Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 3 of 253
Found at i:663309 original size:20 final size:20
Alignment explanation
Indices: 663284--663347 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
663274 AAAGATAGTT
663284 TAGTTAACTAGAACTTAACC
1 TAGTTAACTAGAACTTAACC
* * *
663304 TAGTTAACCCA-TAGTT----
1 TAGTTAA-CTAGAACTTAACC
663320 TAGTTAACTAGAACTTAACC
1 TAGTTAACTAGAACTTAACC
663340 TAGTTAAC
1 TAGTTAAC
663348 CCAAACTTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
15 2 0.06
16 10 0.31
20 18 0.56
21 2 0.06
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.33
Consensus pattern (20 bp):
TAGTTAACTAGAACTTAACC
Found at i:663325 original size:36 final size:36
Alignment explanation
Indices: 663278--663350 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
663268 CCTCAAAAAG
663278 ATAGTTTAGTTAACTAGAACTTAACCTAGTTAACCC
1 ATAGTTTAGTTAACTAGAACTTAACCTAGTTAACCC
663314 ATAGTTTAGTTAACTAGAACTTAACCTAGTTAACCC
1 ATAGTTTAGTTAACTAGAACTTAACCTAGTTAACCC
663350 A
1 A
663351 AACTTGAACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (36 bp):
ATAGTTTAGTTAACTAGAACTTAACCTAGTTAACCC
Found at i:663354 original size:20 final size:20
Alignment explanation
Indices: 663295--663355 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
663285 AGTTAACTAG
663295 AACTTAACCTAGTTAACCCA
1 AACTTAACCTAGTTAACCCA
* * *
663315 TAGTT----TAGTTAA-CTA
1 AACTTAACCTAGTTAACCCA
663330 GAACTTAACCTAGTTAACCCA
1 -AACTTAACCTAGTTAACCCA
663351 AACTT
1 AACTT
663356 GAACATAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 12
0.62 0.13 0.26
Matches are distributed among these distances:
15 2 0.07
16 10 0.34
20 15 0.52
21 2 0.07
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (20 bp):
AACTTAACCTAGTTAACCCA
Found at i:667539 original size:24 final size:24
Alignment explanation
Indices: 667512--667563 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
667502 TTAGTAAGTC
*
667512 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
667536 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
667560 AAAT
1 AAAT
667564 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:670104 original size:29 final size:28
Alignment explanation
Indices: 670033--670089 Score: 87
Period size: 30 Copynumber: 2.0 Consensus size: 28
670023 TGGGTTAAAT
*
670033 ATTAAATTTATATATAAATTTTTATTTA
1 ATTAAATTTATATATAAATTTTAATTTA
670061 ATTACAATTTAATATATAAATTTTAATTT
1 ATTA-AATTT-ATATATAAATTTTAATTT
670090 GATGTAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 4 0.15
29 5 0.19
30 17 0.65
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (28 bp):
ATTAAATTTATATATAAATTTTAATTTA
Found at i:673996 original size:16 final size:18
Alignment explanation
Indices: 673975--674007 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
673965 ATTTAATTAT
673975 ATATAA-TAA-ATTGTTC
1 ATATAATTAATATTGTTC
673991 ATATAATTAATATTGTT
1 ATATAATTAATATTGTT
674008 TACAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 3 0.20
18 6 0.40
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (18 bp):
ATATAATTAATATTGTTC
Found at i:676297 original size:3 final size:3
Alignment explanation
Indices: 676289--676321 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
676279 ATACACAATC
676289 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
676322 TCGAAGTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:684733 original size:25 final size:23
Alignment explanation
Indices: 684698--684744 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
684688 GTGTTTGATA
*
684698 TTTTTTTTAATATGGTACTTGTG
1 TTTTTTTTAATATGGCACTTGTG
*
684721 TTTTTTATCTAATGTGGCACTTGT
1 TTTTTT-T-TAATATGGCACTTGT
684745 ATTTAACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 1 0.05
25 13 0.65
ACGTcount: A:0.17, C:0.09, G:0.17, T:0.57
Consensus pattern (23 bp):
TTTTTTTTAATATGGCACTTGTG
Found at i:698536 original size:34 final size:34
Alignment explanation
Indices: 698498--698567 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
698488 TTGGTTTGAC
*
698498 TTGTTAGATATATATGTGTCCGACATTGATATGT
1 TTGTTAGATATATAAGTGTCCGACATTGATATGT
* *
698532 TTGTTAGATATGTAAGTGTCCGACGTTGATATGT
1 TTGTTAGATATATAAGTGTCCGACATTGATATGT
698566 TT
1 TT
698568 ATGTTCTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.24, C:0.09, G:0.23, T:0.44
Consensus pattern (34 bp):
TTGTTAGATATATAAGTGTCCGACATTGATATGT
Found at i:700359 original size:29 final size:30
Alignment explanation
Indices: 700296--700359 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
700286 ATCTCAAAAC
*
700296 TATACATGAACTATGGTTTAATGTGCAATTG
1 TATACATGAACTATGATTT-ATGTGCAATTG
* * *
700327 TATACATGAACTTTGATTT-TGTGTAATTT
1 TATACATGAACTATGATTTATGTGCAATTG
700356 TATA
1 TATA
700360 TGTAAAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 12 0.41
31 17 0.59
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (30 bp):
TATACATGAACTATGATTTATGTGCAATTG
Found at i:700599 original size:29 final size:30
Alignment explanation
Indices: 700556--700628 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 30
700546 CCACAATCAG
* **
700556 AGTTTCATGTGTACAATTGTAC-TAAATTAA
1 AGTTT-ATGTATACAATTAAACATAAATTAA
700586 AGTTTATGTATACAATTAAACATTAAATTAA
1 AGTTTATGTATACAATTAAACA-TAAATTAA
*
700617 AATTTATGTATA
1 AGTTTATGTATA
700629 ATTTTGAGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 13 0.35
30 5 0.14
31 19 0.51
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.41
Consensus pattern (30 bp):
AGTTTATGTATACAATTAAACATAAATTAA
Found at i:708598 original size:14 final size:14
Alignment explanation
Indices: 708575--708605 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
708565 AAAAATCTGT
*
708575 AAAATTTAAAAAAA
1 AAAATGTAAAAAAA
708589 AAAATGTAAAAAAA
1 AAAATGTAAAAAAA
708603 AAA
1 AAA
708606 CTTATTCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (14 bp):
AAAATGTAAAAAAA
Found at i:710953 original size:35 final size:36
Alignment explanation
Indices: 710913--710984 Score: 137
Period size: 35 Copynumber: 2.0 Consensus size: 36
710903 TATAACAAAG
710913 TAAGAAAACAAGGGCCAAATCCACAAC-AATTTCAT
1 TAAGAAAACAAGGGCCAAATCCACAACAAATTTCAT
710948 TAAGAAAACAAGGGCCAAATCCACAACAAATTTCAT
1 TAAGAAAACAAGGGCCAAATCCACAACAAATTTCAT
710984 T
1 T
710985 GTCATTTCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 27 0.75
36 9 0.25
ACGTcount: A:0.49, C:0.22, G:0.11, T:0.18
Consensus pattern (36 bp):
TAAGAAAACAAGGGCCAAATCCACAACAAATTTCAT
Found at i:711088 original size:3 final size:3
Alignment explanation
Indices: 711080--711104 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
711070 GTTTATTTAT
711080 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
711105 CTACATATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:715335 original size:55 final size:53
Alignment explanation
Indices: 715237--715436 Score: 210
Period size: 55 Copynumber: 3.7 Consensus size: 53
715227 TTAAGGATAC
*
715237 CATGTAAGACCATG-CTAAGGCATGGCAATTGGTAAGGTT-TATAAGGCAAGGAAAT
1 CATGTAAGACCATGTC-AAGACATGGC-ATTGGTAA-GTTCTATAAGGCAAGG-AAT
* * *
715292 CATGTAAGACCATGTCAAGACACGGCATTGATAAGTTACTATAAGGCAAAGG-TT
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-CTATAAGGC-AAGGAAT
* * * * *
715346 CCATGTAAGACCATGCCAAGGCATAGCATTGGTGAGTTC-ATAAGGCAAGGATAC
1 -CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCTATAAGGCAAGGA-AT
*
715400 CATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT
715437 TCAAAAGGAT
Statistics
Matches: 121, Mismatches: 17, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
52 4 0.03
53 42 0.35
54 9 0.07
55 61 0.50
56 5 0.04
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (53 bp):
CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCTATAAGGCAAGGAAT
Found at i:715435 original size:108 final size:110
Alignment explanation
Indices: 715236--715436 Score: 307
Period size: 108 Copynumber: 1.8 Consensus size: 110
715226 TTTAAGGATA
* * * *
715236 CCATGTAAGACCATGCTAAGGCATGGCAATTGGTAAGGTTTATAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATAGCAATTGGTAAGGTTCATAAGGCAAGGAAACCATGTAAGA
*
715301 CCATGTCAAGACACGGCATTGATAAGTTACTATAAGGCAAAGGTT
66 CCATGTCAAGACACGGCAATGATAAGTTACTATAAGGCAAAGGTT
* *
715346 CCATGTAAGACCATGCCAAGGCATAGC-ATTGGTGA-GTTCATAAGGCAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATAGCAATTGGTAAGGTTCATAAGGCAAGGAAACCATGTAAGA
* *
715409 CCATGTCAAGACATGGCAATGGTAAGTT
66 CCATGTCAAGACACGGCAATGATAAGTT
715437 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
108 50 0.61
109 7 0.09
110 25 0.30
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATAGCAATTGGTAAGGTTCATAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACACGGCAATGATAAGTTACTATAAGGCAAAGGTT
Found at i:715673 original size:16 final size:16
Alignment explanation
Indices: 715652--715682 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
715642 ATAAATTTGA
715652 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
715668 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
715683 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:723553 original size:19 final size:19
Alignment explanation
Indices: 723529--723570 Score: 70
Period size: 17 Copynumber: 2.3 Consensus size: 19
723519 GGTATCACCA
723529 AAACATATATCACATTTCT
1 AAACATATATCACATTTCT
723548 AAAC--ATATCACATTTCT
1 AAACATATATCACATTTCT
723565 AAACAT
1 AAACAT
723571 CATTAATCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 17 0.81
19 4 0.19
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (19 bp):
AAACATATATCACATTTCT
Found at i:723557 original size:17 final size:17
Alignment explanation
Indices: 723535--723570 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
723525 ACCAAAACAT
723535 ATATCACATTTCTAAAC
1 ATATCACATTTCTAAAC
723552 ATATCACATTTCTAAAC
1 ATATCACATTTCTAAAC
723569 AT
1 AT
723571 CATTAATCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.22, G:0.00, T:0.36
Consensus pattern (17 bp):
ATATCACATTTCTAAAC
Found at i:723956 original size:47 final size:47
Alignment explanation
Indices: 723804--723980 Score: 211
Period size: 47 Copynumber: 3.8 Consensus size: 47
723794 TGTAACCCGC
* * *
723804 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-GTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
* *
723850 CCATAAGTGAACTCGGGCTCAACTCAACGATTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-AGTTCACAT
* * *
723900 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
723944 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
723981 TGTTCAACCA
Statistics
Matches: 110, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
43 3 0.03
44 5 0.05
45 1 0.01
46 35 0.32
47 56 0.51
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
Found at i:723972 original size:94 final size:93
Alignment explanation
Indices: 723812--723982 Score: 279
Period size: 94 Copynumber: 1.8 Consensus size: 93
723802 GCCCATAAGT
* * *
723812 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGGCTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
723877 CGATTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
723905 GAACTCGGACTCAACTCAACGAGTTCGGACATTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGAC-GTTCACATCCATAAGTGAACTCGGACTCAACTCA
723970 ACGAGTTCGGATG
65 ACGAGTTCGGATG
723983 TTCAACCATC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
93 28 0.39
94 43 0.61
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:724436 original size:30 final size:30
Alignment explanation
Indices: 724402--724461 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
724392 CCTTAATACG
724402 AACTTTGGCAA-AATTAC-CATTTTGCCCCTA
1 AACTTTGG-AATAATTACAC-TTTTGCCCCTA
*
724432 AACTTTTGAATAATTACACTTTTGCCCCTA
1 AACTTTGGAATAATTACACTTTTGCCCCTA
724462 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 2 0.07
30 24 0.89
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAATAATTACACTTTTGCCCCTA
Found at i:725913 original size:55 final size:53
Alignment explanation
Indices: 725776--725983 Score: 215
Period size: 55 Copynumber: 3.8 Consensus size: 53
725766 ATCCTTTTGA
* * *
725776 AACTTACCATTGCCATGTCTTGACATGGTTTTACATGGTATCCTTGCCTTATG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTAACCTTGCCTTATG
* * *
725829 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGG-AACCTTTGCCTTATAG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTAACC-TTGCCTTAT-G
* * **
725883 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-G
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTAACCTTGCCTTATG
* * *
725936 AAACCTTGCCAATTGCCATGCCTT-AGCATGGTCTTACATGGTATCCTT
1 -AA-CTTACCAA-TGCCATGTCTTGA-CATGGTCTTACATGGTAACCTT
725984 AAACCCTAAT
Statistics
Matches: 129, Mismatches: 19, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
52 3 0.02
53 45 0.35
54 8 0.06
55 71 0.55
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTAACCTTGCCTTATG
Found at i:730161 original size:28 final size:27
Alignment explanation
Indices: 730121--730229 Score: 94
Period size: 28 Copynumber: 3.9 Consensus size: 27
730111 CTGCACAATC
*
730121 GATGTCTT-GCACACTAAGTGCTATACCG
1 GATGT-TTCGCACACTAAGTGCCAT-CCG
*
730149 GATGTTTCGCACACTAAGTGCCATCCTC
1 GATGTTTCGCACACTAAGTGCCATCC-G
** * **
730177 GATACTTCGCATACTAAGTGCCATTTTG
1 GATGTTTCGCACACTAAGTGCCA-TCCG
* *
730205 GATGTTTCGCATACTAAGTGTCATC
1 GATGTTTCGCACACTAAGTGCCATC
730230 ATCAATACTT
Statistics
Matches: 66, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
27 5 0.08
28 60 0.91
29 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (27 bp):
GATGTTTCGCACACTAAGTGCCATCCG
Found at i:730275 original size:54 final size:54
Alignment explanation
Indices: 730133--730294 Score: 184
Period size: 54 Copynumber: 3.0 Consensus size: 54
730123 TGTCTTGCAC
* ** *
730133 ACTAAGTGCTATACCGGATGTTTCGCACACTAAGTGCCATCCTCGATACTTCGCAT
1 ACTAAGTGCCATTTCGGATGTTTCGCACACTAAGTGCCATCCTCAATACTT--CAT
* * * *
730189 ACTAAGTGCCATTTTGGATGTTTCGCATACTAAGTGTCATCATCAATACTTCAT
1 ACTAAGTGCCATTTCGGATGTTTCGCACACTAAGTGCCATCCTCAATACTTCAT
* *
730243 AC-ACTGTGTCATTTCGGATGTCTT-GCACACTAAGTGCCATCCTCAATACTTC
1 ACTA-AGTGCCATTTCGGATGT-TTCGCACACTAAGTGCCATCCTCAATACTTC
730295 GCACACTAAG
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
53 1 0.01
54 44 0.49
55 2 0.02
56 43 0.48
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (54 bp):
ACTAAGTGCCATTTCGGATGTTTCGCACACTAAGTGCCATCCTCAATACTTCAT
Found at i:730301 original size:54 final size:55
Alignment explanation
Indices: 730129--730302 Score: 199
Period size: 56 Copynumber: 3.1 Consensus size: 55
730119 TCGATGTCTT
* ** *
730129 GCACACTAAGTGCTATACCGGATGTTTCGCACACTAAGTGCCATCCTCGATACTTC
1 GCACACT-AGTGCCATTTCGGATGTTTCGCACACTAAGTGCCATCCTCAATACTTC
* * * * *
730185 GCATACTAAGTGCCATTTTGGATGTTTCGCATACTAAGTGTCATCATCAATACTTC
1 GCACACT-AGTGCCATTTCGGATGTTTCGCACACTAAGTGCCATCCTCAATACTTC
** *
730241 ATACACT-GTGTCATTTCGGATGTCTT-GCACACTAAGTGCCATCCTCAATACTTC
1 GCACACTAGTGCCATTTCGGATGT-TTCGCACACTAAGTGCCATCCTCAATACTTC
730295 GCACACTA
1 GCACACTA
730303 AGTCCCGTTC
Statistics
Matches: 97, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
54 44 0.45
55 2 0.02
56 51 0.53
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (55 bp):
GCACACTAGTGCCATTTCGGATGTTTCGCACACTAAGTGCCATCCTCAATACTTC
Found at i:739570 original size:26 final size:24
Alignment explanation
Indices: 739541--739592 Score: 59
Period size: 26 Copynumber: 2.1 Consensus size: 24
739531 ATTATATCTA
739541 TAAAATTTTAGTTGTAATTAAAATTG
1 TAAAATTTTA-TTGTAATT-AAATTG
* * *
739567 TAAACTTTTATTTTAATTCAATTG
1 TAAAATTTTATTGTAATTAAATTG
739591 TA
1 TA
739593 TATATTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 7 0.30
25 7 0.30
26 9 0.39
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
TAAAATTTTATTGTAATTAAATTG
Found at i:740585 original size:4 final size:4
Alignment explanation
Indices: 740576--740606 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
740566 TGTAAACATC
740576 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTT
740607 CCACTTGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
CTTT
Found at i:744362 original size:17 final size:18
Alignment explanation
Indices: 744325--744362 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
744315 AATCCTATGC
744325 TATGCAAACCCTATGTGT
1 TATGCAAACCCTATGTGT
* *
744343 TATGCGAACCC-ATTTGT
1 TATGCAAACCCTATGTGT
744360 TAT
1 TAT
744363 TGTGATCCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (18 bp):
TATGCAAACCCTATGTGT
Found at i:747995 original size:13 final size:14
Alignment explanation
Indices: 747966--748008 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
747956 TCATTCATTT
747966 AATATTT-TAAATTA
1 AATATTTATAAA-TA
747980 AATATTTATAAA-A
1 AATATTTATAAATA
*
747993 AATATTGATAAATA
1 AATATTTATAAATA
748007 AA
1 AA
748009 AACAAAACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 12 0.46
14 10 0.38
15 4 0.15
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (14 bp):
AATATTTATAAATA
Found at i:748716 original size:26 final size:25
Alignment explanation
Indices: 748686--748744 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 25
748676 ATATGGGTGA
*
748686 AAAAAATTATATAACAAATATATTTAT
1 AAAAAATTAAATAA-AAA-ATATTTAT
*
748713 AAAAAAATTAAATAATAAATATTTAT
1 -AAAAAATTAAATAAAAAATATTTAT
748739 AAAAAA
1 AAAAAA
748745 ATATTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 6 0.21
26 8 0.28
27 2 0.07
28 13 0.45
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (25 bp):
AAAAAATTAAATAAAAAATATTTAT
Found at i:748745 original size:26 final size:28
Alignment explanation
Indices: 748685--748746 Score: 92
Period size: 26 Copynumber: 2.3 Consensus size: 28
748675 GATATGGGTG
*
748685 AAAAAAATTATATAACAAATATATTTAT
1 AAAAAAATTAAATAACAAATATATTTAT
*
748713 AAAAAAATTAAATAA-TAA-ATATTTAT
1 AAAAAAATTAAATAACAAATATATTTAT
748739 AAAAAAAT
1 AAAAAAAT
748747 ATTTAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 16 0.50
27 2 0.06
28 14 0.44
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (28 bp):
AAAAAAATTAAATAACAAATATATTTAT
Found at i:748755 original size:13 final size:13
Alignment explanation
Indices: 748685--748755 Score: 56
Period size: 13 Copynumber: 5.4 Consensus size: 13
748675 GATATGGGTG
* *
748685 AAAAAAATTATAT
1 AAAAAAAATATTT
* *
748698 AACAAATATATTT
1 AAAAAAAATATTT
*
748711 ATAAAAAA-A-TT
1 AAAAAAAATATTT
748722 AAATAATAAATATTT
1 AAA-AA-AAATATTT
748737 ATAAAAAAATATTT
1 A-AAAAAAATATTT
748751 AAAAA
1 AAAAA
748756 TTAAATGAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
11 4 0.09
12 3 0.07
13 21 0.47
14 10 0.22
15 5 0.11
16 2 0.04
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAAAAAATATTT
Found at i:752032 original size:749 final size:749
Alignment explanation
Indices: 750594--752093 Score: 2991
Period size: 749 Copynumber: 2.0 Consensus size: 749
750584 TAAGTATTAA
750594 AAAAATATCATCTTGTTTATATTTTCTTTCTTGGGTTTCTTTTCTTTTAATCTACAAATCACTAA
1 AAAAATATCATCTTGTTTATATTTTCTTTCTTGGGTTTCTTTTCTTTTAATCTACAAATCACTAA
750659 CATATTTTATCTTGCTGGGAAACAGTTGACGAGAAGATGAAGAACACGTTTCAGGTCAGCTCTTT
66 CATATTTTATCTTGCTGGGAAACAGTTGACGAGAAGATGAAGAACACGTTTCAGGTCAGCTCTTT
750724 TCTTTTAAGTTTCATGGATTTTGTTTTTGGAATTTGTACTTGGATACTAAGATAAAGAGCTGTAA
131 TCTTTTAAGTTTCATGGATTTTGTTTTTGGAATTTGTACTTGGATACTAAGATAAAGAGCTGTAA
750789 TTTGCGCTGTGAACTTGATCTGACTACTTTGGGGTTTGCTTTTTCATGTTTAACAGTTACTTTTC
196 TTTGCGCTGTGAACTTGATCTGACTACTTTGGGGTTTGCTTTTTCATGTTTAACAGTTACTTTTC
750854 TTTGTTGATTTTGATCTATCTGATTCATATCAGCTTCTTGGTTATGTGAAGTTGTAGTTGATTCA
261 TTTGTTGATTTTGATCTATCTGATTCATATCAGCTTCTTGGTTATGTGAAGTTGTAGTTGATTCA
750919 GTTTGTAACTTTATTTTTCTCACAGTTTTGCTAGTTTCCGGGATGATTAAATACTCACTTGGTAG
326 GTTTGTAACTTTATTTTTCTCACAGTTTTGCTAGTTTCCGGGATGATTAAATACTCACTTGGTAG
750984 CAACATAACTAAAGAAATGAGGTAGTAATGAACCTCTAAGAGTTGGACTGAATTTTGAAATCTGA
391 CAACATAACTAAAGAAATGAGGTAGTAATGAACCTCTAAGAGTTGGACTGAATTTTGAAATCTGA
751049 AAAGTAGAGGGCTTAAATTCTTAGAAATAGAAGTTCATGGATTAAATTTCAAATTTACAAAAGGT
456 AAAGTAGAGGGCTTAAATTCTTAGAAATAGAAGTTCATGGATTAAATTTCAAATTTACAAAAGGT
751114 ATAAGGATATATAACATATTTTAACCAAAATAAAATATCGATTTTATATATGATGTAAAATAACA
521 ATAAGGATATATAACATATTTTAACCAAAATAAAATATCGATTTTATATATGATGTAAAATAACA
751179 AGGATAAGAAAGTAATTTTTGCCAAAAAGCACTTTTGCGAAGGAAAAAAGTTAAAAATTTTGGAT
586 AGGATAAGAAAGTAATTTTTGCCAAAAAGCACTTTTGCGAAGGAAAAAAGTTAAAAATTTTGGAT
751244 TTTTTGGCTTGGGGTTAAAATTATATATATGGGTAGGGTCTTCACCGCCCCAAGTGTGACCTGGG
651 TTTTTGGCTTGGGGTTAAAATTATATATATGGGTAGGGTCTTCACCGCCCCAAGTGTGACCTGGG
751309 TTTAATACTATGCTACTCGGGTATGTGTATGCTT
716 TTTAATACTATGCTACTCGGGTATGTGTATGCTT
751343 AAAAATATCATCTTGTTTATATTTTCTTTCTTGGGTTTCTTTTCTTTTAATCTACAAATCACTAA
1 AAAAATATCATCTTGTTTATATTTTCTTTCTTGGGTTTCTTTTCTTTTAATCTACAAATCACTAA
751408 CATATTTTATCTTGCTGGGAAACAGTTGACGAGAAGATGAAGAACACGTTTCAGGTCAGCTCTTT
66 CATATTTTATCTTGCTGGGAAACAGTTGACGAGAAGATGAAGAACACGTTTCAGGTCAGCTCTTT
751473 TCTTTTAAGTTTCATGGATTTTGTTTTTGGAATTTGTACTTGGATACTAAGATAAAGAGCTGTAA
131 TCTTTTAAGTTTCATGGATTTTGTTTTTGGAATTTGTACTTGGATACTAAGATAAAGAGCTGTAA
*
751538 TTTGCGCTGTGAACTTGATCTGACTGCTTTGGGGTTTGCTTTTTCATGTTTAACAGTTACTTTTC
196 TTTGCGCTGTGAACTTGATCTGACTACTTTGGGGTTTGCTTTTTCATGTTTAACAGTTACTTTTC
751603 TTTGTTGATTTTGATCTATCTGATTCATATCAGCTTCTTGGTTATGTGAAGTTGTAGTTGATTCA
261 TTTGTTGATTTTGATCTATCTGATTCATATCAGCTTCTTGGTTATGTGAAGTTGTAGTTGATTCA
751668 GTTTGTAACTTTATTTTTCTCACAGTTTTGCTAGTTTCCGGGATGATTAAATACTCACTTGGTAG
326 GTTTGTAACTTTATTTTTCTCACAGTTTTGCTAGTTTCCGGGATGATTAAATACTCACTTGGTAG
751733 CAACATAACTAAAGAAATGAGGTAGTAATGAACCTCTAAGAGTTGGACTGAATTTTGAAATCTGA
391 CAACATAACTAAAGAAATGAGGTAGTAATGAACCTCTAAGAGTTGGACTGAATTTTGAAATCTGA
751798 AAAGTAGAGGGCTTAAATTCTTAGAAATAGAAGTTCATGGATTAAATTTCAAATTTACAAAAGGT
456 AAAGTAGAGGGCTTAAATTCTTAGAAATAGAAGTTCATGGATTAAATTTCAAATTTACAAAAGGT
751863 ATAAGGATATATAACATATTTTAACCAAAATAAAATATCGATTTTATATATGATGTAAAATAACA
521 ATAAGGATATATAACATATTTTAACCAAAATAAAATATCGATTTTATATATGATGTAAAATAACA
751928 AGGATAAGAAAGTAATTTTTGCCAAAAAGCACTTTTGCGAAGGAAAAAAGTTAAAAATTTTGGAT
586 AGGATAAGAAAGTAATTTTTGCCAAAAAGCACTTTTGCGAAGGAAAAAAGTTAAAAATTTTGGAT
751993 TTTTTGGCTTGGGGTTAAAATTATATATATGGGTAGGGTCTTCACCGCCCCAAGTGTGACCTGGG
651 TTTTTGGCTTGGGGTTAAAATTATATATATGGGTAGGGTCTTCACCGCCCCAAGTGTGACCTGGG
752058 TTTAATACTATGCTACTCGGGTATGTGTATGCTT
716 TTTAATACTATGCTACTCGGGTATGTGTATGCTT
752092 AA
1 AA
752094 TTTTGTTCAT
Statistics
Matches: 750, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
749 750 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (749 bp):
AAAAATATCATCTTGTTTATATTTTCTTTCTTGGGTTTCTTTTCTTTTAATCTACAAATCACTAA
CATATTTTATCTTGCTGGGAAACAGTTGACGAGAAGATGAAGAACACGTTTCAGGTCAGCTCTTT
TCTTTTAAGTTTCATGGATTTTGTTTTTGGAATTTGTACTTGGATACTAAGATAAAGAGCTGTAA
TTTGCGCTGTGAACTTGATCTGACTACTTTGGGGTTTGCTTTTTCATGTTTAACAGTTACTTTTC
TTTGTTGATTTTGATCTATCTGATTCATATCAGCTTCTTGGTTATGTGAAGTTGTAGTTGATTCA
GTTTGTAACTTTATTTTTCTCACAGTTTTGCTAGTTTCCGGGATGATTAAATACTCACTTGGTAG
CAACATAACTAAAGAAATGAGGTAGTAATGAACCTCTAAGAGTTGGACTGAATTTTGAAATCTGA
AAAGTAGAGGGCTTAAATTCTTAGAAATAGAAGTTCATGGATTAAATTTCAAATTTACAAAAGGT
ATAAGGATATATAACATATTTTAACCAAAATAAAATATCGATTTTATATATGATGTAAAATAACA
AGGATAAGAAAGTAATTTTTGCCAAAAAGCACTTTTGCGAAGGAAAAAAGTTAAAAATTTTGGAT
TTTTTGGCTTGGGGTTAAAATTATATATATGGGTAGGGTCTTCACCGCCCCAAGTGTGACCTGGG
TTTAATACTATGCTACTCGGGTATGTGTATGCTT
Found at i:754576 original size:3 final size:3
Alignment explanation
Indices: 754568--754593 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
754558 CTTAAGCTCT
754568 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
754594 TTTTTGTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:757565 original size:21 final size:20
Alignment explanation
Indices: 757506--757565 Score: 50
Period size: 22 Copynumber: 2.8 Consensus size: 20
757496 CCCTCCTTCC
*
757506 TGTTAAATATTTAACAATAATTT
1 TGTTAAATA--TAA-AATAATTG
757529 TGTTAAAT-TACGAAATAAATTG
1 TGTTAAATATA--AAAT-AATTG
757551 TGTTAAATATAAAAT
1 TGTTAAATATAAAAT
757566 TGAAAGGATA
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
20 2 0.06
21 7 0.22
22 13 0.41
23 10 0.31
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (20 bp):
TGTTAAATATAAAATAATTG
Found at i:762744 original size:33 final size:33
Alignment explanation
Indices: 762702--762764 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
762692 AACCGGGTTA
762702 GATTAAATTGGTGCTAAGAAGATTATCCTTTCG
1 GATTAAATTGGTGCTAAGAAGATTATCCTTTCG
762735 GATTAAATTGGTGCTAAGAAGATTATCCTT
1 GATTAAATTGGTGCTAAGAAGATTATCCTT
762765 ACGGCTTCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.37
Consensus pattern (33 bp):
GATTAAATTGGTGCTAAGAAGATTATCCTTTCG
Found at i:778774 original size:71 final size:71
Alignment explanation
Indices: 778694--778828 Score: 243
Period size: 71 Copynumber: 1.9 Consensus size: 71
778684 CAAGTTGCCC
*
778694 AAAATAAATCTTAATTAAAACCTAAAATAGTGTAAACCTAAAATAACTCAAGAAACTCAAGTTAG
1 AAAATAAATCTTAATTAAAACCTAAAATAGTCTAAACCTAAAATAACTCAAGAAACTCAAGTTAG
778759 TTACCT
66 TTACCT
* *
778765 AAAATAAATCTTAATTAAAACCTAAAATAGTCTAAACCTAAAATAACTCGAGAAATTCAAGTTA
1 AAAATAAATCTTAATTAAAACCTAAAATAGTCTAAACCTAAAATAACTCAAGAAACTCAAGTTA
778829 TATGAACTCA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.52, C:0.15, G:0.07, T:0.27
Consensus pattern (71 bp):
AAAATAAATCTTAATTAAAACCTAAAATAGTCTAAACCTAAAATAACTCAAGAAACTCAAGTTAG
TTACCT
Found at i:778890 original size:34 final size:34
Alignment explanation
Indices: 778850--778927 Score: 147
Period size: 34 Copynumber: 2.3 Consensus size: 34
778840 AATTATCTAA
778850 AACTAAAATGATCTGAACTCGAATTAACTCAACT
1 AACTAAAATGATCTGAACTCGAATTAACTCAACT
778884 AACTAAAATGATCTGAACTCGAATTAACTCAACT
1 AACTAAAATGATCTGAACTCGAATTAACTCAACT
778918 AACTTAAAAT
1 AAC-TAAAAT
778928 CTAATTCAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
34 37 0.86
35 6 0.14
ACGTcount: A:0.46, C:0.19, G:0.08, T:0.27
Consensus pattern (34 bp):
AACTAAAATGATCTGAACTCGAATTAACTCAACT
Found at i:778921 original size:19 final size:19
Alignment explanation
Indices: 778865--778921 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
778855 AAATGATCTG
778865 AACTCGAATTAACTCAACT
1 AACTCGAATTAACTCAACT
* *
778884 AACT--AA--AA-TGATCT
1 AACTCGAATTAACTCAACT
778898 GAACTCGAATTAACTCAACT
1 -AACTCGAATTAACTCAACT
778918 AACT
1 AACT
778922 TAAAATCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 12
0.64 0.09 0.27
Matches are distributed among these distances:
14 4 0.14
15 6 0.21
17 4 0.14
19 10 0.36
20 4 0.14
ACGTcount: A:0.44, C:0.23, G:0.07, T:0.26
Consensus pattern (19 bp):
AACTCGAATTAACTCAACT
Found at i:787945 original size:43 final size:43
Alignment explanation
Indices: 787897--787983 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
787887 TATATTACGC
787897 TTGCAACCAGTTGCTCTTCTACGTTGCTTTAAAGTACCTATGT
1 TTGCAACCAGTTGCTCTTCTACGTTGCTTTAAAGTACCTATGT
*
787940 TTGCAACCATTTGCTCTTCTACGTTGCTTTAAAGTACCTATGT
1 TTGCAACCAGTTGCTCTTCTACGTTGCTTTAAAGTACCTATGT
787983 T
1 T
787984 CGATGCGTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (43 bp):
TTGCAACCAGTTGCTCTTCTACGTTGCTTTAAAGTACCTATGT
Found at i:791405 original size:30 final size:30
Alignment explanation
Indices: 791325--791405 Score: 108
Period size: 30 Copynumber: 2.7 Consensus size: 30
791315 CAGGAGGCTC
* * * *
791325 ATCAGGTGGTGGGGGAGGAACTTGTTCATT
1 ATCAGGAGGTGGTGGAGGAATTTGTTCAGT
* *
791355 ATCAGGAGGAGGTGGTGGAATTTGTTCAGT
1 ATCAGGAGGTGGTGGAGGAATTTGTTCAGT
791385 ATCAGGAGGTGGTGGAGGAAT
1 ATCAGGAGGTGGTGGAGGAAT
791406 CCACTCCTCA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.23, C:0.07, G:0.42, T:0.27
Consensus pattern (30 bp):
ATCAGGAGGTGGTGGAGGAATTTGTTCAGT
Found at i:800458 original size:21 final size:21
Alignment explanation
Indices: 800417--800459 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
800407 TGTATTTTCA
* *
800417 TAATTTTTTTACAAGTGTGTC
1 TAATGTTTTTACAAGTATGTC
800438 TAATGTTTTTACCAA-TATGTC
1 TAATGTTTTTA-CAAGTATGTC
800459 T
1 T
800460 TTATCTTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.51
Consensus pattern (21 bp):
TAATGTTTTTACAAGTATGTC
Found at i:804399 original size:4 final size:4
Alignment explanation
Indices: 804384--804427 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
804374 CTGCAAATTT
* *
804384 CATA CTTA CATA CAT- -ATA TATA CATA CATA CATA CATA CATA CA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CA
804428 GATTCCCTGG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
2 2 0.06
4 33 0.94
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.30
Consensus pattern (4 bp):
CATA
Found at i:805479 original size:11 final size:11
Alignment explanation
Indices: 805463--805505 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
805453 TAGAATATAT
805463 CCCATACCTTG
1 CCCATACCTTG
*
805474 CCCATACCTTT
1 CCCATACCTTG
*
805485 CCCATACC-TA
1 CCCATACCTTG
805495 CCCATACCTTG
1 CCCATACCTTG
805506 GAAAGGTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.21, C:0.47, G:0.05, T:0.28
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:805487 original size:22 final size:21
Alignment explanation
Indices: 805462--805504 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
805452 TTAGAATATA
*
805462 TCCCATACCTTGCCCATACCTT
1 TCCCATACC-TACCCATACCTT
805484 TCCCATACCTACCCATACCTT
1 TCCCATACCTACCCATACCTT
805505 GGAAAGGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.21, C:0.47, G:0.02, T:0.30
Consensus pattern (21 bp):
TCCCATACCTACCCATACCTT
Found at i:806084 original size:36 final size:36
Alignment explanation
Indices: 806037--806129 Score: 150
Period size: 36 Copynumber: 2.6 Consensus size: 36
806027 TACGACCGTT
* *
806037 TACGGTACTATTCACGTATATGGCACTATTTACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
*
806073 TACGGTACTATTCACATATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
*
806109 TACAGTACTATTCACGTATAC
1 TACGGTACTATTCACGTATAC
806130 AGTAGTTGGG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGGCACTATTCACGTA
Found at i:806133 original size:18 final size:18
Alignment explanation
Indices: 806037--806129 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
806027 TACGACCGTT
806037 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* * *
806055 TATGGCACTATTTACGTA
1 TACGGTACTATTCACGTA
*
806073 TACGGTACTATTCACATA
1 TACGGTACTATTCACGTA
*
806091 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
806109 TACAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
806127 TAC
1 TAC
806130 AGTAGTTGGG
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:810193 original size:11 final size:11
Alignment explanation
Indices: 810177--810219 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
810167 TAGAATATAT
810177 CCCATACCTTG
1 CCCATACCTTG
*
810188 CCCATACCTTT
1 CCCATACCTTG
*
810199 CCCATACC-TA
1 CCCATACCTTG
810209 CCCATACCTTG
1 CCCATACCTTG
810220 GAAAGGTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.21, C:0.47, G:0.05, T:0.28
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:810204 original size:22 final size:21
Alignment explanation
Indices: 810176--810218 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
810166 TTAGAATATA
*
810176 TCCCATACCTTGCCCATACCTT
1 TCCCATACC-TACCCATACCTT
810198 TCCCATACCTACCCATACCTT
1 TCCCATACCTACCCATACCTT
810219 GGAAAGGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.21, C:0.47, G:0.02, T:0.30
Consensus pattern (21 bp):
TCCCATACCTACCCATACCTT
Found at i:811009 original size:72 final size:72
Alignment explanation
Indices: 810855--810992 Score: 197
Period size: 72 Copynumber: 1.9 Consensus size: 72
810845 TATTTTTGAT
* **
810855 TTGCCAAACCTCTTGCAACTAACTCATTTAGACTTGTCGATGAACCAATTGAGTGGACAAATTCC
1 TTGCGAAACCTCTTGCAACTAACTCATTTAGACTTGTCGAACAACCAATTGAGTGGACAAATTCC
810920 AAGATCA
66 AAGATCA
* * * *
810927 TTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTC-ACACAACCAATTGAGTGGACAAGTTC
1 TTGCGAAACCTCTTGCAACTAACTCATTTAGACTTGTCGA-ACAACCAATTGAGTGGACAAATTC
810991 CA
65 CA
810993 TTGTCAATTC
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
71 1 0.02
72 57 0.98
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (72 bp):
TTGCGAAACCTCTTGCAACTAACTCATTTAGACTTGTCGAACAACCAATTGAGTGGACAAATTCC
AAGATCA
Found at i:814926 original size:2 final size:2
Alignment explanation
Indices: 814919--814962 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
814909 AATCATTATC
* * * *
814919 AT AT AT AT AT AC AT AT AT AC AT AT AT AT AT AT GT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
814961 AT
1 AT
814963 GCATGTACAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (2 bp):
AT
Found at i:819693 original size:28 final size:31
Alignment explanation
Indices: 819635--819693 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 31
819625 ATGCCGTTAG
* * *
819635 TCCTTATACTTTGACAAATTTTAAGATTTAA
1 TCCTTATACTTTGACAAATGTTAAAAATTAA
819666 TCCTTATA-TTT-A-AAATGTTAAAAATTAA
1 TCCTTATACTTTGACAAATGTTAAAAATTAA
819694 GTCTTATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
28 13 0.52
29 1 0.04
30 3 0.12
31 8 0.32
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (31 bp):
TCCTTATACTTTGACAAATGTTAAAAATTAA
Found at i:820467 original size:17 final size:17
Alignment explanation
Indices: 820445--820478 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
820435 GGTGCCACTT
820445 GACCAACCGGCAACATC
1 GACCAACCGGCAACATC
820462 GACCAACCGGCAACATC
1 GACCAACCGGCAACATC
820479 AGCTGTCACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.41, G:0.18, T:0.06
Consensus pattern (17 bp):
GACCAACCGGCAACATC
Found at i:830697 original size:21 final size:21
Alignment explanation
Indices: 830667--830705 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
830657 GTGGTGAAAA
830667 TTTATTTTTTTAA-AATAAAT
1 TTTATTTTTTTAAGAATAAAT
830687 TTTATTTTTTTAAGAATAA
1 TTTATTTTTTTAAGAATAA
830706 TAATTTCTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (21 bp):
TTTATTTTTTTAAGAATAAAT
Found at i:832762 original size:27 final size:30
Alignment explanation
Indices: 832689--832753 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
832679 TTGCAGGCGA
832689 CGATGATGTTGTTGGAGAACTCGCGGGAGG
1 CGATGATGTTGTTGGAGAACTCGCGGGAGG
832719 CGATGATGTTGTTGGAGAACTCGCGGGAGG
1 CGATGATGTTGTTGGAGAACTCGCGGGAGG
*
832749 AGATG
1 CGATG
832754 TGGTTGGAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.22, C:0.12, G:0.43, T:0.23
Consensus pattern (30 bp):
CGATGATGTTGTTGGAGAACTCGCGGGAGG
Found at i:836212 original size:18 final size:18
Alignment explanation
Indices: 836176--836232 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
836166 CTTCATTCTG
*
836176 TTCCTCTTCCT-TCTCTTC
1 TTCCTCCTCCTCT-TCTTC
* **
836194 TTCTTCCTTTTCTTCTTC
1 TTCCTCCTCCTCTTCTTC
836212 TTCCTCCTCCTCTTCTTC
1 TTCCTCCTCCTCTTCTTC
836230 TTC
1 TTC
836233 AGACTCATCC
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
18 30 0.97
19 1 0.03
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (18 bp):
TTCCTCCTCCTCTTCTTC
Found at i:836215 original size:15 final size:15
Alignment explanation
Indices: 836162--836229 Score: 82
Period size: 15 Copynumber: 4.5 Consensus size: 15
836152 TTCATTTTTC
* *
836162 TCTTCTTCATTCTGT
1 TCTTCTTCCTTCTCT
*
836177 TCCTCTTCCTTCTCT
1 TCTTCTTCCTTCTCT
*
836192 TCTTCTTCCTTTTCT
1 TCTTCTTCCTTCTCT
* *
836207 TCTTCTTCCTCCTCC
1 TCTTCTTCCTTCTCT
836222 TCTTCTTC
1 TCTTCTTC
836230 TTCAGACTCA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.01, C:0.40, G:0.01, T:0.57
Consensus pattern (15 bp):
TCTTCTTCCTTCTCT
Found at i:838814 original size:21 final size:21
Alignment explanation
Indices: 838788--838837 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
838778 CTTCTTGCTC
838788 CTCTTCATCATCCCCATCCTT
1 CTCTTCATCATCCCCATCCTT
*
838809 CTCTTCATCATCTCCATCCTT
1 CTCTTCATCATCCCCATCCTT
*
838830 TTCTTCAT
1 CTCTTCAT
838838 GCTCCTCCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.14, C:0.42, G:0.00, T:0.44
Consensus pattern (21 bp):
CTCTTCATCATCCCCATCCTT
Found at i:841181 original size:16 final size:17
Alignment explanation
Indices: 841147--841189 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
841137 GTACTTCATA
* *
841147 TTAATTTTTTTGAATTT
1 TTAAATTTTTTGAAATT
*
841164 TTATATTTTTT-AAATT
1 TTAAATTTTTTGAAATT
841180 TTAAATTTTT
1 TTAAATTTTT
841190 GAATTTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (17 bp):
TTAAATTTTTTGAAATT
Found at i:841197 original size:16 final size:16
Alignment explanation
Indices: 841153--841197 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
841143 CATATTAATT
*
841153 TTTTTGAATTTTTATA
1 TTTTTGAATTTTTAAA
* *
841169 TTTTTTAAATTTTAAA
1 TTTTTGAATTTTTAAA
841185 TTTTTGAATTTTT
1 TTTTTGAATTTTT
841198 TTTGTAACTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (16 bp):
TTTTTGAATTTTTAAA
Found at i:841570 original size:30 final size:28
Alignment explanation
Indices: 841512--841573 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 28
841502 TACAAGCTAT
**
841512 TTTTAAAAATTAATAACCATTTAAATTA
1 TTTTAAAAATTAATAACCATACAAATTA
*
841540 TTTTAAAAATTATATTAACTATACAAATTA
1 TTTTAAAAATTA-A-TAACCATACAAATTA
841570 TTTT
1 TTTT
841574 TTTAATATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 12 0.41
29 1 0.03
30 16 0.55
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (28 bp):
TTTTAAAAATTAATAACCATACAAATTA
Found at i:846793 original size:15 final size:14
Alignment explanation
Indices: 846736--846795 Score: 57
Period size: 15 Copynumber: 4.1 Consensus size: 14
846726 TATATACTTG
846736 TAATTAAAATATAAT
1 TAATTAAAAT-TAAT
* * *
846751 TAATCATAATTATT
1 TAATTAAAATTAAT
*
846765 TAATTAAATTTTAAT
1 TAATTAAA-ATTAAT
846780 TAATTAAAAGTTAAT
1 TAATTAAAA-TTAAT
846795 T
1 T
846796 GCAATTAACA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
14 9 0.26
15 26 0.74
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (14 bp):
TAATTAAAATTAAT
Found at i:861457 original size:19 final size:19
Alignment explanation
Indices: 861417--861457 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
861407 TTTTTTATAT
**
861417 TTTTCCGTAAAAAATAGTA
1 TTTTCCGTAAAAAATAAAA
*
861436 TTTTCCTTAAAAAATAAAA
1 TTTTCCGTAAAAAATAAAA
861455 TTT
1 TTT
861458 AAAATTAAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (19 bp):
TTTTCCGTAAAAAATAAAA
Found at i:863400 original size:3 final size:3
Alignment explanation
Indices: 863392--863419 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
863382 CTTCCATTAA
863392 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
863420 GGTTGATAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:863502 original size:51 final size:51
Alignment explanation
Indices: 863396--863494 Score: 180
Period size: 51 Copynumber: 1.9 Consensus size: 51
863386 CATTAATTCT
* *
863396 TCTTCTTCTTCTTCTTCTTCTTCTGGTTGATAGTTTTCACTTTCTTCAATA
1 TCTTCTTCTTCTTCTTCTTCTTCTGGTTCATAGGTTTCACTTTCTTCAATA
863447 TCTTCTTCTTCTTCTTCTTCTTCTGGTTCATAGGTTTCACTTTCTTCA
1 TCTTCTTCTTCTTCTTCTTCTTCTGGTTCATAGGTTTCACTTTCTTCA
863495 TTGTCTTCAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.10, C:0.25, G:0.08, T:0.57
Consensus pattern (51 bp):
TCTTCTTCTTCTTCTTCTTCTTCTGGTTCATAGGTTTCACTTTCTTCAATA
Found at i:863928 original size:15 final size:16
Alignment explanation
Indices: 863900--863929 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
863890 CTGAGTCAGC
863900 TTTCTATGGAACTGAG
1 TTTCTATGGAACTGAG
863916 TTTCTAT-GAACTGA
1 TTTCTATGGAACTGA
863930 CTCAGTGATT
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:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (16 bp):
TTTCTATGGAACTGAG
Found at i:870940 original size:17 final size:18
Alignment explanation
Indices: 870918--870956 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
870908 AATCGAATCG
870918 AATTATTC-AATTATTTA
1 AATTATTCGAATTATTTA
* *
870935 AATTATTCGAGTTATTTG
1 AATTATTCGAATTATTTA
870953 AATT
1 AATT
870957 TTGAAGTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (18 bp):
AATTATTCGAATTATTTA
Found at i:871094 original size:18 final size:20
Alignment explanation
Indices: 871074--871138 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 20
871064 AGTAATTTTT
871074 AAAA-TTCAAAATATTTATA
1 AAAATTTCAAAATATTTATA
*
871093 AAAATTTCAAAATTTATATTTAAA
1 AAAATTTC-AAA---ATATTTATA
871117 AAAATTT-AAAAT-TTTATA
1 AAAATTTCAAAATATTTATA
871135 AAAA
1 AAAA
871139 ATATATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
18 9 0.23
19 6 0.15
20 3 0.08
21 3 0.08
22 3 0.08
24 15 0.38
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAATTTCAAAATATTTATA
Found at i:871134 original size:24 final size:24
Alignment explanation
Indices: 871084--871130 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
871074 AAAATTCAAA
*
871084 ATATTTATAAAAATTTCAAAATTT
1 ATATTTAAAAAAATTTCAAAATTT
871108 ATATTTAAAAAAATTT-AAAATTT
1 ATATTTAAAAAAATTTCAAAATTT
871131 TATAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
ATATTTAAAAAAATTTCAAAATTT
Found at i:874616 original size:12 final size:12
Alignment explanation
Indices: 874599--874625 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
874589 ATTTGATTAA
874599 AAAATTTAGTTT
1 AAAATTTAGTTT
874611 AAAATTTAGTTT
1 AAAATTTAGTTT
874623 AAA
1 AAA
874626 TTCGTCCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (12 bp):
AAAATTTAGTTT
Found at i:877100 original size:23 final size:24
Alignment explanation
Indices: 877065--877115 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
877055 ACAAGGTAAG
*
877065 AAAAGAAATAAAG-AAATAAAAGA
1 AAAAGAAACAAAGAAAATAAAAGA
*
877088 AAAAGGAACAAAGAAAATAAAAGA
1 AAAAGAAACAAAGAAAATAAAAGA
877112 AAAA
1 AAAA
877116 AATTAAAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.78, C:0.02, G:0.14, T:0.06
Consensus pattern (24 bp):
AAAAGAAACAAAGAAAATAAAAGA
Found at i:877123 original size:23 final size:21
Alignment explanation
Indices: 877062--877123 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 21
877052 AGAACAAGGT
877062 AAGAAAAGAAATAAAGAAATAA
1 AAGAAAA-AAATAAAGAAATAA
*
877084 AAGAAAAAGGAACAAAGAAAATAA
1 AAGAAAAA--AATAAAG-AAATAA
877108 AAGAAAAAAATTAAAG
1 AAGAAAAAAA-TAAAG
877124 TGTTCAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 1 0.03
22 9 0.26
23 10 0.29
24 14 0.41
ACGTcount: A:0.76, C:0.02, G:0.15, T:0.08
Consensus pattern (21 bp):
AAGAAAAAAATAAAGAAATAA
Found at i:877450 original size:41 final size:41
Alignment explanation
Indices: 877393--877474 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
877383 GAATTCCACA
*
877393 ATCCCCATTCTAGACTCTAGGTAGAATAGTTCAATACCAAT
1 ATCCCCATTCTAGACTCCAGGTAGAATAGTTCAATACCAAT
877434 ATCCCCATTCTAGACTCCAGGTAGAATAGTTCAATACCAAT
1 ATCCCCATTCTAGACTCCAGGTAGAATAGTTCAATACCAAT
877475 TTCCAAACAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (41 bp):
ATCCCCATTCTAGACTCCAGGTAGAATAGTTCAATACCAAT
Found at i:881146 original size:20 final size:21
Alignment explanation
Indices: 881121--881161 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
881111 TTAAGTATCA
881121 AATTGAA-AAATCTGCAATGT
1 AATTGAAGAAATCTGCAATGT
*
881141 AATTGAAGAAATGTGCAATGT
1 AATTGAAGAAATCTGCAATGT
881162 TTCAAGACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.44, C:0.07, G:0.20, T:0.29
Consensus pattern (21 bp):
AATTGAAGAAATCTGCAATGT
Found at i:887038 original size:21 final size:21
Alignment explanation
Indices: 887009--887063 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
886999 TGACTTTTTA
887009 AAGGTATGGGTAGATATGGGC
1 AAGGTATGGGTAGATATGGGC
*
887030 AATGTATGGGTAGATATGGGC
1 AAGGTATGGGTAGATATGGGC
887051 AAGGTATGGGTAG
1 AAGGTATGGGTAG
887064 CTTCTAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.29, C:0.04, G:0.42, T:0.25
Consensus pattern (21 bp):
AAGGTATGGGTAGATATGGGC
Found at i:888409 original size:12 final size:12
Alignment explanation
Indices: 888392--888417 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
888382 AAAACGTGAT
888392 CTTCACATCAAG
1 CTTCACATCAAG
888404 CTTCACATCAAG
1 CTTCACATCAAG
888416 CT
1 CT
888418 GAACTAGTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.35, G:0.08, T:0.27
Consensus pattern (12 bp):
CTTCACATCAAG
Found at i:901936 original size:33 final size:35
Alignment explanation
Indices: 901899--901995 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
901889 ATAGTTATAT
901899 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTGCTTAA
* *
901932 TTAAAT-TTTATAA-ATAATTAATATTTATTGCTTAA
1 TTAAATATTTAAAATATAATT--TATATATTGCTTAA
*
901967 --AAATATTTAAAATTTATATTTTATATATT
1 TTAAATATTTAAAA--TATAATTTATATATT
901996 AAAATATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 7 0.14
35 10 0.20
37 5 0.10
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTGCTTAA
Found at i:902194 original size:13 final size:13
Alignment explanation
Indices: 902178--902243 Score: 71
Period size: 13 Copynumber: 5.1 Consensus size: 13
902168 TTTAAACCAA
902178 AATTTTCAAAAGC
1 AATTTTCAAAAGC
*
902191 AATTCTCAAAAGC
1 AATTTTCAAAAGC
* *
902204 ACTTTTTC-ACAGC
1 A-ATTTTCAAAAGC
*
902217 ATTTTTCAAAAGC
1 AATTTTCAAAAGC
*
902230 ACTTTTCAAAAGC
1 AATTTTCAAAAGC
902243 A
1 A
902244 TTGCCAAACT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
12 6 0.13
13 35 0.78
14 4 0.09
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (13 bp):
AATTTTCAAAAGC
Found at i:902244 original size:26 final size:27
Alignment explanation
Indices: 902180--902245 Score: 91
Period size: 26 Copynumber: 2.5 Consensus size: 27
902170 TAAACCAAAA
*
902180 TTTTCAAAAGCAATTCTCAAAAGCACT
1 TTTTCAAAAGCATTTCTCAAAAGCACT
* *
902207 TTTTC-ACAGCATTTTTCAAAAGCAC-
1 TTTTCAAAAGCATTTCTCAAAAGCACT
902232 TTTTCAAAAGCATT
1 TTTTCAAAAGCATT
902246 GCCAAACTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 5 0.15
26 24 0.71
27 5 0.15
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.35
Consensus pattern (27 bp):
TTTTCAAAAGCATTTCTCAAAAGCACT
Found at i:906416 original size:9 final size:9
Alignment explanation
Indices: 906402--906487 Score: 118
Period size: 9 Copynumber: 9.6 Consensus size: 9
906392 ATAAGTATAA
*
906402 AATTAATCG
1 AATTAACCG
906411 AATTAACCG
1 AATTAACCG
**
906420 AATTAATTG
1 AATTAACCG
*
906429 AAGTAACCG
1 AATTAACCG
906438 AATTAACCG
1 AATTAACCG
*
906447 AATTACCCG
1 AATTAACCG
*
906456 AATTACCCG
1 AATTAACCG
906465 AATTAACCG
1 AATTAACCG
906474 AATTAACCG
1 AATTAACCG
906483 AATTA
1 AATTA
906488 TTTGTATAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 68 1.00
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:907817 original size:13 final size:13
Alignment explanation
Indices: 907799--907824 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
907789 ATCCTTCCAC
907799 AAAATACAATAAT
1 AAAATACAATAAT
907812 AAAATACAATAAT
1 AAAATACAATAAT
907825 GGATTACTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAATACAATAAT
Found at i:911109 original size:21 final size:22
Alignment explanation
Indices: 911083--911129 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
911073 CTCTGCTCAA
*
911083 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
911104 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
911126 ACTC
1 ACTC
911130 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:915052 original size:56 final size:56
Alignment explanation
Indices: 914938--915182 Score: 261
Period size: 56 Copynumber: 4.4 Consensus size: 56
914928 GCAAGTGTGA
* * *
914938 AGTCAATAGACAATTGATAGTCTTAGTTTTAGTTTTAGTCTTTTTTTGTCGAGTTAAAGTGT
1 AGTCAATAGACAATTGATAGTCTTAGTCTTA-----A-CCTTTTTTTGTCGAGTTAAAGTAT
915000 AGTCAATAGACAATTGATAGTCTTAGTCTTAACCTTTTTTTGTCGAGTTAAAGTAT
1 AGTCAATAGACAATTGATAGTCTTAGTCTTAACCTTTTTTTGTCGAGTTAAAGTAT
* * * ** * *
915056 AGTCAATGGACAAGTGATAGTCTTAGTCGCTGTCC-TTTTTTGTCGAGTCAAAGTGT
1 AGTCAATAGACAATTGATAGTCTTAGTC-TTAACCTTTTTTTGTCGAGTTAAAGTAT
* *
915112 AGTCAACAGACAATTGATAGTCTTAG---T---CTTTTTTTGTGGAGTTAAAGTAT
1 AGTCAATAGACAATTGATAGTCTTAGTCTTAACCTTTTTTTGTCGAGTTAAAGTAT
*
915162 AGTGAATAGACAATTGATAGT
1 AGTCAATAGACAATTGATAGT
915183 TAAATTTGTA
Statistics
Matches: 163, Mismatches: 18, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
49 1 0.01
50 37 0.23
52 1 0.01
56 90 0.55
57 4 0.02
62 30 0.18
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (56 bp):
AGTCAATAGACAATTGATAGTCTTAGTCTTAACCTTTTTTTGTCGAGTTAAAGTAT
Found at i:915077 original size:50 final size:50
Alignment explanation
Indices: 915023--915182 Score: 176
Period size: 50 Copynumber: 3.1 Consensus size: 50
915013 TTGATAGTCT
* *
915023 TAGTCTTAACCTTTTTTTGTCGAGTTAAAGTATAGTCAATGGACAAGTGA
1 TAGTCTTAACCTTTTTTTGTCGAGTTAAAGTATAGTCAATAGACAATTGA
* * * *
915073 TAGTCTTAGTCGCTGTCCTTTTTTGTCGAGTCAAAGTGTAGTCAACAGACAATTGA
1 TAGTCTTA-AC-C--T--TTTTTTGTCGAGTTAAAGTATAGTCAATAGACAATTGA
** * *
915129 TAGTCTTAGTCTTTTTTTGTGGAGTTAAAGTATAGTGAATAGACAATTGA
1 TAGTCTTAACCTTTTTTTGTCGAGTTAAAGTATAGTCAATAGACAATTGA
915179 TAGT
1 TAGT
915183 TAAATTTGTA
Statistics
Matches: 91, Mismatches: 13, Indels: 12
0.78 0.11 0.10
Matches are distributed among these distances:
50 45 0.49
51 1 0.01
52 2 0.02
54 2 0.02
56 41 0.45
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (50 bp):
TAGTCTTAACCTTTTTTTGTCGAGTTAAAGTATAGTCAATAGACAATTGA
Found at i:915141 original size:112 final size:106
Alignment explanation
Indices: 914979--915182 Score: 300
Period size: 112 Copynumber: 1.9 Consensus size: 106
914969 GTTTTAGTCT
* *
914979 TTTTTTGTCGAGTTAAAGTGTAGTCAATAGACAATTGATAGTCTTAGTCTTAACCTTTTTTTGTC
1 TTTTTTGTCGAGTCAAAGTGTAGTCAACAGACAATTGATAGTCTTAG---T---CTTTTTTTGTC
*
915044 GAGTTAAAGTATAGTCAATGGACAAGTGATAGTCTTAGTCGCTGTCC
60 GAGTTAAAGTATAGTCAATAGACAAGTGATAGTCTTAGTCGCTGTCC
*
915091 TTTTTTGTCGAGTCAAAGTGTAGTCAACAGACAATTGATAGTCTTAGTCTTTTTTTGTGGAGTTA
1 TTTTTTGTCGAGTCAAAGTGTAGTCAACAGACAATTGATAGTCTTAGTCTTTTTTTGTCGAGTTA
* *
915156 AAGTATAGTGAATAGACAATTGATAGT
66 AAGTATAGTCAATAGACAAGTGATAGT
915183 TAAATTTGTA
Statistics
Matches: 86, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
106 40 0.47
109 1 0.01
112 45 0.52
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.39
Consensus pattern (106 bp):
TTTTTTGTCGAGTCAAAGTGTAGTCAACAGACAATTGATAGTCTTAGTCTTTTTTTGTCGAGTTA
AAGTATAGTCAATAGACAAGTGATAGTCTTAGTCGCTGTCC
Found at i:916512 original size:24 final size:24
Alignment explanation
Indices: 916485--916562 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
916475 CAGGGTACAG
916485 CTTGCTGCTTATGGGATGGGGTCA
1 CTTGCTGCTTATGGGATGGGGTCA
* * *
916509 CTTG-TGAC-CA-AGGAAGCAGGGTACA
1 CTTGCTG-CTTATGGGATG--GGGT-CA
916534 GCTTGCTGCTTATGGGATGGGGTCA
1 -CTTGCTGCTTATGGGATGGGGTCA
916559 CTTG
1 CTTG
916563 TGACCAAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 16
0.65 0.10 0.26
Matches are distributed among these distances:
22 4 0.10
23 3 0.08
24 13 0.32
25 4 0.10
26 9 0.22
27 3 0.08
28 4 0.10
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.28
Consensus pattern (24 bp):
CTTGCTGCTTATGGGATGGGGTCA
Found at i:916526 original size:50 final size:50
Alignment explanation
Indices: 916467--916569 Score: 206
Period size: 50 Copynumber: 2.1 Consensus size: 50
916457 AAGACAAATT
916467 CAAGGAAGCAGGGTACAGCTTGCTGCTTATGGGATGGGGTCACTTGTGAC
1 CAAGGAAGCAGGGTACAGCTTGCTGCTTATGGGATGGGGTCACTTGTGAC
916517 CAAGGAAGCAGGGTACAGCTTGCTGCTTATGGGATGGGGTCACTTGTGAC
1 CAAGGAAGCAGGGTACAGCTTGCTGCTTATGGGATGGGGTCACTTGTGAC
916567 CAA
1 CAA
916570 ATAAATGCTC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.23, C:0.18, G:0.35, T:0.23
Consensus pattern (50 bp):
CAAGGAAGCAGGGTACAGCTTGCTGCTTATGGGATGGGGTCACTTGTGAC
Found at i:916556 original size:26 final size:26
Alignment explanation
Indices: 916477--916556 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
916467 CAAGGAAGCA
916477 GGGTACAGCTTGCTGCTTATGGGATG
1 GGGTACAGCTTGCTGCTTATGGGATG
* * *
916503 GGGT-CA-CTTG-TGAC-CA-AGGAAG
1 GGGTACAGCTTGCTG-CTTATGGGATG
916525 CAGGGTACAGCTTGCTGCTTATGGGATG
1 --GGGTACAGCTTGCTGCTTATGGGATG
916553 GGGT
1 GGGT
916557 CACTTGTGAC
Statistics
Matches: 40, Mismatches: 6, Indels: 16
0.65 0.10 0.26
Matches are distributed among these distances:
22 4 0.10
23 3 0.08
24 9 0.22
25 4 0.10
26 13 0.32
27 3 0.08
28 4 0.10
ACGTcount: A:0.19, C:0.16, G:0.39, T:0.26
Consensus pattern (26 bp):
GGGTACAGCTTGCTGCTTATGGGATG
Found at i:919959 original size:21 final size:22
Alignment explanation
Indices: 919933--919979 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
919923 CTCTGCTCAA
*
919933 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
919954 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
919976 ACTC
1 ACTC
919980 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:928281 original size:72 final size:72
Alignment explanation
Indices: 928190--928335 Score: 265
Period size: 72 Copynumber: 2.0 Consensus size: 72
928180 GGACCGGTTT
928190 CAAGATCACTGGGAAACCTCTTGCAACTCACTGATTTAGACTTGTCGCGAAACCAATTGAGTGGA
1 CAAGATCACTGGGAAACCTCTTGCAACTCACTGATTTAGACTTGTCGCGAAACCAATTGAGTGGA
928255 CAAATTC
66 CAAATTC
* * *
928262 CAAGATCATTGGGGAACCTCTTGCAACTCACTGATTTAGACTTGTCGCGGAACCAATTGAGTGGA
1 CAAGATCACTGGGAAACCTCTTGCAACTCACTGATTTAGACTTGTCGCGAAACCAATTGAGTGGA
928327 CAAATTC
66 CAAATTC
928334 CA
1 CA
928336 TTATCAATTC
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (72 bp):
CAAGATCACTGGGAAACCTCTTGCAACTCACTGATTTAGACTTGTCGCGAAACCAATTGAGTGGA
CAAATTC
Found at i:936498 original size:16 final size:16
Alignment explanation
Indices: 936477--936510 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
936467 ATAGCGTTAG
936477 AGAATAATAAACTCAA
1 AGAATAATAAACTCAA
936493 AGAATAATAAACTCAA
1 AGAATAATAAACTCAA
936509 AG
1 AG
936511 GTCCTCTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.62, C:0.12, G:0.09, T:0.18
Consensus pattern (16 bp):
AGAATAATAAACTCAA
Found at i:945023 original size:18 final size:19
Alignment explanation
Indices: 945000--945037 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
944990 TTAAAACTTG
945000 TTTTA-TATCATATTGTTT
1 TTTTATTATCATATTGTTT
* *
945018 TTTTATTTTCATTTTGTTT
1 TTTTATTATCATATTGTTT
945037 T
1 T
945038 GTATATCTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (19 bp):
TTTTATTATCATATTGTTT
Found at i:945630 original size:127 final size:125
Alignment explanation
Indices: 945395--945711 Score: 431
Period size: 127 Copynumber: 2.5 Consensus size: 125
945385 AAATTCCTTA
* * *
945395 AAACGAAGGCAATGTTTGATGTTTGGAAATTCGGGGAATCGTGCCCTATCATGCTGGGTTTCGAT
1 AAAC-AAGGCAATGTTTAATGTTTGGAAATTC-GAGAATCGTGCCCTATCGTGCTGGGTTTCGAT
*
945460 TTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCGTGTTTT-TCAAATTCT
64 TTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAAATTCACTCGTGTTTTAT-AAATTCT
* *
945522 GAAACAAGGCAATGTTCAATGTTTGGAAATTCAGAGAGTCGTGCCCTATCGTGCTGGGTTTCGAT
1 -AAACAAGGCAATGTTTAATGTTTGGAAATTC-GAGAATCGTGCCCTATCGTGCTGGGTTTCGAT
** *
945587 TT-TTGATTTGTTCAAAATAATTGAATATTCCTTTAGAAATTCACTCGTGTTTTATAAATTCT
64 TTCCCG-TTTGTTCAAAATAATCGAATATTCCTTTAGAAATTCACTCGTGTTTTATAAATTCT
** * *
945649 AAAGCAAGATAATGTTTAATGTTTGGAAATTCGAGAAATTGTGCCCTACCGTGCTGGGTTTCG
1 AAA-CAAGGCAATGTTTAATGTTTGGAAATTCGAG-AATCGTGCCCTATCGTGCTGGGTTTCG
945712 GTATTTCGTT
Statistics
Matches: 169, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
126 7 0.04
127 157 0.93
128 5 0.03
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (125 bp):
AAACAAGGCAATGTTTAATGTTTGGAAATTCGAGAATCGTGCCCTATCGTGCTGGGTTTCGATTT
CCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAAATTCACTCGTGTTTTATAAATTCT
Found at i:954026 original size:72 final size:72
Alignment explanation
Indices: 953886--954029 Score: 218
Period size: 72 Copynumber: 2.0 Consensus size: 72
953876 ACTGATTCTG
* *
953886 AGATCATTGGGGAACCTCTTGCAACTCACACATTTAAACTTGGCACGGAACCAATTGAGTAGATA
1 AGATCATTGGGGAACCTCTTGCAACTCACACATTTAAACTTGGCAAGGAACCAATTGAGTAGACA
953951 AATTCCA
66 AATTCCA
* * * *
953958 AGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTCAATGAACCAATTGAGT-GAAC
1 AGATCATTGGGGAACCTCTTGCAACTCACACATTTAAACTTGGCAAGGAACCAATTGAGTAG-AC
954022 AAATTCCA
65 AAATTCCA
954030 TCATCAATTC
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
71 1 0.02
72 64 0.98
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.26
Consensus pattern (72 bp):
AGATCATTGGGGAACCTCTTGCAACTCACACATTTAAACTTGGCAAGGAACCAATTGAGTAGACA
AATTCCA
Found at i:954046 original size:72 final size:72
Alignment explanation
Indices: 953898--954046 Score: 167
Period size: 72 Copynumber: 2.1 Consensus size: 72
953888 ATCATTGGGG
* * *
953898 AACCTCTTGCAACTCACACATTTAAACTTGGCACGGAACCAATTGAGTAGATAAATTCCAAGATC
1 AACCTCTTGCAACTCACACATTTAAACTTGGCAAGGAACCAATTGAGTAGACAAATTCCAACATC
***
953963 ATTGGGG
66 ATTGCAA
* * * * *
953970 AACCTCTTGCAACTCACTCATTTAGACTTGTCAATGAACCAATTGAGT-GAACAAATTCCATCAT
1 AACCTCTTGCAACTCACACATTTAAACTTGGCAAGGAACCAATTGAGTAG-ACAAATTCCAACAT
954034 CAATT-CAA
65 C-ATTGCAA
954042 AACCT
1 AACCT
954047 AATGCAGTTT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
71 1 0.02
72 60 0.94
73 3 0.05
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (72 bp):
AACCTCTTGCAACTCACACATTTAAACTTGGCAAGGAACCAATTGAGTAGACAAATTCCAACATC
ATTGCAA
Found at i:965663 original size:17 final size:15
Alignment explanation
Indices: 965636--965674 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
965626 ATATAAGAAC
*
965636 ATTTTATTATTAAATT
1 ATTTTAATATT-AATT
965652 ATATTTAATATTAATT
1 AT-TTTAATATTAATT
965668 ATTTTAA
1 ATTTTAA
965675 ATTGTATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 8 0.38
17 8 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTTAATATTAATT
Found at i:965877 original size:59 final size:58
Alignment explanation
Indices: 965813--966251 Score: 166
Period size: 59 Copynumber: 7.3 Consensus size: 58
965803 ATTATTTTAA
965813 ATTTTATTA-AATCATATATTTTAATTAAAATATTTTTAATATTAATTACTTCAAATTAT
1 ATTTTA-TAGAATCATATATTTTAATTAAAATATTTTTAATATTAATTA-TTCAAATTAT
* * * *** * * *
965872 ATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATGTTGATTATT--AA-GA-
1 ATTTTATAGAATCATATATT-TTA-ATTA--AAA-T-AT-TTTTAATATTAATTATTCAAATTAT
*
965933 ATTTTATTA-AATTATATATTTTAATTAAAATATTTTTAATATTAATTAATTCAAATTAT
1 ATTTTA-TAGAATCATATATTTTAATTAAAATATTTTTAATATTAATT-ATTCAAATTAT
* * * ** * ** * ** * * *
965992 ATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATT-TTGATTATTAAGA
1 ATTTTATAGAATCATATATTTTAATTAAAATATTTTTA-ATATTAATTATTCA-AATT-A-T
* * * *
966053 ATTTTATTA-AATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTAT
1 ATTTTA-TAGAATCATATATTTTAATTAAAATATTTTTAATATTAATTAT-TCAAATTAT
* * * * *** * *
966112 CTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATT-TT-TAA-GA-
1 ATTTTATAGAATCATATATT-TTAATT-A--AAA-T-AT-TTTTAATATTAATTATTCAAATTAT
* * * * *
966173 ATTTTACTA-AATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTAT
1 ATTTTA-TAGAATCATATATTTTAATTAAAATATTTTTAATATTAATTAT-TCAAATTAT
*
966232 ATTTTATAGTATCATATATT
1 ATTTTATAGAATCATATATT
966252 ATGATTTGAG
Statistics
Matches: 269, Mismatches: 74, Indels: 74
0.65 0.18 0.18
Matches are distributed among these distances:
54 18 0.07
55 8 0.03
56 3 0.01
57 9 0.03
58 13 0.05
59 77 0.29
60 29 0.11
61 63 0.23
62 10 0.04
63 10 0.04
64 3 0.01
65 7 0.03
66 19 0.07
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (58 bp):
ATTTTATAGAATCATATATTTTAATTAAAATATTTTTAATATTAATTATTCAAATTAT
Found at i:965937 original size:120 final size:120
Alignment explanation
Indices: 965812--966342 Score: 861
Period size: 120 Copynumber: 4.4 Consensus size: 120
965802 AATTATTTTA
* * *
965812 AATTTTATTAAATCATATATTTTAATTAAAATATTTTTAATATTAATTACT-TCAAATTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTA-TGTCAAATTATATTT
* *
965876 TATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATGTTGATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
* *
965932 AATTTTATTAAATTATATATTTTAATTAAAATATTTTTAATATTAATTAAT-TCAAATTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATT-ATGTCAAATTATATTT
* *
965996 TATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATTTTGATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
* *
966052 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTCAAATTATATTTT
* *
966117 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTTTTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
* * *
966172 AATTTTACTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTCAAATTATATTTT
966237 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAG-ATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
* *
966291 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATTATTATGT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGT
966343 TTAAATATAA
Statistics
Matches: 392, Mismatches: 17, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
119 65 0.17
120 326 0.83
121 1 0.00
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTCAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:966053 original size:16 final size:15
Alignment explanation
Indices: 966032--966061 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
966022 TAAATTCATA
966032 TAAGAATTTTGATTAT
1 TAAGAATTTT-ATTAT
966048 TAAGAATTTTATTA
1 TAAGAATTTTATTA
966062 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (15 bp):
TAAGAATTTTATTAT
Found at i:966081 original size:18 final size:17
Alignment explanation
Indices: 966053--966087 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
966043 ATTATTAAGA
*
966053 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
966070 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
966088 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:966207 original size:16 final size:16
Alignment explanation
Indices: 966186--966232 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
966176 TTACTAAATT
966186 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
966202 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
966217 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
966233 TTTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:966212 original size:15 final size:15
Alignment explanation
Indices: 966182--966232 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
966172 AATTTTACTA
966182 AATTAT-ATAT-TTT
1 AATTATAATATATTT
966195 AATTATAATATATTT
1 AATTATAATATATTT
*
966210 AATAATAAT-TATGTT
1 AATTATAATATAT-TT
966225 AAATTATA
1 -AATTATA
966233 TTTTATAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 6 0.19
14 7 0.22
15 13 0.41
16 6 0.19
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
AATTATAATATATTT
Found at i:966572 original size:45 final size:44
Alignment explanation
Indices: 966472--966581 Score: 133
Period size: 45 Copynumber: 2.6 Consensus size: 44
966462 TTTTCCATTA
966472 TGCTATTACACCTCTATT-C----CATTCAACCAAACATAATAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACATAATAT
* * *
966511 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGAT-T
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACA--TAATAT
966556 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
966582 CCTCTATTCC
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
39 16 0.27
40 1 0.02
44 14 0.24
45 25 0.42
46 3 0.05
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACATAATAT
Found at i:966581 original size:16 final size:16
Alignment explanation
Indices: 966560--966629 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
966550 TTGATTTGCT
*
966560 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
966576 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
966592 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
966608 AATACACCTCTAATCC
1 ATTACACCTCTAATCC
*
966624 AATACA
1 ATTACA
966630 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.31
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:968986 original size:3 final size:3
Alignment explanation
Indices: 968980--969010 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
968970 CCCCTTTATG
968980 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
969011 AGGATCTCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:970079 original size:72 final size:71
Alignment explanation
Indices: 969999--970148 Score: 230
Period size: 72 Copynumber: 2.1 Consensus size: 71
969989 GTCAGGATTG
*
969999 ATTCCAAGATCACTGGGAAACCTCTTGCAACTCACTGATTTAGACTTGTCGAT-CAACCAATTGA
1 ATTCCAAGATCACTGGGAAACCTCTTGCAACTCACTGATTTAAACTTG-C-ATGCAACCAATTGA
970063 GTGGACAA
64 GTGGACAA
* * *
970071 ATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTGATTTAAACTTGCATGGGAACCAATTGAG
1 ATTCCAAGATCACTGGGAAACCTCTTGCAACTCACTGATTTAAACTTGCAT-GCAACCAATTGAG
970136 TGGACAA
65 TGGACAA
970143 ATTCCA
1 ATTCCA
970149 TTATCAATTC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
70 2 0.03
71 1 0.01
72 69 0.96
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.27
Consensus pattern (71 bp):
ATTCCAAGATCACTGGGAAACCTCTTGCAACTCACTGATTTAAACTTGCATGCAACCAATTGAGT
GGACAA
Found at i:974989 original size:13 final size:13
Alignment explanation
Indices: 974971--974996 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
974961 AAGGTGTGAG
974971 CCTGTTGAAGACA
1 CCTGTTGAAGACA
974984 CCTGTTGAAGACA
1 CCTGTTGAAGACA
974997 ATATGCAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (13 bp):
CCTGTTGAAGACA
Found at i:975178 original size:44 final size:44
Alignment explanation
Indices: 975130--975228 Score: 103
Period size: 44 Copynumber: 2.2 Consensus size: 44
975120 CCCGTCGAAT
* *
975130 TGCAAGCCAAAGTGGT-GGACAGTCTAAATGCAAACCT-AAATGGG
1 TGCAAGCCAAAGT-GTCGAACAGTCTAAATGC-AACCTCAAATAGG
* * * * *
975174 TGCAAACCGAAGTGTCGAACGGTCTAAATGCAACCTCGAGTAGG
1 TGCAAGCCAAAGTGTCGAACAGTCTAAATGCAACCTCAAATAGG
975218 TGCAAGCCAAA
1 TGCAAGCCAAA
975229 ATGACAGACT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
43 7 0.16
44 37 0.84
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.17
Consensus pattern (44 bp):
TGCAAGCCAAAGTGTCGAACAGTCTAAATGCAACCTCAAATAGG
Found at i:980760 original size:72 final size:71
Alignment explanation
Indices: 980680--980900 Score: 345
Period size: 72 Copynumber: 3.1 Consensus size: 71
980670 TCAGGATCGG
* * *
980680 TTCCAAGATCATTGGGAAATCTCTTTCAACTCACTCATTTAGACTTTTCGATGAACCAATTGAGT
1 TTCCAAGATCATTGGGAAACCTCTTGCAACTCACTCATTTAGACTTGTC-ATGAACCAATTGAGT
980745 GGACAAA
65 GGACAAA
980752 TTCCAAGATCATTTGGG-AACCTCTTGCAACTCACTCATTTAGACTTGTCATGGAACCAATTGAG
1 TTCCAAGATCA-TTGGGAAACCTCTTGCAACTCACTCATTTAGACTTGTCAT-GAACCAATTGAG
980816 TGGACAAA
64 TGGACAAA
* * *
980824 TTCCAAGATCACTGGGAAACCTCTTGCAACTCACTCATTTAGACCTGTCAGGCAACCAATTGAGT
1 TTCCAAGATCATTGGGAAACCTCTTGCAACTCACTCATTTAGACTTGTCATG-AACCAATTGAGT
980889 GGACAAA
65 GGACAAA
980896 TTCCA
1 TTCCA
980901 TTGTCAATTC
Statistics
Matches: 139, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
71 7 0.05
72 127 0.91
73 5 0.04
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (71 bp):
TTCCAAGATCATTGGGAAACCTCTTGCAACTCACTCATTTAGACTTGTCATGAACCAATTGAGTG
GACAAA
Found at i:986707 original size:16 final size:16
Alignment explanation
Indices: 986674--986707 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
986664 ACATACTGTT
* *
986674 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
986690 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
986706 AA
1 AA
986708 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:995484 original size:19 final size:19
Alignment explanation
Indices: 995460--995497 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
995450 ATTTTAAATA
* *
995460 TTTTATATATATTATTTAT
1 TTTTATAAACATTATTTAT
995479 TTTTATAAACATTATTTAT
1 TTTTATAAACATTATTTAT
995498 ACATGTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTATAAACATTATTTAT
Found at i:995572 original size:14 final size:12
Alignment explanation
Indices: 995547--995609 Score: 58
Period size: 12 Copynumber: 5.3 Consensus size: 12
995537 AGGTTATTTG
995547 TATTTTATTATA
1 TATTTTATTATA
995559 TATTTTATTATA
1 TATTTTATTATA
* ***
995571 TATATTATTCCC
1 TATTTTATTATA
995583 TATTTTATCT-T-
1 TATTTTAT-TATA
*
995594 CATTTTATTATA
1 TATTTTATTATA
995606 TATT
1 TATT
995610 ATTCTATTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
10 1 0.03
11 8 0.20
12 30 0.75
13 1 0.03
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (12 bp):
TATTTTATTATA
Found at i:995611 original size:7 final size:7
Alignment explanation
Indices: 995597--995632 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
995587 TTATCTTCAT
995597 TTTATTA
1 TTTATTA
*
995604 TATATTA
1 TTTATTA
995611 TTCTATTA
1 TT-TATTA
995619 TTTATTA
1 TTTATTA
995626 TTTATTA
1 TTTATTA
995633 GTACATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTATTA
Found at i:996024 original size:26 final size:26
Alignment explanation
Indices: 995995--996102 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
995985 TGATACAAAT
995995 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
996021 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
996047 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
996073 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
996099 TGAT
1 TGAT
996103 GAGAATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:1001157 original size:26 final size:28
Alignment explanation
Indices: 1001126--1001191 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
1001116 TTATTACATG
1001126 TTATTTTAAATTATT-T-TATATATTAC
1 TTATTTTAAATTATTATGTATATATTAC
** * *
1001152 TTATTTTATGTTTTTATGTATATATTAT
1 TTATTTTAAATTATTATGTATATATTAC
1001180 TTATTTTAAATT
1 TTATTTTAAATT
1001192 CTTACATATC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 12 0.38
27 1 0.03
28 19 0.59
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (28 bp):
TTATTTTAAATTATTATGTATATATTAC
Found at i:1001235 original size:24 final size:24
Alignment explanation
Indices: 1001170--1001237 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
1001160 TGTTTTTATG
* *
1001170 TATATATTATTTATTTTAAATTCT
1 TATATATCATTTACTTTAAATTCT
* **
1001194 TACATATCATAGACTTTAAATT-T
1 TATATATCATTTACTTTAAATTCT
*
1001217 TCATATATCATTTAGTTTAAA
1 T-ATATATCATTTACTTTAAA
1001238 CCATTTTGTA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
23 2 0.06
24 32 0.94
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (24 bp):
TATATATCATTTACTTTAAATTCT
Found at i:1004634 original size:26 final size:26
Alignment explanation
Indices: 1004588--1004640 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
1004578 TCAAACATGC
*
1004588 ATTTAGGTCAATTTAACCCTATGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* *
1004614 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAAC-CCTAGGGGT
1004640 A
1 A
1004641 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:1006153 original size:26 final size:26
Alignment explanation
Indices: 1006122--1006229 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
1006112 TGAAATGCCC
*
1006122 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
1006148 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
1006174 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
1006200 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
1006226 ATCA
1 ATCA
1006230 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:1006543 original size:17 final size:17
Alignment explanation
Indices: 1006511--1006619 Score: 137
Period size: 17 Copynumber: 6.1 Consensus size: 17
1006501 AATCTTACAT
1006511 ATATGATATGCAATCTTAG
1 ATATGATA--CAATCTTAG
1006530 ATATGATACAATCTTAG
1 ATATGATACAATCTTAG
* *
1006547 ATATGATTGCAGTCTTAG
1 ATATGA-TACAATCTTAG
1006565 ATATGATACAATCTTAG
1 ATATGATACAATCTTAG
*
1006582 ATATGATTGCAATCTTAG
1 ATATGA-TACAATCTTAG
1006600 ATATGATATACAATCTTAG
1 ATATG--ATACAATCTTAG
1006619 A
1 A
1006620 AGATATGATT
Statistics
Matches: 80, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
17 30 0.38
18 30 0.38
19 19 0.24
20 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.37
Consensus pattern (17 bp):
ATATGATACAATCTTAG
Done.