Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, 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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 187 of 195
Found at i:32963269 original size:26 final size:24
Alignment explanation
Indices: 32963240--32963301 Score: 63
Period size: 26 Copynumber: 2.5 Consensus size: 24
32963230 ATTTAGAGAA
*
32963240 AATTTCTCATTTAAAGATTTTTTAAG
1 AATTTCTCATTTAAA-A-TTTCTAAG
32963266 AATTTAC-CATTTAAAATTTCTAAG
1 AATTT-CTCATTTAAAATTTCTAAG
*
32963290 AATCTCATCATT
1 AATTTC-TCATT
32963302 GGGTAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
23 1 0.03
24 11 0.35
25 5 0.16
26 13 0.42
27 1 0.03
ACGTcount: A:0.37, C:0.13, G:0.05, T:0.45
Consensus pattern (24 bp):
AATTTCTCATTTAAAATTTCTAAG
Found at i:32964695 original size:124 final size:122
Alignment explanation
Indices: 32964353--32964751 Score: 530
Period size: 124 Copynumber: 3.2 Consensus size: 122
32964343 GATGAAACAG
* * * *
32964353 CTTTGAAAAAATAAATTACTCCTTTAAATAGAGGCAAAACAACTTTGAAAAAATAAATTGCTCCT
1 CTTTGAAAAAATAAATTGCTCATCTAAATAGAGGCAATA-AACTTTGAAAAAATAAATTGCTCC-
** *
32964418 TTAAATAGAGGCAACACAACTTTAGAAAAATAAATTACTTTTCTAAATAAAGGCAACTTAA
64 -TAAATAGAGGCAACACAACTTTA-AAAAATAAATTACTCATCTAAATAAAGGCAACATAA
* *
32964479 CTTTGAAAAAAATAAATTGCTCCTCTAAATAGAGGTAATAAACTTTGAAAAAATAAATTGCTCCT
1 CTTTG-AAAAAATAAATTGCTCATCTAAATAGAGGCAATAAACTTTGAAAAAATAAATTGCT-C-
* * * *
32964544 CTAAATAGAGGTAACACAACTTTAAAAAATAAATTGCTCCTCTAAATAAAGGTAACATAA
63 CTAAATAGAGGCAACACAACTTTAAAAAATAAATTACTCATCTAAATAAAGGCAACATAA
* *
32964604 CTTTGAAAAAATAAATTGCTCATCTAAATAGAGGCAACTTAAGTTTG-AAAAATAAATTGCTCAC
1 CTTTGAAAAAATAAATTGCTCATCTAAATAGAGGCAA-TAAACTTTGAAAAAATAAATTGCTC-C
* * * *
32964668 TAAATAGAAGCAATAGAACTTTGAAAAAATAAATTACTCATCTAAATAGAGGCAACATAA
64 TAAATAGAGGCAACACAACTTT-AAAAAATAAATTACTCATCTAAATAAAGGCAACATAA
32964728 CTTTGAAAAAATAAATTGCTCATC
1 CTTTGAAAAAATAAATTGCTCATC
32964752 GACAATCATG
Statistics
Matches: 245, Mismatches: 23, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
123 20 0.08
124 101 0.41
125 43 0.18
126 49 0.20
127 31 0.13
128 1 0.00
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.28
Consensus pattern (122 bp):
CTTTGAAAAAATAAATTGCTCATCTAAATAGAGGCAATAAACTTTGAAAAAATAAATTGCTCCTA
AATAGAGGCAACACAACTTTAAAAAATAAATTACTCATCTAAATAAAGGCAACATAA
Found at i:32964751 original size:42 final size:42
Alignment explanation
Indices: 32964328--32964748 Score: 505
Period size: 42 Copynumber: 10.1 Consensus size: 42
32964318 AGTAAACAAA
* *
32964328 GCTCCTCTAAATAGAGATG-AA-ACAGCTTTGAAAAAATAAATT
1 GCTCCTCTAAATAGAG--GCAACATAACTTTGAAAAAATAAATT
* * * *
32964370 ACTCCTTTAAATAGAGGCAAAACAACTTTGAAAAAATAAATT
1 GCTCCTCTAAATAGAGGCAACATAACTTTGAAAAAATAAATT
* *
32964412 GCTCCTTTAAATAGAGGCAACACAACTTT-AGAAAAATAAATT
1 GCTCCTCTAAATAGAGGCAACATAACTTTGA-AAAAATAAATT
* ** * *
32964454 ACTTTTCTAAATAAAGGCAACTTAACTTTGAAAAAAATAAATT
1 GCTCCTCTAAATAGAGGCAACATAACTTTG-AAAAAATAAATT
* *
32964497 GCTCCTCTAAATAGAGGTAATA-AACTTTGAAAAAATAAATT
1 GCTCCTCTAAATAGAGGCAACATAACTTTGAAAAAATAAATT
* *
32964538 GCTCCTCTAAATAGAGGTAACACAACTTT-AAAAAATAAATT
1 GCTCCTCTAAATAGAGGCAACATAACTTTGAAAAAATAAATT
* *
32964579 GCTCCTCTAAATAAAGGTAACATAACTTTGAAAAAATAAATT
1 GCTCCTCTAAATAGAGGCAACATAACTTTGAAAAAATAAATT
* * *
32964621 GCTCATCTAAATAGAGGCAACTTAAGTTTG-AAAAATAAATT
1 GCTCCTCTAAATAGAGGCAACATAACTTTGAAAAAATAAATT
* * * *
32964662 GCT-CACTAAATAGAAGCAATAGAACTTTGAAAAAATAAATT
1 GCTCCTCTAAATAGAGGCAACATAACTTTGAAAAAATAAATT
* *
32964703 ACTCATCTAAATAGAGGCAACATAACTTTGAAAAAATAAATT
1 GCTCCTCTAAATAGAGGCAACATAACTTTGAAAAAATAAATT
32964745 GCTC
1 GCTC
32964749 ATCGACAATC
Statistics
Matches: 329, Mismatches: 41, Indels: 18
0.85 0.11 0.05
Matches are distributed among these distances:
40 20 0.06
41 102 0.31
42 180 0.55
43 26 0.08
44 1 0.00
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.28
Consensus pattern (42 bp):
GCTCCTCTAAATAGAGGCAACATAACTTTGAAAAAATAAATT
Found at i:32964895 original size:41 final size:41
Alignment explanation
Indices: 32964849--32964935 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 41
32964839 CACAATAACC
** *
32964849 TTTCAGCTTTATTAAAATTCACTGAAATTTAATTCTCAAAA
1 TTTCAGCTTTACCAAAATTCACTAAAATTTAATTCTCAAAA
* * * * *
32964890 TTTCAGTTTTGCCAGAATTCACTAAAATTTGATTTTCAAAA
1 TTTCAGCTTTACCAAAATTCACTAAAATTTAATTCTCAAAA
32964931 TTTCA
1 TTTCA
32964936 ATTTTGCCAG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.43
Consensus pattern (41 bp):
TTTCAGCTTTACCAAAATTCACTAAAATTTAATTCTCAAAA
Found at i:32964941 original size:41 final size:41
Alignment explanation
Indices: 32964864--32964946 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
32964854 GCTTTATTAA
* *
32964864 AATTCACTGAAATTTAATTCTCAAAATTTCAGTTTTGCCAG
1 AATTCACTAAAATTTAATTCTCAAAATTTCAATTTTGCCAG
* *
32964905 AATTCACTAAAATTTGATTTTCAAAATTTCAATTTTGCCAG
1 AATTCACTAAAATTTAATTCTCAAAATTTCAATTTTGCCAG
32964946 A
1 A
32964947 TCTCAAGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (41 bp):
AATTCACTAAAATTTAATTCTCAAAATTTCAATTTTGCCAG
Found at i:32965103 original size:22 final size:22
Alignment explanation
Indices: 32965064--32965122 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
32965054 GCTCATCTAA
32965064 AAAATTCTCATTTG-AAACTTG
1 AAAATTCTCATTTGAAAACTTG
* * *
32965085 AAAATTTTCATCTGAAAACTTT
1 AAAATTCTCATTTGAAAACTTG
32965107 AAAATTCTCATTTGAA
1 AAAATTCTCATTTGAA
32965123 GATTTTTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 12 0.38
22 20 0.62
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.39
Consensus pattern (22 bp):
AAAATTCTCATTTGAAAACTTG
Found at i:32965376 original size:20 final size:20
Alignment explanation
Indices: 32965351--32965388 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
32965341 ACAATACAAG
32965351 TGTAATCCATGTAATGCAGA
1 TGTAATCCATGTAATGCAGA
*
32965371 TGTAATGCATGTAATGCA
1 TGTAATCCATGTAATGCA
32965389 AAGTCTATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (20 bp):
TGTAATCCATGTAATGCAGA
Found at i:32966103 original size:9 final size:9
Alignment explanation
Indices: 32966089--32966119 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
32966079 GCCTTGAGTC
32966089 TTTTTTTAT
1 TTTTTTTAT
32966098 TTTTTTTA-
1 TTTTTTTAT
32966106 TTTTTTTAT
1 TTTTTTTAT
32966115 TTTTT
1 TTTTT
32966120 AAGCATAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:32966120 original size:7 final size:8
Alignment explanation
Indices: 32966089--32966119 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
32966079 GCCTTGAGTC
32966089 TTTTTTTA
1 TTTTTTTA
32966097 TTTTTTTTA
1 -TTTTTTTA
32966106 TTTTTTTA
1 TTTTTTTA
32966114 TTTTTT
1 TTTTTT
32966120 AAGCATAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTTA
Found at i:32973834 original size:59 final size:59
Alignment explanation
Indices: 32973738--32974198 Score: 575
Period size: 59 Copynumber: 7.7 Consensus size: 59
32973728 TTGTGTAGGA
* *
32973738 AAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTTTGAAAATTAATTTTTAAAG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTTTAAAG
* * * *
32973797 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTTTGGAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA----TTTTTTTT-GAAAATTT-ATTTTTAAAG
* **** * *
32973862 AAAATTGATACTTTCAACTTTTCCCCAAAATTCCCCTTTTTGAAATTTTATTTTTTAAG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTTTAAAG
* * **
32973921 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAAAG
1 -AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTTGAAAATTT-ATTTTTAAAG
* * * *
32973983 AAAATTAATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTGAAAA-TTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAAT-ATTTTTTTTGAAAATTTATTTTTAAAG
* * *
32974042 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAAATTTATTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTTTAAAG
* **
32974100 AAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTTGAAAATTTATTTTTAAAG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTTTAAAG
32974159 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
32974199 GATTTTTATT
Statistics
Matches: 346, Mismatches: 44, Indels: 24
0.84 0.11 0.06
Matches are distributed among these distances:
57 11 0.03
58 42 0.12
59 134 0.39
60 40 0.12
61 60 0.17
62 7 0.02
63 8 0.02
64 6 0.02
65 38 0.11
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.46
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTTTAAAG
Found at i:32974199 original size:117 final size:120
Alignment explanation
Indices: 32973738--32974198 Score: 653
Period size: 117 Copynumber: 3.8 Consensus size: 120
32973728 TTGTGTAGGA
** *
32973738 AAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTTTGAAAATTAATTTTTAAAGAAAATT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATCCTTTTTTTGAAAATTTATTTTTAAAGAAAATT
* *
32973803 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTTTGGAAATTTTGATTT-TCAAGG
66 GATACTTTCAACTTTTCCCCAAAAATA----TTTTTTTTGGAAACTTTGATTTCT-AAGG
* ** * *
32973862 AAAATTGATACTTTCAACTTTTCCCCAAAATTCCCCTTTTTGAAATTTTATTTTTTAAGAAAAAT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATCCTTTTTTTGAAAATTTATTTTTAAAG-AAAAT
* * * *
32973927 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAAAG
65 TGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAACTTTGATTTCTAAGG
* * * *
32973983 AAAATTAATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTGAAAA-TTATTTTTAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATC-CTTTTTTTGAAAATTTATTTTTAAAGAAAAT
32974047 TGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAAA-TTT-ATTTCTAAGG
65 TGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAACTTTGATTTCTAAGG
*
32974100 AAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTTGAAAATTTATTTTTAAAGAAAATT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATCCTTTTTTTGAAAATTTATTTTTAAAGAAAATT
32974165 GATACTTTCAACTTTTCCCCAAAAATATTTTTTT
66 GATACTTTCAACTTTTCCCCAAAAATATTTTTTT
32974199 GATTTTTATT
Statistics
Matches: 302, Mismatches: 30, Indels: 16
0.87 0.09 0.05
Matches are distributed among these distances:
116 12 0.04
117 84 0.28
118 9 0.03
119 11 0.04
120 32 0.11
121 63 0.21
122 9 0.03
124 51 0.17
125 31 0.10
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.46
Consensus pattern (120 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATCCTTTTTTTGAAAATTTATTTTTAAAGAAAATT
GATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAACTTTGATTTCTAAGG
Found at i:32974264 original size:20 final size:21
Alignment explanation
Indices: 32974241--32974307 Score: 77
Period size: 20 Copynumber: 3.1 Consensus size: 21
32974231 AAGTAAAAGT
32974241 AAATAAAGAAGAAG-AAAA-AA
1 AAATAAAGAA-AAGTAAAACAA
32974261 AAATAAAGAAAAGTAAAACAA
1 AAATAAAGAAAAGTAAAACAA
32974282 AAATAAA-AATAAGATAAAGACAA
1 AAATAAAGAA-AAG-TAAA-ACAA
32974305 AAA
1 AAA
32974308 ATATTAAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.07
20 16 0.38
21 12 0.29
22 4 0.10
23 7 0.17
ACGTcount: A:0.78, C:0.03, G:0.10, T:0.09
Consensus pattern (21 bp):
AAATAAAGAAAAGTAAAACAA
Found at i:32974366 original size:24 final size:22
Alignment explanation
Indices: 32974328--32974380 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 22
32974318 AATCTAATAT
*
32974328 AATAAATAAAAAAATAGAAAAACA
1 AATAAACAAAAAAAT-GAAAAA-A
*
32974352 AATAAACAAATAAATGAAAAAA
1 AATAAACAAAAAAATGAAAAAA
*
32974374 AAAAAAC
1 AATAAAC
32974381 CTGGAGCGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 7 0.27
23 6 0.23
24 13 0.50
ACGTcount: A:0.79, C:0.06, G:0.04, T:0.11
Consensus pattern (22 bp):
AATAAACAAAAAAATGAAAAAA
Found at i:32974945 original size:25 final size:25
Alignment explanation
Indices: 32974899--32974952 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
32974889 AATCTGGAAA
*
32974899 TTTCCCAGAAATTTCCAGAAAATTT
1 TTTCCCAAAAATTTCCAGAAAATTT
*
32974924 TTTCGCCAAAAATTTCTA-AAAATTT
1 TTTC-CCAAAAATTTCCAGAAAATTT
32974949 TTTC
1 TTTC
32974953 TCACTCCCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 15 0.58
26 11 0.42
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.41
Consensus pattern (25 bp):
TTTCCCAAAAATTTCCAGAAAATTT
Found at i:32975404 original size:6 final size:6
Alignment explanation
Indices: 32975395--32975514 Score: 51
Period size: 6 Copynumber: 19.7 Consensus size: 6
32975385 AACAAAAAAA
*
32975395 AATAAT AAT-AT AATAAT AATAAAT ATATAACT ATATACAT -ATAA- ATCTAAT
1 AATAAT AATAAT AATAAT AAT-AAT A-ATAA-T A-ATA-AT AATAAT A-ATAAT
* *
32975446 -CTAAT AATAA- AA-AAT -ATATAT ATATATT AATACAT AATAAT AATAAT
1 AATAAT AATAAT AATAAT AATA-AT A-ATAAT AATA-AT AATAAT AATAAT
32975493 AAATAAT AA-AAT ACATAA- AATA
1 -AATAAT AATAAT A-ATAAT AATA
32975515 CAAAAGAAAC
Statistics
Matches: 92, Mismatches: 4, Indels: 37
0.69 0.03 0.28
Matches are distributed among these distances:
4 3 0.03
5 21 0.23
6 34 0.37
7 21 0.23
8 12 0.13
9 1 0.01
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (6 bp):
AATAAT
Found at i:32975466 original size:36 final size:39
Alignment explanation
Indices: 32975404--32975516 Score: 110
Period size: 39 Copynumber: 2.9 Consensus size: 39
32975394 AAATAATAAT
*
32975404 ATAATAATAATAAATATATAACTATATACATATAAAT-C-TA
1 ATAATAATAATAAA-AAAT-A-TATATACATATAAATACATA
* * *
32975444 AT-CTAATAATAAAAAATATATATATATATTAATACATA
1 ATAATAATAATAAAAAATATATATACATATAAATACATA
* *
32975482 ATAATAATAATAAATAATA-AAATACATA-AAATACA
1 ATAATAATAATAAAAAATATATATACATATAAATACA
32975517 AAAGAAACAG
Statistics
Matches: 61, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
36 13 0.21
37 8 0.13
38 14 0.23
39 24 0.39
40 2 0.03
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (39 bp):
ATAATAATAATAAAAAATATATATACATATAAATACATA
Found at i:32975493 original size:42 final size:41
Alignment explanation
Indices: 32975396--32975510 Score: 110
Period size: 42 Copynumber: 2.7 Consensus size: 41
32975386 ACAAAAAAAA
* *
32975396 ATAATAATATAATAATAATAAATATATAACTATATACATAT
1 ATAATAATATAATAATAAAAAATATATAACTATATACATAC
*
32975437 A-AATCTAATCTAATAATAAAAAATATATATA-TATATTA-ATAC
1 ATAA--TAATATAATAATAAAAAATATATA-ACTATA-TACATAC
*
32975479 ATAATAATAATAATAAATAATAAAATACATAA
1 ATAATAAT-ATAAT-AATAA-AAAATATATAA
32975511 AATACAAAAG
Statistics
Matches: 61, Mismatches: 5, Indels: 14
0.76 0.06 0.17
Matches are distributed among these distances:
40 2 0.03
41 5 0.08
42 34 0.56
43 11 0.18
44 9 0.15
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (41 bp):
ATAATAATATAATAATAAAAAATATATAACTATATACATAC
Found at i:32975510 original size:16 final size:16
Alignment explanation
Indices: 32975395--32975511 Score: 67
Period size: 20 Copynumber: 6.6 Consensus size: 16
32975385 AACAAAAAAA
32975395 AATAATAATATAATAAT
1 AATAATAA-ATAATAAT
*
32975412 AATAAATATATAACTATAT
1 AAT-AATAAATAA-TA-AT
32975431 ACAT-ATAAATCTAATCTAAT
1 A-ATAATAAA--TAA--TAAT
*
32975451 AATAAAAAATATATATAT
1 AATAATAAATA-ATA-AT
*
32975469 ATATTAATACATAATAAT
1 A-A-TAATAAATAATAAT
32975487 AATAATAAATAATAA-
1 AATAATAAATAATAAT
32975502 AATACATAAA
1 AATA-ATAAA
32975512 ATACAAAAGA
Statistics
Matches: 81, Mismatches: 6, Indels: 27
0.71 0.05 0.24
Matches are distributed among these distances:
15 4 0.05
16 17 0.21
17 10 0.12
18 18 0.22
19 10 0.12
20 19 0.23
21 3 0.04
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAATAAATAATAAT
Found at i:32977865 original size:46 final size:46
Alignment explanation
Indices: 32977809--32977900 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
32977799 ATGATGCAAA
*
32977809 TGATATTCTTAAACATGATAATAAAAACGATGCATAGAATGAAATG
1 TGATAATCTTAAACATGATAATAAAAACGATGCATAGAATGAAATG
* ** * *
32977855 TGATAATCTTAAACATGATGATGGAAATGATGCATAGAATGGAATG
1 TGATAATCTTAAACATGATAATAAAAACGATGCATAGAATGAAATG
32977901 ATAATGTTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.45, C:0.08, G:0.20, T:0.28
Consensus pattern (46 bp):
TGATAATCTTAAACATGATAATAAAAACGATGCATAGAATGAAATG
Found at i:32979148 original size:25 final size:26
Alignment explanation
Indices: 32979098--32979148 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
32979088 ATTTCTCACC
*
32979098 TAAAGATTTCTTAAGAATTTACCATT
1 TAAAGATTTCTTAAGAATTCACCATT
*
32979124 TAAA-ATTT-TTAAGAATCTCATCATT
1 TAAAGATTTCTTAAGAAT-TCACCATT
32979149 AGGTAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 8 0.36
25 10 0.45
26 4 0.18
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (26 bp):
TAAAGATTTCTTAAGAATTCACCATT
Found at i:32979381 original size:7 final size:7
Alignment explanation
Indices: 32979348--32979393 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
32979338 ATTCAAAAAA
32979348 ATTTTAT
1 ATTTTAT
32979355 ATTTATAT
1 ATTT-TAT
*
32979363 ATATT-T
1 ATTTTAT
32979369 -TTTTAT
1 ATTTTAT
32979375 ATTTTAT
1 ATTTTAT
*
32979382 ATTTTTT
1 ATTTTAT
32979389 ATTTT
1 ATTTT
32979394 GAAAATAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
5 3 0.09
6 2 0.06
7 22 0.67
8 6 0.18
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
ATTTTAT
Found at i:32979620 original size:13 final size:13
Alignment explanation
Indices: 32979604--32979642 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
32979594 AAAATACTAA
*
32979604 AAAATAAACACAT
1 AAAATAAACAAAT
*
32979617 AAAATAAATAAAT
1 AAAATAAACAAAT
32979630 AAAATAAA-AAAT
1 AAAATAAACAAAT
32979642 A
1 A
32979643 CCAAACAACG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 5 0.21
13 19 0.79
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (13 bp):
AAAATAAACAAAT
Found at i:32984117 original size:188 final size:188
Alignment explanation
Indices: 32983658--32984224 Score: 1100
Period size: 188 Copynumber: 3.0 Consensus size: 188
32983648 CAATGAGTTA
32983658 TTGTCAATTATAGAAGAAGATTTCATAGAGTTGGAAGATCTCAGTTGAAGGTGATACACACCATA
1 TTGTCAATTATAGAAGAAGATTTCATAGAGTTGGAAGATCTCAGTTGAAGGTGATACACACCATA
32983723 AAGAAAATAGCAGCAGTTACCTCAGAAATAGCAAGAGAATTATATACGTATTCAAGAACCTAATA
66 AAGAAAATAGCAGCAGTTACCTCAGAAATAGCAAGAGAATTATATACGTATTCAAGAACCTAATA
32983788 GGAAACAAG-AATTTTCAAATCTGAATAGATAGAAATCTAATGGCTGGATCACTCACC
131 GGAAACAAGAAATTTTCAAATCTGAATAGATAGAAATCTAATGGCTGGATCACTCACC
32983845 TTGTCAATTATAGAAGAAGATTTCATAGAGTTGGAAGATCTCAGTTGAAGGTGATACACACCATA
1 TTGTCAATTATAGAAGAAGATTTCATAGAGTTGGAAGATCTCAGTTGAAGGTGATACACACCATA
*
32983910 AAGAAAATAGCAGCAGTTACCTCAGAAATAGCAAGAGAATTATATACGAATTCAAGAACCTAATA
66 AAGAAAATAGCAGCAGTTACCTCAGAAATAGCAAGAGAATTATATACGTATTCAAGAACCTAATA
*
32983975 GGAAACAAGAAAGTTTCAAATCTGAATAGATAGAAATCTAATGGCTGGATCACTCACC
131 GGAAACAAGAAATTTTCAAATCTGAATAGATAGAAATCTAATGGCTGGATCACTCACC
*
32984033 TTGTCAATTATAGAAGAAGATTTCATAGAGTTGGAAGATCTCAGTTGAAGGTGATACACACCATG
1 TTGTCAATTATAGAAGAAGATTTCATAGAGTTGGAAGATCTCAGTTGAAGGTGATACACACCATA
32984098 AAGAAAATAGCAGCAGTTACCTCAGAAATAGCAAGAGAATTATATACGTATTCAAGAACCTAATA
66 AAGAAAATAGCAGCAGTTACCTCAGAAATAGCAAGAGAATTATATACGTATTCAAGAACCTAATA
32984163 GGAAACAAGAAATTTTCAAATCTGAATAGATAGAAATCTAATGGCTGGATCACTCACC
131 GGAAACAAGAAATTTTCAAATCTGAATAGATAGAAATCTAATGGCTGGATCACTCACC
32984221 TTGT
1 TTGT
32984225 AAGGTCATTT
Statistics
Matches: 374, Mismatches: 5, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
187 138 0.37
188 236 0.63
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.25
Consensus pattern (188 bp):
TTGTCAATTATAGAAGAAGATTTCATAGAGTTGGAAGATCTCAGTTGAAGGTGATACACACCATA
AAGAAAATAGCAGCAGTTACCTCAGAAATAGCAAGAGAATTATATACGTATTCAAGAACCTAATA
GGAAACAAGAAATTTTCAAATCTGAATAGATAGAAATCTAATGGCTGGATCACTCACC
Found at i:32986194 original size:2 final size:2
Alignment explanation
Indices: 32986183--32986214 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
32986173 TATTTAAATT
32986183 TC TC -C TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
32986215 TACTTTACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:32989850 original size:158 final size:157
Alignment explanation
Indices: 32989552--32989858 Score: 424
Period size: 158 Copynumber: 1.9 Consensus size: 157
32989542 TTTTGAACTG
* **
32989552 TGCATTATTGAAGATTCCAAGTAGCATTTGCATGGCATTGCTCACCTTGGTGAATAGTTGTTTGC
1 TGCATTATTGAAGATTCCAAGTAACATTCACATGGCATTGCTCACCTTGGTGAATAGTTGTTTGC
* * *
32989617 AACGATTGGTTTCCTGATGTCCGAGGCAAAAAAGTCCGGATAAGCAACATAAATCCTACTTGAGC
66 AACAATTGGTTTCCTGATGTCCGAGGCAAAAAAGTCCAGATAAGCAACATAAATCCTACTTGAAC
32989682 TACTCTCTTACTACTAGGATAGAACCA
131 TACTCTCTTACTACTAGGATAGAACCA
*
32989709 TGCATTATTGAAGATTCCCAA-TAACATTCACATGGCATTGCTCGCCTTGGTGAATAGATTGTTT
1 TGCATTATTGAAGATT-CCAAGTAACATTCACATGGCATTGCTCACCTTGGTGAATAG-TTGTTT
* ** *
32989773 GCAACAATTGGTTT-CTTATTGTTTGAGGCAAAAAAGT-CATATAAGCCAACATAAATCCTACTT
64 GCAACAATTGGTTTCCTGA-TGTCCGAGGCAAAAAAGTCCAGATAAG-CAACATAAATCCTACTT
* *
32989836 GAACTA-TGTCCTTACTATTAGGA
127 GAACTACTCT-CTTACTACTAGGA
32989859 ATCTGGAAAT
Statistics
Matches: 132, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
157 59 0.45
158 73 0.55
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (157 bp):
TGCATTATTGAAGATTCCAAGTAACATTCACATGGCATTGCTCACCTTGGTGAATAGTTGTTTGC
AACAATTGGTTTCCTGATGTCCGAGGCAAAAAAGTCCAGATAAGCAACATAAATCCTACTTGAAC
TACTCTCTTACTACTAGGATAGAACCA
Found at i:32997204 original size:52 final size:52
Alignment explanation
Indices: 32997118--32997274 Score: 224
Period size: 52 Copynumber: 3.0 Consensus size: 52
32997108 TATAACCATA
* * *
32997118 CAAACTTGCCCATTAAAAATCCCTTTCCTCTTAGAATTCTTCTCTTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTTCTCTTAGAATTCTTCTCTTGTAAGT
* * *
32997170 TAAACTTGCCTATTAAGAATCTCTTTTCTTTTAGAATTCTTCTCTTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTTCTCTTAGAATTCTTCTCTTGTAAGT
* * * *
32997222 CAAACTTACCTATTAAGAATCCCTTTTCTCTTAAAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTTCTCTTAGAATTCTTCTCTTGTAAGT
32997274 C
1 C
32997275 TTCTTGTCCA
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 92 1.00
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.43
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTTTTCTCTTAGAATTCTTCTCTTGTAAGT
Found at i:32997623 original size:25 final size:24
Alignment explanation
Indices: 32997558--32997660 Score: 75
Period size: 25 Copynumber: 4.2 Consensus size: 24
32997548 TAAGCTTATT
* *
32997558 TCTTCCCATGTGTT-AA-ATCAAGC
1 TCTTCCCATGTCTTGAACTTCAA-C
* *
32997581 TCTTCCCATATCTCGAACTGTCAAC
1 TCTTCCCATGTCTTGAACT-TCAAC
* * **
32997606 TCTTCTCATGTCTTGAACCATCGGC
1 TCTTCCCATGTCTTGAA-CTTCAAC
*
32997631 TCTTCCCATGTCTTTAATCTTCAAC
1 TCTTCCCATGTCTTGAA-CTTCAAC
32997656 TCTTC
1 TCTTC
32997661 TTACGTTTCG
Statistics
Matches: 60, Mismatches: 16, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
23 11 0.18
24 2 0.03
25 42 0.70
26 5 0.08
ACGTcount: A:0.20, C:0.32, G:0.10, T:0.38
Consensus pattern (24 bp):
TCTTCCCATGTCTTGAACTTCAAC
Found at i:32997674 original size:50 final size:50
Alignment explanation
Indices: 32997578--32997683 Score: 117
Period size: 50 Copynumber: 2.1 Consensus size: 50
32997568 TGTTAAATCA
*
32997578 AGCTCTTCCCATATCTCGAACTGTCAACTCTTCTCATGTCTTGAACCATC
1 AGCTCTTCCCATATCTCGAACTGTCAACTCTTCTCACGTCTTGAACCATC
* * ** * *
32997628 GGCTCTTCCCATGTCTTTAATCT-TCAACTCTTCTTACGT-TTCGAACCTTC
1 AGCTCTTCCCATATCTCGAA-CTGTCAACTCTTCTCACGTCTT-GAACCATC
32997678 AGCTCT
1 AGCTCT
32997684 GATATCACTT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
49 2 0.04
50 42 0.91
51 2 0.04
ACGTcount: A:0.19, C:0.33, G:0.10, T:0.38
Consensus pattern (50 bp):
AGCTCTTCCCATATCTCGAACTGTCAACTCTTCTCACGTCTTGAACCATC
Found at i:32998180 original size:52 final size:51
Alignment explanation
Indices: 32998122--32998278 Score: 190
Period size: 52 Copynumber: 3.0 Consensus size: 51
32998112 TATAACCATA
* * *
32998122 CAAACTTTCCCATTAAGAATCCTTCTCCTCTTAGAATTTTTCTTTTGTAAGT
1 CAAACTTTCCTATTAAGAATCCTT-TCCTCTTAGAATTCTTCTTTTGCAAGT
* * *
32998174 TAAACTTGT-CTATTAAGAATCTCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTT-TCCTATTAAGAATC-CTTTCCTCTTAGAATTCTTCTTTTGCAAGT
* **
32998226 CAAACTTACCTATTAAGAATCCCTTTTTTCTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTTCCTATTAAGAAT-CCTTTCCTCTTAGAATTCTTCTTTTGCAAGT
32998278 C
1 C
32998279 TTCTTGTCCA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
52 84 0.94
53 5 0.06
ACGTcount: A:0.25, C:0.22, G:0.08, T:0.45
Consensus pattern (51 bp):
CAAACTTTCCTATTAAGAATCCTTTCCTCTTAGAATTCTTCTTTTGCAAGT
Found at i:32998319 original size:11 final size:11
Alignment explanation
Indices: 32998303--32998344 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
32998293 GCAATATCTG
*
32998303 ACAAATCCCAA
1 ACAAATCTCAA
*
32998314 ACAAATCTCTA
1 ACAAATCTCAA
*
32998325 ACAAATTTCAA
1 ACAAATCTCAA
32998336 ACAAATCTC
1 ACAAATCTC
32998345 TTATGGGATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:32998328 original size:22 final size:22
Alignment explanation
Indices: 32998303--32998345 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
32998293 GCAATATCTG
32998303 ACAAATCCCAAACAAATCTCTA
1 ACAAATCCCAAACAAATCTCTA
**
32998325 ACAAATTTCAAACAAATCTCT
1 ACAAATCCCAAACAAATCTCT
32998346 TATGGGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (22 bp):
ACAAATCCCAAACAAATCTCTA
Found at i:33015896 original size:25 final size:27
Alignment explanation
Indices: 33015851--33015916 Score: 77
Period size: 25 Copynumber: 2.6 Consensus size: 27
33015841 AATTAATTAG
33015851 AATTA-ATATAAT-TATATTTTA-AAAA
1 AATTATAT-TAATATATATTTTATAAAA
*
33015876 TA-TATATTAATATATATTTTATAAAA
1 AATTATATTAATATATATTTTATAAAA
*
33015902 AATTATATAAATATA
1 AATTATATTAATATA
33015917 CAAAATAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 6 0.18
25 12 0.35
26 5 0.15
27 11 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
AATTATATTAATATATATTTTATAAAA
Found at i:33020507 original size:29 final size:29
Alignment explanation
Indices: 33020475--33020545 Score: 94
Period size: 27 Copynumber: 2.5 Consensus size: 29
33020465 AGGAGCACTT
33020475 TTTTATTTAAGAAAAT-ATTTTAATTTT-TA
1 TTTT-TTT-AGAAAATAATTTTAATTTTCTA
*
33020504 -TTTTTTAGAAAATAATTTTTATTTTCTA
1 TTTTTTTAGAAAATAATTTTAATTTTCTA
33020532 TTTTTTTAGAAAAT
1 TTTTTTTAGAAAAT
33020546 GTATTTAGTA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
26 7 0.18
27 13 0.34
28 5 0.13
29 13 0.34
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.59
Consensus pattern (29 bp):
TTTTTTTAGAAAATAATTTTAATTTTCTA
Found at i:33020552 original size:28 final size:26
Alignment explanation
Indices: 33020475--33020545 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 26
33020465 AGGAGCACTT
33020475 TTTTATTTAAGAAAATATTTTAATTTTTA
1 TTTT-TTT-AGAAAATATTTT-ATTTTTA
33020504 -TTTTTTAGAAAATAATTTTTATTTTCTA
1 TTTTTTTAGAAAAT-A-TTTTATTTT-TA
33020532 TTTTTTTAGAAAAT
1 TTTTTTTAGAAAAT
33020546 GTATTTAGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
26 7 0.18
27 9 0.24
28 9 0.24
29 13 0.34
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.59
Consensus pattern (26 bp):
TTTTTTTAGAAAATATTTTATTTTTA
Found at i:33038214 original size:2 final size:2
Alignment explanation
Indices: 33038209--33038235 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
33038199 ATATATATAT
33038209 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 A
33038236 TTCCAATAAA
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:33038830 original size:19 final size:20
Alignment explanation
Indices: 33038808--33038873 Score: 52
Period size: 19 Copynumber: 3.4 Consensus size: 20
33038798 TGAGATTTTA
33038808 AATTTAAATTTAATTAT-TT
1 AATTTAAATTTAATTATATT
*
33038827 AATTCT-ATTTTAATT-TATT
1 AATT-TAAATTTAATTATATT
33038846 AA-TTAATTATTTAATTATCA-T
1 AATTTAA--ATTTAATTAT-ATT
33038867 AATTTAA
1 AATTTAA
33038874 TCATGATGTG
Statistics
Matches: 37, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
17 1 0.03
18 3 0.08
19 16 0.43
20 8 0.22
21 4 0.11
22 5 0.14
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (20 bp):
AATTTAAATTTAATTATATT
Found at i:33038837 original size:31 final size:30
Alignment explanation
Indices: 33038802--33038861 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 30
33038792 AATAATTGAG
33038802 ATTTTAAATTTA-AATTTAATTATTTAATTCT
1 ATTTT-AATTTATAA-TTAATTATTTAATTCT
33038833 ATTTTAATTTATTAATTAATTATTTAATT
1 ATTTTAATTTA-TAATTAATTATTTAATT
33038862 ATCATAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 6 0.22
31 19 0.70
32 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (30 bp):
ATTTTAATTTATAATTAATTATTTAATTCT
Found at i:33041813 original size:16 final size:16
Alignment explanation
Indices: 33041782--33041815 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33041772 ATTATTTTTT
**
33041782 AAATATATTTTTATAA
1 AAATATATTTAAATAA
33041798 AAATATATTTAAATAA
1 AAATATATTTAAATAA
33041814 AA
1 AA
33041816 GTTTTACCAA
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATATATTTAAATAA
Found at i:33046701 original size:20 final size:19
Alignment explanation
Indices: 33046676--33046724 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
33046666 TTTGATAATT
33046676 ACATTTGCATCATA-TATAGA
1 ACATTTGCATCATAGTAT--A
*
33046696 ACATTTGAATCATAGTATA
1 ACATTTGCATCATAGTATA
33046715 ACATTTGCAT
1 ACATTTGCAT
33046725 TATTGTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 10 0.38
20 13 0.50
21 3 0.12
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (19 bp):
ACATTTGCATCATAGTATA
Found at i:33047290 original size:17 final size:17
Alignment explanation
Indices: 33047270--33047314 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
33047260 AACTTGGATC
33047270 TCTTGTGAATCTAAATT
1 TCTTGTGAATCTAAATT
* *
33047287 TCTTGTGAATTTGAATT
1 TCTTGTGAATCTAAATT
*
33047304 T-TTATGAATCT
1 TCTTGTGAATCT
33047315 TTCATTTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.27, C:0.09, G:0.13, T:0.51
Consensus pattern (17 bp):
TCTTGTGAATCTAAATT
Found at i:33047871 original size:66 final size:65
Alignment explanation
Indices: 33047730--33047900 Score: 200
Period size: 66 Copynumber: 2.6 Consensus size: 65
33047720 AAACTTAGTC
* * * ** *
33047730 ATTTTTTACATC-ACTCAGTCCAAATCATTTATTTTTCTGACTTGTGGTTCAGTCGTAGTCATTT
1 ATTTTTTACCTCAACTCAGTCCAAGTCATTTATTTTTTTGACTTGTGGTTCAGTCCCAGTCAATT
* * * *
33047794 ATTTTTCACCTCAACTCAATCCAAGTCATTTATTTTTTTGACTTTGTGGTTTAGTCCCGGTCAAT
1 ATTTTTTACCTCAACTCAGTCCAAGTCATTTATTTTTTTGAC-TTGTGGTTCAGTCCCAGTCAAT
33047859 T
65 T
* ** *
33047860 ATTTTTTACCTCAAATCAGTGTAGGTCATTTATTTTTTTGA
1 ATTTTTTACCTCAACTCAGTCCAAGTCATTTATTTTTTTGA
33047901 TTTTACAATT
Statistics
Matches: 89, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
64 10 0.11
65 26 0.29
66 53 0.60
ACGTcount: A:0.22, C:0.18, G:0.12, T:0.47
Consensus pattern (65 bp):
ATTTTTTACCTCAACTCAGTCCAAGTCATTTATTTTTTTGACTTGTGGTTCAGTCCCAGTCAATT
Found at i:33047970 original size:43 final size:42
Alignment explanation
Indices: 33047923--33048064 Score: 146
Period size: 43 Copynumber: 3.3 Consensus size: 42
33047913 ATTCCAATAA
33047923 CTTATTTTAAAGTTATTTAGCTTCT-TAATAGAAAAGCCAATTT
1 CTTATTTTAAAGTTATTTAGCTTCTGT-ATAGAAAAGCC-ATTT
* * * *
33047966 CTTATTTTTAAGTCATTTTACCTT-TGTTTA-AAGAAGCTCATTT
1 CTTATTTTAAAGTTA-TTTAGCTTCTGTATAGAA-AAGC-CATTT
* * *
33048009 CTTATTTTAAAGTTGTTTAGCATCTGTATAGAAAAGTTCATTT
1 CTTATTTTAAAGTTATTTAGCTTCTGTATAGAAAAG-CCATTT
33048052 CTTATTTTAAAGT
1 CTTATTTTAAAGT
33048065 CGTTTTGCTT
Statistics
Matches: 81, Mismatches: 11, Indels: 14
0.76 0.10 0.13
Matches are distributed among these distances:
42 8 0.10
43 62 0.77
44 11 0.14
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (42 bp):
CTTATTTTAAAGTTATTTAGCTTCTGTATAGAAAAGCCATTT
Found at i:33048094 original size:43 final size:43
Alignment explanation
Indices: 33047923--33048102 Score: 139
Period size: 43 Copynumber: 4.2 Consensus size: 43
33047913 ATTCCAATAA
** * * * *
33047923 CTTATTTTAAAGTTATTTAGCTTCT-TAATAGAAAAGCCAATTT
1 CTTATTTTAAAGTCGTTTTGCTTCTGT-TTAGAGAAGCCCATTT
* * * * *
33047966 CTTATTTTTAAGTCATTTTACCTT-TGTTTAAAGAAGCTCATTT
1 CTTATTTTAAAGTCGTTTT-GCTTCTGTTTAGAGAAGCCCATTT
* * * * * **
33048009 CTTATTTTAAAGTTGTTTAGCATCTGTATAGAAAAGTTCATTT
1 CTTATTTTAAAGTCGTTTTGCTTCTGTTTAGAGAAGCCCATTT
* *
33048052 CTTATTTTAAAGTCGTTTTGCTTCTATTTAGAGGAGCCCATTT
1 CTTATTTTAAAGTCGTTTTGCTTCTGTTTAGAGAAGCCCATTT
*
33048095 CTTTTTTT
1 CTTATTTT
33048103 TAAATTGTTT
Statistics
Matches: 105, Mismatches: 29, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
42 2 0.02
43 99 0.94
44 4 0.04
ACGTcount: A:0.27, C:0.13, G:0.12, T:0.49
Consensus pattern (43 bp):
CTTATTTTAAAGTCGTTTTGCTTCTGTTTAGAGAAGCCCATTT
Found at i:33048094 original size:86 final size:86
Alignment explanation
Indices: 33047923--33048115 Score: 223
Period size: 86 Copynumber: 2.2 Consensus size: 86
33047913 ATTCCAATAA
* * *
33047923 CTTATTTTAAAGTTATTTAGCTTCTTAATAGAAAAGCCAATTTCTTATTTTTAAGTCATTTTACC
1 CTTATTTTAAAGTTGTTTAGCATCTTAATAGAAAAGCCAATTTCTTATTTTAAAGTCATTTTACC
* *
33047988 TTTGTTTAAAGAAGCTCATTT
66 TTTATTTAAAGAAGCCCATTT
* *
33048009 CTTATTTTAAAGTTGTTTAGCATCTGT-ATAGAAAAGTTC-ATTTCTTATTTTAAAGTCGTTTT-
1 CTTATTTTAAAGTTGTTTAGCATCT-TAATAGAAAAG-CCAATTTCTTATTTTAAAGTCATTTTA
* * *
33048071 GCTTCTATTTAGAGGAGCCCATTT
64 CCTT-TATTTAAAGAAGCCCATTT
*
33048095 CTTTTTTTTAAA-TTGTTTAGC
1 C-TTATTTTAAAGTTGTTTAGC
33048116 CTTGCTTATA
Statistics
Matches: 92, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
85 3 0.03
86 78 0.85
87 11 0.12
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.49
Consensus pattern (86 bp):
CTTATTTTAAAGTTGTTTAGCATCTTAATAGAAAAGCCAATTTCTTATTTTAAAGTCATTTTACC
TTTATTTAAAGAAGCCCATTT
Found at i:33051059 original size:2 final size:2
Alignment explanation
Indices: 33051052--33051078 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
33051042 TACTTTTATC
33051052 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 A
33051079 AAACAAAATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33051833 original size:22 final size:22
Alignment explanation
Indices: 33051808--33051891 Score: 78
Period size: 22 Copynumber: 3.8 Consensus size: 22
33051798 CTAAATCTAG
*
33051808 GATAACTTAATAAAAAATAAAT
1 GATAACTTAATAATAAATAAAT
* ** * * *
33051830 GATAACTTATTCGTTAATTATT
1 GATAACTTAATAATAAATAAAT
* *
33051852 GATAACTTAGTAATAAATCAAT
1 GATAACTTAATAATAAATAAAT
*
33051874 GATAACTTAATAGTAAAT
1 GATAACTTAATAATAAAT
33051892 TAGAGATAAT
Statistics
Matches: 47, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.36
Consensus pattern (22 bp):
GATAACTTAATAATAAATAAAT
Found at i:33051893 original size:44 final size:44
Alignment explanation
Indices: 33051808--33051893 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 44
33051798 CTAAATCTAG
* * *
33051808 GATAACTTAATAAAAAATAAATGATAACTTATTCGTTAATTATT
1 GATAACTTAATAAAAAATAAATGATAACTTAATAGTAAATTATT
* * *
33051852 GATAACTTAGTAATAAATCAATGATAACTTAATAGTAAATTA
1 GATAACTTAATAAAAAATAAATGATAACTTAATAGTAAATTA
33051894 GAGATAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.36
Consensus pattern (44 bp):
GATAACTTAATAAAAAATAAATGATAACTTAATAGTAAATTATT
Found at i:33051899 original size:22 final size:22
Alignment explanation
Indices: 33051793--33051912 Score: 66
Period size: 22 Copynumber: 5.5 Consensus size: 22
33051783 CATAATAATG
*
33051793 TAATACTAAATCTAG-GATAACT
1 TAATAGTAAAT-TAGAGATAACT
* * *
33051815 TAATA-AAAAATAAATGATAACT
1 TAATAGTAAATTAGA-GATAACT
* * * **
33051837 TATTCGTTAATTATTGATAACT
1 TAATAGTAAATTAGAGATAACT
* * *
33051859 TAGTAATAAATCA-ATGATAACT
1 TAATAGTAAATTAGA-GATAACT
*
33051881 TAATAGTAAATTAGAGATAATT
1 TAATAGTAAATTAGAGATAACT
*
33051903 TATTAGTAAA
1 TAATAGTAAA
33051913 GTAATTTCAT
Statistics
Matches: 72, Mismatches: 21, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
20 2 0.03
21 3 0.04
22 62 0.86
23 5 0.07
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (22 bp):
TAATAGTAAATTAGAGATAACT
Found at i:33051900 original size:44 final size:43
Alignment explanation
Indices: 33051793--33051900 Score: 117
Period size: 44 Copynumber: 2.4 Consensus size: 43
33051783 CATAATAATG
*
33051793 TAATACTAAATCTAGGATAACTTAATAAAAAATAAATGATAACT
1 TAATAGTAAAT-TAGGATAACTTAATAAAAAATAAATGATAACT
* * * * * * *
33051837 TATTCGTTAATTATTGATAACTTAGTAATAAATCAATGATAACT
1 TAATAGTAAATTA-GGATAACTTAATAAAAAATAAATGATAACT
33051881 TAATAGTAAATTAGAGATAA
1 TAATAGTAAATTAG-GATAA
33051901 TTTATTAGTA
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
43 2 0.04
44 48 0.96
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.34
Consensus pattern (43 bp):
TAATAGTAAATTAGGATAACTTAATAAAAAATAAATGATAACT
Found at i:33051973 original size:22 final size:22
Alignment explanation
Indices: 33051945--33052259 Score: 182
Period size: 22 Copynumber: 14.4 Consensus size: 22
33051935 TAATTAATAG
* *
33051945 TAGTAAATTATAAATAACTTAA
1 TAGTAAATCATAAATAATTTAA
33051967 TAGTAAATCA-ATAATAATTTAA
1 TAGTAAATCATA-AATAATTTAA
* ** *
33051989 TAGTAAATAATTGATAATTTAG
1 TAGTAAATCATAAATAATTTAA
* *
33052011 TAATTAATCATTAAA-AATTTAA
1 TAGTAAATCA-TAAATAATTTAA
*
33052033 CAGTAAATCAGT--ATAATTTAA
1 TAGTAAATCA-TAAATAATTTAA
* *
33052054 TAGTAAATCATCAATAACTTAA
1 TAGTAAATCATAAATAATTTAA
* **
33052076 TACTAAATCATGCATAATTTAA
1 TAGTAAATCATAAATAATTTAA
**
33052098 TA-TAAATCA-ATAATAATTTGG
1 TAGTAAATCATA-AATAATTTAA
* *
33052119 TAGTGAATCATAAATAATTTAG
1 TAGTAAATCATAAATAATTTAA
* * *
33052141 T-GATAAATTGAT-GATAATTTTA
1 TAG-TAAA-TCATAAATAATTTAA
* * *
33052163 TAGTAAATAATAAAAAAATTAA
1 TAGTAAATCATAAATAATTTAA
* * *
33052185 GTAGCAAATCA-ATGATAATATAA
1 -TAGTAAATCATA-AATAATTTAA
* *
33052208 TAGTAAAT-ATATAAAAATATAA
1 TAGTAAATCATA-AATAATTTAA
** *
33052230 TAGTAAATCATTGATAATTTAG
1 TAGTAAATCATAAATAATTTAA
*
33052252 TAATAAAT
1 TAGTAAAT
33052260 TGATAACTTA
Statistics
Matches: 223, Mismatches: 53, Indels: 34
0.72 0.17 0.11
Matches are distributed among these distances:
20 2 0.01
21 38 0.17
22 160 0.72
23 23 0.10
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (22 bp):
TAGTAAATCATAAATAATTTAA
Found at i:33052085 original size:65 final size:66
Alignment explanation
Indices: 33051963--33052259 Score: 194
Period size: 65 Copynumber: 4.5 Consensus size: 66
33051953 TATAAATAAC
* ** * * * *
33051963 TTAATAGTAAATCAATAATAATTTAATAGTAAATAATTGATAATTTAGTAATTAATCATTAAAAA
1 TTAATAGTAAATCAATAATAATTTAATAGTAAATCATAAATAACTTAATAATAAATCATGAAAAA
33052028 T
66 T
* * * * * *
33052029 TTAACAGTAAATCAGT-ATAATTTAATAGTAAATCATCAATAACTTAATACTAAATCATGCATAA
1 TTAATAGTAAATCAATAATAATTTAATAGTAAATCATAAATAACTTAATAATAAATCATGAAAAA
33052093 T
66 T
** * * * * * *
33052094 TTAATA-TAAATCAATAATAATTTGGTAGTGAATCATAAATAATTTAGTGATAAATTGATG-ATA
1 TTAATAGTAAATCAATAATAATTTAATAGTAAATCATAAATAACTTAATAATAAA-TCATGAAAA
33052157 AT
65 AT
* * * * * * *
33052159 TTTATAGTAAAT-AATAAAAAAATTAAGTAGCAAATCA-ATGATAA-TATAATAGTAAAT-ATAT
1 TTAATAGTAAATCAAT-AATAATTTAA-TAGTAAATCATA-AATAACT-TAATAATAAATCAT-G
33052220 AAAAAT
61 AAAAAT
* * * * *
33052226 ATAATAGTAAATCATTGATAATTTAGTAATAAAT
1 TTAATAGTAAATCAATAATAATTTAATAGTAAAT
33052260 TGATAACTTA
Statistics
Matches: 176, Mismatches: 45, Indels: 20
0.73 0.19 0.08
Matches are distributed among these distances:
64 8 0.05
65 89 0.51
66 38 0.22
67 39 0.22
68 2 0.01
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (66 bp):
TTAATAGTAAATCAATAATAATTTAATAGTAAATCATAAATAACTTAATAATAAATCATGAAAAA
T
Found at i:33052136 original size:87 final size:88
Alignment explanation
Indices: 33051942--33052139 Score: 217
Period size: 87 Copynumber: 2.3 Consensus size: 88
33051932 AATTAATTAA
* * * *
33051942 TAGTAGTAAATTATAAATAACTTAATAGTAAATCAATAATAATTTAATAGTAAATAATTGATAAT
1 TAGTAGTAAATCATAAATAATTTAATAGTAAATCAATAATAACTTAATACTAAATAATTGATAAT
* * *
33052007 TTAGTAATTAATCATTAAAAATT
66 TTAATAATAAATCAATAAAAATT
** *
33052030 TAACAGTAAATCAGT--ATAATTTAATAGTAAATC-ATCAATAACTTAATACTAAATCA-TGCAT
1 TAGTAGTAAATCA-TAAATAATTTAATAGTAAATCAAT-AATAACTTAATACTAAATAATTG-AT
*
33052091 AATTTAAT-ATAAATCAATAATAATT
63 AATTTAATAATAAATCAATAAAAATT
* *
33052116 TGGTAGTGAATCATAAATAATTTA
1 TAGTAGTAAATCATAAATAATTTA
33052140 GTGATAAATT
Statistics
Matches: 90, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
85 1 0.01
86 27 0.30
87 51 0.57
88 10 0.11
89 1 0.01
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (88 bp):
TAGTAGTAAATCATAAATAATTTAATAGTAAATCAATAATAACTTAATACTAAATAATTGATAAT
TTAATAATAAATCAATAAAAATT
Found at i:33052218 original size:12 final size:12
Alignment explanation
Indices: 33052201--33052237 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
33052191 AATCAATGAT
33052201 AATATAATAGTA
1 AATATAATAGTA
*
33052213 AATAT-ATA-AA
1 AATATAATAGTA
33052223 AATATAATAGTA
1 AATATAATAGTA
33052235 AAT
1 AAT
33052238 CATTGATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
10 6 0.29
11 6 0.29
12 9 0.43
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (12 bp):
AATATAATAGTA
Found at i:33052288 original size:22 final size:22
Alignment explanation
Indices: 33052262--33052316 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
33052252 TAATAAATTG
* * *
33052262 ATAACTTAATTATACATCACTA
1 ATAACATAATAATAAATCACTA
*
33052284 ATAACATAATAATAAATTACTA
1 ATAACATAATAATAAATCACTA
33052306 ATAACATAATA
1 ATAACATAATA
33052317 GTAATTAACT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.33
Consensus pattern (22 bp):
ATAACATAATAATAAATCACTA
Found at i:33052443 original size:22 final size:22
Alignment explanation
Indices: 33052418--33052531 Score: 106
Period size: 22 Copynumber: 5.2 Consensus size: 22
33052408 AAATTTATAA
* *
33052418 TAAATCATCAATAATTTAATGG
1 TAAATCATCAATAACTTAATAG
* * *
33052440 TAAATTACCAATAATTTAATAG
1 TAAATCATCAATAACTTAATAG
**
33052462 -AAATCATGTATAACTTAATAG
1 TAAATCATCAATAACTTAATAG
**
33052483 TAAATCATTGATAACTTAATAG
1 TAAATCATCAATAACTTAATAG
* *
33052505 CAAATCATTC-ATAAATTAATAG
1 TAAATCA-TCAATAACTTAATAG
33052527 TAAAT
1 TAAAT
33052532 TTTTGATAAT
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
21 16 0.21
22 59 0.78
23 1 0.01
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.35
Consensus pattern (22 bp):
TAAATCATCAATAACTTAATAG
Found at i:33052466 original size:43 final size:43
Alignment explanation
Indices: 33052419--33052532 Score: 113
Period size: 43 Copynumber: 2.6 Consensus size: 43
33052409 AATTTATAAT
* * *
33052419 AAATCATCAATAATTTAATGGTAAATTACCAATAATTTAATAG-
1 AAATCATC-ATAAATTAATAGTAAATTACCAATAACTTAATAGC
* * * ***
33052462 AAATCATGTATAACTTAATAGTAAATCATTGATAACTTAATAGC
1 AAATCAT-CATAAATTAATAGTAAATTACCAATAACTTAATAGC
33052506 AAATCATTCATAAATTAATAGTAAATT
1 AAATCA-TCATAAATTAATAGTAAATT
33052533 TTTGATAATT
Statistics
Matches: 57, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
43 34 0.60
44 22 0.39
45 1 0.02
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.35
Consensus pattern (43 bp):
AAATCATCATAAATTAATAGTAAATTACCAATAACTTAATAGC
Found at i:33052540 original size:22 final size:22
Alignment explanation
Indices: 33052450--33052606 Score: 122
Period size: 22 Copynumber: 7.2 Consensus size: 22
33052440 TAAATTACCA
*
33052450 ATAATTTAATAG-AAATCA-TG
1 ATAACTTAATAGTAAATCATTG
33052470 TATAACTTAATAGTAAATCATTG
1 -ATAACTTAATAGTAAATCATTG
* *
33052493 ATAACTTAATAGCAAATCATTC
1 ATAACTTAATAGTAAATCATTG
* **
33052515 ATAAATTAATAGTAAATTTTTG
1 ATAACTTAATAGTAAATCATTG
* * * * *
33052537 ATAATTTAGTAATAAATTATTA
1 ATAACTTAATAGTAAATCATTG
* * * **
33052559 ATAGCTTACTAATAAATCACCG
1 ATAACTTAATAGTAAATCATTG
*
33052581 ATAATTTAATTA-TAAATCATTG
1 ATAACTTAA-TAGTAAATCATTG
33052603 ATAA
1 ATAA
33052607 TTTTTTTATT
Statistics
Matches: 108, Mismatches: 25, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
21 11 0.10
22 93 0.86
23 4 0.04
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.38
Consensus pattern (22 bp):
ATAACTTAATAGTAAATCATTG
Found at i:33052959 original size:22 final size:21
Alignment explanation
Indices: 33052875--33053379 Score: 131
Period size: 22 Copynumber: 22.9 Consensus size: 21
33052865 TAAAAACAAG
* * *
33052875 TGATAACTTAGTAATAAATCA
1 TGATAACTTAATAGTAAATTA
* * *
33052896 TCGATAACTTAAGAATAAACTAA
1 T-GATAACTTAATAGTAAA-TTA
*
33052919 TAATAACTTAATAGTAAATTA
1 TGATAACTTAATAGTAAATTA
*
33052940 GTGATAACTTAATAGTAAATCA
1 -TGATAACTTAATAGTAAATTA
** **
33052962 GTTTTAGTTTAATAGT-AATTAA
1 -TGATAACTTAATAGTAAATT-A
* * * *
33052984 TTGATAAATTTAGTAGCAAATCA
1 -TGAT-AACTTAATAGTAAATTA
* ** *
33053007 TGAATAATTTTGTAGTTAATTA
1 TG-ATAACTTAATAGTAAATTA
* *
33053029 TTGAAAACTTAAAAGTAAATTAA
1 -TGATAACTTAATAGTAAATT-A
* *
33053052 T-ATAATTTAGTAGTAATAAATTA
1 TGATAACTTA--A-TAGTAAATTA
* *
33053075 TTGATAACTTAATAATTAATTAA
1 -TGATAACTTAATAGTAAATT-A
* * *
33053098 TAATAACTTAATAATAAATCA
1 TGATAACTTAATAGTAAATTA
* * *
33053119 TAAGTAATTTAATA-CAAATTA
1 TGA-TAACTTAATAGTAAATTA
* ** * * *
33053140 GTAATAACTTGGTAATGAATCA
1 -TGATAACTTAATAGTAAATTA
* * *
33053162 TGCTTAATTTAATAATAAATCTA
1 TG-ATAACTTAATAGTAAAT-TA
* * *
33053185 TGATGATTTTATAGTAAATTA
1 TGATAACTTAATAGTAAATTA
* * * *
33053206 TAAAAAATTAAGTAGTAAATCAA
1 TGATAACTTAA-TAGTAAAT-TA
* *
33053229 TGATAACATAATAGTAAATCAA
1 TGATAACTTAATAGTAAAT-TA
*
33053251 TGATAACATAATAGTAAATTAA
1 TGATAACTTAATAGTAAATT-A
* *
33053273 TAATAA-TATAATAGTAAATCA
1 TGATAACT-TAATAGTAAATTA
*
33053294 TTGATAATTTATATA-TAAATTA
1 -TGATAACTTA-ATAGTAAATTA
* * * *
33053316 TTTATGACTTAGTAGTAAATAA
1 -TGATAACTTAATAGTAAATTA
* * *
33053338 GTAATAACTTAGTTA-CAAATTGA
1 -TGATAACTTA-ATAGTAAATT-A
* *
33053361 TGATAATTTAATTGTAAAT
1 TGATAACTTAATAGTAAAT
33053380 AAGTAATTAA
Statistics
Matches: 361, Mismatches: 92, Indels: 61
0.70 0.18 0.12
Matches are distributed among these distances:
21 41 0.11
22 263 0.73
23 39 0.11
24 11 0.03
25 7 0.02
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.38
Consensus pattern (21 bp):
TGATAACTTAATAGTAAATTA
Found at i:33053058 original size:43 final size:45
Alignment explanation
Indices: 33053010--33053099 Score: 114
Period size: 46 Copynumber: 2.0 Consensus size: 45
33053000 CAAATCATGA
*
33053010 ATAATTTTGTAGT-T-AATTATTGAAAACTTAA-AAGTAAATTAAT
1 ATAATTTAGTAGTATAAATTATTGAAAACTTAATAA-TAAATTAAT
* *
33053053 ATAATTTAGTAGTAATAAATTATTGATAACTTAATAATTAATTAAT
1 ATAATTTAGTAGT-ATAAATTATTGAAAACTTAATAATAAATTAAT
33053099 A
1 A
33053100 ATAACTTAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
43 12 0.30
45 1 0.03
46 25 0.62
47 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (45 bp):
ATAATTTAGTAGTATAAATTATTGAAAACTTAATAATAAATTAAT
Found at i:33053113 original size:11 final size:11
Alignment explanation
Indices: 33053078--33053114 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
33053068 TAAATTATTG
33053078 ATAACTTAATA
1 ATAACTTAATA
33053089 ATTAA-TTAATA
1 A-TAACTTAATA
33053100 ATAACTTAATA
1 ATAACTTAATA
33053111 ATAA
1 ATAA
33053115 ATCATAAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 3 0.12
11 18 0.75
12 3 0.12
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (11 bp):
ATAACTTAATA
Found at i:33053116 original size:44 final size:44
Alignment explanation
Indices: 33052877--33053315 Score: 153
Period size: 44 Copynumber: 9.9 Consensus size: 44
33052867 AAAACAAGTG
* * * * *
33052877 ATAACTTAGTAATAAATCATCGATAACTTAAGAATAAACTAATA
1 ATAACTTAATAATAAATTATTGATAACTTAATAATAAATTAATA
* * * * * *
33052921 ATAACTTAATAGTAAATTAGTGATAACTTAATAGTAAATCAGTT
1 ATAACTTAATAATAAATTATTGATAACTTAATAATAAATTAATA
* ** * * * ** *
33052965 TTAGTTTAATAGT-AATTAATTGATAAATTTAGTAGCAAA-TCATGA
1 ATAACTTAATAATAAATT-ATTGAT-AACTTAATAATAAATTAAT-A
* ** * * *
33053010 ATAATTTTGTAGTTAATTATTGAAAACTTAA-AAGTAAATTAAT-
1 ATAACTTAATAATAAATTATTGATAACTTAATAA-TAAATTAATA
* *
33053053 ATAATTTAGTAGTAATAAATTATTGATAACTTAATAATTAATTAATA
1 ATAACTTA--A-TAATAAATTATTGATAACTTAATAATAAATTAATA
* * * * *
33053100 ATAACTTAATAATAAATCA-TAAGTAATTTAAT-ACAAATTAGTA
1 ATAACTTAATAATAAATTATTGA-TAACTTAATAATAAATTAATA
** * * * * *
33053143 ATAACTTGGTAATGAATCA-TGCTTAATTTAATAATAAATCT-ATG
1 ATAACTTAATAATAAATTATTG-ATAACTTAATAATAAAT-TAATA
* * * * * * * * * *
33053187 ATGATTTTATAGTAAATTA-TAAAAAATTAAGTAGTAAATCAATG
1 ATAACTTAATAATAAATTATTGATAACTTAA-TAATAAATTAATA
* * * * * *
33053231 ATAACATAATAGTAAATCAATGATAACATAATAGTAAATTAATA
1 ATAACTTAATAATAAATTATTGATAACTTAATAATAAATTAATA
* * *
33053275 ATAA-TATAATAGTAAATCATTGATAA-TTTATATATAAATTA
1 ATAACT-TAATAATAAATTATTGATAACTTAATA-ATAAATTA
33053316 TTTATGACTT
Statistics
Matches: 293, Mismatches: 82, Indels: 40
0.71 0.20 0.10
Matches are distributed among these distances:
43 58 0.20
44 158 0.54
45 37 0.13
46 31 0.11
47 9 0.03
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (44 bp):
ATAACTTAATAATAAATTATTGATAACTTAATAATAAATTAATA
Found at i:33053241 original size:66 final size:66
Alignment explanation
Indices: 33053171--33053300 Score: 156
Period size: 66 Copynumber: 2.0 Consensus size: 66
33053161 ATGCTTAATT
* * ** *
33053171 TAATAATAAATCTATGATGATTTTATAGTAAATT-ATAAAAA-ATTAAGTAGTAAATCAATGATA
1 TAATAATAAATCAATGATAACATAATAGTAAATTAATAAAAATA-TAA-TAGTAAATCAATGATA
33053234 ACA
64 ACA
* * *
33053237 TAATAGTAAATCAATGATAACATAATAGTAAATTAATAATAATATAATAGTAAATCATTGATAA
1 TAATAATAAATCAATGATAACATAATAGTAAATTAATAAAAATATAATAGTAAATCAATGATAA
33053301 TTTATATATA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
66 44 0.81
67 9 0.17
68 1 0.02
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (66 bp):
TAATAATAAATCAATGATAACATAATAGTAAATTAATAAAAATATAATAGTAAATCAATGATAAC
A
Found at i:33053427 original size:22 final size:22
Alignment explanation
Indices: 33053401--33053500 Score: 69
Period size: 22 Copynumber: 4.6 Consensus size: 22
33053391 TTAATTAATA
33053401 ATTAATAACTTTATAGTAAATT
1 ATTAATAACTTTATAGTAAATT
* * * *
33053423 ATTAAAAAATTAATAGTAAATAA
1 ATTAATAACTTTATAGTAAAT-T
* * * *
33053446 ACT-ATAATTTTATAATAAATC
1 ATTAATAACTTTATAGTAAATT
* * *
33053467 ATTAGTAACTTAATGGTAAATT
1 ATTAATAACTTTATAGTAAATT
*
33053489 ATCAATAA-TTTA
1 ATTAATAACTTTA
33053501 GTAATACTTC
Statistics
Matches: 56, Mismatches: 20, Indels: 5
0.69 0.25 0.06
Matches are distributed among these distances:
21 5 0.09
22 49 0.88
23 2 0.04
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (22 bp):
ATTAATAACTTTATAGTAAATT
Found at i:33053497 original size:44 final size:44
Alignment explanation
Indices: 33053404--33053499 Score: 102
Period size: 44 Copynumber: 2.2 Consensus size: 44
33053394 ATTAATAATT
* * *
33053404 AATAACTTTATAGTAAATTATTAAAAAATTAATAGTAAATAAAC
1 AATAATTTTATAATAAATCATTAAAAAATTAATAGTAAATAAAC
* ** * * * *
33053448 TATAATTTTATAATAAATCATTAGTAACTTAATGGTAAATTATC
1 AATAATTTTATAATAAATCATTAAAAAATTAATAGTAAATAAAC
33053492 AATAATTT
1 AATAATTT
33053500 AGTAATACTT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (44 bp):
AATAATTTTATAATAAATCATTAAAAAATTAATAGTAAATAAAC
Found at i:33053522 original size:22 final size:21
Alignment explanation
Indices: 33053492--33053572 Score: 90
Period size: 22 Copynumber: 3.7 Consensus size: 21
33053482 GTAAATTATC
*
33053492 AATAATTTAGTAATACTTCAAT
1 AATAATTTAGTAATA-TTCATT
* *
33053514 ACTAATTTAGTAATAAATCATT
1 AATAATTTAGTAAT-ATTCATT
**
33053536 AATAATTTAGTGGTATATCATT
1 AATAATTTAGTAATAT-TCATT
33053558 AATAATTTAGTAATA
1 AATAATTTAGTAATA
33053573 AATTACTAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
21 1 0.02
22 46 0.96
23 1 0.02
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.42
Consensus pattern (21 bp):
AATAATTTAGTAATATTCATT
Found at i:33053531 original size:44 final size:44
Alignment explanation
Indices: 33053483--33053577 Score: 120
Period size: 44 Copynumber: 2.2 Consensus size: 44
33053473 AACTTAATGG
*
33053483 TAAATTATCAATAATTTAGTAATACT-TCAATACTAATTTAGTAA
1 TAAATTATCAATAATTTAGTAATA-TATCAATAATAATTTAGTAA
* * ** *
33053527 TAAATCATTAATAATTTAGTGGTATATCATTAATAATTTAGTAA
1 TAAATTATCAATAATTTAGTAATATATCAATAATAATTTAGTAA
33053571 TAAATTA
1 TAAATTA
33053578 CTAATAAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 1 0.02
44 42 0.98
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (44 bp):
TAAATTATCAATAATTTAGTAATATATCAATAATAATTTAGTAA
Found at i:33053573 original size:11 final size:11
Alignment explanation
Indices: 33053492--33053584 Score: 53
Period size: 11 Copynumber: 8.5 Consensus size: 11
33053482 GTAAATTATC
33053492 AATAATTTAGT
1 AATAATTTAGT
* * *
33053503 AATACTTCAAT
1 AATAATTTAGT
*
33053514 ACTAATTTAGT
1 AATAATTTAGT
* * *
33053525 AATAAATCATT
1 AATAATTTAGT
33053536 AATAATTTAGT
1 AATAATTTAGT
** * *
33053547 GGT-ATATCATT
1 AATAAT-TTAGT
33053558 AATAATTTAGT
1 AATAATTTAGT
* *
33053569 AATAAATTACT
1 AATAATTTAGT
33053580 AATAA
1 AATAA
33053585 AATAATATTA
Statistics
Matches: 56, Mismatches: 24, Indels: 4
0.67 0.29 0.05
Matches are distributed among these distances:
10 2 0.04
11 52 0.93
12 2 0.04
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.41
Consensus pattern (11 bp):
AATAATTTAGT
Found at i:33053585 original size:11 final size:11
Alignment explanation
Indices: 33053557--33053615 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
33053547 GGTATATCAT
* *
33053557 TAATAATTTAG
1 TAATAAATTAA
*
33053568 TAATAAATTAC
1 TAATAAATTAA
*
33053579 TAATAAAATAA
1 TAATAAATTAA
*
33053590 TATTAAATTAA
1 TAATAAATTAA
* *
33053601 TGATAACTTAA
1 TAATAAATTAA
33053612 TAAT
1 TAAT
33053616 TAATCATTAG
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 38 1.00
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.39
Consensus pattern (11 bp):
TAATAAATTAA
Found at i:33053957 original size:21 final size:21
Alignment explanation
Indices: 33053933--33053983 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
33053923 AAGGTTATTG
*
33053933 AAATTTTATCAAAAATTATCA
1 AAATTATATCAAAAATTATCA
* *
33053954 AAATTATATCAATAGTTATCA
1 AAATTATATCAAAAATTATCA
33053975 AAATTATAT
1 AAATTATAT
33053984 TATAAGTTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.39
Consensus pattern (21 bp):
AAATTATATCAAAAATTATCA
Found at i:33053965 original size:11 final size:10
Alignment explanation
Indices: 33053937--33053979 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
33053927 TTATTGAAAT
33053937 TTTATCAAAA
1 TTTATCAAAA
*
33053947 ATTATCAAAA
1 TTTATCAAAA
*
33053957 TTATATCAATA
1 TT-TATCAAAA
*
33053968 GTTATCAAAA
1 TTTATCAAAA
33053978 TT
1 TT
33053980 ATATTATAAG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
10 18 0.69
11 8 0.31
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (10 bp):
TTTATCAAAA
Found at i:33053991 original size:21 final size:20
Alignment explanation
Indices: 33053952--33054021 Score: 77
Period size: 21 Copynumber: 3.4 Consensus size: 20
33053942 CAAAAATTAT
* *
33053952 CAAAATTATATCAATAGTTAT
1 CAAAATTATATTAA-AGTTAC
33053973 CAAAATTATATTATAAGTTAC
1 CAAAATTATATTA-AAGTTAC
* *
33053994 CAAACTAATATTAAAGATTAC
1 CAAAATTATATTAAAG-TTAC
33054015 CAAAATT
1 CAAAATT
33054022 GTATCGAAGG
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
20 3 0.07
21 37 0.90
22 1 0.02
ACGTcount: A:0.50, C:0.11, G:0.04, T:0.34
Consensus pattern (20 bp):
CAAAATTATATTAAAGTTAC
Found at i:33054095 original size:25 final size:22
Alignment explanation
Indices: 33054067--33054118 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 22
33054057 CGAAATCAAA
*
33054067 ATTATATAAAAAGTTATCAAATTAT
1 ATTATACAAAAA-TTA--AAATTAT
*
33054092 ATTATACCAAAATTAAAATTAT
1 ATTATACAAAAATTAAAATTAT
33054114 ATTAT
1 ATTAT
33054119 TAGTATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 12 0.48
24 3 0.12
25 10 0.40
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (22 bp):
ATTATACAAAAATTAAAATTAT
Found at i:33066057 original size:20 final size:20
Alignment explanation
Indices: 33066032--33066069 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
33066022 AGGTTTCTTT
33066032 AGCATAAATGAAGGCATCGA
1 AGCATAAATGAAGGCATCGA
33066052 AGCATAAATGAAGGCATC
1 AGCATAAATGAAGGCATC
33066070 CAACGATCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.16, G:0.24, T:0.16
Consensus pattern (20 bp):
AGCATAAATGAAGGCATCGA
Found at i:33068672 original size:2 final size:2
Alignment explanation
Indices: 33068665--33068698 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
33068655 CCGTGAATTT
33068665 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33068699 ATTTTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33073260 original size:2 final size:2
Alignment explanation
Indices: 33073253--33073277 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
33073243 GCTGTTGTGC
33073253 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
33073278 GTGCTATTTT
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:33084432 original size:29 final size:29
Alignment explanation
Indices: 33084399--33084471 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
33084389 GGCACTTGGC
33084399 TAAGATTTTGAAAAGTGCTGAGAATGACA
1 TAAGATTTTGAAAAGTGCTGAGAATGACA
33084428 TAAGATTTTGAAAAGTGCTGAGAATGACA
1 TAAGATTTTGAAAAGTGCTGAGAATGACA
33084457 TAAGATTTTGAAAAG
1 TAAGATTTTGAAAAG
33084472 CATTAATCTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.29
Consensus pattern (29 bp):
TAAGATTTTGAAAAGTGCTGAGAATGACA
Found at i:33086152 original size:9 final size:9
Alignment explanation
Indices: 33086138--33086166 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
33086128 AATTAGGGAT
33086138 ATTTTTATC
1 ATTTTTATC
33086147 ATTTTTATC
1 ATTTTTATC
33086156 ATTTTTATC
1 ATTTTTATC
33086165 AT
1 AT
33086167 GCTTAGTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (9 bp):
ATTTTTATC
Found at i:33099943 original size:19 final size:20
Alignment explanation
Indices: 33099916--33099953 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
33099906 ACAGCATATC
33099916 GAAAAAAGAAAA-ATATAGA
1 GAAAAAAGAAAACATATAGA
*
33099935 GAAACAAGAAAACATATAG
1 GAAAAAAGAAAACATATAG
33099954 TAGCACTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.68, C:0.05, G:0.16, T:0.11
Consensus pattern (20 bp):
GAAAAAAGAAAACATATAGA
Found at i:33102623 original size:3 final size:3
Alignment explanation
Indices: 33102604--33102646 Score: 68
Period size: 3 Copynumber: 14.0 Consensus size: 3
33102594 AAACCAGATA
*
33102604 ATC ATG ATC ATTC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC A-TC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
33102647 TGGATAATTG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:33108095 original size:18 final size:18
Alignment explanation
Indices: 33108072--33108107 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
33108062 CGATGATATA
*
33108072 ATAAAAATATATTTAAAT
1 ATAAAAATATAATTAAAT
*
33108090 ATAAAAATTTAATTAAAT
1 ATAAAAATATAATTAAAT
33108108 TTATAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATAAAAATATAATTAAAT
Found at i:33108856 original size:102 final size:101
Alignment explanation
Indices: 33108674--33108858 Score: 307
Period size: 102 Copynumber: 1.8 Consensus size: 101
33108664 ACTTATCAAG
33108674 ATTAATGTGTGATTTGATTAAAAAATAAATAAATCAAATCCTAGACAGCACACCAAATAAGAGAA
1 ATTAATGTGTGATTTGATTAAAAAATAAATAAATCAAATCCTAGACAGCACACCAAATAAGAGAA
33108739 TATGTATAACATACCAACAATCATTTTTTTTATTTA
66 TATGTATAACATACCAACAATCATTTTTTTTATTTA
* ** *
33108775 ATTAATGTGTGATTTTATTTAAAAAATAAATAAATCAAATCCTTTATAGCACACCAAATAAGAGA
1 ATTAATGTGTGATTTGA-TTAAAAAATAAATAAATCAAATCCTAGACAGCACACCAAATAAGAGA
* *
33108840 ATATGTGTAACGTACCAAC
65 ATATGTATAACATACCAAC
33108859 TTTTACTGGT
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
101 16 0.21
102 61 0.79
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (101 bp):
ATTAATGTGTGATTTGATTAAAAAATAAATAAATCAAATCCTAGACAGCACACCAAATAAGAGAA
TATGTATAACATACCAACAATCATTTTTTTTATTTA
Found at i:33109178 original size:18 final size:18
Alignment explanation
Indices: 33109157--33109204 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 18
33109147 ATGAATATAT
33109157 TTATAAATAATAAATAAA
1 TTATAAATAATAAATAAA
33109175 TTAT-AAT--TAAATAAA
1 TTATAAATAATAAATAAA
33109190 TT-TAAATAAATAAAT
1 TTATAAAT-AATAAAT
33109205 CATAAACGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
14 1 0.04
15 13 0.50
17 3 0.12
18 9 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TTATAAATAATAAATAAA
Found at i:33109199 original size:14 final size:15
Alignment explanation
Indices: 33109165--33109210 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
33109155 ATTTATAAAT
33109165 AATAAATAAATTATA
1 AATAAATAAATTATA
*
33109180 ATTAAATAAATT-TA
1 AATAAATAAATTATA
*
33109194 AATAAATAAATCATA
1 AATAAATAAATTATA
33109209 AA
1 AA
33109211 CGAATATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
AATAAATAAATTATA
Found at i:33109210 original size:15 final size:14
Alignment explanation
Indices: 33109165--33109210 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
33109155 ATTTATAAAT
33109165 AATAAATAAATTATA
1 AATAAATAAA-TATA
* *
33109180 ATTAAATAAATTTA
1 AATAAATAAATATA
33109194 AATAAATAAATCATA
1 AATAAATAAAT-ATA
33109209 AA
1 AA
33109211 CGAATATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
14 13 0.50
15 13 0.50
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (14 bp):
AATAAATAAATATA
Found at i:33112652 original size:3 final size:3
Alignment explanation
Indices: 33112644--33112669 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
33112634 ATTGACTTAC
33112644 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
33112670 TTAAGAAATT
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:33113308 original size:24 final size:23
Alignment explanation
Indices: 33113238--33113308 Score: 70
Period size: 24 Copynumber: 3.0 Consensus size: 23
33113228 TTTTTACATA
**
33113238 TTTAATATTAAAATTTAAATTTT
1 TTTAATATTAAAATTTAAAAATT
* * *
33113261 TTATAAAATTAAAATTTCATAATT
1 TT-TAATATTAAAATTTAAAAATT
*
33113285 TTTAATATTAAAAGTATAAAAATT
1 TTTAATATTAAAA-TTTAAAAATT
33113309 ATAAAACTTA
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
23 12 0.32
24 25 0.68
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (23 bp):
TTTAATATTAAAATTTAAAAATT
Found at i:33113335 original size:30 final size:29
Alignment explanation
Indices: 33113286--33113343 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
33113276 TTCATAATTT
33113286 TTAATATTAAAAGTATAAAAATTATAAAAC
1 TTAATATTAAAAGTATAAAAATTA-AAAAC
* * * *
33113316 TTAATTTTAAAATTTTAAAATTTAAAAA
1 TTAATATTAAAAGTATAAAAATTAAAAA
33113344 TTTTAGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (29 bp):
TTAATATTAAAAGTATAAAAATTAAAAAC
Found at i:33113343 original size:16 final size:17
Alignment explanation
Indices: 33113318--33113360 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
33113308 TATAAAACTT
*
33113318 AATTTTAAAATTTTA-A
1 AATTTAAAAATTTTAGA
33113334 AATTTAAAAATTTTAGA
1 AATTTAAAAATTTTAGA
*
33113351 AATTCAAAAA
1 AATTTAAAAA
33113361 AATATATATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
AATTTAAAAATTTTAGA
Found at i:33113353 original size:9 final size:8
Alignment explanation
Indices: 33113318--33113354 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
33113308 TATAAAACTT
33113318 AATTTTAA
1 AATTTTAA
33113326 AATTTTAA
1 AATTTTAA
*
33113334 AATTTAAA
1 AATTTTAA
33113342 AATTTTAGA
1 AATTTTA-A
33113351 AATT
1 AATT
33113355 CAAAAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 21 0.81
9 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (8 bp):
AATTTTAA
Found at i:33122674 original size:19 final size:17
Alignment explanation
Indices: 33122648--33122690 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
33122638 TAATTTTATA
33122648 TTTAAATTAGTT-TTTTT
1 TTTAAATTA-TTATTTTT
33122665 CTTTACAATTATTATTTTT
1 -TTTA-AATTATTATTTTT
33122684 TTTAAAT
1 TTTAAAT
33122691 ATGTCATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 3 0.13
18 10 0.43
19 10 0.43
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (17 bp):
TTTAAATTATTATTTTT
Found at i:33123371 original size:18 final size:21
Alignment explanation
Indices: 33123348--33123410 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 21
33123338 AATTCATAAG
33123348 TTTAATAT-TA-TTTTA-TAT
1 TTTAATATATATTTTTATTAT
33123366 TTTAATATATATTTTTATTAT
1 TTTAATATATATTTTTATTAT
* * *
33123387 TTTAAT-TAAAATATTATTAT
1 TTTAATATATATTTTTATTAT
33123407 TTTA
1 TTTA
33123411 CTTTTATATA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
18 8 0.21
19 2 0.05
20 20 0.51
21 9 0.23
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTAATATATATTTTTATTAT
Found at i:33123384 original size:25 final size:25
Alignment explanation
Indices: 33123353--33123425 Score: 64
Period size: 25 Copynumber: 3.0 Consensus size: 25
33123343 ATAAGTTTAA
33123353 TATTATTTTATATTTTAATATATAT
1 TATTATTTTATATTTTAATATATAT
* * *
33123378 TTTTATTATTTTA-ATTAA-A-ATAT
1 TATTATT-TTATATTTTAATATATAT
*
33123401 TATTATTTTA-CTTTTATATATATAT
1 TATTATTTTATATTTTA-ATATATAT
33123426 ATATACAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 10
0.68 0.13 0.19
Matches are distributed among these distances:
22 5 0.14
23 11 0.31
24 2 0.06
25 14 0.39
26 4 0.11
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (25 bp):
TATTATTTTATATTTTAATATATAT
Found at i:33123385 original size:28 final size:27
Alignment explanation
Indices: 33123353--33123419 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 27
33123343 ATAAGTTTAA
** *
33123353 TATTATTTTATATTTTAATATATATTTT
1 TATTATTTTATATTAAAATAT-TATTAT
33123381 TATTATTTTA-ATTAAAATATTATTAT
1 TATTATTTTATATTAAAATATTATTAT
33123407 T-TTACTTTTATAT
1 TATTA-TTTTATAT
33123420 ATATATATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 3 0.09
26 11 0.32
27 10 0.29
28 10 0.29
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (27 bp):
TATTATTTTATATTAAAATATTATTAT
Found at i:33134042 original size:81 final size:82
Alignment explanation
Indices: 33133941--33134101 Score: 306
Period size: 82 Copynumber: 2.0 Consensus size: 82
33133931 TGATAGAAAG
33133941 ATGAATTTTCAATGCCAATTCATATTTAAAAAAAAAAAA-TTTAATTTTGATGTCAAATTCATAA
1 ATGAATTTTCAATGCCAATTCATATTTAAAAAAAAAAAAGTTTAATTTTGATGTCAAATTCATAA
33134005 TTTGTCAACCATTCCCT
66 TTTGTCAACCATTCCCT
*
33134022 ATGAGTTTTCAATGCCAATTCATATTTAAAAAAAAAAAAGTTTAATTTTGATGTCAAATTCATAA
1 ATGAATTTTCAATGCCAATTCATATTTAAAAAAAAAAAAGTTTAATTTTGATGTCAAATTCATAA
33134087 TTTGTCAACCATTCC
66 TTTGTCAACCATTCC
33134102 ACCCCCCCCC
Statistics
Matches: 78, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
81 38 0.49
82 40 0.51
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.38
Consensus pattern (82 bp):
ATGAATTTTCAATGCCAATTCATATTTAAAAAAAAAAAAGTTTAATTTTGATGTCAAATTCATAA
TTTGTCAACCATTCCCT
Found at i:33141165 original size:275 final size:265
Alignment explanation
Indices: 33140626--33141166 Score: 893
Period size: 275 Copynumber: 2.0 Consensus size: 265
33140616 ATATTGAAAT
*
33140626 TAGTTGATGATCATCAACTTGCTAAAATTTTCTGGTCTGAAGTAAGATATATTAATGTTCACCTA
1 TAGTTGATGATCATCAACTTGCTAAAATTTTCTGGTCTGAAGTAAGATATATCAATGTTCACCTA
*
33140691 CCTCTAAAGCAAAGATGTGTTGACTTCAGTAAGAATAGTTGATATCAGATATATGTAGTAACCCA
66 CCTCTAAAACAAAGATGTGTTGACTTCAGTAAGAATAGTTGATATCAGATATATGTAGTAACCCA
* * *
33140756 GAAGTTTGATAACTATGATAATAAAAAAAAAAAAAGTCCAAAAGAAGAGAAATTTGGGTGGTTAC
131 GAAATTTGATAACTATAATAATAAAAAAAAAAAAAGTCCAAAAGAAGAGAAATTTGGGTGGCTAC
* *
33140821 TGGATAATAGAAAAGTCTAAACTTACTTTTTCAACTTATATTTGCGACAATAATATTAATATTAG
196 TGGATAAGAGAAAAGTCTAAACTTACTTTTTCAACTTATATTTGCAACAATAATATTAATATTAG
33140886 TTCTA
261 TTCTA
33140891 TAGTTGATGATCATCAACTTGCTAAAATTTTCTGGTCTGAAGTAAGATATATCAATGTTCACCTA
1 TAGTTGATGATCATCAACTTGCTAAAATTTTCTGGTCTGAAGTAAGATATATCAATGTTCACCTA
33140956 CCTCTAAAACAAAGATGTGTTGACTTCAGTAAGAATAGTTATCAAGATATCAGATATATGTAGTA
66 CCTCTAAAACAAAGATGTGTTGACTTCAGTAAGAATAG-T-T---GATATCAGATATATGTAGTA
33141021 ACCCAGAAATTTGATAACTATAATAATAATAATAAAAAAAAAAAAGTCCAAAAGAAGAGAAATTT
126 ACCCAGAAATTTGATAAC--T-ATAATAAT-A-AAAAAAAAAAAAGTCCAAAAGAAGAGAAATTT
* * * *
33141086 GGGTGGCTCCTGGATAAGAGAAAAGTCTAAACTTACTTTTTCAAGTTATATTTGTAAGAATAATA
186 GGGTGGCTACTGGATAAGAGAAAAGTCTAAACTTACTTTTTCAACTTATATTTGCAACAATAATA
33141151 TTAATATTAGTTCTA
251 TTAATATTAGTTCTA
33141166 T
1 T
33141167 CTAGCGTTGA
Statistics
Matches: 255, Mismatches: 11, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
265 101 0.40
266 1 0.00
267 1 0.00
270 37 0.15
272 1 0.00
273 7 0.03
274 1 0.00
275 106 0.42
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (265 bp):
TAGTTGATGATCATCAACTTGCTAAAATTTTCTGGTCTGAAGTAAGATATATCAATGTTCACCTA
CCTCTAAAACAAAGATGTGTTGACTTCAGTAAGAATAGTTGATATCAGATATATGTAGTAACCCA
GAAATTTGATAACTATAATAATAAAAAAAAAAAAAGTCCAAAAGAAGAGAAATTTGGGTGGCTAC
TGGATAAGAGAAAAGTCTAAACTTACTTTTTCAACTTATATTTGCAACAATAATATTAATATTAG
TTCTA
Found at i:33154187 original size:17 final size:17
Alignment explanation
Indices: 33154156--33154188 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
33154146 GTTTTTAACC
33154156 TCTACTATATCATGATT
1 TCTACTATATCATGATT
33154173 TCTATCTATAT-ATGAT
1 TCTA-CTATATCATGAT
33154189 AGCAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.30, C:0.15, G:0.06, T:0.48
Consensus pattern (17 bp):
TCTACTATATCATGATT
Found at i:33160470 original size:16 final size:18
Alignment explanation
Indices: 33160436--33160472 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
33160426 TATATCTTAA
33160436 AAATTATATTAATAATTT
1 AAATTATATTAATAATTT
33160454 AAATTATA-TAA-AATTT
1 AAATTATATTAATAATTT
33160470 AAA
1 AAA
33160473 AAATAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.42
17 3 0.16
18 8 0.42
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATTATATTAATAATTT
Found at i:33172252 original size:21 final size:22
Alignment explanation
Indices: 33172201--33172252 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 22
33172191 TATTATATCA
33172201 TCTTTGTTTTCATATTATGTTAT
1 TCTTT-TTTTCATATTATGTTAT
*
33172224 TC-ATTTTTCATATT-TGTT-T
1 TCTTTTTTTCATATTATGTTAT
33172243 TCTTTCTTTT
1 TCTTT-TTTT
33172253 ATCATTTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 3 0.12
20 5 0.20
21 14 0.56
22 1 0.04
23 2 0.08
ACGTcount: A:0.13, C:0.12, G:0.06, T:0.69
Consensus pattern (22 bp):
TCTTTTTTTCATATTATGTTAT
Found at i:33173365 original size:21 final size:21
Alignment explanation
Indices: 33173328--33173371 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
33173318 AAAGTTCATT
* *
33173328 TATCTTCTTCCCTTCAATACG
1 TATCTTCTTCCCATCAACACG
33173349 TATCTTC-TCCTCATCAACACG
1 TATCTTCTTCC-CATCAACACG
33173370 TA
1 TA
33173372 ATTCATGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.23, C:0.34, G:0.05, T:0.39
Consensus pattern (21 bp):
TATCTTCTTCCCATCAACACG
Found at i:33181543 original size:12 final size:12
Alignment explanation
Indices: 33181522--33181566 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
33181512 AGACTCAGAC
33181522 GAAGAAGAATAT
1 GAAGAAGAATAT
*
33181534 GAAGAGGAATAT
1 GAAGAAGAATAT
* *
33181546 GAAGAAGAAAAC
1 GAAGAAGAATAT
33181558 GAAGAAGAA
1 GAAGAAGAA
33181567 AATTACCAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.60, C:0.02, G:0.29, T:0.09
Consensus pattern (12 bp):
GAAGAAGAATAT
Found at i:33191256 original size:4 final size:4
Alignment explanation
Indices: 33191247--33191279 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
33191237 GCAGTAGCAT
*
33191247 AAGA AAGA AAGA AGGA AAGA AAGA AAGA AAGA A
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA A
33191280 GGGGTAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:33196445 original size:65 final size:65
Alignment explanation
Indices: 33196358--33196481 Score: 203
Period size: 65 Copynumber: 1.9 Consensus size: 65
33196348 CATCTACCCT
* * **
33196358 ATCCCACCAATAAAATGTGGCAACCCTTTCCTTAATTTTTCCCATTGCACAACTTTACGTACTCA
1 ATCCCACCAACAAAAGGTGGCAACCCTTTCCCAAATTTTTCCCATTGCACAACTTTACGTACTCA
*
33196423 ATCCCACCAACAAAAGGTGGCAACCCTTTCCCAAATTTTTTCCATTGCACAACTTTACG
1 ATCCCACCAACAAAAGGTGGCAACCCTTTCCCAAATTTTTCCCATTGCACAACTTTACG
33196482 CTAAAAGGGT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 54 1.00
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.30
Consensus pattern (65 bp):
ATCCCACCAACAAAAGGTGGCAACCCTTTCCCAAATTTTTCCCATTGCACAACTTTACGTACTCA
Found at i:33196741 original size:13 final size:13
Alignment explanation
Indices: 33196716--33196757 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
33196706 TGATAAAATT
33196716 TTTTAATTTATTAA
1 TTTTAA-TTATTAA
*
33196730 TTTTGATTATTAA
1 TTTTAATTATTAA
33196743 TTTTAATT-TTAA
1 TTTTAATTATTAA
33196755 TTT
1 TTT
33196758 ACTTATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 7 0.27
13 14 0.54
14 5 0.19
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (13 bp):
TTTTAATTATTAA
Found at i:33201190 original size:31 final size:30
Alignment explanation
Indices: 33201128--33201184 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
33201118 AAATTTTTTA
* * *
33201128 TAATTTTTTTCAATTTTAGTTATAGTAAAT
1 TAATTTTTTTCAATTGTACTTATAATAAAT
33201158 TAATTTTTTT-AATTGTACTTATAATAA
1 TAATTTTTTTCAATTGTACTTATAATAA
33201185 TAATTATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (30 bp):
TAATTTTTTTCAATTGTACTTATAATAAAT
Found at i:33204256 original size:22 final size:22
Alignment explanation
Indices: 33204229--33204271 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
33204219 AATTTTTTTT
* * *
33204229 TATTATGATTAAATAATTATAG
1 TATTATAATAAAAAAATTATAG
33204251 TATTATAATAAAAAAATTATA
1 TATTATAATAAAAAAATTATA
33204272 ATTGAAATGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (22 bp):
TATTATAATAAAAAAATTATAG
Found at i:33209248 original size:17 final size:19
Alignment explanation
Indices: 33209201--33209241 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
33209191 AGACCTTGAA
33209201 TTTCATTGAATTTTGCTTC
1 TTTCATTGAATTTTGCTTC
33209220 TTTCATTGAATTTTGCTTC
1 TTTCATTGAATTTTGCTTC
33209239 TTT
1 TTT
33209242 ATGAATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.61
Consensus pattern (19 bp):
TTTCATTGAATTTTGCTTC
Found at i:33210772 original size:17 final size:17
Alignment explanation
Indices: 33210744--33210778 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
33210734 CCATTATTTT
33210744 TTAAAATATTATATTAAA
1 TTAAAATATTATA-TAAA
33210762 TTAAAAT-TTATATAAA
1 TTAAAATATTATATAAA
33210778 T
1 T
33210779 ATGTTTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 5 0.29
18 7 0.41
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TTAAAATATTATATAAA
Found at i:33212904 original size:20 final size:20
Alignment explanation
Indices: 33212865--33212905 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
33212855 TTCATATTTT
*
33212865 AAATAATTATATTTGAATAA
1 AAATAATTATATATGAATAA
33212885 AAATAATTATCATATG-ATAA
1 AAATAATTAT-ATATGAATAA
33212905 A
1 A
33212906 TGATCATAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (20 bp):
AAATAATTATATATGAATAA
Found at i:33213563 original size:23 final size:25
Alignment explanation
Indices: 33213521--33213570 Score: 77
Period size: 23 Copynumber: 2.0 Consensus size: 25
33213511 AGAATACAAG
33213521 TTAGTAAAAAATTTAGATGAAATTTT
1 TTAGTAAAAAATTTA-ATGAAATTTT
33213547 TTAG-AAAAAATTT-ATGAAATTTT
1 TTAGTAAAAAATTTAATGAAATTTT
33213570 T
1 T
33213571 ATCAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 11 0.46
25 9 0.38
26 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (25 bp):
TTAGTAAAAAATTTAATGAAATTTT
Found at i:33213577 original size:23 final size:23
Alignment explanation
Indices: 33213526--33213584 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 23
33213516 ACAAGTTAGT
*
33213526 AAAAAATTTAGATGAAATTTTTTAG
1 AAAAAATTT--ATGAAATTTTTTAC
33213551 AAAAAATTTATGAAA-TTTTTATC
1 AAAAAATTTATGAAATTTTTTA-C
33213574 AAAAATATTTA
1 AAAAA-ATTTA
33213585 AATAAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
22 6 0.19
23 11 0.35
24 5 0.16
25 9 0.29
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.41
Consensus pattern (23 bp):
AAAAAATTTATGAAATTTTTTAC
Found at i:33213591 original size:13 final size:14
Alignment explanation
Indices: 33213574--33213613 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
33213564 AATTTTTATC
*
33213574 AAAAATATTTAAA-T
1 AAAAA-ATTAAAATT
33213588 AAAAAATTAAAATT
1 AAAAAATTAAAATT
33213602 AAAAAATTAAAA
1 AAAAAATTAAAA
33213614 AATCTCATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 6 0.25
14 18 0.75
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAAAATTAAAATT
Found at i:33215733 original size:31 final size:30
Alignment explanation
Indices: 33215694--33215776 Score: 91
Period size: 29 Copynumber: 2.8 Consensus size: 30
33215684 TAATAATATC
*
33215694 ATAA-ATGATCTTTAAATTATAATAAAATATT
1 ATAATATGATATTTAAATTATAA-AAAAT-TT
*
33215725 -TAATATGATATTTAAATT-TTAAAAATTT
1 ATAATATGATATTTAAATTATAAAAAATTT
* *
33215753 ATAATGTGGTATTTAAATTATAAA
1 ATAATATGATATTTAAATTATAAA
33215777 TTTATAAATA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
28 2 0.05
29 21 0.48
30 8 0.18
31 13 0.30
ACGTcount: A:0.48, C:0.01, G:0.06, T:0.45
Consensus pattern (30 bp):
ATAATATGATATTTAAATTATAAAAAATTT
Found at i:33215864 original size:16 final size:19
Alignment explanation
Indices: 33215848--33215882 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
33215838 ATAAATAATT
33215848 ATTTAA-ATA-TTATATTA
1 ATTTAATATATTTATATTA
33215865 ATTTAATATATTTATATT
1 ATTTAATATATTTATATT
33215883 TCTAACATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTAATATATTTATATTA
Found at i:33217573 original size:371 final size:371
Alignment explanation
Indices: 33216206--33217573 Score: 1661
Period size: 371 Copynumber: 3.7 Consensus size: 371
33216196 TTGGTCTTTG
* * * * ** ** * * * *
33216206 TGTCACAGGTCGAGACTTAAGCTTCGAATTCGTGCGATTTTGAGACCCAGATATTCACCTTTTCG
1 TGTCACGGGTCGAGACTTAAGCTCCGAACTCGCGCGGCTCCGGGACCCAGACATTCACCCTTCCG
* * ** * * * * *
33216271 ACGTCTCAAATCAGTCTGATCGTCACGGTTCACACCCTTATGAGATATTGTCCGCTTTGACTCCC
66 ACGTCCCAAATCAGCCTTCTCGCCACGGTTCACACCCTTGTGAGATATTGTCCGCTCTGGCCCCC
* * * * * *
33216336 CTAGCCTCACGATTTTATCCTACAAAAGGTGCCTCACAAGGCAGAGATGGTGTAAACCCTTTTAT
131 CTGGCCTCACGGTTTTATCCTACAAAAGGCGCCTCACAAGGCAAAGATGATGTGAACCCTTTTAT
* *
33216401 ACCCCAGAGACCCTCCTATTATGTTCGATGTGAGATTCAAGACTCTTCCTTAGGTCCGTGACATT
196 ACCCCAGTGACCTTCCTATTATGTTCGATGTGAGATTCAAGACTCTTCCTTAGGTCCGTGACATT
* ** *
33216466 CTCTCGCACCCAACCTCGTGACGCCCTCGTCACGGAGGCCGACCACCCTGCCTATCTCCCTCGAG
261 CTCCCGCACCCAACCTCGTGACGCCCTCGTCACGGAGGCCGGTCACCCTGCCTACCTCCCTCGAG
*
33216531 GTGCTTGGCGTAGATCAAACGGTTTAGAGCTGGCTCTGATACCACT
326 GTGCTTGGCGTGGATCAAACGGTTTAGAGCTGGCTCTGATACCACT
* * * * * **
33216577 TGTCACGGGTCGAGACTTAAGCTCCGAACCCGCGTGGCTCCAGGACTCGGGTATTCACCCTTCCG
1 TGTCACGGGTCGAGACTTAAGCTCCGAACTCGCGCGGCTCCGGGACCCAGACATTCACCCTTCCG
* * * * * *
33216642 ACATCCCAGATCACCCTTC-CACCACGGTTCATACCCTTGTGAGGTATTGTCCGCTCTGGCCCCC
66 ACGTCCCAAATCAGCCTTCTCGCCACGGTTCACACCCTTGTGAGATATTGTCCGCTCTGGCCCCC
* * *
33216706 TTGGCCTCACGGTTTTGTCCTACAAAAGGCGCCTCACAAGG-AAGAGATGGTGTGAACCCTTTTA
131 CTGGCCTCACGGTTTTATCCTACAAAAGGCGCCTCACAAGGCAA-AGATGATGTGAACCCTTTTA
* * *
33216770 TACCCCAAG-GACCTTCCTATTATGTTTGATGTGAGATTCAGGACTCTTTCTTAGGTCCGTGACA
195 TACCCC-AGTGACCTTCCTATTATGTTCGATGTGAGATTCAAGACTCTTCCTTAGGTCCGTGACA
* * * * * *
33216834 TTCTCCTGCACCCAACCTCGTGACGTCCTCGTCACGGAGGCTGGTCACCCTACCTGCCTCCCTTG
259 TTCTCCCGCACCCAACCTCGTGACGCCCTCGTCACGGAGGCCGGTCACCCTGCCTACCTCCCTCG
* * *
33216899 AGGTGCTTGGCGTGGATCGAACGGTTTAGGGTTGGCTCTGATACCACT
324 AGGTGCTTGGCGTGGATCAAACGGTTTAGAGCTGGCTCTGATACCACT
* *
33216947 TGTCACGGGTCGAGACTTAAGCTTCGAA-TCCGCGCGGCTCCGAGACCC-GAACATTCACCCTTC
1 TGTCACGGGTCGAGACTTAAGCTCCGAACT-CGCGCGGCTCCGGGACCCAG-ACATTCACCCTTC
* * * * *
33217010 CGGCGTCCCAAATCAGCCTTC-CTGCCATGATTCACACCCTTGTGAGATATTATTCGCTCTGGCC
64 CGACGTCCCAAATCAGCCTTCTC-GCCACGGTTCACACCCTTGTGAGATATTGTCCGCTCTGGCC
* * * * * * * *
33217074 CCCCTGACATCACGGTTTTATCTTACAAAAGGTGCCTCACAAGACGAAGGTGATGTGAATCCTTT
128 CCCCTGGCCTCACGGTTTTATCCTACAAAAGGCGCCTCACAAGGCAAAGATGATGTGAACCCTTT
* * * * *
33217139 TATACCCCAGTGACCTTCCTATTATGTTCGATGTGGGATTCAGGACTTTTCTTTAGGTCCGTGAT
193 TATACCCCAGTGACCTTCCTATTATGTTCGATGTGAGATTCAAGACTCTTCCTTAGGTCCGTGAC
*
33217204 ATTCTCCCGCACCCAACCTCGCGACGCCCTCGTCACGGAGGCCGGTCACCCTGCCTACCTCCCTC
258 ATTCTCCCGCACCCAACCTCGTGACGCCCTCGTCACGGAGGCCGGTCACCCTGCCTACCTCCCTC
* * *
33217269 GAGGTGCTTGACGTGGATCAAACGGTTTAGAGCTGACTCTGATATCACT
323 GAGGTGCTTGGCGTGGATCAAACGGTTTAGAGCTGGCTCTGATACCACT
* * * * * *
33217318 TGTCACGGATCAAGACTTAAGCTCCGAACTCGCACGGCTCCGGGACCCAGGCATTCACCTTTTCG
1 TGTCACGGGTCGAGACTTAAGCTCCGAACTCGCGCGGCTCCGGGACCCAGACATTCACCCTTCCG
* * * * * * * * *
33217383 ATGTCCCAGATCAGCCTTCTTGTCACGGTTCACACGCTTGTGAGGTATTGTCTGCTCCGGCCCTC
66 ACGTCCCAAATCAGCCTTCTCGCCACGGTTCACACCCTTGTGAGATATTGTCCGCTCTGGCCCCC
* * * *
33217448 TTGGCCTCACGGTTTTATCCTACAAAAGACGCTTCACAAGGCAAAGGTGATGTGAACCCTTTTAT
131 CTGGCCTCACGGTTTTATCCTACAAAAGGCGCCTCACAAGGCAAAGATGATGTGAACCCTTTTAT
* **
33217513 ACCCCAGTGACCTTCTTATTATGTTCGATGT-AGGATTCAAGACTCTTCCTTAAATCCGTGA
196 ACCCCAGTGACCTTCCTATTATGTTCGATGTGA-GATTCAAGACTCTTCCTTAGGTCCGTGA
33217574 GATTTGAACT
Statistics
Matches: 841, Mismatches: 145, Indels: 22
0.83 0.14 0.02
Matches are distributed among these distances:
369 2 0.00
370 320 0.38
371 516 0.61
372 3 0.00
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (371 bp):
TGTCACGGGTCGAGACTTAAGCTCCGAACTCGCGCGGCTCCGGGACCCAGACATTCACCCTTCCG
ACGTCCCAAATCAGCCTTCTCGCCACGGTTCACACCCTTGTGAGATATTGTCCGCTCTGGCCCCC
CTGGCCTCACGGTTTTATCCTACAAAAGGCGCCTCACAAGGCAAAGATGATGTGAACCCTTTTAT
ACCCCAGTGACCTTCCTATTATGTTCGATGTGAGATTCAAGACTCTTCCTTAGGTCCGTGACATT
CTCCCGCACCCAACCTCGTGACGCCCTCGTCACGGAGGCCGGTCACCCTGCCTACCTCCCTCGAG
GTGCTTGGCGTGGATCAAACGGTTTAGAGCTGGCTCTGATACCACT
Found at i:33219477 original size:2 final size:2
Alignment explanation
Indices: 33219465--33219500 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
33219455 AGAGTAAAGA
33219465 AT AT A- 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 A
33219501 AGTGGAGAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:33223922 original size:12 final size:12
Alignment explanation
Indices: 33223889--33223922 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
33223879 AATATATACA
33223889 AATATATATTTT
1 AATATATATTTT
* *
33223901 ATTATTTATTTT
1 AATATATATTTT
33223913 AATATATATT
1 AATATATATT
33223923 GATAAAATTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
AATATATATTTT
Found at i:33223996 original size:24 final size:22
Alignment explanation
Indices: 33223964--33224035 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
33223954 AACATTAATT
33223964 TAATAAAAATATTATATTTATATA
1 TAATAAAAATA-TAT-TTTATATA
*
33223988 TAATTAAAATATATTTTATAT-
1 TAATAAAAATATATTTTATATA
*
33224009 TAA-AAATA-ATATTTTATTAATA
1 TAATAAAAATATATTTTA-T-ATA
33224031 TAATA
1 TAATA
33224036 TTAAATTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
19 8 0.20
20 4 0.10
21 5 0.12
22 10 0.24
23 4 0.10
24 10 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TAATAAAAATATATTTTATATA
Found at i:33224019 original size:21 final size:21
Alignment explanation
Indices: 33223966--33224025 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
33223956 CATTAATTTA
*
33223966 ATAAAAATATTATATTTATAT
1 ATAAAAATAATATATTTATAT
*
33223987 ATAATTAA-AATATATTT-TAT
1 ATAA-AAATAATATATTTATAT
33224007 ATTAAAAATAATAT-TTTAT
1 A-TAAAAATAATATATTTAT
33224026 TAATATAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
20 9 0.28
21 21 0.66
22 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATAAAAATAATATATTTATAT
Found at i:33224858 original size:18 final size:19
Alignment explanation
Indices: 33224821--33224863 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
33224811 TAATCAATCT
* *
33224821 ATTATAATTTGATGTCTTA
1 ATTATAATATGATGTATTA
33224840 ATTATAATAT-ATGTATTA
1 ATTATAATATGATGTATTA
*
33224858 AATATA
1 ATTATA
33224864 TTTTTAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (19 bp):
ATTATAATATGATGTATTA
Found at i:33224931 original size:36 final size:39
Alignment explanation
Indices: 33224860--33224941 Score: 98
Period size: 36 Copynumber: 2.2 Consensus size: 39
33224850 ATGTATTAAA
* * *
33224860 TATATTTTTAATATATAAGTAATTAAATAATATTAAT-T
1 TATATTTTTAATACATAAGTAAATAAATAAAATTAATCT
*
33224898 TATATTTTT-ATACAT-ATTAAATAAATAAAATTAATCCT
1 TATATTTTTAATACATAAGTAAATAAATAAAATTAAT-CT
33224936 TATATT
1 TATATT
33224942 ACGCCAGTAG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
36 17 0.45
37 5 0.13
38 16 0.42
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (39 bp):
TATATTTTTAATACATAAGTAAATAAATAAAATTAATCT
Done.