Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 51 of 160
Found at i:11038326 original size:48 final size:49
Alignment explanation
Indices: 11038149--11038369 Score: 223
Period size: 48 Copynumber: 4.4 Consensus size: 49
11038139 TAAATAAGGT
* * * * * *
11038149 TTTTAAAGTTTTAAAGCCTTTGTTTATGGGGAGTAATTTTCAAACAAGA
1 TTTTAAAGTTTCAAAACCTCTATTTATAGGGAGCAATTTTCAAACAAGA
* *
11038198 TTTTTTTTAAAGTTTGAAAACCTCTATTTAT-GAGGAGCAATTTCCAAACAAGA
1 ----TTTTAAAGTTTCAAAACCTCTATTTATAG-GGAGCAATTTTCAAACAAGA
* * * * * *
11038251 TCTTTAAAGTTTCAAAGCCTTTGTTTATAGGGAGTAGTTTTCAAACAAAA
1 T-TTTAAAGTTTCAAAACCTCTATTTATAGGGAGCAATTTTCAAACAAGA
* *
11038301 TTTT-AAGTTTCATAACCTCTATTTATATGGAGCAATTTT-AAACAAGA
1 TTTTAAAGTTTCAAAACCTCTATTTATAGGGAGCAATTTTCAAACAAGA
11038348 TTTTAAAGTTTCAAAACCTCTA
1 TTTTAAAGTTTCAAAACCTCTA
11038370 ATTAGAAGAG
Statistics
Matches: 141, Mismatches: 23, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
47 11 0.08
48 44 0.31
49 4 0.03
50 39 0.28
51 1 0.01
52 1 0.01
53 41 0.29
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (49 bp):
TTTTAAAGTTTCAAAACCTCTATTTATAGGGAGCAATTTTCAAACAAGA
Found at i:11038705 original size:104 final size:103
Alignment explanation
Indices: 11038402--11038720 Score: 302
Period size: 104 Copynumber: 3.1 Consensus size: 103
11038392 TAGAGATTTG
* * * * * * * *
11038402 TAAGACCTCCGAACAAAACATTTTAAATTTTTAGAGTTTCAAGGTCTCTGA-TAGAGAAACGTTT
1 TAAGACCTCTGAACAAAACATTTTAAATTTTTAAAGTTTCAATGCCTTTGATTAGAGGAACATTC
* * * *
11038466 ATACATTTTGAGATTTGTATA-ACCTTTAGTATAATCTC
66 ATAGATCTTGAGATTTGTA-AGACCTTTAGCATAATCTT
* * * * *
11038504 TAAGA-CTTTTAGACAAAACATTTGAAATTTTTAAAGTTTCAATGCCTTTGATTATAGGACCATT
1 TAAGACCTCTGA-ACAAAACATTTTAAATTTTTAAAGTTTCAATGCCTTTGATTAGAGGAACATT
* * * ** * *
11038568 GAAAGATCTCGAGATTAATAAGACCCATAAGCATAATCTT
65 CATAGATCTTGAGATTTGTAAGA-CCTTTAGCATAATCTT
* * * *
11038608 TAAGACCTCTGAACAAAACATTTTAAATTTTCAAAGTTTCAATACCTTTTATTAGAGGAGCATTC
1 TAAGACCTCTGAACAAAACATTTTAAATTTTTAAAGTTTCAATGCCTTTGATTAGAGGAACATTC
* *
11038673 ATAGATCTTGATATTTGTAAGACCTTTTAGCATAATTTT
66 ATAGATCTTGAGATTTGTAAGACC-TTTAGCATAATCTT
*
11038712 TAAGTCCTC
1 TAAGACCTC
11038721 CAATTAGGAT
Statistics
Matches: 170, Mismatches: 41, Indels: 10
0.77 0.19 0.05
Matches are distributed among these distances:
101 3 0.02
102 40 0.24
103 24 0.14
104 99 0.58
105 4 0.02
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (103 bp):
TAAGACCTCTGAACAAAACATTTTAAATTTTTAAAGTTTCAATGCCTTTGATTAGAGGAACATTC
ATAGATCTTGAGATTTGTAAGACCTTTAGCATAATCTT
Found at i:11041260 original size:3 final size:3
Alignment explanation
Indices: 11041252--11041302 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
11041242 AACTTCATGC
11041252 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11041300 AAT
1 AAT
11041303 CTCCAATGAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11041964 original size:3 final size:3
Alignment explanation
Indices: 11041956--11041984 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11041946 AAATTGAAAT
11041956 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
11041985 TTTTTGTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:11042895 original size:9 final size:10
Alignment explanation
Indices: 11042866--11042898 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
11042856 AATTATCTTT
11042866 TTTTTATAAA
1 TTTTTATAAA
*
11042876 TTTTAATAAA
1 TTTTTATAAA
11042886 TTTTTA-AAA
1 TTTTTATAAA
11042895 TTTT
1 TTTT
11042899 ATTAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 7 0.33
10 14 0.67
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTTTATAAA
Found at i:11042895 original size:19 final size:20
Alignment explanation
Indices: 11042866--11042904 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
11042856 AATTATCTTT
11042866 TTTTTATAAATTTTAATAAA
1 TTTTTATAAATTTTAATAAA
*
11042886 TTTTTA-AAATTTTATTAAA
1 TTTTTATAAATTTTAATAAA
11042905 AAAATAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTTTATAAATTTTAATAAA
Found at i:11045193 original size:70 final size:71
Alignment explanation
Indices: 11045088--11045221 Score: 171
Period size: 70 Copynumber: 1.9 Consensus size: 71
11045078 TGTTTAAATT
* * *
11045088 GTTGTAACTCTTTCGTTATATAGCTATTATAAACAAACGTTT-TTATTCAAAAATAATTATTCAT
1 GTTGTAACTCTTTCGTTACATAACTATTATAAACAAACATTTCTTATTCAAAAATAATTATTCAT
11045152 TTAATG
66 TTAATG
* * * * * * *
11045158 GTTGTAACTCTTTTGTTACATAACTGTTTTCAACAAATATTTCTTATTTAAACATAATTATTCA
1 GTTGTAACTCTTTCGTTACATAACTATTATAAACAAACATTTCTTATTCAAAAATAATTATTCA
11045222 AACTATGAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
70 34 0.64
71 19 0.36
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (71 bp):
GTTGTAACTCTTTCGTTACATAACTATTATAAACAAACATTTCTTATTCAAAAATAATTATTCAT
TTAATG
Found at i:11047624 original size:52 final size:51
Alignment explanation
Indices: 11047468--11047624 Score: 165
Period size: 52 Copynumber: 3.0 Consensus size: 51
11047458 TATAACCATA
* * **
11047468 CAAACTTGCCCATTAAGAATC-CCTTTCCTTTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCTTCTTT-CTTTTAGAATTCTT-TTTTGTAAGT
* * ** *
11047520 CAAACTTGCATATTAAGAATCTTTTTTCCCTTAGAATT-TTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCTTCTTTCTTTTAGAATTCTTT-T-TTGTAAGT
*
11047572 CAAACTTACCTATTAAGAATCTTCTTTCTTTTAGAATTCCTTTTTTGTAAGT
1 CAAACTTGCCTATTAAGAATCTTCTTTCTTTTAGAATT-CTTTTTTGTAAGT
11047624 C
1 C
11047625 TTCTTATCCA
Statistics
Matches: 85, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
50 1 0.01
51 2 0.02
52 75 0.88
53 4 0.05
54 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.09, T:0.43
Consensus pattern (51 bp):
CAAACTTGCCTATTAAGAATCTTCTTTCTTTTAGAATTCTTTTTTGTAAGT
Found at i:11048352 original size:11 final size:11
Alignment explanation
Indices: 11048336--11048370 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
11048326 AAATCTCATA
11048336 AGAGATTTGTT
1 AGAGATTTGTT
*
11048347 AGAGATATGTT
1 AGAGATTTGTT
*
11048358 TGAGATTTGTT
1 AGAGATTTGTT
11048369 AG
1 AG
11048371 TTATTGCTGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (11 bp):
AGAGATTTGTT
Found at i:11048535 original size:52 final size:51
Alignment explanation
Indices: 11048392--11048548 Score: 188
Period size: 52 Copynumber: 3.0 Consensus size: 51
11048382 TGGACGAGAA
* * * *
11048392 GACTTGCAAAAGAAGAATTCTAAGAGAAAGAGGATTCTTAATAAGTAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGAAAGA-GATTCTTAATAGGCAAGTTT
* * * *
11048444 GACTTGCAAGAGAAGAATTCTAAAAGGAAAAAGAATCTTAATAGGCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGA-GAAAGAGATTCTTAATAGGCAAGTTT
* * *
11048496 GACTTACAGGAGAAGAATTCTAAGATGAGAGAGATTCTTAATGGGCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGA-GAAAGAGATTCTTAATAGGCAAGTTT
11048548 G
1 G
11048549 TATAGTTATA
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
52 85 0.94
53 5 0.06
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.25
Consensus pattern (51 bp):
GACTTACAAGAGAAGAATTCTAAGAGAAAGAGATTCTTAATAGGCAAGTTT
Found at i:11052068 original size:58 final size:57
Alignment explanation
Indices: 11051980--11052166 Score: 250
Period size: 57 Copynumber: 3.3 Consensus size: 57
11051970 TTGTATAGGA
* * * *
11051980 AAAATTAATAATTTTAACTTTTCCCCAAAATATTTTTTAGAAA-CTTTAATTTCGAGG
1 AAAATTGATAATTTCAACTTTTCCCAAAAATATTTTTTAGAAAGC-TTAATTTCAAGG
* *
11052037 AAAATTGATAATTTCAACTTTTTCCCAAAAATACTTTTTAGAAAGCTTATTTTCAAGG
1 AAAATTGATAATTTCAAC-TTTTCCCAAAAATATTTTTTAGAAAGCTTAATTTCAAGG
* * * *
11052095 AAAATTGATAATTTCAACTTTTCCTAAAAATATTTTTTAGAAAGCGTATTTTCAAAG
1 AAAATTGATAATTTCAACTTTTCCCAAAAATATTTTTTAGAAAGCTTAATTTCAAGG
*
11052152 AAAATTGATACTTTC
1 AAAATTGATAATTTC
11052167 TTGCAGGCAA
Statistics
Matches: 117, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
57 65 0.56
58 51 0.44
59 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (57 bp):
AAAATTGATAATTTCAACTTTTCCCAAAAATATTTTTTAGAAAGCTTAATTTCAAGG
Found at i:11053732 original size:24 final size:24
Alignment explanation
Indices: 11053679--11053740 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
11053669 ACTTCTAGTT
* *
11053679 GAACCAAAGGCAAGGGTGCTTATG
1 GAACCAAAGGCAGGGGTGCTCATG
*
11053703 GAACCAAAGGCAGGGGTGCTCGTG
1 GAACCAAAGGCAGGGGTGCTCATG
* *
11053727 GCACCAAAAGCAGG
1 GAACCAAAGGCAGG
11053741 AGTACTGAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.32, C:0.21, G:0.35, T:0.11
Consensus pattern (24 bp):
GAACCAAAGGCAGGGGTGCTCATG
Found at i:11054342 original size:6 final size:6
Alignment explanation
Indices: 11054331--11054373 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
11054321 AACTTGACAC
11054331 TTTTTG TTTTTG TTTTT- TCTTTT- TTTTTG TTTTT- TTTTTG TTT
1 TTTTTG TTTTTG TTTTTG T-TTTTG TTTTTG TTTTTG TTTTTG TTT
11054374 GTTAAAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 10 0.29
6 24 0.71
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.88
Consensus pattern (6 bp):
TTTTTG
Found at i:11054357 original size:11 final size:11
Alignment explanation
Indices: 11054331--11054373 Score: 61
Period size: 11 Copynumber: 3.8 Consensus size: 11
11054321 AACTTGACAC
11054331 TTTTTGTTTTT
1 TTTTTGTTTTT
11054342 GTTTTT-TCTTTT
1 -TTTTTGT-TTTT
11054354 TTTTTGTTTTT
1 TTTTTGTTTTT
11054365 TTTTTGTTT
1 TTTTTGTTT
11054374 GTTAAAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 19 0.66
12 10 0.34
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.88
Consensus pattern (11 bp):
TTTTTGTTTTT
Found at i:11054359 original size:17 final size:17
Alignment explanation
Indices: 11054331--11054373 Score: 70
Period size: 17 Copynumber: 2.5 Consensus size: 17
11054321 AACTTGACAC
11054331 TTTTTGTTTTTGTTTTT
1 TTTTTGTTTTTGTTTTT
11054348 TCTTTT-TTTTTGTTTTT
1 T-TTTTGTTTTTGTTTTT
11054365 TTTTTGTTT
1 TTTTTGTTT
11054374 GTTAAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.17
17 16 0.67
18 4 0.17
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.88
Consensus pattern (17 bp):
TTTTTGTTTTTGTTTTT
Found at i:11054363 original size:15 final size:15
Alignment explanation
Indices: 11054331--11054376 Score: 60
Period size: 14 Copynumber: 3.1 Consensus size: 15
11054321 AACTTGACAC
11054331 TTTTTGTTTTTGTTT-
1 TTTTT-TTTTTGTTTG
*
11054346 TTTCTTTTTT-TTTG
1 TTTTTTTTTTGTTTG
11054360 TTTTTTTTTTGTTTG
1 TTTTTTTTTTGTTTG
11054375 TT
1 TT
11054377 AAAATTTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 3 0.11
14 14 0.52
15 10 0.37
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.87
Consensus pattern (15 bp):
TTTTTTTTTTGTTTG
Found at i:11054497 original size:44 final size:43
Alignment explanation
Indices: 11054392--11054545 Score: 186
Period size: 44 Copynumber: 3.5 Consensus size: 43
11054382 TTTGATTAAA
* * * *
11054392 GCTCCTCTAAGCAGAGGCTTAACGATTTTGAGAAACATAAACAAC
1 GCTCCTCTAATCAGAGGCTCAACAATTTTGA-AAA-ATAAACAAG
* *
11054437 GCTCCTCTAATTAGAGGCTTAACAACTTTTGAAAAATAAACAAG
1 GCTCCTCTAATCAGAGGCTCAACAA-TTTTGAAAAATAAACAAG
* *
11054481 GCTCCTTTAATCAGAGGCTCAACAATTTTAGAAAAAT-AA-ATG
1 GCTCCTCTAATCAGAGGCTCAACAATTTT-GAAAAATAAACAAG
11054523 GCTCCTCTAATCAGAGGCTCAAC
1 GCTCCTCTAATCAGAGGCTCAAC
11054546 GACTTTAGAG
Statistics
Matches: 98, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
42 24 0.24
43 6 0.06
44 37 0.38
45 25 0.26
46 6 0.06
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (43 bp):
GCTCCTCTAATCAGAGGCTCAACAATTTTGAAAAATAAACAAG
Found at i:11054558 original size:44 final size:42
Alignment explanation
Indices: 11054392--11054650 Score: 257
Period size: 42 Copynumber: 6.0 Consensus size: 42
11054382 TTTGATTAAA
* * * * **
11054392 GCTCCTCTAAGCAGAGGCTTAACGATTTTGAGAAACATAAACAAC
1 GCTCCTCTAATCAGAGGCTCAACGACTTT-AGAAAAAT-AA-ATG
* * * * *
11054437 GCTCCTCTAATTAGAGGCTTAACAACTTTTGAAAAATAAACAAG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTAGAAAAAT-AA-ATG
* * *
11054481 GCTCCTTTAATCAGAGGCTCAACAATTTTAGAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTAGAAAAATAAATG
*
11054523 GCTCCTCTAATCAGAGGCTCAACGACTTTAGAGAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTAGAAAAATAAATG
* * * * * *
11054565 GCTCATCTAATTAAAGACTCAATGACTTTAGAAAAATAAATT
1 GCTCCTCTAATCAGAGGCTCAACGACTTTAGAAAAATAAATG
* * *
11054607 GCTCCTCTAAACAGAGGCTTAAAGACTTTAGAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTAGAAAAATAAATG
11054649 GC
1 GC
11054651 AACAACTTTG
Statistics
Matches: 182, Mismatches: 32, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
42 111 0.61
43 2 0.01
44 44 0.24
45 25 0.14
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (42 bp):
GCTCCTCTAATCAGAGGCTCAACGACTTTAGAAAAATAAATG
Found at i:11054699 original size:65 final size:65
Alignment explanation
Indices: 11054589--11054711 Score: 167
Period size: 65 Copynumber: 1.9 Consensus size: 65
11054579 AGACTCAATG
* **
11054589 ACTTTAGAAAAATAAATTGCTCCTCTAAACAGAGGCTTAAAGACTTTAGAAAAATAAATGGCAAC
1 ACTTTAGAAAAATAAATGGCTCCTCTAAACAGAGGCACAAAGACTTTA-AAAAATAAATGGCAAC
11054654 A
65 A
* * * *
11054655 ACTTT-GAAAAATAAATGGCTCCTTTAATCAGAGGCACCACGACTTTAAAAAATAAAT
1 ACTTTAGAAAAATAAATGGCTCCTCTAAACAGAGGCACAAAGACTTTAAAAAATAAAT
11054712 TGCTCCTCTA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
64 10 0.20
65 35 0.70
66 5 0.10
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (65 bp):
ACTTTAGAAAAATAAATGGCTCCTCTAAACAGAGGCACAAAGACTTTAAAAAATAAATGGCAACA
Found at i:11054700 original size:41 final size:41
Alignment explanation
Indices: 11054655--11054800 Score: 213
Period size: 41 Copynumber: 3.6 Consensus size: 41
11054645 AATGGCAACA
* * *
11054655 ACTTTGAAAAATAAATGGCTCCTTTAATCAGAGGCACCACG
1 ACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
*
11054696 ACTTTAAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
1 ACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
* *
11054737 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACA-G
1 ACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
*
11054777 AACTTTGAAAAGTAAATTGCTCCT
1 -ACTTTGAAAAATAAATTGCTCCT
11054801 TAACAATCAT
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
40 1 0.01
41 96 0.99
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (41 bp):
ACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
Found at i:11055888 original size:63 final size:63
Alignment explanation
Indices: 11055784--11055907 Score: 212
Period size: 63 Copynumber: 2.0 Consensus size: 63
11055774 GCTTATCAGC
* * *
11055784 ACTAACCATTTCAAAATAAATTTCATCTTCTGTCACTTGGTCATCGTTCATAAGCTTCTCAAT
1 ACTAACCATTTCAAAACAAATTTCATCATCTATCACTTGGTCATCGTTCATAAGCTTCTCAAT
*
11055847 ACTAGCCATTTCAAAACAAATTTCATCATCTATCACTTGGTCATCGTTCATAAGCTTCTCA
1 ACTAACCATTTCAAAACAAATTTCATCATCTATCACTTGGTCATCGTTCATAAGCTTCTCA
11055908 GTACCAATTT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (63 bp):
ACTAACCATTTCAAAACAAATTTCATCATCTATCACTTGGTCATCGTTCATAAGCTTCTCAAT
Found at i:11056640 original size:21 final size:21
Alignment explanation
Indices: 11056609--11056666 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
11056599 TTCATTTTCT
11056609 CATTTTTT-TTTTTTTT-TTC
1 CATTTTTTCTTTTTTTTCTTC
11056628 C-TTTCTTTCTTTTTTTTCTTC
1 CATTT-TTTCTTTTTTTTCTTC
*
11056649 CATTTTTTCATTTTTTTC
1 CATTTTTTCTTTTTTTTC
11056667 ATCATCTTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
18 3 0.09
19 4 0.12
20 8 0.24
21 16 0.47
22 3 0.09
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (21 bp):
CATTTTTTCTTTTTTTTCTTC
Found at i:11056667 original size:9 final size:9
Alignment explanation
Indices: 11056594--11056668 Score: 53
Period size: 9 Copynumber: 8.1 Consensus size: 9
11056584 AATTTGAATC
11056594 TTTTTTTCA
1 TTTTTTTCA
*
11056603 -TTTTCTCA
1 TTTTTTTCA
**
11056611 TTTTTTTTT
1 TTTTTTTCA
*
11056620 TTTTTTTCC
1 TTTTTTTCA
* *
11056629 TTTCTTTCT
1 TTTTTTTCA
*
11056638 TTTTTTTCT
1 TTTTTTTCA
11056647 TCCATTTTTTCA
1 T---TTTTTTCA
11056659 TTTTTTTCA
1 TTTTTTTCA
11056668 T
1 T
11056669 CATCTTCTTT
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
8 7 0.13
9 37 0.71
12 8 0.15
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:11060765 original size:58 final size:58
Alignment explanation
Indices: 11060646--11060837 Score: 271
Period size: 58 Copynumber: 3.3 Consensus size: 58
11060636 TTTTGTATAG
* * *
11060646 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAATCATTTTTT-GAAAACTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCC-CCAAAAAT-ATTTTTTAGAAAGCTTATTTTCAA
*
11060705 GGAAAATTGATACTTTCAATTTTTCCCCAAAAATATTTTTTAGAAAGCTTATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAGCTTATTTTCAA
* *
11060763 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAG-TGAATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAGCT-TATTTTCAA
**
11060821 AAAAAATTGATACTTTC
1 GGAAAATTGATACTTTC
11060838 TTGCAGGCAA
Statistics
Matches: 122, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
57 8 0.07
58 89 0.73
59 25 0.20
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAGCTTATTTTCAA
Found at i:11062386 original size:24 final size:24
Alignment explanation
Indices: 11062359--11062442 Score: 89
Period size: 24 Copynumber: 3.5 Consensus size: 24
11062349 TTCTAGTTGA
* *
11062359 ACCAAAGGCAGGGGTGCTCATAGC
1 ACCAAAGGCAGGGGTGCTCGTGGC
* * * *
11062383 ACCAAATGCAGGGGTGTTTGTGGA
1 ACCAAAGGCAGGGGTGCTCGTGGC
*
11062407 ACCAAAGGTAGGGGTGCTCGTGGC
1 ACCAAAGGCAGGGGTGCTCGTGGC
11062431 ACCCAAA-GCAGG
1 A-CCAAAGGCAGG
11062443 AGTAGTGAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
24 42 0.89
25 5 0.11
ACGTcount: A:0.27, C:0.21, G:0.36, T:0.15
Consensus pattern (24 bp):
ACCAAAGGCAGGGGTGCTCGTGGC
Found at i:11067817 original size:52 final size:51
Alignment explanation
Indices: 11067738--11067882 Score: 209
Period size: 52 Copynumber: 2.8 Consensus size: 51
11067728 TATAACCATA
*
11067738 CAAACTTACCTATTAAGAATCTCTTTCCTCTTAAAATTCTTCTCCTATAAGT
1 CAAACTTACCTATTAAGAATC-CTTTCCTCTTAGAATTCTTCTCCTATAAGT
* * * *
11067790 TAAACTTACCTATTAAAAATCCATTTCCTCTTAGAATTTTTCTCCTGTAAGT
1 CAAACTTACCTATTAAGAATCC-TTTCCTCTTAGAATTCTTCTCCTATAAGT
*
11067842 CAAACTTACCTATTAAGAATCCTCTTTCTCTTAGAATTCTT
1 CAAACTTACCTATTAAGAATCCT-TTCCTCTTAGAATTCTT
11067883 ATTTTGCAAG
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.41
Consensus pattern (51 bp):
CAAACTTACCTATTAAGAATCCTTTCCTCTTAGAATTCTTCTCCTATAAGT
Found at i:11068193 original size:25 final size:24
Alignment explanation
Indices: 11068160--11068221 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
11068150 TACTTCTTCC
* *
11068160 CATGGCTTGAATCATCAACT-TTTT
1 CATGTCTTGAACCATC-ACTCTTTT
*
11068184 CAATGTCTTGAACCTTCACTCTTTT
1 C-ATGTCTTGAACCATCACTCTTTT
11068209 CATGTCTTGAACC
1 CATGTCTTGAACC
11068222 TTTAGCTCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 16 0.48
25 17 0.52
ACGTcount: A:0.23, C:0.26, G:0.11, T:0.40
Consensus pattern (24 bp):
CATGTCTTGAACCATCACTCTTTT
Found at i:11068230 original size:25 final size:25
Alignment explanation
Indices: 11068186--11068280 Score: 102
Period size: 25 Copynumber: 3.8 Consensus size: 25
11068176 AACTTTTTCA
* **
11068186 ATGTCTTGAACCTTCA-CTCTTTTC
1 ATGTCTCGAACCTTCAGCTCTTCCC
* *
11068210 ATGTCTTGAACCTTTAGCTCTTCCC
1 ATGTCTCGAACCTTCAGCTCTTCCC
* * **
11068235 ACGTCTCGAACTTTTGGCTCTTCCC
1 ATGTCTCGAACCTTCAGCTCTTCCC
11068260 ATGTCTCGAACCTTCAGCTCT
1 ATGTCTCGAACCTTCAGCTCT
11068281 GATACCACTT
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
24 15 0.25
25 44 0.75
ACGTcount: A:0.16, C:0.33, G:0.13, T:0.39
Consensus pattern (25 bp):
ATGTCTCGAACCTTCAGCTCTTCCC
Found at i:11068843 original size:52 final size:52
Alignment explanation
Indices: 11068776--11068874 Score: 155
Period size: 52 Copynumber: 1.9 Consensus size: 52
11068766 CCATACAAAT
11068776 TTACCTATTAAGAATTC-CTTTCCTCTTAGAATTCTTCTCTTACAAGTTAAAC
1 TTACCTATTAAGAATTCTCTTT-CTCTTAGAATTCTTCTCTTACAAGTTAAAC
* * *
11068828 TTACGTATTAAGAATTCTCTTTCTCTTAGAATTCTTCTTTTGCAAGT
1 TTACCTATTAAGAATTCTCTTTCTCTTAGAATTCTTCTCTTACAAGT
11068875 CTTCTTGTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
52 39 0.91
53 4 0.09
ACGTcount: A:0.26, C:0.20, G:0.08, T:0.45
Consensus pattern (52 bp):
TTACCTATTAAGAATTCTCTTTCTCTTAGAATTCTTCTCTTACAAGTTAAAC
Found at i:11073070 original size:15 final size:15
Alignment explanation
Indices: 11073050--11073081 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11073040 ATGGCTAATT
11073050 TTATTTTTAATTTTA
1 TTATTTTTAATTTTA
*
11073065 TTATTTTTATTTTTA
1 TTATTTTTAATTTTA
11073080 TT
1 TT
11073082 TATATATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
TTATTTTTAATTTTA
Found at i:11073073 original size:21 final size:22
Alignment explanation
Indices: 11073048--11073094 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
11073038 TAATGGCTAA
11073048 TTTTATTTTTAATTT-TAT-TAT
1 TTTTATTTTT-ATTTATATATAT
11073069 TTTTATTTTTATTTATATATAT
1 TTTTATTTTTATTTATATATAT
11073091 TTTT
1 TTTT
11073095 TTATATCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 4 0.17
21 13 0.54
22 7 0.29
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTATTTTTATTTATATATAT
Found at i:11073141 original size:27 final size:26
Alignment explanation
Indices: 11073063--11073260 Score: 118
Period size: 27 Copynumber: 7.9 Consensus size: 26
11073053 TTTTTAATTT
*
11073063 TATTATTTTTATT-TTTATTTA-TATA
1 TATTATTTTTATTATTTATCTATTA-A
* * *
11073088 TATT-TTTTTA-TATCTA-ATAATATA
1 TATTATTTTTATTATTTATCTATTA-A
* *
11073112 TATATATTTTTATTAGTTATCCATTAA
1 TAT-TATTTTTATTATTTATCTATTAA
*
11073139 TATTATTTGTTATTATTTATTTATTAA
1 TATTATTT-TTATTATTTATCTATTAA
* *
11073166 TGTATATTTTT-TATATTTATCTATTAT
1 TAT-TATTTTTAT-TATTTATCTATTAA
*
11073193 TATTA--TTT-TTATTTATATATTAA
1 TATTATTTTTATTATTTATCTATTAA
*
11073216 TA-T-TTTTTA-TATTTATCGATTAA
1 TATTATTTTTATTATTTATCTATTAA
* * *
11073239 T-GTATATATATTA-TTATCTATT
1 TATTATTTTTATTATTTATCTATT
11073261 TTTTTTTGTT
Statistics
Matches: 137, Mismatches: 21, Indels: 31
0.72 0.11 0.16
Matches are distributed among these distances:
22 1 0.01
23 34 0.25
24 32 0.23
25 7 0.05
26 14 0.10
27 41 0.30
28 8 0.06
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (26 bp):
TATTATTTTTATTATTTATCTATTAA
Found at i:11073196 original size:23 final size:23
Alignment explanation
Indices: 11073169--11073239 Score: 99
Period size: 23 Copynumber: 3.1 Consensus size: 23
11073159 TTATTAATGT
11073169 ATATTTTTTATATTTATCTATTA
1 ATATTTTTTATATTTATCTATTA
* *
11073192 TTATTATTTT-TATTTATATATTA
1 ATATT-TTTTATATTTATCTATTA
*
11073215 ATATTTTTTATATTTATCGATTA
1 ATATTTTTTATATTTATCTATTA
11073238 AT
1 AT
11073240 GTATATATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
22 4 0.10
23 33 0.80
24 4 0.10
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (23 bp):
ATATTTTTTATATTTATCTATTA
Found at i:11073198 original size:19 final size:20
Alignment explanation
Indices: 11073155--11073214 Score: 54
Period size: 19 Copynumber: 3.1 Consensus size: 20
11073145 TTGTTATTAT
* *
11073155 TTATT-TATTAATGTATAT-
1 TTATTATATTTATCTATATA
*
11073173 TTTTTATATTTATCTAT-TA
1 TTATTATATTTATCTATATA
* *
11073192 TTATTATTTTTATTTATATA
1 TTATTATATTTATCTATATA
11073212 TTA
1 TTA
11073215 ATATTTTTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 5 0.15
19 23 0.70
20 5 0.15
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (20 bp):
TTATTATATTTATCTATATA
Found at i:11073208 original size:46 final size:48
Alignment explanation
Indices: 11073139--11073237 Score: 134
Period size: 46 Copynumber: 2.1 Consensus size: 48
11073129 TATCCATTAA
*
11073139 TATTATTTGTTATTATTTATTTAT-TAATGT-ATATTTTTTATATTTATC
1 TATTATTTATTATTATTTATTTATAT-AT-TAATATTTTTTATATTTATC
11073187 TATTA-TTATTATT-TTTATTTATATATTAATATTTTTTATATTTATC
1 TATTATTTATTATTATTTATTTATATATTAATATTTTTTATATTTATC
*
11073233 GATTA
1 TATTA
11073238 ATGTATATAT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
45 1 0.02
46 33 0.70
47 8 0.17
48 5 0.11
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (48 bp):
TATTATTTATTATTATTTATTTATATATTAATATTTTTTATATTTATC
Found at i:11073219 original size:20 final size:19
Alignment explanation
Indices: 11073181--11073222 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
11073171 ATTTTTTATA
*
11073181 TTTATCTATTATTATTATT
1 TTTATCTATTATTAATATT
*
11073200 TTTATTTATATATTAATATT
1 TTTATCTAT-TATTAATATT
11073220 TTT
1 TTT
11073223 TATATTTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTATCTATTATTAATATT
Found at i:11074033 original size:3 final size:3
Alignment explanation
Indices: 11074027--11074082 Score: 78
Period size: 3 Copynumber: 18.7 Consensus size: 3
11074017 TTCTTCTTAT
* *
11074027 TTA TTA TTA TTA TTA TT- TCTT TTA TTA TTA TTA TTA TTA TTA TTG
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
11074072 TTA TTA TTA TT
1 TTA TTA TTA TT
11074083 GTTTATTGAT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
2 1 0.02
3 46 0.96
4 1 0.02
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:11074116 original size:5 final size:5
Alignment explanation
Indices: 11074108--11074141 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
11074098 TTAGTATTCC
11074108 TTATT TTATT TTATTT TTATTT TTATT TTATT TT
1 TTATT TTATT TTA-TT TTA-TT TTATT TTATT TT
11074142 TTAAAAATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 17 0.61
6 11 0.39
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:11074127 original size:6 final size:6
Alignment explanation
Indices: 11074111--11074142 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
11074101 GTATTCCTTA
11074111 TTTTA- TTTTAT TTTTAT TTTTA- TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
11074143 TAAAAATGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:11074127 original size:11 final size:11
Alignment explanation
Indices: 11074108--11074142 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
11074098 TTAGTATTCC
11074108 TTATTTTA-TT
1 TTATTTTATTT
11074118 TTATTTTTATTT
1 TTA-TTTTATTT
11074130 TTATTTTATTT
1 TTATTTTATTT
11074141 TT
1 TT
11074143 TAAAAATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.13
11 15 0.65
12 5 0.22
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTATTTTATTT
Found at i:11074256 original size:58 final size:59
Alignment explanation
Indices: 11074180--11074461 Score: 308
Period size: 58 Copynumber: 4.8 Consensus size: 59
11074170 CCAAAAAAAG
11074180 AAAAAAATATATTGTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAA-AAGTTTTCT
1 AAAAAAATAT-TT-TTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCT
* **
11074240 AAAAAAATATTTTTGAGAAAAAGTTGAAAATATCAATTTTATTTGAAAATAAGTTTTCT
1 AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCT
* * *
11074299 -AAAAATTATTTTCGA-AGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAA-TTTTCT
1 AAAAAAATATTTTTGAGA-AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCT
* * * * * *
11074356 AAAAAAAGGGTTTTTTTTTAGGAAAAGTTGAAAGTATTAATTTTTCTTGAAATTAAAG-TTTC-
1 AAAAAAA----TATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAGTTTTCT
* * *
11074418 AGAAAAATA-TTTTGAGAAAAAGTTGAAAGAATCAATTTTTCTTG
1 AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTG
11074462 TACAAAAGCA
Statistics
Matches: 190, Mismatches: 22, Indels: 23
0.81 0.09 0.10
Matches are distributed among these distances:
57 38 0.20
58 85 0.45
59 11 0.06
60 10 0.05
62 40 0.21
63 6 0.03
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.38
Consensus pattern (59 bp):
AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCT
Found at i:11074285 original size:30 final size:28
Alignment explanation
Indices: 11074194--11074346 Score: 75
Period size: 29 Copynumber: 5.2 Consensus size: 28
11074184 AAATATATTG
* *
11074194 TTGAGAAAAAGTTGAAAGTATCAATTTTCC
1 TTGA-AAAAAGTTGAAAATATCAATTTT-T
* *
11074224 TTGAAAAAAGTTTTCTAAAA-A--AATATTT
1 TTGAAAAAAG--TT-GAAAATATCAATTTTT
11074252 TTGAGAAAAAGTTGAAAATATCAATTTTAT
1 TTGA-AAAAAGTTGAAAATATCAATTTT-T
***
11074282 TTGAAAATAAGTTTTCTAA-A--AATTATTT
1 TTGAAAA-AAG-TTGAAAATATCAATT-TTT
* *
11074310 TCGAAGAAAAGTTGAAAGTATCAATTTTCT
1 TTGAA-AAAAGTTGAAAATATCAATTTT-T
11074340 TTGAAAA
1 TTGAAAA
11074347 TAATTTTCTA
Statistics
Matches: 92, Mismatches: 15, Indels: 33
0.66 0.11 0.24
Matches are distributed among these distances:
26 4 0.04
27 6 0.07
28 17 0.18
29 33 0.36
30 22 0.24
31 7 0.08
32 3 0.03
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.37
Consensus pattern (28 bp):
TTGAAAAAAGTTGAAAATATCAATTTTT
Found at i:11076869 original size:11 final size:10
Alignment explanation
Indices: 11076839--11076868 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
11076829 GAGGCAATTT
11076839 AGAATTTTTA
1 AGAATTTTTA
11076849 AGAGATTTTTA
1 AGA-ATTTTTA
11076860 AGAATTTTT
1 AGAATTTTT
11076869 TTGGCGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (10 bp):
AGAATTTTTA
Found at i:11077355 original size:3 final size:3
Alignment explanation
Indices: 11077344--11077462 Score: 119
Period size: 3 Copynumber: 41.7 Consensus size: 3
11077334 TTTTTCTTAT
*
11077344 TTA TCA TTA TTA TTA TTA TT- TCT- TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
* * *
11077388 TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA -AA TTA TTTA GTA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
*
11077432 TTA TT- TTA TT- TTA TT- TTA TT- TTA TTT TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11077463 TTAATTTTTA
Statistics
Matches: 97, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
2 13 0.13
3 81 0.84
4 3 0.03
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:11077438 original size:5 final size:5
Alignment explanation
Indices: 11077430--11077470 Score: 64
Period size: 5 Copynumber: 7.8 Consensus size: 5
11077420 TATTTAGTAT
11077430 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTTA TTTTAA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTTT-A TTTT
11077471 TAAAAATGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
5 24 0.71
6 10 0.29
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:11080918 original size:15 final size:15
Alignment explanation
Indices: 11080894--11080923 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11080884 TTGCATACAA
*
11080894 GCATTTTCATTCATT
1 GCATTCTCATTCATT
11080909 GCATTCTCATTCATT
1 GCATTCTCATTCATT
11080924 ACACTTAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.23, G:0.07, T:0.50
Consensus pattern (15 bp):
GCATTCTCATTCATT
Found at i:11088157 original size:12 final size:13
Alignment explanation
Indices: 11088142--11088191 Score: 50
Period size: 12 Copynumber: 3.8 Consensus size: 13
11088132 GCTTGAAAAA
11088142 AAAATAAAAAAT-
1 AAAATAAAAAATG
11088154 AAAATGGAAAAAATG
1 AAAAT--AAAAAATG
*
11088169 GAAA-AAAAAATG
1 AAAATAAAAAATG
*
11088181 AAAAGAAAAAA
1 AAAATAAAAAA
11088192 AAATGAATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
12 16 0.50
13 6 0.19
14 7 0.22
15 3 0.09
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (13 bp):
AAAATAAAAAATG
Found at i:11088164 original size:21 final size:20
Alignment explanation
Indices: 11088140--11088195 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
11088130 ATGCTTGAAA
11088140 AAAAAATAAAAAATAAAATGG
1 AAAAAATAAAAAATAAAAT-G
*
11088161 AAAAAATGGAAAAA-AAAATG
1 AAAAAAT-AAAAAATAAAATG
*
11088181 AAAAGAAAAAAAAAT
1 AAAA-AATAAAAAAT
11088196 GAATGAAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 10 0.34
21 14 0.48
22 5 0.17
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (20 bp):
AAAAAATAAAAAATAAAATG
Found at i:11089486 original size:44 final size:43
Alignment explanation
Indices: 11089210--11089678 Score: 449
Period size: 44 Copynumber: 11.0 Consensus size: 43
11089200 GTCAAGGAGC
* * *
11089210 ATTTACTTT-CAAAGTTG-TGATGCCTCTGTTTAGAGGAGC--A
1 ATTTATTTTCCAAAGTCGTTGA-GCCTCTGTTTAGAGGAGCTTT
* * *
11089250 ATTTACCTTTCCAAAGTTGTTGAGCCTCTGTTTAGAGGAGC--A
1 ATTTA-TTTTCCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTT
* ** ** * *
11089292 AATTATTTTTTAAAGTCAATGAGCCTCTGTTTAGAAGAGC--A
1 ATTTATTTTCCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTT
* * * *
11089333 ATTTACCTTTCCAAAGTCGTTGAGCTTCTGTTTAGAAGAGC--A
1 ATTTA-TTTTCCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTT
* * * *
11089375 ATTTACCTTTCCAAAGTTGTTGAGCCTCTGTTTAGAAGAGC--A
1 ATTTA-TTTTCCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTT
* * *
11089417 AATTATTTTCCAATGTCGTTGAGCCTTTGTTTAGAGGAGCTTT
1 ATTTATTTTCCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTT
* *
11089460 ATTTATTTTGCCAAAGTCGTTAAGCCTCTATTTAGAGGAGCTTT
1 ATTTATTTT-CCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTT
*
11089504 ATTTATTTTGCCAAAGTCGTTGAGCCTCTGTTTAGAGGAACTTT
1 ATTTATTTT-CCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTT
* * *
11089548 GTTTATCTTTCCAAAGTCGTTGAACCTCTATTTAGAGGAGCTTT
1 ATTTAT-TTTCCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTT
* ** *
11089592 ATCTATTTTTTTAAAGTCGTTGAGCCTCTGTTTAAAGGAGCTTT
1 ATTTA-TTTTCCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTT
* * *
11089636 ATTTATTTTCCAAAGTCGTTGAGCCTTTTTTTAGAGGAACTTT
1 ATTTATTTTCCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTT
11089679 GATCAAAATT
Statistics
Matches: 370, Mismatches: 50, Indels: 15
0.85 0.11 0.03
Matches are distributed among these distances:
40 5 0.01
41 67 0.18
42 105 0.28
43 43 0.12
44 146 0.39
45 4 0.01
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (43 bp):
ATTTATTTTCCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTT
Found at i:11089592 original size:132 final size:130
Alignment explanation
Indices: 11089231--11089681 Score: 431
Period size: 125 Copynumber: 3.5 Consensus size: 130
11089221 AAGTTGTGAT
* * * * *
11089231 GCCTCTGTTTAGAGGAGC--AATTTACCTTTCCAAAGTTGTTGAGCCTCTGTTTAGAGGAGC--A
1 GCCTCTGTTTAGAGGAGCTTTATTTA-TTTTCCAAAGTCGTTGAGCCTCTGTTTAGAGGAACTTT
* ** ** * * * *
11089292 AATTATTTTTTAAAGTCAATGAGCCTCTGTTTAGAAGAGCAATTTA-C--CTTT-CCAAAGTCGT
65 GATTATTTTCCAAAGTCGTTGAACCTCTATTTAGAGGAGC--TTTATCTATTTTGCCAAAGTCGT
11089353 TGA
128 TGA
* * * * * * * *
11089356 GCTTCTGTTTAGAAGAGC--AATTTACCTTTCCAAAGTTGTTGAGCCTCTGTTTAGAAGAGC--A
1 GCCTCTGTTTAGAGGAGCTTTATTTA-TTTTCCAAAGTCGTTGAGCCTCTGTTTAGAGGAACTTT
* * * * * * *
11089417 AATTATTTTCCAATGTCGTTGAGCCTTTGTTTAGAGGAGCTTTATTTATTTTGCCAAAGTCGTTA
65 GATTATTTTCCAAAGTCGTTGAACCTCTATTTAGAGGAGCTTTATCTATTTTGCCAAAGTCGTTG
11089482 A
130 A
*
11089483 GCCTCTATTTAGAGGAGCTTTATTTATTTTGCCAAAGTCGTTGAGCCTCTGTTTAGAGGAACTTT
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTT-CCAAAGTCGTTGAGCCTCTGTTTAGAGGAACTTT
* ***
11089548 GTTTATCTTTCCAAAGTCGTTGAACCTCTATTTAGAGGAGCTTTATCTATTTTTTTAAAGTCGTT
65 GATTAT-TTTCCAAAGTCGTTGAACCTCTATTTAGAGGAGCTTTATCTATTTTGCCAAAGTCGTT
11089613 GA
129 GA
* * *
11089615 GCCTCTGTTTAAAGGAGCTTTATTTATTTTCCAAAGTCGTTGAGCCTTTTTTTAGAGGAACTTTG
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTCCAAAGTCGTTGAGCCTCTGTTTAGAGGAACTTTG
11089680 AT
66 AT
11089682 CAAAATTTTA
Statistics
Matches: 278, Mismatches: 38, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
123 4 0.01
125 91 0.33
126 3 0.01
127 27 0.10
128 3 0.01
129 33 0.12
131 38 0.14
132 79 0.28
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.40
Consensus pattern (130 bp):
GCCTCTGTTTAGAGGAGCTTTATTTATTTTCCAAAGTCGTTGAGCCTCTGTTTAGAGGAACTTTG
ATTATTTTCCAAAGTCGTTGAACCTCTATTTAGAGGAGCTTTATCTATTTTGCCAAAGTCGTTGA
Found at i:11089915 original size:19 final size:19
Alignment explanation
Indices: 11089891--11089946 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 19
11089881 TTAGTTTTAT
*
11089891 TATTTTTATTATTTATATA
1 TATTTTTATTAATTATATA
*
11089910 TATTTTATATCTAATAATATA
1 TATTTT-TAT-TAATTATATA
*
11089931 TATTTTTATTAGTTAT
1 TATTTTTATTAATTAT
11089947 CCATTAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 11 0.35
20 6 0.19
21 14 0.45
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
TATTTTTATTAATTATATA
Found at i:11089940 original size:27 final size:28
Alignment explanation
Indices: 11089917--11090055 Score: 124
Period size: 27 Copynumber: 5.4 Consensus size: 28
11089907 ATATATTTTA
* *
11089917 TATCTAATAATATATA-TTTTTATTAGT
1 TATCTATTAATATATATTTTTTATTATT
*
11089944 TATCCATTAATAT-TATTTTTTATTATT
1 TATCTATTAATATATATTTTTTATTATT
11089971 TATCTATTAATGA-ATATTTTTTA-TATT
1 TATCTATTAAT-ATATATTTTTTATTATT
* *
11089998 TA--TA-TATTAT-TATTCTTT-TTATT
1 TATCTATTAATATATATTTTTTATTATT
11090021 TATCTATT-A-ATAT-TTTTTTA-TATT
1 TATCTATTAATATATATTTTTTATTATT
*
11090045 TATCGATTAAT
1 TATCTATTAAT
11090056 GTAAAAAATT
Statistics
Matches: 91, Mismatches: 9, Indels: 25
0.73 0.07 0.20
Matches are distributed among these distances:
23 14 0.15
24 21 0.23
25 6 0.07
26 3 0.03
27 37 0.41
28 10 0.11
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (28 bp):
TATCTATTAATATATATTTTTTATTATT
Found at i:11089990 original size:54 final size:51
Alignment explanation
Indices: 11089917--11090055 Score: 144
Period size: 54 Copynumber: 2.7 Consensus size: 51
11089907 ATATATTTTA
* * *
11089917 TATCTAATAATATATATTTTTATTAGTTATCCATTAATATTATTTTTTATTATT
1 TATCTATTAATA-ATATTTTTATTATTTAT-CATTAATATTATTCTTT-TTATT
*
11089971 TATCTATTAATGAATATTTTT-TATATTTAT-A-TATTATTATTCTTTTTATT
1 TATCTATTAAT-AATATTTTTAT-TATTTATCATTAATATTATTCTTTTTATT
*
11090021 TATCTATTAAT-ATTTTTTTA-TATTTATCGATTAAT
1 TATCTATTAATAATATTTTTATTATTTATC-ATTAAT
11090056 GTAAAAAATT
Statistics
Matches: 73, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
47 7 0.10
48 7 0.10
49 1 0.01
50 19 0.26
51 12 0.16
52 1 0.01
53 1 0.01
54 24 0.33
55 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (51 bp):
TATCTATTAATAATATTTTTATTATTTATCATTAATATTATTCTTTTTATT
Found at i:11090020 original size:23 final size:23
Alignment explanation
Indices: 11089983--11090047 Score: 87
Period size: 23 Copynumber: 2.8 Consensus size: 23
11089973 TCTATTAATG
11089983 AATATTTTTTATATTTATATATT
1 AATATTTTTTATATTTATATATT
* *
11090006 ATTATTCTTTT-TATTTATCTATT
1 AATATT-TTTTATATTTATATATT
11090029 AATATTTTTTTATATTTAT
1 AATA-TTTTTTATATTTAT
11090048 CGATTAATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 23 0.64
24 13 0.36
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (23 bp):
AATATTTTTTATATTTATATATT
Found at i:11090024 original size:77 final size:76
Alignment explanation
Indices: 11089885--11090056 Score: 194
Period size: 77 Copynumber: 2.3 Consensus size: 76
11089875 TTATTTTTAG
* *
11089885 TTTTATTATTT-T-TATTATTTATATATATTTTATATCTAATAATATATATTTTTATTAGTTATC
1 TTTTATTATTTATCTATTAATGATATATATTTTATATCTAATAATATATATTTTTATTAGTTATC
11089948 CATTAATATTATT
66 CATTAATA-T-TT
* * * *
11089961 TTTTATTATTTATCTATTAATGA-ATATTTTTTATATTTATATATTAT-TATTCTTT-TTATTTA
1 TTTTATTATTTATCTATTAATGATATATATTTTATATCTA-ATAATATATATT-TTTATTAGTTA
*
11090023 TCTATTAATATTT
64 TCCATTAATATTT
*
11090036 TTTTA-TATTTATCGATTAATG
1 TTTTATTATTTATCTATTAATG
11090057 TAAAAAATTA
Statistics
Matches: 84, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
74 15 0.18
75 7 0.08
76 12 0.14
77 34 0.40
78 16 0.19
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (76 bp):
TTTTATTATTTATCTATTAATGATATATATTTTATATCTAATAATATATATTTTTATTAGTTATC
CATTAATATTT
Found at i:11090871 original size:3 final size:3
Alignment explanation
Indices: 11090865--11090994 Score: 76
Period size: 3 Copynumber: 44.0 Consensus size: 3
11090855 TTTTTCTTAT
* *
11090865 TTA TTA TTA TTA CTA TT- TCTT TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
* * ** * *
11090910 TTA TTA TTGT TTA TTGA TTA -GA TTA GAA TTA TTTA GTA TTCC TTA TT-
1 TTA TTA TT-A TTA TT-A TTA TTA TTA TTA TTA -TTA TTA TT-A TTA TTA
* *
11090957 TTA TT- TTA TTT TTA TTT TTA TT- TTA TT- TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11090995 AATGATTTTC
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
2 12 0.12
3 73 0.76
4 11 0.11
ACGTcount: A:0.26, C:0.03, G:0.04, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:11090897 original size:24 final size:23
Alignment explanation
Indices: 11090857--11090917 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 23
11090847 AAGGTTTTTT
11090857 TTTCTTATTTATTATTATTACTA
1 TTTCTTATTTATTATTATTACTA
*
11090880 TTTC-T-TTTATTATTATTATTA
1 TTTCTTATTTATTATTATTACTA
*
11090901 -TTATTA-TTATTATTATT
1 TTTCTTATTTATTATTATT
11090918 GTTTATTGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 2 0.06
21 27 0.79
22 1 0.03
23 4 0.12
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTCTTATTTATTATTATTACTA
Found at i:11090962 original size:5 final size:5
Alignment explanation
Indices: 11090952--11090993 Score: 66
Period size: 5 Copynumber: 8.0 Consensus size: 5
11090942 TTAGTATTCC
11090952 TTATT TTATT TTATTT TTATTT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTA-TT TTA-TT TTATT TTATT TTATT TTATT
11090994 AAATGATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 25 0.69
6 11 0.31
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:11096264 original size:15 final size:15
Alignment explanation
Indices: 11096244--11096276 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
11096234 GATCACTTCA
11096244 CCTATCTTCATCACT
1 CCTATCTTCATCACT
11096259 CCTATCTTCATCACT
1 CCTATCTTCATCACT
11096274 CCT
1 CCT
11096277 GATCATACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.42, G:0.00, T:0.39
Consensus pattern (15 bp):
CCTATCTTCATCACT
Found at i:11099075 original size:28 final size:26
Alignment explanation
Indices: 11099017--11099080 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 26
11099007 TTTTCAAAAG
*
11099017 TTTTTTTTTATTTTTTAAACTTTTTAA
1 TTTTTTTTTATTTTCTAAACTTTTT-A
* *
11099044 TTTTTTTGGTATTTTCTAAACTTTGTTT
1 TTTTTTT-TTATTTTCTAAACTTT-TTA
11099072 TTTTTTTTT
1 TTTTTTTTT
11099081 TTGGGTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
27 8 0.26
28 21 0.68
29 2 0.06
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.75
Consensus pattern (26 bp):
TTTTTTTTTATTTTCTAAACTTTTTA
Found at i:11099088 original size:17 final size:18
Alignment explanation
Indices: 11099068--11099101 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11099058 TCTAAACTTT
*
11099068 GTTTT-TTTTTTTTTTGG
1 GTTTTATTTATTTTTTGG
11099085 GTTTTATTTATTTTTTG
1 GTTTTATTTATTTTTTG
11099102 AATTGTTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.06, C:0.00, G:0.15, T:0.79
Consensus pattern (18 bp):
GTTTTATTTATTTTTTGG
Found at i:11099090 original size:48 final size:49
Alignment explanation
Indices: 11099038--11099130 Score: 109
Period size: 49 Copynumber: 1.9 Consensus size: 49
11099028 TTTTTAAACT
* *
11099038 TTTTAATT-TTTTTGGTATTTTCTAAACTTT-GTTTTTTTTTTTTTTGGG
1 TTTTAATTATTTTTGGAATTGT-TAAACTTTAGTTTTTTTTTTTTTTGGG
* * * *
11099086 TTTTATTTATTTTTTGAATTGTTGAATTTTAGTTTTTTTTTTTTT
1 TTTTAATTATTTTTGGAATTGTTAAACTTTAGTTTTTTTTTTTTT
11099131 ATTTTGAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
48 13 0.35
49 24 0.65
ACGTcount: A:0.14, C:0.02, G:0.11, T:0.73
Consensus pattern (49 bp):
TTTTAATTATTTTTGGAATTGTTAAACTTTAGTTTTTTTTTTTTTTGGG
Found at i:11099261 original size:46 final size:46
Alignment explanation
Indices: 11099150--11099267 Score: 121
Period size: 46 Copynumber: 2.6 Consensus size: 46
11099140 AACACTTATC
* * * * * *
11099150 ATTAGAGGCTCCACAAATTTTGAAAATAAATCTAAAAGCTCTTTTC
1 ATTAGAGACTCCACAACTTTTGAAAATAAATCTAAAAACTCCTCTA
* ** *
11099196 ATTAGAGGCTCCATGACTTTTGAAAATAAATTTAAAAACTCCTCTA
1 ATTAGAGACTCCACAACTTTTGAAAATAAATCTAAAAACTCCTCTA
* *
11099242 ATTGGAGACTTCACAAC-TTTGAAAAT
1 ATTAGAGACTCCACAACTTTTGAAAAT
11099268 TTAAAACATT
Statistics
Matches: 59, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
45 9 0.15
46 50 0.85
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (46 bp):
ATTAGAGACTCCACAACTTTTGAAAATAAATCTAAAAACTCCTCTA
Found at i:11102074 original size:22 final size:22
Alignment explanation
Indices: 11102031--11102079 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
11102021 TCTTTTATTA
**
11102031 TTTTTTCTTACTTTGTTTTTTT
1 TTTTTTCTTACTTTGTCCTTTT
11102053 TTTTTTCTTACCTTT-TCCTTTT
1 TTTTTTCTTA-CTTTGTCCTTTT
*
11102075 CTTTT
1 TTTTT
11102080 CTTTTCTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.04, C:0.16, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTTTTCTTACTTTGTCCTTTT
Found at i:11102086 original size:26 final size:25
Alignment explanation
Indices: 11102046--11102095 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
11102036 TCTTACTTTG
*
11102046 TTTTTTTTTTTTTCTT-ACCTTTTCC
1 TTTTTTTTCTTTTCTTCA-CTTTTCC
11102071 TTTTCTTTTCTTTTCTTCACTTTTC
1 TTTT-TTTTCTTTTCTTCACTTTTC
11102096 TTTGCACACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 4 0.18
26 17 0.77
27 1 0.05
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (25 bp):
TTTTTTTTCTTTTCTTCACTTTTCC
Found at i:11103292 original size:15 final size:16
Alignment explanation
Indices: 11103272--11103303 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
11103262 AATTTTTTCC
11103272 TTTTTTT-TGC-TTTT
1 TTTTTTTGTGCATTTT
11103286 TTTTTTTGTGCATTTT
1 TTTTTTTGTGCATTTT
11103302 TT
1 TT
11103304 GCAACTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 3 0.19
16 6 0.38
ACGTcount: A:0.03, C:0.06, G:0.09, T:0.81
Consensus pattern (16 bp):
TTTTTTTGTGCATTTT
Found at i:11106000 original size:20 final size:19
Alignment explanation
Indices: 11105974--11106023 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
11105964 AACCTACTGA
**
11105974 AAAATTCAAATAAAAACTT
1 AAAATTCAAATAAAAACCC
*
11105993 AGAAATTCATATAAAAACCC
1 A-AAATTCAAATAAAAACCC
11106013 AAAATTCAAAT
1 AAAATTCAAAT
11106024 CAAATTCCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (19 bp):
AAAATTCAAATAAAAACCC
Found at i:11106331 original size:13 final size:13
Alignment explanation
Indices: 11106313--11106337 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11106303 TTTTCAACAA
11106313 CCATAATTGATTC
1 CCATAATTGATTC
11106326 CCATAATTGATT
1 CCATAATTGATT
11106338 TCAAAAACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (13 bp):
CCATAATTGATTC
Found at i:11106790 original size:12 final size:12
Alignment explanation
Indices: 11106775--11106818 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
11106765 AAAAAAATAT
11106775 AAATCAAAATTA
1 AAATCAAAATTA
11106787 AAATCAAAATTA
1 AAATCAAAATTA
* **
11106799 AGATTGAAATTA
1 AAATCAAAATTA
11106811 AAATCAAA
1 AAATCAAA
11106819 TTACAATTAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.25
Consensus pattern (12 bp):
AAATCAAAATTA
Found at i:11106814 original size:6 final size:6
Alignment explanation
Indices: 11106775--11106830 Score: 51
Period size: 6 Copynumber: 9.5 Consensus size: 6
11106765 AAAAAAATAT
* * * * *
11106775 AAATCA AAATTA AAATCA AAATTA AGATTG AAATTA AAA-TC AAATTA
1 AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA
*
11106822 CAATTA AAA
1 AAATTA AAA
11106831 ATTTTTGGGC
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
5 4 0.11
6 34 0.89
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.27
Consensus pattern (6 bp):
AAATTA
Found at i:11106833 original size:24 final size:24
Alignment explanation
Indices: 11106780--11106830 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
11106770 AATATAAATC
11106780 AAAATTAAAATCAAAATTAAGATT
1 AAAATTAAAATCAAAATTAAGATT
*
11106804 GAAATTAAAATC-AAATTACA-ATT
1 AAAATTAAAATCAAAATTA-AGATT
11106827 AAAA
1 AAAA
11106831 ATTTTTGGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (24 bp):
AAAATTAAAATCAAAATTAAGATT
Found at i:11108903 original size:17 final size:16
Alignment explanation
Indices: 11108881--11108932 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
11108871 GCCTTTTCAC
11108881 TTTTTACCTTTCTTT-TT
1 TTTTTA-CTTT-TTTATT
11108898 TTTTTACTTTTTTATT
1 TTTTTACTTTTTTATT
* *
11108914 TTTTCATTTTTTTCATT
1 TTTTTACTTTTTT-ATT
11108931 TT
1 TT
11108933 CCATTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 3 0.10
16 17 0.55
17 11 0.35
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTACTTTTTTATT
Found at i:11108924 original size:16 final size:15
Alignment explanation
Indices: 11108893--11108947 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
11108883 TTTACCTTTC
11108893 TTTTTTTTTT-ACTTT
1 TTTTTTTTTTCA-TTT
*
11108908 TTTATTTTTTCATTT
1 TTTTTTTTTTCATTT
* *
11108923 TTTTCATTTTCCATTT
1 TTTT-TTTTTTCATTT
11108939 TTTTTTTTT
1 TTTTTTTTT
11108948 GCATGAGTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
15 19 0.58
16 14 0.42
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTTTTTCATTT
Found at i:11108947 original size:15 final size:14
Alignment explanation
Indices: 11108893--11108947 Score: 58
Period size: 16 Copynumber: 3.7 Consensus size: 14
11108883 TTTACCTTTC
11108893 TTTTTTTTTT-ACTT
1 TTTTTTTTTTCA-TT
11108907 TTTTATTTTTTCATT
1 TTTT-TTTTTTCATT
*
11108922 TTTTTCATTTTCCATT
1 TTTTT--TTTTTCATT
11108938 TTTTTTTTTT
1 TTTTTTTTTT
11108948 GCATGAGTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 9 0.26
15 12 0.34
16 14 0.40
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTTTTTTCATT
Found at i:11120395 original size:12 final size:11
Alignment explanation
Indices: 11120361--11120407 Score: 53
Period size: 10 Copynumber: 4.4 Consensus size: 11
11120351 CATCAAAAAG
11120361 ATTTTTA-TTT
1 ATTTTTATTTT
* *
11120371 GTTTTCA-TTT
1 ATTTTTATTTT
11120381 ATTTTTATTTTT
1 ATTTTTA-TTTT
11120393 ATTTTTATTTT
1 ATTTTTATTTT
11120404 ATTT
1 ATTT
11120408 GACCATTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
10 13 0.42
11 8 0.26
12 10 0.32
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (11 bp):
ATTTTTATTTT
Found at i:11120397 original size:5 final size:6
Alignment explanation
Indices: 11120378--11120407 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
11120368 TTTGTTTTCA
11120378 TTTATT TTTATT TTTATT TTTA-T TTTATT T
1 TTTATT TTTATT TTTATT TTTATT TTTATT T
11120408 GACCATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:11120471 original size:21 final size:22
Alignment explanation
Indices: 11120430--11120475 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
11120420 TTCACAAATT
11120430 AAAAAAATAAATAATTAATAACA
1 AAAAAAATAAATAATTAATAA-A
11120453 AAAAATAATAAA-AA-T-ATAAA
1 AAAAA-AATAAATAATTAATAAA
11120473 AAA
1 AAA
11120476 CTTTAAAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
20 4 0.18
21 4 0.18
22 1 0.05
23 7 0.32
24 6 0.27
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (22 bp):
AAAAAAATAAATAATTAATAAA
Found at i:11120948 original size:17 final size:17
Alignment explanation
Indices: 11120916--11120950 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
11120906 TTTTATTCAT
**
11120916 AGTTAAGGCCTTTTTAC
1 AGTTAAGGCCCCTTTAC
11120933 AGTTAAGGCCCCTTTAC
1 AGTTAAGGCCCCTTTAC
11120950 A
1 A
11120951 TAAATGGCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (17 bp):
AGTTAAGGCCCCTTTAC
Found at i:11126261 original size:14 final size:14
Alignment explanation
Indices: 11126242--11126279 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
11126232 TCATTTAGAG
11126242 TTTATTTATTTAAA
1 TTTATTTATTTAAA
11126256 TTTATTTATTTAAA
1 TTTATTTATTTAAA
11126270 TTTATTTATT
1 TTTATTTATT
11126280 GATTATAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTATTTATTTAAA
Found at i:11126577 original size:4 final size:4
Alignment explanation
Indices: 11126568--11126628 Score: 56
Period size: 4 Copynumber: 15.2 Consensus size: 4
11126558 TAGTATTATT
* *
11126568 ATAA ATAA AT-A ATAA ATAA AT-A ATAA ATGA ATAA ACTTTAT ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A---TAA ATAA ATAA
11126617 AT-A ATAA ATAA A
1 ATAA ATAA ATAA A
11126629 CAATAAATGA
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
3 9 0.19
4 35 0.74
7 3 0.06
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (4 bp):
ATAA
Found at i:11126584 original size:11 final size:11
Alignment explanation
Indices: 11126568--11126636 Score: 72
Period size: 11 Copynumber: 6.5 Consensus size: 11
11126558 TAGTATTATT
11126568 ATAAATAAATA
1 ATAAATAAATA
11126579 ATAAATAAATA
1 ATAAATAAATA
*
11126590 ATAAATGAAT-
1 ATAAATAAATA
* **
11126600 A-AACTTTAT-
1 ATAAATAAATA
11126609 ATAAATAAATA
1 ATAAATAAATA
*
11126620 ATAAATAAACA
1 ATAAATAAATA
11126631 ATAAAT
1 ATAAAT
11126637 GAACAAATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
9 6 0.12
10 6 0.12
11 36 0.75
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (11 bp):
ATAAATAAATA
Found at i:11126588 original size:15 final size:15
Alignment explanation
Indices: 11126568--11126628 Score: 63
Period size: 15 Copynumber: 4.1 Consensus size: 15
11126558 TAGTATTATT
11126568 ATAAATAA-ATAATAA
1 ATAAATAATA-AATAA
*
11126583 ATAAATAATAAATGA
1 ATAAATAATAAATAA
* *
11126598 ATAAACT-TTATATAA
1 ATAAA-TAATAAATAA
11126613 ATAAATAATAAATAA
1 ATAAATAATAAATAA
11126628 A
1 A
11126629 CAATAAATGA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
14 1 0.03
15 34 0.92
16 2 0.05
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (15 bp):
ATAAATAATAAATAA
Found at i:11126619 original size:41 final size:41
Alignment explanation
Indices: 11126567--11126648 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
11126557 TTAGTATTAT
* *
11126567 TATAAATAAATAATAAATAAATAATAAATGAATAAACTTTA
1 TATAAATAAATAATAAATAAACAATAAATGAACAAACTTTA
*
11126608 TATAAATAAATAATAAATAAACAATAAATGAACAAATTTTA
1 TATAAATAAATAATAAATAAACAATAAATGAACAAACTTTA
11126649 AACAAACTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.30
Consensus pattern (41 bp):
TATAAATAAATAATAAATAAACAATAAATGAACAAACTTTA
Found at i:11126641 original size:11 final size:11
Alignment explanation
Indices: 11126609--11126642 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
11126599 TAAACTTTAT
*
11126609 ATAAATAAATA
1 ATAAATAAACA
11126620 ATAAATAAACA
1 ATAAATAAACA
*
11126631 ATAAATGAACA
1 ATAAATAAACA
11126642 A
1 A
11126643 ATTTTAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.21
Consensus pattern (11 bp):
ATAAATAAACA
Found at i:11126652 original size:11 final size:11
Alignment explanation
Indices: 11126638--11126668 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
11126628 ACAATAAATG
11126638 AACAAATTTTA
1 AACAAATTTTA
*
11126649 AACAAACTTTA
1 AACAAATTTTA
11126660 AACAAATTT
1 AACAAATTT
11126669 ATTTATGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (11 bp):
AACAAATTTTA
Found at i:11130714 original size:14 final size:14
Alignment explanation
Indices: 11130684--11130717 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
11130674 TGTTTTATAG
*
11130684 AAAATAATTTTGGA
1 AAAATAATTTTGAA
*
11130698 AAAATAATTTTTAA
1 AAAATAATTTTGAA
11130712 AAAATA
1 AAAATA
11130718 TTTATAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (14 bp):
AAAATAATTTTGAA
Found at i:11130935 original size:36 final size:37
Alignment explanation
Indices: 11130878--11130947 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 37
11130868 AATATATTAA
*
11130878 AATTATTTATTATTAACATTA-TTAATATTAAAAAAT
1 AATTATTTATTAATAACATTATTTAATATTAAAAAAT
*
11130914 AATTATATT-TTAATAATATTATTTAATATTAAAA
1 AATTAT-TTATTAATAACATTATTTAATATTAAAA
11130948 TATTATGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
36 16 0.53
37 14 0.47
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (37 bp):
AATTATTTATTAATAACATTATTTAATATTAAAAAAT
Found at i:11130958 original size:19 final size:18
Alignment explanation
Indices: 11130871--11130970 Score: 77
Period size: 19 Copynumber: 5.7 Consensus size: 18
11130861 TTATTAAAAT
11130871 ATATT-AAA-ATTATTTA
1 ATATTAAAATATTATTTA
* *
11130887 TTATT--AACATTA-TTA
1 ATATTAAAATATTATTTA
* *
11130902 ATATTAAAA-AATAATTA
1 ATATTAAAATATTATTTA
*
11130919 TATTTTAATAATATTATTTA
1 -ATATTAA-AATATTATTTA
11130939 ATATTAAAATATTATGTTA
1 ATATTAAAATATTAT-TTA
*
11130958 ATATAAAAATATT
1 ATATTAAAATATT
11130971 TAAAATAAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
15 9 0.13
16 11 0.16
17 5 0.07
18 14 0.21
19 23 0.34
20 6 0.09
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (18 bp):
ATATTAAAATATTATTTA
Found at i:11131042 original size:33 final size:32
Alignment explanation
Indices: 11131002--11131163 Score: 114
Period size: 37 Copynumber: 4.8 Consensus size: 32
11130992 TCTTTATAAT
11131002 TATTTATTAATATAATATTATTTATTAATATA
1 TATTTATTAATATAATATTATTTATTAATATA
* *
11131034 TGATTTATTAATCTACTATTCTTTATTTATTAATAT-
1 T-ATTTATTAA--TA-TAAT-ATTATTTATTAATATA
* * *
11131070 TAATATATTATTATAATATTTATTCA-TAATA-A
1 T-ATTTATTAATATAATA-TTATTTATTAATATA
* * *
11131102 TATTTATTAATATATTGTTTATTAATATAATATTA
1 TATTTATTAATATAAT-ATTATTTAT-TAATA-TA
*
11131137 TTTATTAATTAATATAATATTATTTAT
1 --TATTTATTAATATAATATTATTTAT
11131164 AAGTAAAATT
Statistics
Matches: 99, Mismatches: 17, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
31 18 0.18
32 7 0.07
33 23 0.23
34 2 0.02
35 3 0.03
36 18 0.18
37 28 0.28
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.56
Consensus pattern (32 bp):
TATTTATTAATATAATATTATTTATTAATATA
Found at i:11131108 original size:82 final size:83
Alignment explanation
Indices: 11130995--11131156 Score: 222
Period size: 82 Copynumber: 2.0 Consensus size: 83
11130985 TTATTATTCT
* * * * *
11130995 TTATAATTATTTATTAATATAATATTATTTATTAATATA-TGATTTATTAATCTACTATTCTTTA
1 TTATAATTATTTATT-ACATAATAATATTTATTAATATATTG-TTTATTAATATAATATTATTTA
*
11131059 TTTATTAATATTAATATATTA
64 TTAATTAATA-TAATATATTA
11131080 TTATAA-TATTTATT-CATAATAATATTTATTAATATATTGTTTATTAATATAATATTATTTATT
1 TTATAATTATTTATTACATAATAATATTTATTAATATATTGTTTATTAATATAATATTATTTATT
11131143 AATTAATATAATAT
66 AATTAATATAATAT
11131157 TATTTATAAG
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
81 6 0.09
82 48 0.69
83 2 0.03
84 8 0.11
85 6 0.09
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.56
Consensus pattern (83 bp):
TTATAATTATTTATTACATAATAATATTTATTAATATATTGTTTATTAATATAATATTATTTATT
AATTAATATAATATATTA
Found at i:11131174 original size:27 final size:22
Alignment explanation
Indices: 11131122--11131163 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
11131112 TATATTGTTT
11131122 ATTAATATAATATTATTTATTA
1 ATTAATATAATATTATTTATTA
11131144 ATTAATATAATATTATTTAT
1 ATTAATATAATATTATTTAT
11131164 AAGTAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTAATATAATATTATTTATTA
Found at i:11133156 original size:2 final size:2
Alignment explanation
Indices: 11133149--11133180 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
11133139 CATATCTTTG
11133149 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11133181 TTCACCGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11133627 original size:2 final size:2
Alignment explanation
Indices: 11133620--11133644 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11133610 TTGTTAGGAA
11133620 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
11133645 CATACTCTTA
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:11134735 original size:16 final size:18
Alignment explanation
Indices: 11134710--11134747 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
11134700 TTTTTTGACC
11134710 TTAATGTTAT-AG-AATT
1 TTAATGTTATGAGAAATT
*
11134726 TTAATTTTATGAGAAATT
1 TTAATGTTATGAGAAATT
11134744 TTAA
1 TTAA
11134748 AATTTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 2 0.11
18 8 0.42
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (18 bp):
TTAATGTTATGAGAAATT
Found at i:11134782 original size:21 final size:21
Alignment explanation
Indices: 11134739--11134787 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
11134729 ATTTTATGAG
* * * *
11134739 AAATTTTAAAATTTTAATTAA
1 AAATTATAAAATATAAATAAA
11134760 AAATTATAAAATATAAATAAA
1 AAATTATAAAATATAAATAAA
11134781 AACATTA
1 AA-ATTA
11134788 GAACCAAAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATTATAAAATATAAATAAA
Found at i:11136117 original size:21 final size:20
Alignment explanation
Indices: 11136090--11136155 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
11136080 ATAAGAAAAA
11136090 ATATATATTTATCTTTATAT
1 ATATATATTTATCTTTATAT
*
11136110 ACTATATA-TTA-CGTTTATAA
1 A-TATATATTTATC-TTTATAT
11136130 ATTATTATATTT-TCTTTATAT
1 A-TA-TATATTTATCTTTATAT
11136151 ATATA
1 ATATA
11136156 AAATATATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
19 3 0.08
20 15 0.39
21 17 0.45
22 3 0.08
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (20 bp):
ATATATATTTATCTTTATAT
Found at i:11136155 original size:27 final size:29
Alignment explanation
Indices: 11136125--11136180 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 29
11136115 ATATTACGTT
*
11136125 TATAAATTAT-TATATTT-TCTTTATATA
1 TATAAAATATATATATTTATCTTTATATA
*
11136152 TATAAAATATATATATTTATTTTTATATA
1 TATAAAATATATATATTTATCTTTATATA
11136181 ATACATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 9 0.36
28 7 0.28
29 9 0.36
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (29 bp):
TATAAAATATATATATTTATCTTTATATA
Found at i:11140594 original size:21 final size:21
Alignment explanation
Indices: 11140568--11140607 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11140558 ATTTCATATA
*
11140568 AATAAT-AATTCAATATTATCT
1 AATAATCAAATCAA-ATTATCT
11140589 AATAATCAAATCAAATTAT
1 AATAATCAAATCAAATTAT
11140608 AAAATAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.38
Consensus pattern (21 bp):
AATAATCAAATCAAATTATCT
Found at i:11140613 original size:21 final size:21
Alignment explanation
Indices: 11140567--11140614 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
11140557 TATTTCATAT
* *
11140567 AAATAATAATTCAATATTATC
1 AAATAATAAATCAATATTATA
*
11140588 TAATAATCAAATCAA-ATTATA
1 AAATAAT-AAATCAATATTATA
11140609 AAATAA
1 AAATAA
11140615 ATAACCAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATAATAAATCAATATTATA
Found at i:11149423 original size:28 final size:30
Alignment explanation
Indices: 11149381--11149448 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
11149371 TAATAAATTC
* *
11149381 ATAATTTAAATATCATATTAAA-AACTTTTA
1 ATAATTT-AACATCACATTAAATAACTTTTA
*
11149411 AT-ATTTAACATCACATTAAATAACTTTTT
1 ATAATTTAACATCACATTAAATAACTTTTA
11149440 ATAATTTAA
1 ATAATTTAA
11149449 AAATCATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 12 0.36
29 13 0.39
30 8 0.24
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (30 bp):
ATAATTTAACATCACATTAAATAACTTTTA
Found at i:11149456 original size:29 final size:28
Alignment explanation
Indices: 11149381--11149456 Score: 66
Period size: 29 Copynumber: 2.6 Consensus size: 28
11149371 TAATAAATTC
*
11149381 ATAATTTAAATATCATATTAAAAACTTTTA
1 ATAATTTAAAAATC--ATTAAAAACTTTTA
* *
11149411 AT-ATTT-AACATCACATTAAATAACTTTTT
1 ATAATTTAAAAAT--CATTAAA-AACTTTTA
11149440 ATAATTTAAAAATCATT
1 ATAATTTAAAAATCATT
11149457 TATGAGATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
28 10 0.26
29 17 0.45
30 7 0.18
31 4 0.11
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.43
Consensus pattern (28 bp):
ATAATTTAAAAATCATTAAAAACTTTTA
Found at i:11150456 original size:22 final size:22
Alignment explanation
Indices: 11150431--11150523 Score: 80
Period size: 22 Copynumber: 4.2 Consensus size: 22
11150421 GTATTTTATC
11150431 AATAACTTAGTAGTAAATTAAT
1 AATAACTTAGTAGTAAATTAAT
* * *
11150453 AATAACTTAATAATAAATAAAT
1 AATAACTTAGTAGTAAATTAAT
* * * * *
11150475 GATAATTTAGGAGTTAA-TAGTT
1 AATAACTTAGTAGTAAATTA-AT
**
11150497 AATAACTTTTTAGTAAATTAAT
1 AATAACTTAGTAGTAAATTAAT
11150519 AATAA
1 AATAA
11150524 TATAATAATA
Statistics
Matches: 51, Mismatches: 18, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
21 1 0.02
22 48 0.94
23 2 0.04
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.38
Consensus pattern (22 bp):
AATAACTTAGTAGTAAATTAAT
Found at i:11150535 original size:22 final size:22
Alignment explanation
Indices: 11150510--11150573 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
11150500 AACTTTTTAG
*
11150510 TAAATTAATAATAATATAATAA
1 TAAATCAATAATAATATAATAA
* * *
11150532 TAAATGC-ATAATACTTTAATAG
1 TAAAT-CAATAATAATATAATAA
11150554 TAAATCAA-ATATAATATAAT
1 TAAATCAATA-ATAATATAAT
11150574 TTTAAATGCA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
21 2 0.06
22 31 0.94
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (22 bp):
TAAATCAATAATAATATAATAA
Found at i:11150688 original size:22 final size:22
Alignment explanation
Indices: 11150663--11150704 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
11150653 AACTTAGTAA
11150663 TAAATCAATG-ATAATTTAATTG
1 TAAATC-ATGTATAATTTAATTG
11150685 TAAATCATGTATAATTTAAT
1 TAAATCATGTATAATTTAAT
11150705 ATAAAATAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (22 bp):
TAAATCATGTATAATTTAATTG
Found at i:11150791 original size:34 final size:34
Alignment explanation
Indices: 11150734--11150798 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
11150724 ATAGTGAATC
* * *
11150734 ATAGATAATTTAATGATAAATAATTATAAATTAA
1 ATAGATAAATTAATAATAAATAATAATAAATTAA
11150768 ATAG-TAAATTAATAATAATATAATAATAAAT
1 ATAGATAAATTAATAATAA-ATAATAATAAAT
11150799 GTATAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 12 0.44
34 15 0.56
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (34 bp):
ATAGATAAATTAATAATAAATAATAATAAATTAA
Found at i:11150792 original size:22 final size:22
Alignment explanation
Indices: 11150767--11150892 Score: 80
Period size: 22 Copynumber: 5.9 Consensus size: 22
11150757 TTATAAATTA
11150767 AATAGTAAATTAATAATAATAT
1 AATAGTAAATTAATAATAATAT
* *
11150789 AATAATAAATGT-ATAAAAATAT
1 AATAGTAAAT-TAATAATAATAT
* * * *
11150811 AATAGTAAATCATTGATAATTT
1 AATAGTAAATTAATAATAATAT
* * * *
11150833 AGTAATAAATTGAT-A-ACT-T
1 AATAGTAAATTAATAATAATAT
* * **
11150852 AATAGTAAATCACTAATAACGT
1 AATAGTAAATTAATAATAATAT
*
11150874 AATAGTAAATTATTAATAA
1 AATAGTAAATTAATAATAA
11150893 CTTAATTATA
Statistics
Matches: 76, Mismatches: 23, Indels: 10
0.70 0.21 0.09
Matches are distributed among these distances:
19 10 0.13
20 3 0.04
21 2 0.03
22 60 0.79
23 1 0.01
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (22 bp):
AATAGTAAATTAATAATAATAT
Found at i:11150830 original size:44 final size:44
Alignment explanation
Indices: 11150647--11150924 Score: 117
Period size: 44 Copynumber: 6.4 Consensus size: 44
11150637 GTAGTTAACT
* * * * * *
11150647 ATTGATAACTTAGTAATAAATCAA-TGATAATTTAATTGTAAATC
1 ATTGATAATTTAATAATAAAT-AATTAAAAATTAAATAGTAAATC
* * * ** *
11150691 A-TGTATAATTTAAT-ATAAA-ATAGTAATAACTGGATAGTGAATC
1 ATTG-ATAATTTAATAATAAATA-ATTAAAAATTAAATAGTAAATC
* * * *
11150734 ATAGATAATTTAATGATAAATAATTATAAATTAAATAGTAAATT
1 ATTGATAATTTAATAATAAATAATTAAAAATTAAATAGTAAATC
* * * *
11150778 AATAATAATATAATAATAAAT-GTATAAAAA-TATAATAGTAAATC
1 ATTGATAATTTAATAATAAATAAT-TAAAAATTA-AATAGTAAATC
* * * *
11150822 ATTGATAATTTAGTAATAAAT--TGATAACTT-AATAGTAAATC
1 ATTGATAATTTAATAATAAATAATTAAAAATTAAATAGTAAATC
* * ** * * * * *
11150863 ACTAATAACGTAATAGTAAATTATTAATAACTTAATTA-TAAATA
1 ATTGATAATTTAATAATAAATAATTAA-AAATTAAATAGTAAATC
* *
11150907 AATGATAATTTAGTAATA
1 ATTGATAATTTAATAATA
11150925 TATTAGTTAA
Statistics
Matches: 173, Mismatches: 48, Indels: 26
0.70 0.19 0.11
Matches are distributed among these distances:
41 27 0.16
42 4 0.02
43 39 0.23
44 99 0.57
45 4 0.02
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (44 bp):
ATTGATAATTTAATAATAAATAATTAAAAATTAAATAGTAAATC
Found at i:11150860 original size:19 final size:19
Alignment explanation
Indices: 11150822--11150884 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
11150812 ATAGTAAATC
* * *
11150822 ATTGATAATTTAGTAATAA
1 ATTGATAACTTAATAGTAA
11150841 ATTGATAACTTAATAGTAA
1 ATTGATAACTTAATAGTAA
* *
11150860 ATCACTAATAACGTAATAGTAA
1 AT---TGATAACTTAATAGTAA
11150882 ATT
1 ATT
11150885 ATTAATAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
19 19 0.53
22 17 0.47
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.37
Consensus pattern (19 bp):
ATTGATAACTTAATAGTAA
Found at i:11150905 original size:22 final size:22
Alignment explanation
Indices: 11150845--11150898 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
11150835 TAATAAATTG
11150845 ATAACTTAATAGTAAATCACTA
1 ATAACTTAATAGTAAATCACTA
* * *
11150867 ATAACGTAATAGTAAATTATTA
1 ATAACTTAATAGTAAATCACTA
11150889 ATAACTTAAT
1 ATAACTTAAT
11150899 TATAAATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (22 bp):
ATAACTTAATAGTAAATCACTA
Found at i:11150914 original size:22 final size:22
Alignment explanation
Indices: 11150750--11150914 Score: 76
Period size: 22 Copynumber: 7.6 Consensus size: 22
11150740 AATTTAATGA
* *
11150750 TAAAT-AATTATAAATTAAATAG
1 TAAATAAATAATAACTT-AATAG
* *
11150772 TAAATTAATAATAA-TATAATAA
1 TAAATAAATAATAACT-TAATAG
** *
11150794 TAAATGTATAA-AAATATAATAG
1 TAAATAAATAATAACT-TAATAG
* * *
11150816 TAAATCATTGATAA-TT--TAG
1 TAAATAAATAATAACTTAATAG
*
11150835 T-AATAAATTGATAACTTAATAG
1 TAAATAAA-TAATAACTTAATAG
* * *
11150857 TAAATCACTAATAACGTAATAG
1 TAAATAAATAATAACTTAATAG
* *
11150879 TAAATTATTAATAACTTAATTA-
1 TAAATAAATAATAACTTAA-TAG
*
11150901 TAAATAAATGATAA
1 TAAATAAATAATAA
11150915 TTTAGTAATA
Statistics
Matches: 112, Mismatches: 21, Indels: 20
0.73 0.14 0.13
Matches are distributed among these distances:
18 4 0.04
19 10 0.09
20 2 0.02
21 3 0.03
22 77 0.69
23 16 0.14
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.36
Consensus pattern (22 bp):
TAAATAAATAATAACTTAATAG
Found at i:11151087 original size:22 final size:22
Alignment explanation
Indices: 11151039--11151102 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
11151029 ACAATGATTG
* **
11151039 GTAAATCATTTA-AACTTAACA
1 GTAAATCATTTATAAATTAGTA
11151060 GTAAATC-TTTCATAAATTAGTA
1 GTAAATCATTT-ATAAATTAGTA
11151082 GTAAATCATTTATAAATTAGT
1 GTAAATCATTTATAAATTAGT
11151103 TATACATTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
20 3 0.08
21 8 0.22
22 23 0.62
23 3 0.08
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.39
Consensus pattern (22 bp):
GTAAATCATTTATAAATTAGTA
Found at i:11151487 original size:22 final size:23
Alignment explanation
Indices: 11151400--11151614 Score: 78
Period size: 22 Copynumber: 9.7 Consensus size: 23
11151390 CATAATAACA
* **
11151400 TAATAA-TAAATTAATGATAGGT
1 TAATAAGTAAATCAATGATAATT
* * *
11151422 TAATAA-AAAATCAAGTGACAACT
1 TAATAAGTAAATCAA-TGATAATT
* *
11151445 T-ATTAGTTAAT-AATTGATAATT
1 TAATAAGTAAATCAA-TGATAATT
11151467 TAATAAG-AAATCAATGATAATT
1 TAATAAGTAAATCAATGATAATT
* * *
11151489 TAAT-AGTAAATTAGTGATAACT
1 TAATAAGTAAATCAATGATAATT
* * **
11151511 TAAT-AGTAAATTAGTTTTAATT
1 TAATAAGTAAATCAATGATAATT
*
11151533 TAAT-AGT-AATTAATTGATAAATT
1 TAATAAGTAAATCAA-TGAT-AATT
** * * *
11151556 TAGCAA-TCAATC-ATAAATAACT
1 TAATAAGTAAATCAAT-GATAATT
* *
11151578 TAATAA-TAAATCAATGAAAACT
1 TAATAAGTAAATCAATGATAATT
*
11151600 TAA-AAGCAAATCAAT
1 TAATAAGTAAATCAAT
11151615 ATAGCTTAGT
Statistics
Matches: 148, Mismatches: 33, Indels: 24
0.72 0.16 0.12
Matches are distributed among these distances:
21 9 0.06
22 108 0.73
23 27 0.18
24 4 0.03
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (23 bp):
TAATAAGTAAATCAATGATAATT
Found at i:11151678 original size:22 final size:21
Alignment explanation
Indices: 11151653--11151714 Score: 54
Period size: 22 Copynumber: 2.9 Consensus size: 21
11151643 CGTAATAGTT
11151653 AATCAATGATAACTTGATATTA
1 AATCAATGATAACTTGATA-TA
* *
11151675 AATC-ATAGATAATTTAATATA
1 AATCAAT-GATAACTTGATATA
* * *
11151696 AATAAATGACAACTCGATA
1 AATCAATGATAACTTGATA
11151715 ATGAATTATG
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
21 15 0.48
22 16 0.52
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.32
Consensus pattern (21 bp):
AATCAATGATAACTTGATATA
Found at i:11151838 original size:22 final size:22
Alignment explanation
Indices: 11151756--11151838 Score: 73
Period size: 22 Copynumber: 3.8 Consensus size: 22
11151746 TGATGATTTT
* *
11151756 ATAGTAAATAATTGAAAAC-TAA
1 ATAGTAAATCATTGATAACAT-A
*
11151778 ATAGTAAATCAATGATAA-ATA
1 ATAGTAAATCATTGATAACATA
* **
11151799 GTAGTAAATGCA-CAATAACATA
1 ATAGTAAAT-CATTGATAACATA
11151821 ATAGTAAATCATTGATAA
1 ATAGTAAATCATTGATAA
11151839 TGATAACTTA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
21 15 0.31
22 33 0.69
ACGTcount: A:0.54, C:0.07, G:0.11, T:0.28
Consensus pattern (22 bp):
ATAGTAAATCATTGATAACATA
Found at i:11152349 original size:18 final size:21
Alignment explanation
Indices: 11152308--11152349 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 21
11152298 TTAAATTTGA
11152308 ATAAAATAATAATGTTATTGT
1 ATAAAATAATAATGTTATTGT
*
11152329 ATAAAA-AA-AAT-TTATTTT
1 ATAAAATAATAATGTTATTGT
11152347 ATA
1 ATA
11152350 CTAGAACTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 9 0.45
19 3 0.15
20 2 0.10
21 6 0.30
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (21 bp):
ATAAAATAATAATGTTATTGT
Found at i:11152469 original size:22 final size:22
Alignment explanation
Indices: 11152444--11152506 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
11152434 ATCATAAGTT
11152444 ATCAAAAAATTACTAAAATTAC
1 ATCAAAAAATTACTAAAATTAC
** **
11152466 ATCAAAATGTTACTAAAATTTT
1 ATCAAAAAATTACTAAAATTAC
*
11152488 AT-AAAAAATTACCAAAATT
1 ATCAAAAAATTACTAAAATT
11152507 GTATTAATGG
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
21 14 0.41
22 20 0.59
ACGTcount: A:0.56, C:0.11, G:0.02, T:0.32
Consensus pattern (22 bp):
ATCAAAAAATTACTAAAATTAC
Found at i:11152566 original size:21 final size:21
Alignment explanation
Indices: 11152475--11152569 Score: 66
Period size: 21 Copynumber: 4.5 Consensus size: 21
11152465 CATCAAAATG
* * * *
11152475 TTACTAAAATTTTATAAAAAA
1 TTACCAAAATTGTATCAAAGA
* * *
11152496 TTACCAAAATTGTATTAATGG
1 TTACCAAAATTGTATCAAAGA
** * *
11152517 TTTTCAAAATTATATCTTAAG-
1 TTACCAAAATTGTATC-AAAGA
11152538 TTACCAAAATTGTATCAAAGA
1 TTACCAAAATTGTATCAAAGA
*
11152559 TTATCAAAATT
1 TTACCAAAATT
11152570 TTATGAAAAG
Statistics
Matches: 55, Mismatches: 17, Indels: 4
0.72 0.22 0.05
Matches are distributed among these distances:
20 3 0.05
21 50 0.91
22 2 0.04
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.39
Consensus pattern (21 bp):
TTACCAAAATTGTATCAAAGA
Found at i:11152581 original size:42 final size:42
Alignment explanation
Indices: 11152480--11152582 Score: 116
Period size: 42 Copynumber: 2.5 Consensus size: 42
11152470 AAATGTTACT
* * * * *
11152480 AAAATTTTATAAAAAATTACCAAAATTGTATTAATGGTTTTC
1 AAAATTTTATAAAAAGTTACCAAAATTGTATCAAAGATTATC
* ***
11152522 AAAATTATATCTTAAGTTACCAAAATTGTATCAAAGATTATC
1 AAAATTTTATAAAAAGTTACCAAAATTGTATCAAAGATTATC
*
11152564 AAAATTTTATGAAAAGTTA
1 AAAATTTTATAAAAAGTTA
11152583 TTAAATTCAA
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.38
Consensus pattern (42 bp):
AAAATTTTATAAAAAGTTACCAAAATTGTATCAAAGATTATC
Found at i:11152583 original size:21 final size:20
Alignment explanation
Indices: 11152480--11152583 Score: 55
Period size: 21 Copynumber: 5.0 Consensus size: 20
11152470 AAATGTTACT
* * *
11152480 AAAATTTTATAAAAAATTACC
1 AAAATTGTAT-AAAAGTTATC
** *
11152501 AAAATTGTATTAATGGTTTTC
1 AAAATTGTA-TAAAAGTTATC
* ** *
11152522 AAAATTATATCTTAAGTTACC
1 AAAATTGTAT-AAAAGTTATC
*
11152543 AAAATTGTATCAAAGATTATC
1 AAAATTGTATAAAAG-TTATC
*
11152564 AAAATTTTATGAAAAGTTAT
1 AAAATTGTAT-AAAAGTTAT
11152584 TAAATTCAAA
Statistics
Matches: 60, Mismatches: 19, Indels: 8
0.69 0.22 0.09
Matches are distributed among these distances:
20 4 0.07
21 51 0.85
22 5 0.08
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (20 bp):
AAAATTGTATAAAAGTTATC
Found at i:11152593 original size:27 final size:27
Alignment explanation
Indices: 11152562--11152616 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
11152552 TCAAAGATTA
* * *
11152562 TCAAAATTTTATGAAAAGTTATTAAAT
1 TCAAAATTATATCAAAAGTTATCAAAT
11152589 TCAAAATTATATCAAAAGTTATCAAAT
1 TCAAAATTATATCAAAAGTTATCAAAT
11152616 T
1 T
11152617 TTACTTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.38
Consensus pattern (27 bp):
TCAAAATTATATCAAAAGTTATCAAAT
Done.