Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, 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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 49 of 77
Found at i:9533424 original size:10 final size:10
Alignment explanation
Indices: 9533409--9533437 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
9533399 AAATATAAAA
9533409 AATTTTATTT
1 AATTTTATTT
9533419 AATTTTATTT
1 AATTTTATTT
9533429 AATTTTATT
1 AATTTTATT
9533438 CGCTTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
AATTTTATTT
Found at i:9538284 original size:16 final size:16
Alignment explanation
Indices: 9538263--9538296 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
9538253 GAATCTATTG
*
9538263 AAATTAATAATTAAAA
1 AAATTAAAAATTAAAA
9538279 AAATTAAAAATTAAAA
1 AAATTAAAAATTAAAA
9538295 AA
1 AA
9538297 TTTTATACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATTAAAAATTAAAA
Found at i:9539139 original size:32 final size:35
Alignment explanation
Indices: 9539103--9539174 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 35
9539093 CATTTTTCTC
* *
9539103 ATTTTA-ATTTTTTA-ATTTT-TTAT-ATTATATAT
1 ATTTTACAATTTTTATATTTTATTATAAATATAT-T
9539135 ATTTTACAATTTTTATATTTTATTATAAATATATT
1 ATTTTACAATTTTTATATTTTATTATAAATATATT
9539170 ATTTT
1 ATTTT
9539175 TACGTGAGAC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
32 6 0.18
33 7 0.21
34 5 0.15
35 10 0.29
36 6 0.18
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (35 bp):
ATTTTACAATTTTTATATTTTATTATAAATATATT
Found at i:9542970 original size:2 final size:2
Alignment explanation
Indices: 9542963--9542993 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9542953 CCAGCTCTAA
9542963 AT AT AT 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 AT AT AT A
9542994 AACAGAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9544578 original size:14 final size:14
Alignment explanation
Indices: 9544559--9544586 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9544549 CCCTCCTTAG
9544559 CCTATAAAATGAAA
1 CCTATAAAATGAAA
9544573 CCTATAAAATGAAA
1 CCTATAAAATGAAA
9544587 GAATTCTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.14, G:0.07, T:0.21
Consensus pattern (14 bp):
CCTATAAAATGAAA
Found at i:9546185 original size:2 final size:2
Alignment explanation
Indices: 9546178--9546216 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
9546168 ACCTGTCTAC
9546178 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT A
9546217 CACACACACA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9546303 original size:16 final size:17
Alignment explanation
Indices: 9546282--9546326 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
9546272 ACTGAATACA
*
9546282 AAATAAACAAACAAA-T
1 AAATAAACAAACAAAGG
*
9546298 AAATAAATAAACAAAGG
1 AAATAAACAAACAAAGG
9546315 AAATCAAACAAA
1 AAAT-AAACAAA
9546327 TCACAGCAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.58
17 4 0.17
18 6 0.25
ACGTcount: A:0.73, C:0.11, G:0.04, T:0.11
Consensus pattern (17 bp):
AAATAAACAAACAAAGG
Found at i:9547442 original size:27 final size:27
Alignment explanation
Indices: 9547404--9547460 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
9547394 AAGCATCCTC
*
9547404 ATGCGTGGCTTTTGCTAGACAATTTGA
1 ATGCATGGCTTTTGCTAGACAATTTGA
9547431 ATGCATGGCTTTTGCTAGACAATTTGA
1 ATGCATGGCTTTTGCTAGACAATTTGA
9547458 ATG
1 ATG
9547461 TTAAACCTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.37
Consensus pattern (27 bp):
ATGCATGGCTTTTGCTAGACAATTTGA
Found at i:9553001 original size:13 final size:13
Alignment explanation
Indices: 9552983--9553007 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9552973 TGACAAAATT
9552983 TTTAATAATTTTC
1 TTTAATAATTTTC
9552996 TTTAATAATTTT
1 TTTAATAATTTT
9553008 AAAACAATGG
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:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTAATAATTTTC
Found at i:9554935 original size:13 final size:14
Alignment explanation
Indices: 9554915--9554947 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
9554905 ATGAAAACCC
*
9554915 TCTTTTCTTTTCTT
1 TCTTTTCTTTCCTT
9554929 T-TTTTCTTTCCTT
1 TCTTTTCTTTCCTT
9554942 TCTTTT
1 TCTTTT
9554948 TCTTCTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TCTTTTCTTTCCTT
Found at i:9554943 original size:17 final size:18
Alignment explanation
Indices: 9554918--9554954 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
9554908 AAAACCCTCT
*
9554918 TTTCTTTTCTTTTT-TTC
1 TTTCCTTTCTTTTTCTTC
9554935 TTTCCTTTCTTTTTCTTC
1 TTTCCTTTCTTTTTCTTC
9554953 TT
1 TT
9554955 ATATTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTCCTTTCTTTTTCTTC
Found at i:9554965 original size:18 final size:18
Alignment explanation
Indices: 9554927--9554978 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
9554917 TTTTCTTTTC
*
9554927 TTTTTT-TCTT-TCCTTT
1 TTTTTTCTCTTATCATTT
*
9554943 CTTTTTCTTCTTAT-ATTT
1 TTTTTTC-TCTTATCATTT
9554961 TTTTTTCTCTTATCATTT
1 TTTTTTCTCTTATCATTT
9554979 CTACTAAACC
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 5 0.17
17 6 0.21
18 17 0.59
19 1 0.03
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTTCTCTTATCATTT
Found at i:9555446 original size:39 final size:39
Alignment explanation
Indices: 9555402--9555481 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
9555392 AGCTTATCCC
9555402 CTTTAGGCAAACAAATATTTTAGACCAATATATTCTCGA
1 CTTTAGGCAAACAAATATTTTAGACCAATATATTCTCGA
9555441 CTTTAGGCAAACAAATATTTTAGACCAATATATTCTCGA
1 CTTTAGGCAAACAAATATTTTAGACCAATATATTCTCGA
9555480 CT
1 CT
9555482 ATGATGCTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.34
Consensus pattern (39 bp):
CTTTAGGCAAACAAATATTTTAGACCAATATATTCTCGA
Found at i:9557103 original size:13 final size:13
Alignment explanation
Indices: 9557085--9557109 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9557075 TAGTGGAAGA
9557085 TGAATTTTTTGAT
1 TGAATTTTTTGAT
9557098 TGAATTTTTTGA
1 TGAATTTTTTGA
9557110 CGAGGTTTGA
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:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (13 bp):
TGAATTTTTTGAT
Found at i:9558745 original size:27 final size:27
Alignment explanation
Indices: 9558709--9558782 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
9558699 TGGAATTTAT
* *
9558709 TCATTTTTTCAAGATTAAACAGATGCC
1 TCATTGTTTCAAGATTAAACAGATACC
* * * *
9558736 TTATTGTTTCAAAATTAAATATATACC
1 TCATTGTTTCAAGATTAAACAGATACC
*
9558763 TCATTTTTTCAAGATTAAAC
1 TCATTGTTTCAAGATTAAAC
9558783 GTCAAGATAC
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.42
Consensus pattern (27 bp):
TCATTGTTTCAAGATTAAACAGATACC
Found at i:9559087 original size:12 final size:12
Alignment explanation
Indices: 9559070--9559108 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
9559060 AACAATATAA
9559070 ATATATATGTAT
1 ATATATATGTAT
9559082 ATATAT-T-TAT
1 ATATATATGTAT
9559092 ATATATATGTAT
1 ATATATATGTAT
*
9559104 GTATA
1 ATATA
9559109 GCTAGGGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
10 9 0.38
11 2 0.08
12 13 0.54
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (12 bp):
ATATATATGTAT
Found at i:9564993 original size:14 final size:14
Alignment explanation
Indices: 9564974--9565020 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
9564964 ATTTACAAAG
*
9564974 TTTTTTTTGAAATA
1 TTTTTTTTGAATTA
*
9564988 TTTTTTTT--ATTT
1 TTTTTTTTGAATTA
9565000 TTTTTTTTGAATTA
1 TTTTTTTTGAATTA
9565014 TTTTTTT
1 TTTTTTT
9565021 CTTCTTTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 10 0.36
14 18 0.64
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (14 bp):
TTTTTTTTGAATTA
Found at i:9565438 original size:19 final size:20
Alignment explanation
Indices: 9565414--9565454 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
9565404 AAAAAATTGG
*
9565414 AAAACCCATCGATTTCT-GA
1 AAAACCCATCGAATTCTAGA
*
9565433 AAAACCTATCGAATTCTAGA
1 AAAACCCATCGAATTCTAGA
9565453 AA
1 AA
9565455 TCTCACTAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.44, C:0.22, G:0.10, T:0.24
Consensus pattern (20 bp):
AAAACCCATCGAATTCTAGA
Found at i:9566031 original size:9 final size:9
Alignment explanation
Indices: 9566019--9566049 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
9566009 AAACAAAAAA
9566019 AATAGTAAT
1 AATAGTAAT
*
9566028 AATAATAAT
1 AATAGTAAT
9566037 AATAGTAAT
1 AATAGTAAT
9566046 AATA
1 AATA
9566050 AATTATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (9 bp):
AATAGTAAT
Found at i:9566086 original size:26 final size:26
Alignment explanation
Indices: 9566057--9566146 Score: 92
Period size: 26 Copynumber: 3.5 Consensus size: 26
9566047 ATAAATTATT
*
9566057 TAATCAGGCCCAAACATTAATGGGCC
1 TAATTAGGCCCAAACATTAATGGGCC
* *
9566083 TAATTAGGCTCAAACA-TAACTAGGCC
1 TAATTAGGCCCAAACATTAA-TGGGCC
* * *
9566109 TAATTGGGCCTAAACATAAATGGGCC
1 TAATTAGGCCCAAACATTAATGGGCC
* *
9566135 TAGTTGGGCCCA
1 TAATTAGGCCCA
9566147 GACACAAATG
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
25 3 0.06
26 47 0.90
27 2 0.04
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.22
Consensus pattern (26 bp):
TAATTAGGCCCAAACATTAATGGGCC
Found at i:9566155 original size:26 final size:26
Alignment explanation
Indices: 9566063--9566156 Score: 89
Period size: 26 Copynumber: 3.6 Consensus size: 26
9566053 TATTTAATCA
** *
9566063 GGCCCAAACATTAATGGGCCTAATTA
1 GGCCCAAACACAAATGGGCCTAATTG
* * * *
9566089 GGCTCAAACATAACTAGGCCTAATTG
1 GGCCCAAACACAAATGGGCCTAATTG
* * *
9566115 GGCCTAAACATAAATGGGCCTAGTTG
1 GGCCCAAACACAAATGGGCCTAATTG
*
9566141 GGCCCAGACACAAATG
1 GGCCCAAACACAAATG
9566157 AGTGTCTACA
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.20
Consensus pattern (26 bp):
GGCCCAAACACAAATGGGCCTAATTG
Found at i:9566542 original size:119 final size:119
Alignment explanation
Indices: 9566350--9567124 Score: 644
Period size: 119 Copynumber: 6.5 Consensus size: 119
9566340 TAAGGTTAAG
** ** ** * * * *
9566350 AATAAATGATCGAGATGAAACCATGAATCATAAGGGATGATCGGGACTAAACCAAGATCAAGGGA
1 AATAAATGATCGAGATGAAACCACAAATCATAAGAAATGATCTAGATTGAGCCAAGATCAAGTGA
* * * *
9566415 C-CAGGATGAAACCATGAGTCAAAATAAAGCGACCAAGATCGAGTCGAAGTCAAG
66 CTGA-GATGAAACCATGAGTCAAAATAAAGTGACCAAGATCGAGTCGAGGTCAAA
* * * * * * * * * *
9566469 AATAAATTACCGAGATAAAACCACAAATCATAAGAGATGATCTAGACTGAGCTAATATCAGGGGT
1 AATAAATGATCGAGATGAAACCACAAATCATAAGAAATGATCTAGATTGAGCCAAGATCAAGTGA
* * * * ** *
9566534 CTGAGATGAATCCATAAGTTAAAATAAAATGATTAAGATCGAGTCGAGGCCAAA
66 CTGAGATGAAACCATGAGTCAAAATAAAGTGACCAAGATCGAGTCGAGGTCAAA
* * * ** * * *
9566588 AATAAATGATC-AAAGCGAAACCACGAATCATAAGGGATGATATAGTTTGAGCCAAGATC-AGAA
1 AATAAATGATCGAGA-TGAAACCACAAATCATAAGAAATGATCTAGATTGAGCCAAGATCAAG-T
* ** * ** * * ** * * *
9566651 AACCAAGACGAAATTACGAGTAAAAATAAAGCAACCAGGA-CTGAGTTGAGGTAAAA
64 GACTGAGATGAAACCATGAGTCAAAATAAAGTGACCAAGATC-GAGTCGAGGTCAAA
* * * * * *
9566707 AATAAATGATC-AGGGTGAAATCACAAATCATAAAAAATTATCTAGATTGAGTCAAGATCAACTG
1 AATAAATGATCGA-GATGAAACCACAAATCATAAGAAATGATCTAGATTGAGCCAAGATCAAGTG
* * * * * * * **
9566771 ACCGGGATAAAATCATGAGTCAAAATAAAGTTATCAGGATCGAGTCGAGGTTGAA
65 ACTGAGATGAAACCATGAGTCAAAATAAAGTGACCAAGATCGAGTCGAGGTCAAA
* * *
9566826 AATAAATGATTGAGATGAAACCATAAATCATAAGAGATGATCT-GAATTGAGCCAAGATCAAGTG
1 AATAAATGATCGAGATGAAACCACAAATCATAAGAAATGATCTAG-ATTGAGCCAAGATCAAGTG
* * * ** *
9566890 ACTGGGATGAAACCATGAGTCAAAATAAAGTGACTAGGATCGAGTTAAGGTAAAA
65 ACTGAGATGAAACCATGAGTCAAAATAAAGTGACCAAGATCGAGTCGAGGTCAAA
* * * *
9566945 AATAAATGATCGGGATGAAACCACGAATCATAAAAAATGATCTAGATTGTGCCAAGATCAAGTGA
1 AATAAATGATCGAGATGAAACCACAAATCATAAGAAATGATCTAGATTGAGCCAAGATCAAGTGA
* * * * *
9567010 CTGAGATGAAATCACGAGTCAAAGTAAAATGACCAAGATCGAGTTGAGGTCAAA
66 CTGAGATGAAACCATGAGTCAAAATAAAGTGACCAAGATCGAGTCGAGGTCAAA
* ** * *
9567064 AATAAATGATCAAGATGAAACCATGAATCATAAGAAATGATTTGGATTGAGCCAAGATCAA
1 AATAAATGATCGAGATGAAACCACAAATCATAAGAAATGATCTAGATTGAGCCAAGATCAA
9567125 AATAGTGGAT
Statistics
Matches: 517, Mismatches: 129, Indels: 20
0.78 0.19 0.03
Matches are distributed among these distances:
118 5 0.01
119 507 0.98
120 5 0.01
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.20
Consensus pattern (119 bp):
AATAAATGATCGAGATGAAACCACAAATCATAAGAAATGATCTAGATTGAGCCAAGATCAAGTGA
CTGAGATGAAACCATGAGTCAAAATAAAGTGACCAAGATCGAGTCGAGGTCAAA
Found at i:9566734 original size:238 final size:236
Alignment explanation
Indices: 9566350--9567124 Score: 716
Period size: 238 Copynumber: 3.3 Consensus size: 236
9566340 TAAGGTTAAG
* * ** * * * **
9566350 AATAAATGATCGAGATGAAACCATGAATCATAAGGGATGATCGGGACTAAACCAAGATCAAGGGA
1 AATAAATGATCAAGATGAAACCATGAATCATAAGAGATGAT-ATGATTGAGCCAAGATCAAGAAA
* * * * * * * * * * *
9566415 CCAGGATGAAACCATGAGTCAAAATAAAGCGACCAAGATCGAGTCGAA-GTCAAGAATAAATTAC
65 CCAAGACGAAACCACGAGTAAAAATAAAGCAACCAGGATCGAGT-TAAGGTAAAAAATAAATGAT
* * * * * * * * *
9566479 CGAGATAAAACCACAAATCATAAGAGATGATCTAGACTGAGCTAATATCAGGGGTCTGAGATGAA
129 CGGGATGAAACCACAAATCATAAAAAATGATCTAGATTGAGCTAAGATCAAGTGACTGAGATGAA
* * * *
9566544 TCCATAAGTTAAAATAAAATGATTAAGATCGAGTCGAGGCCAAA
194 T-CATGAGTCAAAATAAAATGATCAAGATCGAGTCGAGGTCAAA
* * * *
9566588 AATAAATGATCAA-AGCGAAACCACGAATCATAAGGGATGATATAGTTTGAGCCAAGATC-AGAA
1 AATAAATGATCAAGA-TGAAACCATGAATCATAAGAGATGATAT-GATTGAGCCAAGATCAAG-A
** *
9566651 AACCAAGACGAAATTACGAGTAAAAATAAAGCAACCAGGA-CTGAGTTGAGGTAAAAAATAAATG
63 AACCAAGACGAAACCACGAGTAAAAATAAAGCAACCAGGATC-GAGTTAAGGTAAAAAATAAATG
* * * * *
9566715 ATCAGGG-TGAAATCACAAATCATAAAAAATTATCTAGATTGAG-TCAAGATCAACTGACCGGGA
127 ATC-GGGATGAAACCACAAATCATAAAAAATGATCTAGATTGAGCT-AAGATCAAGTGACTGAGA
* * * * **
9566778 TAAAATCATGAGTCAAAATAAAGTTATCAGGATCGAGTCGAGGTTGAA
190 T-GAATCATGAGTCAAAATAAAATGATCAAGATCGAGTCGAGGTCAAA
** * * **
9566826 AATAAATGATTGAGATGAAACCATAAATCATAAGAGATGATCTGAATTGAGCCAAGATCAAGTGA
1 AATAAATGATCAAGATGAAACCATGAATCATAAGAGATGATATG-ATTGAGCCAAGATCAAGAAA
*** * * * ** *
9566891 CTGGGATGAAACCATGAGTCAAAATAAAGTGACTAGGATCGAGTTAAGGTAAAAAATAAATGATC
65 CCAAGACGAAACCACGAGTAAAAATAAAGCAACCAGGATCGAGTTAAGGTAAAAAATAAATGATC
* * *
9566956 GGGATGAAACCACGAATCATAAAAAATGATCTAGATTGTGCCAAGATCAAGTGACTGAGATGAAA
130 GGGATGAAACCACAAATCATAAAAAATGATCTAGATTGAGCTAAGATCAAGTGACTGAGATG-AA
* * * *
9567021 TCACGAGTCAAAGTAAAATGACCAAGATCGAGTTGAGGTCAAA
194 TCATGAGTCAAAATAAAATGATCAAGATCGAGTCGAGGTCAAA
* *
9567064 AATAAATGATCAAGATGAAACCATGAATCATAAGAAATGATTTGGATTGAGCCAAGATCAA
1 AATAAATGATCAAGATGAAACCATGAATCATAAGAGATGATAT-GATTGAGCCAAGATCAA
9567125 AATAGTGGAT
Statistics
Matches: 427, Mismatches: 94, Indels: 32
0.77 0.17 0.06
Matches are distributed among these distances:
237 10 0.02
238 407 0.95
239 10 0.02
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.20
Consensus pattern (236 bp):
AATAAATGATCAAGATGAAACCATGAATCATAAGAGATGATATGATTGAGCCAAGATCAAGAAAC
CAAGACGAAACCACGAGTAAAAATAAAGCAACCAGGATCGAGTTAAGGTAAAAAATAAATGATCG
GGATGAAACCACAAATCATAAAAAATGATCTAGATTGAGCTAAGATCAAGTGACTGAGATGAATC
ATGAGTCAAAATAAAATGATCAAGATCGAGTCGAGGTCAAA
Found at i:9566954 original size:357 final size:357
Alignment explanation
Indices: 9566350--9567124 Score: 786
Period size: 357 Copynumber: 2.2 Consensus size: 357
9566340 TAAGGTTAAG
* ** *** ** * * * *
9566350 AATAAATGATCGAGATGAAACCATGAATCATAAGGGATGATCGGGACTAAACCAAGATCAAGGGA
1 AATAAATGATCAAGATGAAACCACAAATCATAAAAAATGATCTAGATTGAGCCAAGATCAACGGA
* *
9566415 CCAGGATGAAACCATGAGTCAAAATAAAGCGACCAAGATCGAGTCGAAGTCAAGAATAAATTACC
66 CCAGGATAAAACCATGAGTCAAAATAAAGCGACCAAGATCGAGTCGAAGTCAAGAATAAATGACC
* * * * *
9566480 GAGATAAAACCACAAATCATAAGAGATGATCTAGACTGAGCTAATATCAGGGGTCTGAGATGAAT
131 GAGATAAAACCACAAATCATAAGAGATGATCTAGACTGAGCCAAGATCAAGGGACTGAGATGAAA
* * * *
9566545 CCATAAGTTAAAATAAAATGATTAAGATCGAGTCGAGGCCAAAAATAAATGATCAA-AGCGAAAC
196 CCATAAGTCAAAATAAAATGACTAAGATCGAGTCAAGGCAAAAAATAAATGATCAAGA-CGAAAC
*** * *
9566609 CACGAATCATAAGGGATGATATAGTTTGAGCCAAGATC-AGAAAACCAAGACGAAATTACGAGTA
260 CACGAATCATAAAAAATGATATAGATTGAGCCAAGATCAAG-AAACCAAGACGAAATCACGAGTA
* *
9566673 AAAATAAAGCAACCAGGA-CTGAGTTGAGGTAAAA
324 AAAATAAAACAACCAAGATC-GAGTTGAGGTAAAA
* * * * * *
9566707 AATAAATGATCAGGGTGAAATCACAAATCATAAAAAATTATCTAGATTGAGTCAAGATCAACTGA
1 AATAAATGATCAAGATGAAACCACAAATCATAAAAAATGATCTAGATTGAGCCAAGATCAACGGA
* * ** * * * * *
9566772 CCGGGATAAAATCATGAGTCAAAATAAAGTTATCAGGATCGAGTCGAGGTTGAA-AATAAATGAT
66 CCAGGATAAAACCATGAGTCAAAATAAAGCGACCAAGATCGAGTCGAAG-TCAAGAATAAATGAC
* * * * * *
9566836 TGAGATGAAACCATAAATCATAAGAGATGATCT-GAATTGAGCCAAGATCAAGTGACTGGGATGA
130 CGAGATAAAACCACAAATCATAAGAGATGATCTAG-ACTGAGCCAAGATCAAGGGACTGAGATGA
* * * * * ** *
9566900 AACCATGAGTCAAAATAAAGTGACTAGGATCGAGTTAAGGTAAAAAATAAATGATCGGGATGAAA
194 AACCATAAGTCAAAATAAAATGACTAAGATCGAGTCAAGGCAAAAAATAAATGATCAAGACGAAA
* * ** ** * *
9566965 CCACGAATCATAAAAAATGATCTAGATTGTGCCAAGATCAAGTGACTGAGATGAAATCACGAGTC
259 CCACGAATCATAAAAAATGATATAGATTGAGCCAAGATCAAGAAACCAAGACGAAATCACGAGTA
* ** *
9567030 AAAGTAAAATGACCAAGATCGAGTTGAGGTCAAA
324 AAAATAAAACAACCAAGATCGAGTTGAGGTAAAA
** * * *
9567064 AATAAATGATCAAGATGAAACCATGAATCATAAGAAATGATTTGGATTGAGCCAAGATCAA
1 AATAAATGATCAAGATGAAACCACAAATCATAAAAAATGATCTAGATTGAGCCAAGATCAA
9567125 AATAGTGGAT
Statistics
Matches: 332, Mismatches: 81, Indels: 10
0.78 0.19 0.02
Matches are distributed among these distances:
356 1 0.00
357 324 0.98
358 7 0.02
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.20
Consensus pattern (357 bp):
AATAAATGATCAAGATGAAACCACAAATCATAAAAAATGATCTAGATTGAGCCAAGATCAACGGA
CCAGGATAAAACCATGAGTCAAAATAAAGCGACCAAGATCGAGTCGAAGTCAAGAATAAATGACC
GAGATAAAACCACAAATCATAAGAGATGATCTAGACTGAGCCAAGATCAAGGGACTGAGATGAAA
CCATAAGTCAAAATAAAATGACTAAGATCGAGTCAAGGCAAAAAATAAATGATCAAGACGAAACC
ACGAATCATAAAAAATGATATAGATTGAGCCAAGATCAAGAAACCAAGACGAAATCACGAGTAAA
AATAAAACAACCAAGATCGAGTTGAGGTAAAA
Found at i:9567392 original size:41 final size:42
Alignment explanation
Indices: 9567308--9567394 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 42
9567298 CTGAATACAC
* *
9567308 ATCTTTGGCAAAAAAAACTATATTTCATCAACTTACATGTTT
1 ATCTTTGGCAAAAAAAACCATATTTCATCAACTTACATATTT
* * *
9567350 ATCTTTGGC-AAAGAAACCATCTTTCATCAATTTGA-ATATTT
1 ATCTTTGGCAAAAAAAACCATATTTCATCAACTT-ACATATTT
9567391 ATCT
1 ATCT
9567395 CCACCCCAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
41 29 0.74
42 10 0.26
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (42 bp):
ATCTTTGGCAAAAAAAACCATATTTCATCAACTTACATATTT
Found at i:9567996 original size:17 final size:18
Alignment explanation
Indices: 9567964--9568001 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
9567954 AACTTGACCT
*
9567964 TTTTTATGTTTTTTTTTG
1 TTTTTATGTTTCTTTTTG
9567982 TTTTTAT-TTTCTTTTTG
1 TTTTTATGTTTCTTTTTG
9567999 TTT
1 TTT
9568002 AGGCCACCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.05, C:0.03, G:0.08, T:0.84
Consensus pattern (18 bp):
TTTTTATGTTTCTTTTTG
Found at i:9577716 original size:24 final size:24
Alignment explanation
Indices: 9577689--9577747 Score: 109
Period size: 24 Copynumber: 2.5 Consensus size: 24
9577679 GCAAACATAA
9577689 GCAATGAAAAGTAAGTAGCTATAC
1 GCAATGAAAAGTAAGTAGCTATAC
9577713 GCAATGAAAAGTAAGTAGCTATAC
1 GCAATGAAAAGTAAGTAGCTATAC
*
9577737 ACAATGAAAAG
1 GCAATGAAAAG
9577748 GAAAATAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.49, C:0.12, G:0.20, T:0.19
Consensus pattern (24 bp):
GCAATGAAAAGTAAGTAGCTATAC
Found at i:9578378 original size:21 final size:22
Alignment explanation
Indices: 9578333--9578378 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
9578323 TACAAAGACA
*
9578333 TTTTTTGAAAGATTTTTCTTTT
1 TTTTTTGAAAGATTTTTCTTCT
9578355 TTTTTTGAAAGATTTTT-TTCT
1 TTTTTTGAAAGATTTTTCTTCT
9578376 TTT
1 TTT
9578379 AGAAATACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.17, C:0.04, G:0.09, T:0.70
Consensus pattern (22 bp):
TTTTTTGAAAGATTTTTCTTCT
Found at i:9578470 original size:19 final size:19
Alignment explanation
Indices: 9578449--9578496 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
9578439 AAAAGGGTTA
9578449 AAAAAGT-AAAATAAAATC
1 AAAAAGTAAAAATAAAATC
*
9578467 AAAAATTAAAAATAAAAT-
1 AAAAAGTAAAAATAAAATC
9578485 AACAAAG-AAAAA
1 AA-AAAGTAAAAA
9578497 ACCTGCAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.15
Consensus pattern (19 bp):
AAAAAGTAAAAATAAAATC
Found at i:9578497 original size:19 final size:19
Alignment explanation
Indices: 9578456--9578497 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
9578446 TTAAAAAAGT
**
9578456 AAAATAAAATCAAAAATTA
1 AAAATAAAATCAAAAAGAA
9578475 AAAATAAAAT-AACAAAGAA
1 AAAATAAAATCAA-AAAGAA
9578494 AAAA
1 AAAA
9578498 CCTGCAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.79, C:0.05, G:0.02, T:0.14
Consensus pattern (19 bp):
AAAATAAAATCAAAAAGAA
Found at i:9584269 original size:19 final size:18
Alignment explanation
Indices: 9584245--9584282 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
9584235 TAAATTCTCG
*
9584245 TATTAATTTAATTTAATAA
1 TATTAATCTAA-TTAATAA
9584264 TATTAATCTAATTAATAA
1 TATTAATCTAATTAATAA
9584282 T
1 T
9584283 GATGTTACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
TATTAATCTAATTAATAA
Found at i:9587257 original size:19 final size:18
Alignment explanation
Indices: 9587233--9587271 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
9587223 TTAAATTCTC
*
9587233 ATATTAATTTAATTTAATA
1 ATATTAATCTAA-TTAATA
9587252 ATATTAATCTAATTAATA
1 ATATTAATCTAATTAATA
9587270 AT
1 AT
9587272 GATGTTACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATTAATCTAATTAATA
Found at i:9587595 original size:28 final size:27
Alignment explanation
Indices: 9587564--9587647 Score: 66
Period size: 29 Copynumber: 3.1 Consensus size: 27
9587554 TTTATTATAT
9587564 ATAATTAATTATTAATAATATCATATTA
1 ATAATTAATTATTAATAAT-TCATATTA
** *
9587592 ATAA-T-ATTATT-ATCGTTTATATTA
1 ATAATTAATTATTAATAATTCATATTA
* * *
9587616 ATCAATTATATTATTAATCATTTAAATTA
1 AT-AATTA-ATTATTAATAATTCATATTA
9587645 ATA
1 ATA
9587648 TATCAAAGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
24 9 0.20
25 5 0.11
26 7 0.15
27 1 0.02
28 11 0.24
29 13 0.28
ACGTcount: A:0.45, C:0.05, G:0.01, T:0.49
Consensus pattern (27 bp):
ATAATTAATTATTAATAATTCATATTA
Found at i:9587644 original size:16 final size:16
Alignment explanation
Indices: 9587611--9587644 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9587601 TTATCGTTTA
*
9587611 TATTAATCAATTATAT
1 TATTAATCAATTAAAT
*
9587627 TATTAATCATTTAAAT
1 TATTAATCAATTAAAT
9587643 TA
1 TA
9587645 ATATATCAAA
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:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (16 bp):
TATTAATCAATTAAAT
Found at i:9588479 original size:13 final size:13
Alignment explanation
Indices: 9588461--9588494 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
9588451 TAGATTTTTT
*
9588461 AATATTATGATAA
1 AATATTATGAGAA
*
9588474 AATATTATGAGAG
1 AATATTATGAGAA
9588487 AATATTAT
1 AATATTAT
9588495 AGTAATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (13 bp):
AATATTATGAGAA
Found at i:9590590 original size:18 final size:17
Alignment explanation
Indices: 9590546--9590604 Score: 61
Period size: 15 Copynumber: 3.6 Consensus size: 17
9590536 TAAAAATGGT
9590546 TATAA-AATAATAATAA
1 TATAATAATAATAATAA
**
9590562 TATTCT-A-AATAATAA
1 TATAATAATAATAATAA
9590577 TAATAATAATAATAATAA
1 T-ATAATAATAATAATAA
*
9590595 TAGAATAATA
1 TATAATAATA
9590605 TTTTTCCTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
15 9 0.26
16 7 0.21
17 9 0.26
18 9 0.26
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (17 bp):
TATAATAATAATAATAA
Found at i:9590604 original size:3 final size:3
Alignment explanation
Indices: 9590547--9590596 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
9590537 AAAAATGGTT
* *
9590547 ATA A-A ATA ATA ATA AT- ATT CTAA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
9590591 ATA ATA
1 ATA ATA
9590597 GAATAATATT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
2 4 0.10
3 36 0.88
4 1 0.02
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:9590730 original size:18 final size:18
Alignment explanation
Indices: 9590715--9590763 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
9590705 GTATAAAAAG
9590715 ATAATAAATAATAAAATA
1 ATAATAAATAATAAAATA
9590733 ATAATAAAT--TAACAATA
1 ATAATAAATAATAA-AATA
*
9590750 ATAGT-AATAATAAA
1 ATAATAAATAATAAA
9590764 TTTTCATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
16 6 0.22
17 9 0.33
18 12 0.44
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (18 bp):
ATAATAAATAATAAAATA
Found at i:9590735 original size:11 final size:11
Alignment explanation
Indices: 9590721--9590763 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
9590711 AAAGATAATA
9590721 AATAATAAAAT
1 AATAATAAAAT
*
9590732 AATAATAAATT
1 AATAATAAAAT
* *
9590743 AACAATAATAGT
1 AATAATAA-AAT
9590755 AATAATAAA
1 AATAATAAA
9590764 TTTTCATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:9591058 original size:29 final size:29
Alignment explanation
Indices: 9590967--9591162 Score: 110
Period size: 29 Copynumber: 6.7 Consensus size: 29
9590957 TCCAAACTCA
* * * *
9590967 AAACCCTTCAAACCCTGAAATCAAAACGTT
1 AAACCCTCCAAACCCTAAAAT-TAAACCTT
* * * **
9590997 AAACCCTCCCAACCATAAAA-CAAATCCCG
1 AAACCCTCCAAACCCTAAAATTAAA-CCTT
** *
9591026 AAACTTTCTAAACCCTAAAATTAAACCTT
1 AAACCCTCCAAACCCTAAAATTAAACCTT
**
9591055 AAACCCTCCAAGTCCTAAAATTAAAACCTT
1 AAACCCTCCAAACCCTAAAATT-AAACCTT
** * * *
9591085 AAA-AATCCAAACCATAAAA-CAAATCCCT
1 AAACCCTCCAAACCCTAAAATTAAA-CCTT
* * *
9591113 AAACCCTCTAAATCCTAAAACTAAACCTT
1 AAACCCTCCAAACCCTAAAATTAAACCTT
* **
9591142 AAACCCTACAAGTCCTAAAAT
1 AAACCCTCCAAACCCTAAAAT
9591163 CAAAACCCTA
Statistics
Matches: 121, Mismatches: 39, Indels: 13
0.70 0.23 0.08
Matches are distributed among these distances:
27 3 0.02
28 9 0.07
29 77 0.64
30 32 0.26
ACGTcount: A:0.46, C:0.31, G:0.03, T:0.20
Consensus pattern (29 bp):
AAACCCTCCAAACCCTAAAATTAAACCTT
Found at i:9591105 original size:87 final size:87
Alignment explanation
Indices: 9591007--9591175 Score: 266
Period size: 87 Copynumber: 1.9 Consensus size: 87
9590997 AAACCCTCCC
** * *
9591007 AACCATAAAACAAATCCCGAAACTTTCTAAACCCTAAAATTAAACCTTAAACCCTCCAAGTCCTA
1 AACCATAAAACAAATCCCGAAACCCTCTAAACCCTAAAACTAAACCTTAAACCCTACAAGTCCTA
* *
9591072 AAATTAAAACCTTAAAAATCCA
66 AAATCAAAACCCTAAAAATCCA
* *
9591094 AACCATAAAACAAATCCCTAAACCCTCTAAATCCTAAAACTAAACCTTAAACCCTACAAGTCCTA
1 AACCATAAAACAAATCCCGAAACCCTCTAAACCCTAAAACTAAACCTTAAACCCTACAAGTCCTA
9591159 AAATCAAAACCCTAAAA
66 AAATCAAAACCCTAAAA
9591176 TTGAAACCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 74 1.00
ACGTcount: A:0.49, C:0.29, G:0.02, T:0.20
Consensus pattern (87 bp):
AACCATAAAACAAATCCCGAAACCCTCTAAACCCTAAAACTAAACCTTAAACCCTACAAGTCCTA
AAATCAAAACCCTAAAAATCCA
Found at i:9591200 original size:87 final size:87
Alignment explanation
Indices: 9591007--9591203 Score: 261
Period size: 87 Copynumber: 2.3 Consensus size: 87
9590997 AAACCCTCCC
* * ** * *
9591007 AACCATAAAACAAATCCCGAAACTTTCTAAACCCTAAAATTAAACCTTAAACCCTCCAAGTCCTA
1 AACCATAAAACAAAACCCTAAACCCTCTAAACCCTAAAACTAAACCTTAAACCCTACAAGTCCTA
* *
9591072 AAATTAAAACCTTAAAAATCCA
66 AAATCAAAACCCTAAAAATCCA
* *
9591094 AACCATAAAACAAATCCCTAAACCCTCTAAATCCTAAAACTAAACCTTAAACCCTACAAGTCCTA
1 AACCATAAAACAAAACCCTAAACCCTCTAAACCCTAAAACTAAACCTTAAACCCTACAAGTCCTA
**
9591159 AAATCAAAACCCT-AAAATTGA
66 AAATCAAAACCCTAAAAATCCA
*
9591180 AACCCTAAAATCAAAACCCTAAAC
1 AACCATAAAA-CAAAACCCTAAAC
9591204 TCAAACCATA
Statistics
Matches: 97, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
86 15 0.15
87 82 0.85
ACGTcount: A:0.49, C:0.29, G:0.02, T:0.20
Consensus pattern (87 bp):
AACCATAAAACAAAACCCTAAACCCTCTAAACCCTAAAACTAAACCTTAAACCCTACAAGTCCTA
AAATCAAAACCCTAAAAATCCA
Found at i:9591215 original size:13 final size:14
Alignment explanation
Indices: 9591155--9591217 Score: 83
Period size: 14 Copynumber: 4.6 Consensus size: 14
9591145 CCCTACAAGT
9591155 CCTAAAATCAAAAC
1 CCTAAAATCAAAAC
**
9591169 CCTAAAATTGAAAC
1 CCTAAAATCAAAAC
9591183 CCTAAAATCAAAAC
1 CCTAAAATCAAAAC
*
9591197 CCTAAACTC-AAAC
1 CCTAAAATCAAAAC
*
9591210 CATAAAAT
1 CCTAAAAT
9591218 TGAAGTCCTA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
13 10 0.24
14 32 0.76
ACGTcount: A:0.54, C:0.27, G:0.02, T:0.17
Consensus pattern (14 bp):
CCTAAAATCAAAAC
Found at i:9591217 original size:27 final size:28
Alignment explanation
Indices: 9591070--9591217 Score: 90
Period size: 29 Copynumber: 5.2 Consensus size: 28
9591060 CTCCAAGTCC
* * *
9591070 TAAAATTAAAACCTTAAAAATCCAAACCA
1 TAAAATCAAAACCCTAAAACT-CAAACCA
* *
9591099 TAAAA-CAAATCCCTAAACCCTCTAAATCC-
1 TAAAATCAAAACCCTAAA-ACTC-AAA-CCA
* * * *
9591128 TAAAA-CTAAACCTTAAACCCTACAAGTCC-
1 TAAAATCAAAACCCTAAA-ACT-CAA-ACCA
* * *
9591157 TAAAATCAAAACCCTAAAATTGAAACCC
1 TAAAATCAAAACCCTAAAACTCAAACCA
9591185 TAAAATCAAAACCCT-AAACTCAAACCA
1 TAAAATCAAAACCCTAAAACTCAAACCA
9591212 TAAAAT
1 TAAAAT
9591218 TGAAGTCCTA
Statistics
Matches: 94, Mismatches: 18, Indels: 16
0.73 0.14 0.12
Matches are distributed among these distances:
27 17 0.18
28 27 0.29
29 37 0.39
30 13 0.14
ACGTcount: A:0.52, C:0.27, G:0.01, T:0.20
Consensus pattern (28 bp):
TAAAATCAAAACCCTAAAACTCAAACCA
Found at i:9591217 original size:41 final size:43
Alignment explanation
Indices: 9591155--9591239 Score: 120
Period size: 41 Copynumber: 2.0 Consensus size: 43
9591145 CCCTACAAGT
*
9591155 CCTAAAATCAAAACCCTAAAATTGAAACCCTAAAATC-AAAAC
1 CCTAAAATCAAAACCATAAAATTGAAACCCTAAAATCGAAAAC
* **
9591197 CCTAAACTC-AAACCATAAAATTGAAGTCCTAAAATCGAAAAC
1 CCTAAAATCAAAACCATAAAATTGAAACCCTAAAATCGAAAAC
9591239 C
1 C
9591240 TAAGCCCCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
41 24 0.63
42 14 0.37
ACGTcount: A:0.52, C:0.26, G:0.05, T:0.18
Consensus pattern (43 bp):
CCTAAAATCAAAACCATAAAATTGAAACCCTAAAATCGAAAAC
Found at i:9591241 original size:14 final size:14
Alignment explanation
Indices: 9591155--9591271 Score: 71
Period size: 14 Copynumber: 8.4 Consensus size: 14
9591145 CCCTACAAGT
9591155 CCTAAAATC-AAAA
1 CCTAAAATCGAAAA
* *
9591168 CCCTAAAATTGAAAC
1 -CCTAAAATCGAAAA
9591183 CCTAAAATC-AAAA
1 CCTAAAATCGAAAA
*
9591196 CCCTAAACTC--AAA
1 -CCTAAAATCGAAAA
* **
9591209 CCATAAAATTGAAGT
1 CC-TAAAATCGAAAA
9591224 CCTAAAATCGAAAA
1 CCTAAAATCGAAAA
*** *
9591238 CCTAAGCCCCAAAA
1 CCTAAAATCGAAAA
*
9591252 TCTAAAACTCGAAAA
1 CCTAAAA-TCGAAAA
9591267 CCTAA
1 CCTAA
9591272 CCCAAAAATC
Statistics
Matches: 75, Mismatches: 22, Indels: 11
0.69 0.20 0.10
Matches are distributed among these distances:
12 2 0.03
13 11 0.15
14 47 0.63
15 15 0.20
ACGTcount: A:0.51, C:0.26, G:0.05, T:0.17
Consensus pattern (14 bp):
CCTAAAATCGAAAA
Found at i:9591263 original size:29 final size:27
Alignment explanation
Indices: 9591225--9591287 Score: 90
Period size: 28 Copynumber: 2.3 Consensus size: 27
9591215 AATTGAAGTC
*
9591225 CTAAAATCGAAAACCTAAGCCCCAAAAT
1 CTAAAATCGAAAACCTAA-CCCAAAAAT
9591253 CTAAAACTCGAAAACCTAACCCAAAAAT
1 CTAAAA-TCGAAAACCTAACCCAAAAAT
*
9591281 CCAAAAT
1 CTAAAAT
9591288 GCCAAACCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
27 1 0.03
28 19 0.59
29 12 0.38
ACGTcount: A:0.52, C:0.29, G:0.05, T:0.14
Consensus pattern (27 bp):
CTAAAATCGAAAACCTAACCCAAAAAT
Found at i:9602053 original size:14 final size:14
Alignment explanation
Indices: 9602036--9602119 Score: 56
Period size: 14 Copynumber: 6.2 Consensus size: 14
9602026 TTTATTATAT
9602036 ATAAT-TAATTATTA
1 ATAATATAA-TATTA
*
9602050 ATAATATCATATTA
1 ATAATATAATATTA
*
9602064 ATAATATTAATA-TC
1 ATAATA-TAATATTA
9602078 AT--T-T-ATATTA
1 ATAATATAATATTA
9602088 ATCAATTATAATATTA
1 AT-AA-TATAATATTA
*
9602104 ATAATTTAA-ATTA
1 ATAATATAATATTA
9602117 ATA
1 ATA
9602120 TATCAAAGTT
Statistics
Matches: 56, Mismatches: 5, Indels: 19
0.70 0.06 0.24
Matches are distributed among these distances:
9 3 0.05
10 4 0.07
12 1 0.02
13 7 0.12
14 24 0.43
15 9 0.16
16 8 0.14
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (14 bp):
ATAATATAATATTA
Found at i:9603084 original size:31 final size:31
Alignment explanation
Indices: 9603049--9603147 Score: 135
Period size: 31 Copynumber: 3.2 Consensus size: 31
9603039 TTTGTATTAG
* *
9603049 AGATTGAATTTTAAATTTCATACAAGTACAT
1 AGATTAAATTTTAAATTTCATACAAGTACAA
*
9603080 AGATTAAATTTTAAATTTCATACAAGCACAA
1 AGATTAAATTTTAAATTTCATACAAGTACAA
* ** *
9603111 AAATTAAATTTTAAATTTCATATGAGTACAG
1 AGATTAAATTTTAAATTTCATACAAGTACAA
9603142 AGATTA
1 AGATTA
9603148 TTTGTATAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 59 1.00
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (31 bp):
AGATTAAATTTTAAATTTCATACAAGTACAA
Found at i:9607380 original size:91 final size:94
Alignment explanation
Indices: 9607225--9607412 Score: 328
Period size: 91 Copynumber: 2.0 Consensus size: 94
9607215 TCAAAGGGGA
*
9607225 GACTATAATTTGGTACAATGGGAGCAGCATTAGGTGAATATTCATTGGGGAATTTACTTCCTTGT
1 GACTATAATTTGGTACAATGGGAGCAGCATTAGGTGAATATTCATTGGAGAATTTACTTCCTTGT
*
9607290 TT-C-CTTCTGGA-TTTTCTTCCATAGAG
66 TTCCTCTTCTGGATTTTTCCTCCATAGAG
9607316 GACTATAATTTGGTACAATGGGAGCAGCATTAGGTGAATATTCATTGGAGAATTTACTTCCTTGT
1 GACTATAATTTGGTACAATGGGAGCAGCATTAGGTGAATATTCATTGGAGAATTTACTTCCTTGT
9607381 TTCCTTCTTCTGGATTTTTCCTCCATAGAG
66 TTCC-TCTTCTGGATTTTTCCTCCATAGAG
9607411 GA
1 GA
9607413 TGTTTGCTCT
Statistics
Matches: 91, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
91 66 0.73
92 1 0.01
94 8 0.09
95 16 0.18
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.38
Consensus pattern (94 bp):
GACTATAATTTGGTACAATGGGAGCAGCATTAGGTGAATATTCATTGGAGAATTTACTTCCTTGT
TTCCTCTTCTGGATTTTTCCTCCATAGAG
Found at i:9613635 original size:22 final size:22
Alignment explanation
Indices: 9613607--9613650 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
9613597 CTAAATCTTC
*
9613607 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
9613629 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
9613651 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:9617120 original size:18 final size:18
Alignment explanation
Indices: 9617094--9617128 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9617084 TAATCCATGA
*
9617094 GAACCAGAAGCTTTACCT
1 GAACCAGAAACTTTACCT
*
9617112 GAACTAGAAACTTTACC
1 GAACCAGAAACTTTACC
9617129 CAAAGAACAT
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:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (18 bp):
GAACCAGAAACTTTACCT
Found at i:9617533 original size:22 final size:22
Alignment explanation
Indices: 9617505--9617548 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
9617495 CTAAATCTTC
*
9617505 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
9617527 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
9617549 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:9623802 original size:19 final size:20
Alignment explanation
Indices: 9623778--9623816 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
9623768 AATTTTTTAT
9623778 AATTTTATATTTA-AATTAA
1 AATTTTATATTTATAATTAA
*
9623797 AATTTTTTATTTATAATTAA
1 AATTTTATATTTATAATTAA
9623817 TTGATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
AATTTTATATTTATAATTAA
Found at i:9629982 original size:11 final size:12
Alignment explanation
Indices: 9629960--9629998 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
9629950 ATATATTAAG
*
9629960 TTATTTGATTTT
1 TTATTTGTTTTT
9629972 TT-TTTGTTTTT
1 TTATTTGTTTTT
*
9629983 TTATTTATTTTT
1 TTATTTGTTTTT
9629995 TTAT
1 TTAT
9629999 ATTTTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.13, C:0.00, G:0.05, T:0.82
Consensus pattern (12 bp):
TTATTTGTTTTT
Found at i:9630299 original size:1 final size:1
Alignment explanation
Indices: 9630295--9630326 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
9630285 TCATTTTTTG
9630295 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9630327 CAAACAAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:9630874 original size:2 final size:2
Alignment explanation
Indices: 9630867--9630893 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9630857 TTTACATTTG
9630867 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 T
9630894 TACATTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9633669 original size:17 final size:16
Alignment explanation
Indices: 9633617--9633675 Score: 52
Period size: 17 Copynumber: 3.8 Consensus size: 16
9633607 AAATCAAAAT
*
9633617 TAAATTTTAATTAATTA
1 TAAATTTAAATT-ATTA
*
9633634 T-AA--TAAAATATTA
1 TAAATTTAAATTATTA
9633647 TAAATTTAAATTATTA
1 TAAATTTAAATTATTA
*
9633663 TTAAATTTTAATT
1 -TAAATTTAAATT
9633676 TTAAAATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 5 0.15
14 6 0.18
16 11 0.32
17 12 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TAAATTTAAATTATTA
Found at i:9644207 original size:21 final size:21
Alignment explanation
Indices: 9644183--9644227 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
9644173 AATTTAAAAC
9644183 TTTTTTTTAT-ATTTTTAATT
1 TTTTTTTTATGATTTTTAATT
* *
9644203 ATTTTTTTATGATTTTTTATT
1 TTTTTTTTATGATTTTTAATT
9644224 TTTT
1 TTTT
9644228 GATATTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (21 bp):
TTTTTTTTATGATTTTTAATT
Found at i:9645481 original size:17 final size:19
Alignment explanation
Indices: 9645447--9645490 Score: 65
Period size: 17 Copynumber: 2.4 Consensus size: 19
9645437 TGATAATTTA
9645447 AAATATAATAAAATAATAT
1 AAATATAATAAAATAATAT
9645466 AAATA-AATAAAA-AATAT
1 AAATATAATAAAATAATAT
*
9645483 AAAAATAA
1 AAATATAA
9645491 CAAGATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 9 0.39
18 9 0.39
19 5 0.22
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (19 bp):
AAATATAATAAAATAATAT
Found at i:9660875 original size:38 final size:38
Alignment explanation
Indices: 9660832--9660910 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
9660822 AAATTAAGCC
9660832 CACAATCACGTCTAGGTTCATGGTGCATTATTGCAGTG
1 CACAATCACGTCTAGGTTCATGGTGCATTATTGCAGTG
9660870 CACAATCACGTCTAGGTTCATGGTGCATTATTGCAGTG
1 CACAATCACGTCTAGGTTCATGGTGCATTATTGCAGTG
9660908 CAC
1 CAC
9660911 CGCATAAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (38 bp):
CACAATCACGTCTAGGTTCATGGTGCATTATTGCAGTG
Found at i:9668068 original size:3 final size:3
Alignment explanation
Indices: 9668060--9668101 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
9668050 CATTAAGGAG
9668060 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9668102 TCTTCATCCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9671745 original size:29 final size:29
Alignment explanation
Indices: 9671703--9671761 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
9671693 TATAAGAAAT
9671703 TAAAGTAGAATTAACTATAAT-CTTTCTTA
1 TAAAGTAGAATTAACTAT-ATGCTTTCTTA
*
9671732 TAAAGTAGGATTAACTATATGCTTTCTTA
1 TAAAGTAGAATTAACTATATGCTTTCTTA
9671761 T
1 T
9671762 CATTTGATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 2 0.07
29 26 0.93
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.42
Consensus pattern (29 bp):
TAAAGTAGAATTAACTATATGCTTTCTTA
Found at i:9676150 original size:12 final size:13
Alignment explanation
Indices: 9676133--9676169 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
9676123 TACTATCACG
*
9676133 TATTATAT-TTTA
1 TATTATATATATA
9676145 TATTATATATATA
1 TATTATATATATA
9676158 TA-TATATATATA
1 TATTATATATATA
9676170 AATAAGAGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 18 0.78
13 5 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TATTATATATATA
Found at i:9677356 original size:15 final size:16
Alignment explanation
Indices: 9677336--9677365 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9677326 TTTAAAAAGG
9677336 TAAAATT-TTATAATA
1 TAAAATTATTATAATA
9677351 TAAAATTATTATAAT
1 TAAAATTATTATAAT
9677366 TTTAAGAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAAAATTATTATAATA
Found at i:9687646 original size:105 final size:105
Alignment explanation
Indices: 9687523--9687734 Score: 406
Period size: 105 Copynumber: 2.0 Consensus size: 105
9687513 GAGTCTCTAA
*
9687523 AAAAATAGATTCAGGTCTACAAATCAAAATAAGATTCAGGAGTTCGATTACATATGTGGAATGTT
1 AAAAATAGATTCAGGTCTACAAATCAAAATAAGATTCAGGAGTTCGATTACATATGTAGAATGTT
*
9687588 ATAGCATCCCCACATGCTCATCCAAATGATTGTACCATTT
66 ATAGCATCCCCACATGCTCATCCAAATGATGGTACCATTT
9687628 AAAAATAGATTCAGGTCTACAAATCAAAATAAGATTCAGGAGTTCGATTACATATGTAGAATGTT
1 AAAAATAGATTCAGGTCTACAAATCAAAATAAGATTCAGGAGTTCGATTACATATGTAGAATGTT
9687693 ATAGCATCCCCACATGCTCATCCAAATGATGGTACCATTT
66 ATAGCATCCCCACATGCTCATCCAAATGATGGTACCATTT
9687733 AA
1 AA
9687735 TTTTAAATTT
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 105 1.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (105 bp):
AAAAATAGATTCAGGTCTACAAATCAAAATAAGATTCAGGAGTTCGATTACATATGTAGAATGTT
ATAGCATCCCCACATGCTCATCCAAATGATGGTACCATTT
Found at i:9689443 original size:21 final size:20
Alignment explanation
Indices: 9689405--9689450 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
9689395 AATTTTTCTA
9689405 ATTT-TTTATTTTTATTATT
1 ATTTCTTTATTTTTATTATT
* *
9689424 TTTTCTTTATTTTTCTTTATT
1 ATTTCTTTATTTTT-ATTATT
9689445 ATTTCT
1 ATTTCT
9689451 AATTAACAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (20 bp):
ATTTCTTTATTTTTATTATT
Found at i:9689449 original size:11 final size:10
Alignment explanation
Indices: 9689409--9689450 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
9689399 TTTCTAATTT
9689409 TTTATTTTT-
1 TTTATTTTTC
*
9689418 ATTATTTTTTC
1 TTTA-TTTTTC
9689429 TTTATTTTTC
1 TTTATTTTTC
9689439 TTTATTATTTC
1 TTTATT-TTTC
9689450 T
1 T
9689451 AATTAACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 3 0.11
10 17 0.61
11 8 0.29
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTATTTTTC
Found at i:9693566 original size:26 final size:25
Alignment explanation
Indices: 9693516--9693566 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
9693506 TCCCATCTTT
* *
9693516 ATCGGACTTTCTTATAACTATTTTC
1 ATCGGACATTCTTATAACTAGTTTC
*
9693541 ATCGGACATTCTTAGTAACTGGTTTC
1 ATCGGACATTCTTA-TAACTAGTTTC
9693567 TATGATCTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.43
Consensus pattern (25 bp):
ATCGGACATTCTTATAACTAGTTTC
Found at i:9697090 original size:14 final size:15
Alignment explanation
Indices: 9697066--9697099 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
9697056 ATTTCTTATA
*
9697066 TAAAAAGTTATAGTT
1 TAAAAAGTTATAATT
9697081 TAAAAA-TTATAATT
1 TAAAAAGTTATAATT
9697095 TAAAA
1 TAAAA
9697100 CCAAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (15 bp):
TAAAAAGTTATAATT
Found at i:9697348 original size:43 final size:46
Alignment explanation
Indices: 9697264--9697348 Score: 104
Period size: 43 Copynumber: 1.9 Consensus size: 46
9697254 AATTTATATC
* * * *
9697264 ATTATATCATATAAAATATTATATTAATATCATATTTTAAATAAAA
1 ATTATATCATATAAAATATTATATTAATATAAAAATATAAATAAAA
*
9697310 ATTATAT-AT-TATAAT-TTATATTAATATAAAAATATAAAT
1 ATTATATCATATAAAATATTATATTAATATAAAAATATAAAT
9697349 TTTTTATAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
43 20 0.59
44 5 0.15
45 2 0.06
46 7 0.21
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (46 bp):
ATTATATCATATAAAATATTATATTAATATAAAAATATAAATAAAA
Found at i:9698203 original size:20 final size:20
Alignment explanation
Indices: 9698180--9698226 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
9698170 ATATTTCATA
*
9698180 TAATAT-TTTAATATAATTTT
1 TAATATATTTAA-ATAAATTT
9698200 TAATATATTTAAATAAATTT
1 TAATATATTTAAATAAATTT
*
9698220 AAATATA
1 TAATATA
9698227 AAATAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TAATATATTTAAATAAATTT
Found at i:9698209 original size:11 final size:12
Alignment explanation
Indices: 9698177--9698206 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
9698167 TTTATATTTC
9698177 ATATAATATTTTA
1 ATATAAT-TTTTA
9698190 ATATAATTTTTA
1 ATATAATTTTTA
9698202 ATATA
1 ATATA
9698207 TTTAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
ATATAATTTTTA
Found at i:9702956 original size:24 final size:24
Alignment explanation
Indices: 9702929--9702983 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
9702919 GCTCTAGTTG
*
9702929 GCTCCTTCGTTGCAGGTTTTGACT
1 GCTCCTCCGTTGCAGGTTTTGACT
9702953 GCTCCTCCGTTGCAGGTTTTGACT
1 GCTCCTCCGTTGCAGGTTTTGACT
9702977 GCTCCTC
1 GCTCCTC
9702984 TGAACCCAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.07, C:0.31, G:0.24, T:0.38
Consensus pattern (24 bp):
GCTCCTCCGTTGCAGGTTTTGACT
Found at i:9703239 original size:2 final size:2
Alignment explanation
Indices: 9703232--9703270 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
9703222 GCAAGTAGCA
9703232 AG AG AG AG AG AG AG 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 AG AG AG AG AG AG AG A
9703271 AGGAGACCCA
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:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9710569 original size:2 final size:2
Alignment explanation
Indices: 9710562--9710588 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9710552 AAAATAATTT
9710562 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 T
9710589 TAGATTGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9712721 original size:2 final size:2
Alignment explanation
Indices: 9712714--9712750 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
9712704 AACAGTGTTT
9712714 TA TA TA TA TA TA TA TA T- TA -A TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9712751 AGTGGACATC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 3 0.09
2 29 0.91
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9712738 original size:16 final size:16
Alignment explanation
Indices: 9712717--9712748 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9712707 AGTGTTTTAT
9712717 ATATATATATATATTA
1 ATATATATATATATTA
9712733 ATATATATATATATTA
1 ATATATATATATATTA
9712749 TAAGTGGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATATATATATATTA
Found at i:9713462 original size:17 final size:18
Alignment explanation
Indices: 9713430--9713464 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
9713420 ATTTGACATT
*
9713430 TATAAAATTTATTTATTA
1 TATAAAATTCATTTATTA
9713448 TATAAAA-TCATTTATTA
1 TATAAAATTCATTTATTA
9713465 GTTTTAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
TATAAAATTCATTTATTA
Found at i:9715013 original size:31 final size:31
Alignment explanation
Indices: 9714975--9715035 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
9714965 TGCCAAGTTT
9714975 ACTAAAAATAATGGAAAAGTTAAAAACACTC
1 ACTAAAAATAATGGAAAAGTTAAAAACACTC
9715006 ACTAAAAATAATGGAAAAGTTAAAAACACT
1 ACTAAAAATAATGGAAAAGTTAAAAACACT
9715036 AACATGTGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.59, C:0.11, G:0.10, T:0.20
Consensus pattern (31 bp):
ACTAAAAATAATGGAAAAGTTAAAAACACTC
Found at i:9715337 original size:45 final size:45
Alignment explanation
Indices: 9715269--9715358 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
9715259 TACTTAAGAA
* *
9715269 TCCTACATCCGTTTTCTCCGGTCATCCAATAGAAATGAGCCATGT
1 TCCTACATCCGTTTTCTCAGGTCATCCAATAGAAATAAGCCATGT
* * *
9715314 TCCTACATCTGTTTTCTTAGGTCATCCGATAGAAATAAGCCATGT
1 TCCTACATCCGTTTTCTCAGGTCATCCAATAGAAATAAGCCATGT
9715359 GGTCAAAATG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (45 bp):
TCCTACATCCGTTTTCTCAGGTCATCCAATAGAAATAAGCCATGT
Found at i:9720671 original size:2 final size:2
Alignment explanation
Indices: 9720664--9720688 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9720654 TAAACACTTG
9720664 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
9720689 GTACAAGCAA
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:9722910 original size:7 final size:7
Alignment explanation
Indices: 9722898--9722922 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9722888 CTTTTTGAAG
9722898 TTTTAGT
1 TTTTAGT
9722905 TTTTAGT
1 TTTTAGT
9722912 TTTTAGT
1 TTTTAGT
9722919 TTTT
1 TTTT
9722923 TCTGATGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (7 bp):
TTTTAGT
Found at i:9728078 original size:24 final size:24
Alignment explanation
Indices: 9728051--9728097 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
9728041 TTTGAACTTC
9728051 ACCAATGGAGTCATGAGATTTTTT
1 ACCAATGGAGTCATGAGATTTTTT
9728075 ACCAATGGAGTCATGAGATTTTT
1 ACCAATGGAGTCATGAGATTTTT
9728098 ATGACACTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (24 bp):
ACCAATGGAGTCATGAGATTTTTT
Found at i:9728240 original size:3 final size:3
Alignment explanation
Indices: 9728232--9728278 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
9728222 CGTTGGGACC
9728232 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
9728279 ACTTTTGGGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:9730117 original size:19 final size:19
Alignment explanation
Indices: 9730082--9730119 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
9730072 CTTAAATAAT
*
9730082 TAATTAACAAATTAAAATA
1 TAATTAACAAATCAAAATA
9730101 TAATTAA-ACAATCAAAATA
1 TAATTAACA-AATCAAAATA
9730120 AAATATGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (19 bp):
TAATTAACAAATCAAAATA
Found at i:9730755 original size:33 final size:33
Alignment explanation
Indices: 9730718--9730808 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
9730708 GAGGAAGAGA
9730718 AGCACAAGGGAGAAGGTCACCATGGACATGAGG
1 AGCACAAGGGAGAAGGTCACCATGGACATGAGG
9730751 AGCACAAGGGAGAAGGTCACCATGGACATGAGG
1 AGCACAAGGGAGAAGGTCACCATGGACATGAGG
9730784 AGCACAAGGGAG-AGGCTCACCATGG
1 AGCACAAGGGAGAAGG-TCACCATGG
9730809 GGAGAAGCAC
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
32 3 0.05
33 54 0.95
ACGTcount: A:0.35, C:0.20, G:0.36, T:0.09
Consensus pattern (33 bp):
AGCACAAGGGAGAAGGTCACCATGGACATGAGG
Found at i:9732844 original size:16 final size:15
Alignment explanation
Indices: 9732786--9732862 Score: 63
Period size: 15 Copynumber: 5.1 Consensus size: 15
9732776 TAAATTACAT
*
9732786 TATAATTATATATAAA
1 TATAATTTTAT-TAAA
9732802 TATAATATTTTATTAAA
1 TAT-A-ATTTTATTAAA
*
9732819 TA-AA-TGTATTAAA
1 TATAATTTTATTAAA
9732832 TGATAATTTTATT-AA
1 T-ATAATTTTATTAAA
9732847 TATAATATTTA-TAAA
1 TATAAT-TTTATTAAA
9732862 T
1 T
9732863 CAAATTTAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
13 9 0.18
14 8 0.16
15 13 0.25
16 8 0.16
17 7 0.14
18 6 0.12
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
TATAATTTTATTAAA
Found at i:9732868 original size:29 final size:29
Alignment explanation
Indices: 9732808--9732869 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
9732798 TAAATATAAT
*
9732808 ATTTTATTAAATAAATGTATTAAATGATA
1 ATTTTATTAAATAAATGTATTAAATCATA
*
9732837 ATTTTATTAATATAATATTTA-TAAATCA-A
1 ATTTTATTAA-ATAA-ATGTATTAAATCATA
9732866 ATTT
1 ATTT
9732870 AAACAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 15 0.52
30 10 0.34
31 4 0.14
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (29 bp):
ATTTTATTAAATAAATGTATTAAATCATA
Found at i:9734357 original size:2 final size:2
Alignment explanation
Indices: 9734350--9734396 Score: 53
Period size: 2 Copynumber: 24.5 Consensus size: 2
9734340 AACCTGATTG
* *
9734350 AT AT AT AT AT AT AT AT AT AT AT AT -T A- AT TT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
9734390 TT AT AT A
1 AT AT AT A
9734397 AAATTGCCAC
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
AT
Found at i:9735443 original size:21 final size:21
Alignment explanation
Indices: 9735402--9735443 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
9735392 CAAATATATC
**
9735402 AAATTTTATTAATTTTTTTTA
1 AAATTTTATTAATTTGATTTA
9735423 AAATTTTA-TATATTTGATTTA
1 AAATTTTATTA-ATTTGATTTA
9735444 CGTGATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
AAATTTTATTAATTTGATTTA
Found at i:9736180 original size:24 final size:21
Alignment explanation
Indices: 9736128--9736180 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 21
9736118 ATTTTCATAG
9736128 ATTTTTAAATATATTATTTAT
1 ATTTTTAAATATATTATTTAT
* *
9736149 AATATTAATATATATATATTTTAT
1 ATTTTTAA-ATATAT-TA-TTTAT
9736173 ATTTTTAA
1 ATTTTTAA
9736181 GATTGAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 6 0.24
22 6 0.24
23 2 0.08
24 11 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTTTTAAATATATTATTTAT
Found at i:9740554 original size:18 final size:17
Alignment explanation
Indices: 9740527--9740566 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
9740517 ATTTTTATTT
*
9740527 TATAAAAATATAAAATA
1 TATAAAAATAAAAAATA
9740544 TATATAAAATAAAAAATA
1 TATA-AAAATAAAAAATA
9740562 TATAA
1 TATAA
9740567 TTCAGTTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TATAAAAATAAAAAATA
Found at i:9740557 original size:16 final size:16
Alignment explanation
Indices: 9740527--9740566 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
9740517 ATTTTTATTT
9740527 TATA-AAAATATAAAATA
1 TATATAAAATA-AAAA-A
9740544 TATATAAAATAAAAAA
1 TATATAAAATAAAAAA
9740560 TATATAA
1 TATATAA
9740567 TTCAGTTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.36
17 8 0.36
18 6 0.27
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
TATATAAAATAAAAAA
Found at i:9741277 original size:25 final size:26
Alignment explanation
Indices: 9741245--9741306 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
9741235 TATTAATATA
* *
9741245 ATTATTAAACTAT-TGAAATTTATTT
1 ATTATTAAAATATATGAAAGTTATTT
**
9741270 ATTATTAAAATATATTCAAGTTATTT
1 ATTATTAAAATATATGAAAGTTATTT
9741296 ATTATTAAAAT
1 ATTATTAAAAT
9741307 TATTAATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 12 0.38
26 20 0.62
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (26 bp):
ATTATTAAAATATATGAAAGTTATTT
Found at i:9741380 original size:15 final size:15
Alignment explanation
Indices: 9741379--9741408 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
9741369 TTTATTAATA
9741379 TATTAATATATTATT
1 TATTAATATATTATT
9741394 TATTAATATATTATT
1 TATTAATATATTATT
9741409 ATTTATAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTAATATATTATT
Found at i:9741384 original size:8 final size:8
Alignment explanation
Indices: 9741362--9741406 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
9741352 TATTATTCTT
9741362 TATATT-A
1 TATATTAA
*
9741369 TTTATTAA
1 TATATTAA
9741377 TATATTAA
1 TATATTAA
9741385 TATATT-A
1 TATATTAA
*
9741392 TTTATTAA
1 TATATTAA
9741400 TATATTA
1 TATATTA
9741407 TTATTTATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
7 11 0.34
8 21 0.66
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
TATATTAA
Found at i:9741388 original size:23 final size:23
Alignment explanation
Indices: 9741362--9741414 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
9741352 TATTATTCTT
9741362 TATATTATTTATTAATATATTAA
1 TATATTATTTATTAATATATTAA
*
9741385 TATATTATTTATTAATATATTAT
1 TATATTATTTATTAATATATTAA
9741408 TAT-TTAT
1 TATATTAT
9741415 AAGTAAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 4 0.14
23 25 0.86
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TATATTATTTATTAATATATTAA
Found at i:9741415 original size:12 final size:12
Alignment explanation
Indices: 9741352--9741415 Score: 51
Period size: 12 Copynumber: 5.2 Consensus size: 12
9741342 TTTAACTATT
*
9741352 TATTATTCTTTA
1 TATTATTATTTA
9741364 TATTATTTATTAATA
1 TATTA-TTATT--TA
*
9741379 TATTAATATATTA
1 TATTATTAT-TTA
*
9741392 T-TTATTA-ATA
1 TATTATTATTTA
9741402 TATTATTATTTA
1 TATTATTATTTA
9741414 TA
1 TA
9741416 AGTAAAATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
10 3 0.07
11 6 0.15
12 14 0.34
13 7 0.17
14 3 0.07
15 8 0.20
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (12 bp):
TATTATTATTTA
Found at i:9742627 original size:19 final size:18
Alignment explanation
Indices: 9742603--9742639 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
9742593 TTAATAAAAA
9742603 TATTAAAATTTTAATTTTT
1 TATTAAAA-TTTAATTTTT
*
9742622 TATTAAGATTTAATTTTT
1 TATTAAAATTTAATTTTT
9742640 AACAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TATTAAAATTTAATTTTT
Found at i:9743008 original size:32 final size:31
Alignment explanation
Indices: 9742972--9743054 Score: 96
Period size: 31 Copynumber: 2.6 Consensus size: 31
9742962 AATATTATGC
* *
9742972 ATTATATAAAATATAAAAATTTATGTATTTAT
1 ATTATATATAATATAAAAATTTATGTA-TCAT
* *
9743004 ATTATATTTTATATAAAAA-TTATGTATCAT
1 ATTATATATAATATAAAAATTTATGTATCAT
*
9743034 AATATATATTAATATAAAAAT
1 ATTATATA-TAATATAAAAAT
9743055 ATAAAATATT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
30 9 0.21
31 17 0.40
32 16 0.38
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (31 bp):
ATTATATATAATATAAAAATTTATGTATCAT
Found at i:9743129 original size:19 final size:19
Alignment explanation
Indices: 9743104--9743143 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
9743094 TTAAGTTGTA
9743104 TTAT-TTTTA-TATTATAT
1 TTATATTTTATTATTATAT
9743121 TTATATTTTATTATTATAT
1 TTATATTTTATTATTATAT
9743140 TTAT
1 TTAT
9743144 TTTAAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.19
18 5 0.24
19 12 0.57
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTATATTTTATTATTATAT
Found at i:9743152 original size:19 final size:18
Alignment explanation
Indices: 9743104--9743163 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
9743094 TTAAGTTGTA
*
9743104 TTATTTTTA-TATTATAT
1 TTATTTTAATTATTATAT
*
9743121 TTATATTTTATTATTATAT
1 TTAT-TTTAATTATTATAT
* *
9743140 TTATTTTAAATTATCAAAT
1 TTATTTT-AATTATTATAT
9743159 TTATT
1 TTATT
9743164 GATAACCTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 4 0.11
18 8 0.22
19 25 0.68
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (18 bp):
TTATTTTAATTATTATAT
Found at i:9743778 original size:23 final size:23
Alignment explanation
Indices: 9743752--9743804 Score: 54
Period size: 26 Copynumber: 2.2 Consensus size: 23
9743742 TATTTGACAT
*
9743752 ATATAAC-GATACGAATTATTAAA
1 ATATAACAGAAACGAATTA-TAAA
*
9743775 ATATGAACATGAAATGAATTATAAA
1 ATAT-AACA-GAAACGAATTATAAA
9743800 ATATA
1 ATATA
9743805 TTTAAATCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 4 0.16
24 4 0.16
25 8 0.32
26 9 0.36
ACGTcount: A:0.55, C:0.06, G:0.09, T:0.30
Consensus pattern (23 bp):
ATATAACAGAAACGAATTATAAA
Found at i:9743972 original size:29 final size:29
Alignment explanation
Indices: 9743904--9743972 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 29
9743894 ACATGATATA
* * *
9743904 AATAAACATGAATAATATAGATATAAACG
1 AATAGACATGAATAATACAAATATAAACG
* * *
9743933 AAT-GAATATGATTAATACAAATATATACG
1 AATAG-ACATGAATAATACAAATATAAACG
9743962 AATAGACATGA
1 AATAGACATGA
9743973 CTAAAATGAA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
29 30 0.97
30 1 0.03
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.26
Consensus pattern (29 bp):
AATAGACATGAATAATACAAATATAAACG
Found at i:9744112 original size:29 final size:27
Alignment explanation
Indices: 9744054--9744106 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
9744044 ATAAACTTGG
*
9744054 CATATTAATAATATAAAAAAGTATTTA
1 CATATTAATAATATAAAAAAATATTTA
9744081 CATATTAA-AATAATAAAAAAAT-TTTA
1 CATATTAATAAT-ATAAAAAAATATTTA
9744107 ATACATCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (27 bp):
CATATTAATAATATAAAAAAATATTTA
Found at i:9746674 original size:16 final size:16
Alignment explanation
Indices: 9746653--9746683 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9746643 ATGTGCGGTA
*
9746653 ATAATTTTAGATCAAG
1 ATAATTTTAAATCAAG
9746669 ATAATTTTAAATCAA
1 ATAATTTTAAATCAA
9746684 ATGGAATCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (16 bp):
ATAATTTTAAATCAAG
Found at i:9756871 original size:14 final size:13
Alignment explanation
Indices: 9756830--9756873 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
9756820 ATTGTGATTG
*
9756830 AAAAATTTTAATA
1 AAAAATTTTATTA
*
9756843 AAAAATTTATGTTA
1 AAAAATTT-TATTA
9756857 AATAAATTTTATTA
1 AA-AAATTTTATTA
9756871 AAA
1 AAA
9756874 TTAATATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 9 0.35
14 11 0.42
15 6 0.23
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (13 bp):
AAAAATTTTATTA
Found at i:9763149 original size:13 final size:13
Alignment explanation
Indices: 9763131--9763158 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
9763121 ATACAATCCC
9763131 GTATATTTTCATT
1 GTATATTTTCATT
9763144 GTATATTTTCATT
1 GTATATTTTCATT
9763157 GT
1 GT
9763159 TTTATAGCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.11, T:0.61
Consensus pattern (13 bp):
GTATATTTTCATT
Found at i:9768059 original size:13 final size:14
Alignment explanation
Indices: 9768035--9768065 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
9768025 AAATTTATTA
9768035 TTAAATATTTTAAT
1 TTAAATATTTTAAT
9768049 TTAAA-ATTTTAAT
1 TTAAATATTTTAAT
9768062 TTAA
1 TTAA
9768066 TAAAATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTAAATATTTTAAT
Found at i:9768116 original size:16 final size:17
Alignment explanation
Indices: 9768084--9768117 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9768074 TATATTTATG
9768084 TATAATAAAATATAATT
1 TATAATAAAATATAATT
*
9768101 TATATTAAAA-ATAATT
1 TATAATAAAATATAATT
9768117 T
1 T
9768118 TCAATCTTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TATAATAAAATATAATT
Found at i:9768403 original size:10 final size:10
Alignment explanation
Indices: 9768370--9768413 Score: 52
Period size: 10 Copynumber: 4.1 Consensus size: 10
9768360 TTCGATAAAT
9768370 TATTCATTAATA
1 TATTCATT--TA
9768382 TATTCAATTTA
1 TATTC-ATTTA
9768393 TATTCATTTA
1 TATTCATTTA
*
9768403 TATTCGTTTA
1 TATTCATTTA
9768413 T
1 T
9768414 TAAATTTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 15 0.50
11 7 0.23
12 5 0.17
13 3 0.10
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (10 bp):
TATTCATTTA
Found at i:9768660 original size:15 final size:14
Alignment explanation
Indices: 9768642--9768689 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
9768632 AGTTCGTTTA
9768642 TATTCATTTAAGATT
1 TATTCATTTAA-ATT
*
9768657 TATTTATTTAAATT
1 TATTCATTTAAATT
* *
9768671 TATTTAATTATAATT
1 TATTCATTTA-AATT
9768686 TATT
1 TATT
9768690 TATTATTCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 12 0.40
15 18 0.60
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (14 bp):
TATTCATTTAAATT
Found at i:9768694 original size:14 final size:15
Alignment explanation
Indices: 9768654--9768695 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
9768644 TTCATTTAAG
9768654 ATTTATTTATT-TAA
1 ATTTATTTATTATAA
9768668 ATTTATTTAATTAT-A
1 ATTTATTT-ATTATAA
9768683 ATTTATTTATTAT
1 ATTTATTTATTAT
9768696 TCATAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 13 0.50
15 12 0.46
16 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTTATTTATTATAA
Found at i:9768762 original size:23 final size:23
Alignment explanation
Indices: 9768727--9768778 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
9768717 TATGTTCGTT
*
9768727 AATATATTCATTTAATATTAA-TA
1 AATAAATTCATTTAAT-TTAATTA
*
9768750 AATAAATTTATTTAATTTAATTA
1 AATAAATTCATTTAATTTAATTA
9768773 AATAAA
1 AATAAA
9768779 CACAAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
AATAAATTCATTTAATTTAATTA
Found at i:9770874 original size:28 final size:28
Alignment explanation
Indices: 9770821--9770910 Score: 76
Period size: 28 Copynumber: 3.2 Consensus size: 28
9770811 AATTAAAGAT
* * *
9770821 AAATAAATTATTTAATTTTTTAAA-TTA
1 AAATAAAATATTTAATATTTAAAATTTA
*
9770848 AAATAAAATATTTTATATTTAACAATTTA
1 AAATAAAATATTTAATATTTAA-AATTTA
* * * *
9770877 AAAT-AAATAATTAAAAATTATACATTTA
1 AAATAAAATATTTAATATTTA-AAATTTA
9770905 AAATAA
1 AAATAA
9770911 TTTTAATAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
27 18 0.36
28 23 0.46
29 9 0.18
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (28 bp):
AAATAAAATATTTAATATTTAAAATTTA
Found at i:9771298 original size:14 final size:14
Alignment explanation
Indices: 9771279--9771306 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9771269 TTGTTTTCTG
9771279 AAAAATAAATTTTA
1 AAAAATAAATTTTA
9771293 AAAAATAAATTTTA
1 AAAAATAAATTTTA
9771307 TATTTTTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AAAAATAAATTTTA
Found at i:9771374 original size:22 final size:21
Alignment explanation
Indices: 9771329--9771378 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
9771319 TTTATTTGAT
*
9771329 AAAAAATTGATTGATTAATAA
1 AAAAAATTGATTGATTAACAA
* *
9771350 AAAATAATTTATTGATTAACGA
1 AAAA-AATTGATTGATTAACAA
9771372 AAAAAAT
1 AAAAAAT
9771379 CATTTTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (21 bp):
AAAAAATTGATTGATTAACAA
Found at i:9771495 original size:18 final size:18
Alignment explanation
Indices: 9771472--9771631 Score: 107
Period size: 18 Copynumber: 8.7 Consensus size: 18
9771462 AATTTTACTT
9771472 ATAAATAATATTATATTA
1 ATAAATAATATTATATTA
9771490 ATAAATAAGTAATTTTATATTA
1 ATAAATAA-T-A--TTATATTA
9771512 ATAAATAATA-TACTATTA
1 ATAAATAATATTA-TATTA
*
9771530 ATATAAT-ATATTACA--A
1 ATA-AATAATATTATATTA
* * *
9771546 AGTGATATTATAATATATTA
1 A-T-AAATAATATTATATTA
*
9771566 ATAAATAATATTATATTG
1 ATAAATAATATTATATTA
* *
9771584 ATAAATAAATAATATACT-
1 ATAAAT-AATATTATATTA
* *
9771602 ATTAAT-ATAATATATTA
1 ATAAATAATATTATATTA
*
9771619 ATAAATATTATTA
1 ATAAATAATATTA
9771632 ATAAATGATA
Statistics
Matches: 112, Mismatches: 15, Indels: 30
0.71 0.10 0.19
Matches are distributed among these distances:
16 11 0.10
17 10 0.09
18 54 0.48
19 16 0.14
20 4 0.04
21 1 0.01
22 16 0.14
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (18 bp):
ATAAATAATATTATATTA
Found at i:9771541 original size:13 final size:12
Alignment explanation
Indices: 9771515--9771648 Score: 87
Period size: 13 Copynumber: 10.5 Consensus size: 12
9771505 TATATTAATA
9771515 AATAATATACTATT
1 AATAA-ATA-TATT
9771529 AATATAATATATT
1 AATA-AATATATT
*
9771542 ACA-AAGTGATATT
1 A-ATAAAT-ATATT
9771555 -AT-AATATATT
1 AATAAATATATT
9771565 AATAAATAATATT
1 AATAAAT-ATATT
** * *
9771578 ATATTGATAAATA
1 A-ATAAATATATT
9771591 AATAATATACTATT
1 AATAA-ATA-TATT
9771605 AATATAATATATT
1 AATA-AATATATT
9771618 AATAAATATTATT
1 AATAAATA-TATT
9771631 AATAAATGATATT
1 AATAAAT-ATATT
9771644 -ATAAA
1 AATAAA
9771649 ATAGAATTGA
Statistics
Matches: 97, Mismatches: 10, Indels: 28
0.72 0.07 0.21
Matches are distributed among these distances:
10 5 0.05
11 5 0.05
12 16 0.16
13 47 0.48
14 22 0.23
15 2 0.02
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (12 bp):
AATAAATATATT
Done.