATATTA
Found at i:5800371 original size:22 final size:21
Alignment explanation
Indices: 5800335--5800486 Score: 82
Period size: 22 Copynumber: 6.9 Consensus size: 21
5800325 TATTAATAAA
5800335 TAATATAATAATAAATATTAT
1 TAATATAATAATAAATATTAT
*
5800356 TAATTTAAGTAATAAATATTAT
1 TAATATAA-TAATAAATATTAT
*
5800378 AATAATATATGAACAAATAATATATTAT
1 --T-A-ATAT-AA-TAATAA-ATATTAT
*
5800406 TAATA-AATAATATACTATTAAT
1 TAATATAATAATA-AATATT-AT
*
5800428 ATAATAT-ATCAATAAAAATTATT
1 -TAATATAAT-AATAAATATTA-T
*
5800451 TAATA-AATAAT--ATATTAA
1 TAATATAATAATAAATATTAT
*
5800469 T-ATATTAATAAAAAATAT
1 TAATA-TAATAATAAATAT
5800487 AAAGAATAAT
Statistics
Matches: 102, Mismatches: 11, Indels: 36
0.68 0.07 0.24
Matches are distributed among these distances:
17 3 0.03
18 1 0.01
19 10 0.10
21 22 0.22
22 26 0.25
23 12 0.12
24 8 0.08
25 2 0.02
26 4 0.04
27 7 0.07
28 7 0.07
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (21 bp):
TAATATAATAATAAATATTAT
Found at i:5800465 original size:78 final size:78
Alignment explanation
Indices: 5800287--5800434 Score: 215
Period size: 78 Copynumber: 1.9 Consensus size: 78
5800277 AATATTATAT
* * * *
5800287 TAATAAATAATATTATAATATATTAATAAATAATATATTATTAATAAATAATATAATAATAAATA
1 TAATAAATATTATAATAATATATGAACAAATAATATATTATTAATAAATAATATAATAATAAATA
* *
5800352 TTATTAATTTAAG
66 ATATTAATTCAAG
* *
5800365 TAATAAATATTATAATAATATATGAACAAATAATATATTATTAATAAATAATATACTATTAATAT
1 TAATAAATATTATAATAATATATGAACAAATAATATATTATTAATAAATAATATAATAATAA-AT
5800430 AATAT
65 AATAT
5800435 ATCAATAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
78 56 0.90
79 6 0.10
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (78 bp):
TAATAAATATTATAATAATATATGAACAAATAATATATTATTAATAAATAATATAATAATAAATA
ATATTAATTCAAG
Found at i:5800470 original size:15 final size:15
Alignment explanation
Indices: 5800301--5800470 Score: 127
Period size: 15 Copynumber: 10.9 Consensus size: 15
5800291 AAATAATATT
5800301 ATAATATATTAATAA
1 ATAATATATTAATAA
5800316 ATAATATATTATTAATAA
1 AT-A-ATA-TATTAATAA
*
5800334 ATAATATAATAATAA
1 ATAATATATTAATAA
5800349 AT-AT-TATTAATTTAA
1 ATAATATATTAA--TAA
*
5800364 GTAATAAATATT-AT-A
1 ATAAT--ATATTAATAA
* *
5800379 ATAATATATGAACAA
1 ATAATATATTAATAA
5800394 ATAATATATTATTAATAA
1 AT-A-ATA-TATTAATAA
* *
5800412 ATAATATACTATTAA
1 ATAATATATTAATAA
*
5800427 TATAATATATCAATAA
1 -ATAATATATTAATAA
5800443 A-AAT-TATTTAATAA
1 ATAATATA-TTAATAA
5800457 ATAATATATTAATA
1 ATAATATATTAATA
5800471 TATTAATAAA
Statistics
Matches: 123, Mismatches: 14, Indels: 36
0.71 0.08 0.21
Matches are distributed among these distances:
13 11 0.09
14 13 0.11
15 41 0.33
16 25 0.20
17 8 0.07
18 21 0.17
19 4 0.03
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (15 bp):
ATAATATATTAATAA
Found at i:5800545 original size:19 final size:19
Alignment explanation
Indices: 5800518--5800585 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 19
5800508 TTTTAAGTAT
*
5800518 TTTTTATATTAAAATAATA
1 TTTTAATATTAAAATAATA
*
5800537 TTTTAATATT-AAATATTA
1 TTTTAATATTAAAATAATA
* * * *
5800555 TTATTAA-AATATAATTATT
1 TT-TTAATATTAAAATAATA
5800574 TTTTAATATTAA
1 TTTTAATATTAA
5800586 TAATCTTAAT
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
18 15 0.41
19 22 0.59
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTTAATATTAAAATAATA
Found at i:5800589 original size:20 final size:19
Alignment explanation
Indices: 5800515--5800585 Score: 67
Period size: 18 Copynumber: 3.8 Consensus size: 19
5800505 TTATTTTAAG
5800515 TATTTTTT-ATATTAAAAT
1 TATTTTTTAATATTAAAAT
* *
5800533 AATATTTTAATATTAAATAT
1 TATTTTTTAATATTAAA-AT
* * *
5800553 TA-TTATTAA-AATATAAT
1 TATTTTTTAATATTAAAAT
5800570 TATTTTTTAATATTAA
1 TATTTTTTAATATTAA
5800586 TAATCTTAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 7
0.70 0.18 0.12
Matches are distributed among these distances:
17 4 0.10
18 16 0.41
19 16 0.41
20 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TATTTTTTAATATTAAAAT
Found at i:5800620 original size:26 final size:24
Alignment explanation
Indices: 5800591--5800646 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 24
5800581 ATTAATAATC
5800591 TTAATAATAAATAATTTCAATGTATT
1 TTAATAATAAATAATTTCAA--TATT
*
5800617 TTAATAATAAATAATTTTAATATT
1 TTAATAATAAATAATTTCAATATT
5800641 TTAATA
1 TTAATA
5800647 GTTATATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 10 0.34
26 19 0.66
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (24 bp):
TTAATAATAAATAATTTCAATATT
Found at i:5800737 original size:16 final size:16
Alignment explanation
Indices: 5800716--5800747 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
5800706 AAATATTTTT
*
5800716 CATTAATTTATCCAAA
1 CATTAACTTATCCAAA
5800732 CATTAACTTATCCAAA
1 CATTAACTTATCCAAA
5800748 TAACAAAAAA
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:0.44, C:0.22, G:0.00, T:0.34
Consensus pattern (16 bp):
CATTAACTTATCCAAA
Found at i:5804004 original size:21 final size:21
Alignment explanation
Indices: 5803978--5804017 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
5803968 GGTAATGGCC
5803978 ACCATTTTTTCGTCTTCAAGT
1 ACCATTTTTTCGTCTTCAAGT
*
5803999 ACCATTTTTTCTTCTTCAA
1 ACCATTTTTTCGTCTTCAA
5804018 ATCTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.25, G:0.05, T:0.50
Consensus pattern (21 bp):
ACCATTTTTTCGTCTTCAAGT
Found at i:5805059 original size:18 final size:16
Alignment explanation
Indices: 5805024--5805066 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 16
5805014 GAAAAAGTGA
5805024 TTTTTTTTTTCAATTT
1 TTTTTTTTTTCAATTT
*
5805040 TTTTTATTTATTCCATTT
1 TTTTT-TTT-TTCAATTT
5805058 TTTCTTTTT
1 TTT-TTTTT
5805067 GTGTTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 5 0.22
17 3 0.13
18 13 0.57
19 2 0.09
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTTTTTCAATTT
Found at i:5805350 original size:120 final size:120
Alignment explanation
Indices: 5805189--5805622 Score: 568
Period size: 121 Copynumber: 3.6 Consensus size: 120
5805179 AAAATATGAT
* * *
5805189 AAAAATAAAATCATAATTGGTGA-TTTATTAAAAATATTTACATAGAGAAATTTTCTAAAATATT
1 AAAAATAAAATCACAAGTGGTGATTTTATTAAAAATATTTACATAAAGAAATTTTCTAAAATATT
* *
5805253 CTAAAAGTGTTAGAAATATTTTAAAACTTTTCAAGTATAAAAAAATTATTAATAA
66 CTAAAAGTGTTAGAAATATTTTAAAATTTTTCAAGCATAAAAAAATTATTAATAA
*
5805308 AAAAATAAAATCACAAGTGGTGATTTTATTAAAAATACTTACATAAAGAAATTTTCTAAAATATT
1 AAAAATAAAATCACAAGTGGTGATTTTATTAAAAATATTTACATAAAGAAATTTTCTAAAATATT
*
5805373 CTAAAAGTGTTAGAAATATTTTCAAAATTTTTTCAAGCATAAAAAAATCATTAAT-A
66 CTAAAAGTGTTAGAAATATTTT-AAAA-TTTTTCAAGCATAAAAAAATTATTAATAA
* * * * * *
5805429 AGAAATAAAATCACAATTGGTGATTTTATTAAAAAGATTTTCACAAA-AATATTTTTTAAAATAT
1 AAAAATAAAATCACAAGTGGTGATTTTATTAAAAATATTTACATAAAGAA-ATTTTCTAAAATAT
* * * * *
5805493 TATAAAAGTATTAAAAATATTTTAGAATTTTTGCAAGCGTAAAAAATATTATTAATAA
65 TCTAAAAGTGTTAGAAATATTTTAAAATTTTT-CAAGCATAAAAAA-ATTATTAATAA
* * * * * * *
5805551 AAAAATAAAGTCACAAGTAGTGATTTTATTAAAAATATTGATATAAAGAATTTTTTTAAAGTATT
1 AAAAATAAAATCACAAGTGGTGATTTTATTAAAAATATTTACATAAAGAAATTTTCTAAAATATT
5805616 CTTAAAA
66 C-TAAAA
5805623 TACATATTTA
Statistics
Matches: 274, Mismatches: 32, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
119 26 0.09
120 78 0.28
121 87 0.32
122 76 0.28
123 7 0.03
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.37
Consensus pattern (120 bp):
AAAAATAAAATCACAAGTGGTGATTTTATTAAAAATATTTACATAAAGAAATTTTCTAAAATATT
CTAAAAGTGTTAGAAATATTTTAAAATTTTTCAAGCATAAAAAAATTATTAATAA
Found at i:5810964 original size:24 final size:25
Alignment explanation
Indices: 5810917--5810965 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
5810907 GTATTTGATT
*
5810917 ATTATATATTATTATTATGAATTTA
1 ATTATATATTATTATCATGAATTTA
*
5810942 ATTATATA-TATTATCATGTATTTA
1 ATTATATATTATTATCATGAATTTA
5810966 TATGCATCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (25 bp):
ATTATATATTATTATCATGAATTTA
Found at i:5811946 original size:23 final size:23
Alignment explanation
Indices: 5811913--5811963 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 23
5811903 GATTTATCCT
5811913 AAATATTTTTTATAGTTTA-GGTAAA
1 AAATA-TTTTTA-A-TTTATGGTAAA
*
5811938 AAATATTTTTAATTTATGTTAAA
1 AAATATTTTTAATTTATGGTAAA
5811961 AAA
1 AAA
5811964 GATGTTGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 4 0.17
23 9 0.38
24 6 0.25
25 5 0.21
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (23 bp):
AAATATTTTTAATTTATGGTAAA
Found at i:5813240 original size:15 final size:16
Alignment explanation
Indices: 5813221--5813255 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
5813211 ATTTAACAAT
*
5813221 TTTTTTAATATATTTA
1 TTTTATAATATATTTA
5813237 TTTTCATAATATATTTA
1 TTTT-ATAATATATTTA
5813254 TT
1 TT
5813256 AACACATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTATAATATATTTA
Found at i:5813997 original size:23 final size:23
Alignment explanation
Indices: 5813971--5814033 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 23
5813961 AGCATTTTTG
5813971 TAATATATTTATTAATACATAAA
1 TAATATATTTATTAATACATAAA
* * **
5813994 TAAT-TAATTTTTTAATATATTTA
1 TAATAT-ATTTATTAATACATAAA
5814017 T-ATATATTTATATAATA
1 TAATATATTTAT-TAATA
5814034 TGTAACTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
22 8 0.25
23 24 0.75
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
TAATATATTTATTAATACATAAA
Found at i:5816369 original size:20 final size:20
Alignment explanation
Indices: 5816344--5816393 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
5816334 TTTTCACTAA
5816344 AAGGGTCAGAAAGAAATTAT
1 AAGGGTCAGAAAGAAATTAT
5816364 AAGGGTCAGAAAGAAATTAT
1 AAGGGTCAGAAAGAAATTAT
*
5816384 AAGGATCAGA
1 AAGGGTCAGA
5816394 TATAGTAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.50, C:0.06, G:0.26, T:0.18
Consensus pattern (20 bp):
AAGGGTCAGAAAGAAATTAT
Found at i:5818018 original size:63 final size:63
Alignment explanation
Indices: 5817951--5818218 Score: 294
Period size: 63 Copynumber: 4.3 Consensus size: 63
5817941 GGTTACCATG
* * * * *
5817951 AAAAATGCCTTAAATAATTATTTTATAATTTTATAAATTGATTATTTAAGACATTTTTGTATA
1 AAAAATACCTTAAATAATTATTTTATATTTTTATAAATAGATTATTTAAGATATTTTTATATA
** * *
5818014 AAAAATATTTTAAATAATTTTTTTATATTTTTATAAA-AGTATTATTTAA-AGTGTTTTTATATA
1 AAAAATACCTTAAATAATTATTTTATATTTTTATAAATAG-ATTATTTAAGA-TATTTTTATATA
* * * * * * *
5818077 GAAAATGCCTTAAATAAATATTTTATATTTTTATAAAAATATTATTTAAGGTATTTTCTATA-C
1 AAAAATACCTTAAATAATTATTTTATATTTTTATAAATAGATTATTTAAGATATTTT-TATATA
* * **
5818140 AAAAATACCTTAAATAATCATTTTATATTTTTATAAATAGA-TATTTAAGA-GTTTTTATACG
1 AAAAATACCTTAAATAATTATTTTATATTTTTATAAATAGATTATTTAAGATATTTTTATATA
5818201 AAAAATACCTTAAATAAT
1 AAAAATACCTTAAATAAT
5818219 CCTTATATTT
Statistics
Matches: 171, Mismatches: 28, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
60 4 0.02
61 22 0.13
62 10 0.06
63 130 0.76
64 5 0.03
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.47
Consensus pattern (63 bp):
AAAAATACCTTAAATAATTATTTTATATTTTTATAAATAGATTATTTAAGATATTTTTATATA
Found at i:5818153 original size:126 final size:124
Alignment explanation
Indices: 5817950--5818217 Score: 337
Period size: 126 Copynumber: 2.1 Consensus size: 124
5817940 GGGTTACCAT
* * *
5817950 GAAAAATGCCTTAAATAATTATTTTATAATTTTATAAATTGATTATTTAAGACATTTTTGTATAA
1 GAAAAATGCCTTAAATAAATATTTTATAATTTTATAAAATGATTATTTAAGACATTTTTCTATAA
** ** *
5818015 AAAATATTTTAAATAATTTTTTTATATTTTTATAAA-AGTATTATTTAAAGTGTTTTTATATA
66 AAAATACCTTAAATAATCATTTTATATTTTTATAAATAG-A-TATTT-AAGAGTTTTTATA-A
* **
5818077 G-AAAATGCCTTAAATAAATATTTTATATTTTTATAAAAAT-ATTATTTAAGGTA-TTTTCTATA
1 GAAAAATGCCTTAAATAAATATTTTATAATTTTAT-AAAATGATTATTTAAGACATTTTTCTATA
*
5818139 CAAAAATACCTTAAATAATCATTTTATATTTTTATAAATAGATATTTAAGAGTTTTTATAC
65 -AAAAATACCTTAAATAATCATTTTATATTTTTATAAATAGATATTTAAGAGTTTTTATAA
*
5818200 GAAAAATACCTTAAATAA
1 GAAAAATGCCTTAAATAA
5818218 TCCTTATATT
Statistics
Matches: 124, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
123 1 0.01
124 27 0.22
125 13 0.10
126 76 0.61
127 7 0.06
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (124 bp):
GAAAAATGCCTTAAATAAATATTTTATAATTTTATAAAATGATTATTTAAGACATTTTTCTATAA
AAAATACCTTAAATAATCATTTTATATTTTTATAAATAGATATTTAAGAGTTTTTATAA
Found at i:5818475 original size:73 final size:73
Alignment explanation
Indices: 5818326--5818475 Score: 160
Period size: 73 Copynumber: 2.1 Consensus size: 73
5818316 TGATTTAGGG
* * *
5818326 TTAATAATTTTATAAAAGAATTATTTAAAGTATTTTTTTATAGAAACACCTTAAATAAGCCATTT
1 TTAATAATTTTATAAAAGAATTATTTAAAGTATTTTTGTACAGAAACAACTTAAATAAGCCATTT
**
5818391 ATAGAGGA
66 ATAGAAAA
* * * * ** *
5818399 TTAATATTTTTATAAAATG-ATTATTTAAGGTGCTTTTTGTACAGAAATAACTTAAATAATTCTT
1 TTAATAATTTTATAAAA-GAATTATTTAAAGT-ATTTTTGTACAGAAACAACTTAAATAAGCCAT
5818463 TTATA-AAAA
64 TTATAGAAAA
5818472 TTAA
1 TTAA
5818476 AAGGATAATT
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
73 33 0.52
74 30 0.48
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.43
Consensus pattern (73 bp):
TTAATAATTTTATAAAAGAATTATTTAAAGTATTTTTGTACAGAAACAACTTAAATAAGCCATTT
ATAGAAAA
Found at i:5818487 original size:62 final size:62
Alignment explanation
Indices: 5818411--5818534 Score: 151
Period size: 62 Copynumber: 2.0 Consensus size: 62
5818401 AATATTTTTA
* * * * *
5818411 TAAAATGATTATTTAAGGTGCTTTTTGTACAGAAATAACTTAAATAAT-TCTTTTATAAAAAT
1 TAAAAGGATAATTTAAAGTACTTTTTGTACAGAAACAACTTAAATAATCT-TTTTATAAAAAT
* * * *
5818473 TAAAAGGATAATTTAAAGTATTTTTTGTATATAAACACCTTAAATAATCTTTTTATAAAAAT
1 TAAAAGGATAATTTAAAGTACTTTTTGTACAGAAACAACTTAAATAATCTTTTTATAAAAAT
5818535 ATTAACTTTA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
62 51 0.98
63 1 0.02
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (62 bp):
TAAAAGGATAATTTAAAGTACTTTTTGTACAGAAACAACTTAAATAATCTTTTTATAAAAAT
Found at i:5827620 original size:24 final size:21
Alignment explanation
Indices: 5827571--5827625 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 21
5827561 ATATTGGTTT
5827571 ATAAAAAATAAACAAAAATAA
1 ATAAAAAATAAACAAAAATAA
*
5827592 ATAAACAAATAAACAGATAGATAA
1 ATAAA-AAATAAACA-A-AAATAA
*
5827616 ATAAATAATA
1 ATAAAAAATA
5827626 CCTTAGCTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 5 0.17
22 9 0.31
23 5 0.17
24 10 0.34
ACGTcount: A:0.73, C:0.05, G:0.04, T:0.18
Consensus pattern (21 bp):
ATAAAAAATAAACAAAAATAA
Found at i:5833623 original size:52 final size:54
Alignment explanation
Indices: 5833559--5833662 Score: 140
Period size: 53 Copynumber: 2.0 Consensus size: 54
5833549 CTTAAATATT
* * *
5833559 TTTGAAACA-TTTTTCATTTTAGGAAAATTAATACTTT-ACTTTTTCTCAAACA
1 TTTGAAACATTTTTTCATTTAAGAAAAATCAATACTTTAACTTTTTCTCAAACA
* * *
5833611 TTTGAAATATTTTTTTATTTAATAAAAATCAATACTTTAACTTTTTCTCAAA
1 TTTGAAACATTTTTTCATTTAAGAAAAATCAATACTTTAACTTTTTCTCAAA
5833663 ACAATTCTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
52 8 0.18
53 23 0.52
54 13 0.30
ACGTcount: A:0.37, C:0.12, G:0.04, T:0.48
Consensus pattern (54 bp):
TTTGAAACATTTTTTCATTTAAGAAAAATCAATACTTTAACTTTTTCTCAAACA
Found at i:5833730 original size:14 final size:15
Alignment explanation
Indices: 5833711--5833739 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
5833701 AAAAAAATCC
5833711 TTTGAAAT-TTTTTT
1 TTTGAAATATTTTTT
5833725 TTTGAAATATTTTTT
1 TTTGAAATATTTTTT
5833740 AATTTAAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (15 bp):
TTTGAAATATTTTTT
Found at i:5852627 original size:4 final size:4
Alignment explanation
Indices: 5852606--5852648 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
5852596 CCTAGCGAAT
* * *
5852606 ATAC ACAC ACAC ACAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
5852649 TATATATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.51, C:0.30, G:0.00, T:0.19
Consensus pattern (4 bp):
ATAC
Found at i:5857627 original size:14 final size:14
Alignment explanation
Indices: 5857596--5857629 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
5857586 TTAAATAAAC
*
5857596 AAATAATTATTTAA
1 AAATAATTATTCAA
*
5857610 AAATAATTATTCAT
1 AAATAATTATTCAA
5857624 AAATAA
1 AAATAA
5857630 GTTACTCATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (14 bp):
AAATAATTATTCAA
Found at i:5857816 original size:22 final size:22
Alignment explanation
Indices: 5857747--5857816 Score: 88
Period size: 22 Copynumber: 3.1 Consensus size: 22
5857737 TTTTATTTAA
*
5857747 TTTAATTTTTAATTTAAAA-AT
1 TTTAATATTTAATTTAAAATAT
* *
5857768 ATTTAAAATATTAATATAAAATAT
1 -TTTAATAT-TTAATTTAAAATAT
5857792 TTTAATATTTAATTTAAAATAT
1 TTTAATATTTAATTTAAAATAT
5857814 TTT
1 TTT
5857817 TATTTTGAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
22 22 0.54
23 17 0.41
24 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTAATATTTAATTTAAAATAT
Found at i:5857850 original size:14 final size:16
Alignment explanation
Indices: 5857824--5857855 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
5857814 TTTTATTTTG
5857824 AATATTTTAAAT-ATA
1 AATATTTTAAATAATA
5857839 AATATTTT-AATAATA
1 AATATTTTAAATAATA
5857854 AA
1 AA
5857856 AAAATTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.19
15 13 0.81
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATATTTTAAATAATA
Found at i:5859624 original size:2 final size:2
Alignment explanation
Indices: 5859617--5859641 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5859607 TGTATCAATT
5859617 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
5859642 AACACGGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:5860727 original size:22 final size:20
Alignment explanation
Indices: 5860701--5860742 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
5860691 TATTTCTTAT
5860701 ATTTTAAGCAATTAAAGATTAA
1 ATTTTAAGCAA-TAAA-ATTAA
*
5860723 ATTTTAATCAATAAAATTAA
1 ATTTTAAGCAATAAAATTAA
5860743 TGTTTCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 4 0.21
22 10 0.53
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (20 bp):
ATTTTAAGCAATAAAATTAA
Found at i:5862339 original size:76 final size:76
Alignment explanation
Indices: 5862251--5862392 Score: 207
Period size: 76 Copynumber: 1.9 Consensus size: 76
5862241 TTTATAAATT
* *
5862251 TATATAACAATTTTATTAACATTTTAATTGA-AAATTTTTATTAGTTTTAATCATGGTGTCTTAT
1 TATATAACAATTTTATTAACATTTTAA-TCATAAATTTTTATTAGTTTTAATCATGATGTCTTAT
5862315 ATGAATTTAACA
65 ATGAATTTAACA
* * *
5862327 TATAT-ACAAATTTTATTGACATTTTAATCATAATTTTTTATTAGTTTTAATCATTATGTCTTAT
1 TATATAAC-AATTTTATTAACATTTTAATCATAAATTTTTATTAGTTTTAATCATGATGTCTTAT
5862391 AT
65 AT
5862393 TAACTTAGCG
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
75 4 0.07
76 55 0.93
ACGTcount: A:0.35, C:0.07, G:0.06, T:0.51
Consensus pattern (76 bp):
TATATAACAATTTTATTAACATTTTAATCATAAATTTTTATTAGTTTTAATCATGATGTCTTATA
TGAATTTAACA
Found at i:5862711 original size:2 final size:2
Alignment explanation
Indices: 5862704--5862743 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
5862694 ATATCCTCGT
5862704 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
5862744 CTTGTCCCCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:5868966 original size:21 final size:21
Alignment explanation
Indices: 5868924--5868966 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
5868914 TTATAATTGA
*
5868924 AATTATTAGAAATTAAATTTT
1 AATTATTAGAAATTAAAGTTT
5868945 AATTATTA-AAATTAATAGTTT
1 AATTATTAGAAATTAA-AGTTT
5868966 A
1 A
5868967 CTAATAGATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (21 bp):
AATTATTAGAAATTAAAGTTT
Found at i:5873125 original size:15 final size:16
Alignment explanation
Indices: 5873107--5873139 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
5873097 TTATGTCATT
*
5873107 TATAATTTTTA-ATGA
1 TATAAATTTTATATGA
5873122 TATAAATTTTATATGA
1 TATAAATTTTATATGA
5873138 TA
1 TA
5873140 ATTTGTAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (16 bp):
TATAAATTTTATATGA
Found at i:5883626 original size:12 final size:12
Alignment explanation
Indices: 5883609--5883633 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5883599 TCACTTTATG
5883609 TTATCAATAAAA
1 TTATCAATAAAA
5883621 TTATCAATAAAA
1 TTATCAATAAAA
5883633 T
1 T
5883634 AAAATTGTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (12 bp):
TTATCAATAAAA
Found at i:5884672 original size:21 final size:21
Alignment explanation
Indices: 5884648--5884821 Score: 79
Period size: 21 Copynumber: 8.2 Consensus size: 21
5884638 TCTTCGATAA
*
5884648 AATTTTGGTAACTTTTAATAT
1 AATTTTAGTAACTTTTAATAT
*
5884669 AATTTTAGT-ATTTTTCAATATT
1 AATTTTAGTAACTTTT-AATA-T
* *
5884691 AA-TTTAGCAACTTATAATAT
1 AATTTTAGTAACTTTTAATAT
* ** * *
5884711 AATTTTTGTAACCATTGATAC
1 AATTTTAGTAACTTTTAATAT
* *
5884732 AATTTTATTAATCTTTGATAAAAT
1 AATTTTAGTAA-CTTT--TAATAT
** *
5884756 TTTTTTAGT--CTTTTAATGT
1 AATTTTAGTAACTTTTAATAT
* * *
5884775 AATTTTGGTAACTTATAATGT
1 AATTTTAGTAACTTTTAATAT
* * *
5884796 AATTGTGGTAA-TTATTAATAG
1 AATTTTAGTAACTT-TTAATAT
5884817 AATTT
1 AATTT
5884822 GTGTCATTAT
Statistics
Matches: 110, Mismatches: 33, Indels: 20
0.67 0.20 0.12
Matches are distributed among these distances:
19 10 0.09
20 10 0.09
21 72 0.65
22 9 0.08
24 9 0.08
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (21 bp):
AATTTTAGTAACTTTTAATAT
Found at i:5885087 original size:22 final size:22
Alignment explanation
Indices: 5885018--5885225 Score: 134
Period size: 22 Copynumber: 9.4 Consensus size: 22
5885008 AAAAATTAAG
**
5885018 TTATTAATGATTTACTACTGTA
1 TTATTAATGATTTACTACTAAA
* * * *
5885040 TTAATAGTGAATTACTACTAAG
1 TTATTAATGATTTACTACTAAA
*
5885062 TTATTAATGATTTATTACTAAA
1 TTATTAATGATTTACTACTAAA
* **
5885084 TTATCAATGATTTACTGTTAAA
1 TTATTAATGATTTACTACTAAA
* * *
5885106 ATATAAATGATTTATTACTAAA
1 TTATTAATGATTTACTACTAAA
* * * * *
5885128 CTATTGATGTTTTAGTACTATA
1 TTATTAATGATTTACTACTAAA
* * * *
5885150 TAACTAATCATTTATTA-TAAA
1 TTATTAATGATTTACTACTAAA
*
5885171 GTTA-TAGTTGATTTACTACTAAA
1 -TTATTA-ATGATTTACTACTAAA
*
5885194 TTTTATTAATGATTTAATAC-AAA
1 --TTATTAATGATTTACTACTAAA
5885217 GTTATTAAT
1 -TTATTAAT
5885226 AATTAAATAA
Statistics
Matches: 139, Mismatches: 42, Indels: 10
0.73 0.22 0.05
Matches are distributed among these distances:
21 5 0.04
22 112 0.81
23 7 0.05
24 13 0.09
25 2 0.01
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (22 bp):
TTATTAATGATTTACTACTAAA
Found at i:5885260 original size:22 final size:22
Alignment explanation
Indices: 5885235--5885472 Score: 102
Period size: 22 Copynumber: 10.9 Consensus size: 22
5885225 TAATTAAATA
*
5885235 ATTTACTATTAAATTATCATTT
1 ATTTACTACTAAATTATCATTT
* * * * *
5885257 ATTTACTGCTATATTATTAGTG
1 ATTTACTACTAAATTATCATTT
* * *
5885279 ATTTCCTACTAAATTATAAATT
1 ATTTACTACTAAATTATCATTT
* * * **
5885301 ATTTACTA-TTAGTTATTATAC
1 ATTTACTACTAAATTATCATTT
* ** *
5885322 ATTTATTACTATGTTATCACTT
1 ATTTACTACTAAATTATCATTT
* * * * *
5885344 ATTTACTGCTACATTATTAGTG
1 ATTTACTACTAAATTATCATTT
* *
5885366 ATTT-CTTACTAAATTATAAATT
1 ATTTAC-TACTAAATTATCATTT
* ** * **
5885388 ATTTACTATTATGTTATTATAC
1 ATTTACTACTAAATTATCATTT
* **
5885410 ATTTATTACTATGTTATCATTT
1 ATTTACTACTAAATTATCATTT
* * * *
5885432 ATTTACTACTTAGTTTTCAATT
1 ATTTACTACTAAATTATCATTT
*
5885454 ATTTACTACAAAATTATCA
1 ATTTACTACTAAATTATCA
5885473 CAAATTTGAT
Statistics
Matches: 154, Mismatches: 59, Indels: 6
0.70 0.27 0.03
Matches are distributed among these distances:
21 15 0.10
22 138 0.90
23 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.05, T:0.51
Consensus pattern (22 bp):
ATTTACTACTAAATTATCATTT
Found at i:5885292 original size:44 final size:44
Alignment explanation
Indices: 5885235--5885438 Score: 164
Period size: 44 Copynumber: 4.7 Consensus size: 44
5885225 TAATTAAATA
* * * *
5885235 ATTTACTATTAAATTATCATTTATTTACTGCTATATTATTAGT-G
1 ATTTATTACTAAATTATCAATTATTTACTGCTATATTATTA-TAC
** * *
5885279 ATTTCCTACTAAATTATAAATTATTTACT-AT-TAGTTATTATAC
1 ATTTATTACTAAATTATCAATTATTTACTGCTATA-TTATTATAC
** * * *
5885322 ATTTATTACTATGTTATCACTTATTTACTGCTACATTATTAGT-G
1 ATTTATTACTAAATTATCAATTATTTACTGCTATATTATTA-TAC
* * ** *
5885366 ATTTCTTACTAAATTATAAATTATTTACTATTATGTTATTATAC
1 ATTTATTACTAAATTATCAATTATTTACTGCTATATTATTATAC
** *
5885410 ATTTATTACTATGTTATCATTTATTTACT
1 ATTTATTACTAAATTATCAATTATTTACT
5885439 ACTTAGTTTT
Statistics
Matches: 124, Mismatches: 30, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
42 3 0.02
43 31 0.25
44 88 0.71
45 2 0.02
ACGTcount: A:0.32, C:0.11, G:0.05, T:0.52
Consensus pattern (44 bp):
ATTTATTACTAAATTATCAATTATTTACTGCTATATTATTATAC
Found at i:5885381 original size:87 final size:88
Alignment explanation
Indices: 5885248--5885438 Score: 348
Period size: 87 Copynumber: 2.2 Consensus size: 88
5885238 TACTATTAAA
*
5885248 TTATCATTTATTTACTGCTATATTATTAGTGATTTCCTACTAAATTATAAATTATTTACTATTA-
1 TTATCATTTATTTACTGCTACATTATTAGTGATTTCCTACTAAATTATAAATTATTTACTATTAT
5885312 GTTATTATACATTTATTACTATG
66 GTTATTATACATTTATTACTATG
* *
5885335 TTATCACTTATTTACTGCTACATTATTAGTGATTTCTTACTAAATTATAAATTATTTACTATTAT
1 TTATCATTTATTTACTGCTACATTATTAGTGATTTCCTACTAAATTATAAATTATTTACTATTAT
5885400 GTTATTATACATTTATTACTATG
66 GTTATTATACATTTATTACTATG
5885423 TTATCATTTATTTACT
1 TTATCATTTATTTACT
5885439 ACTTAGTTTT
Statistics
Matches: 99, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
87 61 0.62
88 38 0.38
ACGTcount: A:0.31, C:0.11, G:0.05, T:0.52
Consensus pattern (88 bp):
TTATCATTTATTTACTGCTACATTATTAGTGATTTCCTACTAAATTATAAATTATTTACTATTAT
GTTATTATACATTTATTACTATG
Found at i:5885439 original size:44 final size:43
Alignment explanation
Indices: 5885292--5885446 Score: 168
Period size: 44 Copynumber: 3.5 Consensus size: 43
5885282 TCCTACTAAA
*
5885292 TTATAAATTATTTACTATTAGTTATTATACATTTATTACTATG
1 TTATCAATTATTTACTATTAGTTATTATACATTTATTACTATG
* ** * * * **
5885335 TTATCACTTATTTACTGCTACATTATTAGT-GATTTCTTACTAAA
1 TTATCAATTATTTACTATTA-GTTATTA-TACATTTATTACTATG
*
5885379 TTATAAATTATTTACTATTATGTTATTATACATTTATTACTATG
1 TTATCAATTATTTACTATTA-GTTATTATACATTTATTACTATG
*
5885423 TTATCATTTATTTACTACTTAGTT
1 TTATCAATTATTTACTA-TTAGTT
5885447 TTCAATTATT
Statistics
Matches: 87, Mismatches: 21, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
43 17 0.20
44 66 0.76
45 4 0.05
ACGTcount: A:0.32, C:0.10, G:0.05, T:0.53
Consensus pattern (43 bp):
TTATCAATTATTTACTATTAGTTATTATACATTTATTACTATG
Found at i:5885565 original size:22 final size:22
Alignment explanation
Indices: 5885507--5885679 Score: 108
Period size: 22 Copynumber: 8.0 Consensus size: 22
5885497 TCCTCACTGC
5885507 TAAGTTATT-ATTGATTTA-TAT
1 TAAGTTATTGA-TGATTTACTAT
** **
5885528 TAAACTATCCATGATTTACTAT
1 TAAGTTATTGATGATTTACTAT
* *
5885550 TTAGTT-TTCG-TCGATTAACTAT
1 TAAGTTATT-GAT-GATTTACTAT
5885572 TAAGTTATTGATGATTTACTAT
1 TAAGTTATTGATGATTTACTAT
*
5885594 TAAGTTA-T-ATTGATTTACTTT
1 TAAGTTATTGA-TGATTTACTAT
* * * * *
5885615 TATGTTTTTAATGATTAATTAT
1 TAAGTTATTGATGATTTACTAT
* * *
5885637 TAAATTA-TCATTGATTTACTAC
1 TAAGTTATTGA-TGATTTACTAT
*
5885659 TAAGTTATTTATGATTTACTA
1 TAAGTTATTGATGATTTACTA
5885680 AGTTTATCAA
Statistics
Matches: 115, Mismatches: 26, Indels: 21
0.71 0.16 0.13
Matches are distributed among these distances:
20 1 0.01
21 33 0.29
22 75 0.65
23 6 0.05
ACGTcount: A:0.32, C:0.08, G:0.09, T:0.51
Consensus pattern (22 bp):
TAAGTTATTGATGATTTACTAT
Found at i:5885611 original size:65 final size:67
Alignment explanation
Indices: 5885538--5885679 Score: 168
Period size: 65 Copynumber: 2.2 Consensus size: 67
5885528 TAAACTATCC
** * * *
5885538 ATGATTTACTATTTA-G-TTTTCGTCGATTAACTATTAAGTTATTGA-TGATTTACTATTAAGTT
1 ATGATTTACTATTTATGTTTTTAAT-GATTAACTATTAAATTA-TCATTGATTTACTACTAAGTT
5885600 ATAT
64 ATAT
*
5885604 -TGATTTACT-TTTATGTTTTTAATGATTAATTATTAAATTATCATTGATTTACTACTAAGTTAT
1 ATGATTTACTATTTATGTTTTTAATGATTAACTATTAAATTATCATTGATTTACTACTAAGTTAT
*
5885667 TT
66 AT
5885669 ATGATTTACTA
1 ATGATTTACTA
5885680 AGTTTATCAA
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
64 6 0.09
65 44 0.69
66 14 0.22
ACGTcount: A:0.31, C:0.07, G:0.10, T:0.52
Consensus pattern (67 bp):
ATGATTTACTATTTATGTTTTTAATGATTAACTATTAAATTATCATTGATTTACTACTAAGTTAT
AT
Found at i:5885751 original size:11 final size:11
Alignment explanation
Indices: 5885735--5885803 Score: 59
Period size: 11 Copynumber: 6.3 Consensus size: 11
5885725 AAGTTGTCAC
5885735 TAATTTATTAT
1 TAATTTATTAT
5885746 TAATTTATCT-T
1 TAATTTAT-TAT
*
5885757 TAATTTATTAC
1 TAATTTATTAT
* *
5885768 TAAGTTATTAA
1 TAATTTATTAT
* * *
5885779 TAATTAACTAC
1 TAATTTATTAT
*
5885790 TAAGTTATTAT
1 TAATTTATTAT
5885801 TAA
1 TAA
5885804 AAAAAATAAA
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
10 1 0.02
11 43 0.96
12 1 0.02
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (11 bp):
TAATTTATTAT
Found at i:5885782 original size:22 final size:22
Alignment explanation
Indices: 5885735--5885799 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
5885725 AAGTTGTCAC
* * *
5885735 TAATTTATTATTAATTTATCT-T
1 TAATTTATTACTAAGTTAT-TAA
5885757 TAATTTATTACTAAGTTATTAA
1 TAATTTATTACTAAGTTATTAA
* *
5885779 TAATTAACTACTAAGTTATTA
1 TAATTTATTACTAAGTTATTA
5885800 TTAAAAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 1 0.03
22 36 0.97
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.52
Consensus pattern (22 bp):
TAATTTATTACTAAGTTATTAA
Found at i:5886168 original size:25 final size:22
Alignment explanation
Indices: 5886118--5886171 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 22
5886108 AAGTTATCAT
* *
5886118 TAATTTACTACTATATTATTAT
1 TAATTTACTACTATATTACTAC
5886140 TAATTTACTACTGAGCTATTACTAC
1 TAATTTACTACT-A--TATTACTAC
5886165 TAATTTA
1 TAATTTA
5886172 TAAATGATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 12 0.44
23 1 0.04
25 14 0.52
ACGTcount: A:0.35, C:0.13, G:0.04, T:0.48
Consensus pattern (22 bp):
TAATTTACTACTATATTACTAC
Found at i:5886196 original size:22 final size:22
Alignment explanation
Indices: 5886158--5886214 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
5886148 TACTGAGCTA
* *
5886158 TTACTACTAATTTATAAATGAT
1 TTACTATTAAATTATAAATGAT
5886180 TTA-TCATTAAATTATAAATGAT
1 TTACT-ATTAAATTATAAATGAT
5886202 TTACTATTAAATT
1 TTACTATTAAATT
5886215 TTTTATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 1 0.03
22 29 0.94
23 1 0.03
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (22 bp):
TTACTATTAAATTATAAATGAT
Found at i:5886823 original size:29 final size:29
Alignment explanation
Indices: 5886765--5886823 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
5886755 AGTTAACAAA
* * *
5886765 TTTATAATTTAGATGCCATATTACAGATT
1 TTTAAAATTTAGATACCATATTACACATT
*
5886794 TTTAAAATTTAGATATCATATTGA-ACATT
1 TTTAAAATTTAGATACCATATT-ACACATT
5886823 T
1 T
5886824 CATTATAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.46
Consensus pattern (29 bp):
TTTAAAATTTAGATACCATATTACACATT
Found at i:5886888 original size:22 final size:22
Alignment explanation
Indices: 5886861--5887039 Score: 122
Period size: 22 Copynumber: 8.2 Consensus size: 22
5886851 ATTAATCCTA
*
5886861 TATTAAATTATTCA-TGATTTAC
1 TATTAAGTTATT-ATTGATTTAC
* *
5886883 TATTAAGTTATTACTGATTAAC
1 TATTAAGTTATTATTGATTTAC
5886905 TATT-AGTTATTAATTG-TTTAC
1 TATTAAGTTATT-ATTGATTTAC
*
5886926 TACTAAGTTA-TATTGATTTAC
1 TATTAAGTTATTATTGATTTAC
* *
5886947 TCTTAAGTT-TTCAATT-ATTAAC
1 TATTAAGTTATT--ATTGATTTAC
* * * * *
5886969 TACTAAATTATCAATT-CTATAC
1 TATTAAGTTAT-TATTGATTTAC
5886991 TATTAAGTTATTATTGATTTAC
1 TATTAAGTTATTATTGATTTAC
* * *
5887013 CATTAAATTATT-TATAATTTAC
1 TATTAAGTTATTAT-TGATTTAC
5887035 TATTA
1 TATTA
5887040 TCAATTAATT
Statistics
Matches: 122, Mismatches: 24, Indels: 22
0.73 0.14 0.13
Matches are distributed among these distances:
20 4 0.03
21 33 0.27
22 81 0.66
23 4 0.03
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (22 bp):
TATTAAGTTATTATTGATTTAC
Found at i:5886971 original size:43 final size:42
Alignment explanation
Indices: 5886881--5886979 Score: 101
Period size: 43 Copynumber: 2.3 Consensus size: 42
5886871 TTCATGATTT
* * *
5886881 ACTATTAAGTTATTACTGATTAACTATTAGTTATTAATTGTTT
1 ACTACTAAGTTA-TACTGATTAACTATTAGTTATTAATTATTA
* * *
5886924 ACTACTAAGTTATATTGATTTACTCTTAAGTT-TTCAATTATTA
1 ACTACTAAGTTATACTGATTAACTATT-AGTTATT-AATTATTA
*
5886967 ACTACTAAATTAT
1 ACTACTAAGTTAT
5886980 CAATTCTATA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
42 14 0.30
43 33 0.70
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.48
Consensus pattern (42 bp):
ACTACTAAGTTATACTGATTAACTATTAGTTATTAATTATTA
Found at i:5887309 original size:22 final size:22
Alignment explanation
Indices: 5887284--5887345 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
5887274 GTTATCAATT
*
5887284 ATTGACTACTAAATTATTATTA
1 ATTGACTACTAAATTATTACTA
* * *
5887306 ATTGACTATTAAGTTATCACTA
1 ATTGACTACTAAATTATTACTA
* *
5887328 ATTTACTACAAAATTATT
1 ATTGACTACTAAATTATT
5887346 CATGATTTAC
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (22 bp):
ATTGACTACTAAATTATTACTA
Found at i:5887316 original size:44 final size:44
Alignment explanation
Indices: 5887268--5887368 Score: 123
Period size: 44 Copynumber: 2.3 Consensus size: 44
5887258 TCTGATGTAG
* *
5887268 TATTAAGTTATCAATTATTGACTACTAAATTATT-ATTAATTGAC
1 TATTAAGTTATCAATAATTGACTACAAAATTATTCA-TAATTGAC
* * * *
5887312 TATTAAGTTATCACTAATTTACTACAAAATTATTCATGATTTAC
1 TATTAAGTTATCAATAATTGACTACAAAATTATTCATAATTGAC
*
5887356 TGTTAAGTTATCA
1 TATTAAGTTATCA
5887369 TTGATTAATG
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
44 48 0.98
45 1 0.02
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.45
Consensus pattern (44 bp):
TATTAAGTTATCAATAATTGACTACAAAATTATTCATAATTGAC
Found at i:5887366 original size:22 final size:23
Alignment explanation
Indices: 5887341--5887388 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
5887331 TACTACAAAA
*
5887341 TTATTCA-TGATTTACTG-TTAAG
1 TTATTCATTGA-TTAATGATTAAG
5887363 TTA-TCATTGATTAATGATTAAG
1 TTATTCATTGATTAATGATTAAG
5887385 TTAT
1 TTAT
5887389 ACTGATTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.50
Consensus pattern (23 bp):
TTATTCATTGATTAATGATTAAG
Found at i:5887783 original size:14 final size:15
Alignment explanation
Indices: 5887753--5887782 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5887743 TTAAGGTAAG
5887753 ATTTATAAAAATAAA
1 ATTTATAAAAATAAA
*
5887768 ATTTATAAAATTAAA
1 ATTTATAAAAATAAA
5887783 TAGATAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
ATTTATAAAAATAAA
Found at i:5890685 original size:18 final size:18
Alignment explanation
Indices: 5890626--5890707 Score: 67
Period size: 18 Copynumber: 4.4 Consensus size: 18
5890616 TGGCTTTTAG
*
5890626 GGTTTAAGGTTTGGTTTAA
1 GGTTTAGGGTTTGG-TTAA
* *
5890645 GATTT-GGGACTTAGGTTAA
1 GGTTTAGGG--TTTGGTTAA
* *
5890664 GGTTTTGGGTTTGGTTAG
1 GGTTTAGGGTTTGGTTAA
*
5890682 GGTTTAGGGTTTGGTTTA
1 GGTTTAGGGTTTGGTTAA
5890700 GGATTTAG
1 GG-TTTAG
5890708 AACTTGATTC
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
18 26 0.52
19 17 0.34
20 7 0.14
ACGTcount: A:0.17, C:0.01, G:0.37, T:0.45
Consensus pattern (18 bp):
GGTTTAGGGTTTGGTTAA
Found at i:5890705 original size:56 final size:56
Alignment explanation
Indices: 5890622--5890744 Score: 158
Period size: 56 Copynumber: 2.2 Consensus size: 56
5890612 GGGTTGGCTT
* * * * *
5890622 TTAGGGTTTAAGGTTTGGTTTAAGATTTGGGACTTAGGTTAAGGTTTTGGGTTTG-G
1 TTAGGGTTTAGGGTTTGGTTTAAGATTTAGAACTT-GATTAAGGGTTTGGGTTTGAG
* * *
5890678 TTAGGGTTTAGGGTTTGGTTTAGGATTTAGAACTTGATTCAGGGTTTGGGTTTGAT
1 TTAGGGTTTAGGGTTTGGTTTAAGATTTAGAACTTGATTAAGGGTTTGGGTTTGAG
5890734 TTAGGGTTTAG
1 TTAGGGTTTAG
5890745 TTTGAGGTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
55 16 0.28
56 42 0.72
ACGTcount: A:0.18, C:0.02, G:0.35, T:0.45
Consensus pattern (56 bp):
TTAGGGTTTAGGGTTTGGTTTAAGATTTAGAACTTGATTAAGGGTTTGGGTTTGAG
Found at i:5890769 original size:31 final size:31
Alignment explanation
Indices: 5890734--5890854 Score: 101
Period size: 31 Copynumber: 4.0 Consensus size: 31
5890724 TGGGTTTGAT
5890734 TTAGGGTTTA-GTTTGAGGTTTTAGGCTTAAG
1 TTAGGGTTTAGGTTTGAGGTTTTAGG-TTAAG
* **
5890765 TTAGGGTTTAGGTTTGA--TTTTGGGATTTGGG
1 TTAGGGTTTAGGTTTGAGGTTTTAGG--TTAAG
* * *
5890796 TTAGGGTTTA-GTTTAAGGTTTGA-GTTAAT
1 TTAGGGTTTAGGTTTGAGGTTTTAGGTTAAG
*
5890825 TTAGGGTTTAGGGTTT-AGGTTTTATGTTAA
1 TTAGGGTTTA-GGTTTGAGGTTTTAGGTTAA
5890855 AGGTTTAGTT
Statistics
Matches: 72, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
29 12 0.17
30 18 0.25
31 33 0.46
32 9 0.12
ACGTcount: A:0.19, C:0.01, G:0.32, T:0.48
Consensus pattern (31 bp):
TTAGGGTTTAGGTTTGAGGTTTTAGGTTAAG
Done.