Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, 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: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 43 of 93
Found at i:5364324 original size:23 final size:23
Alignment explanation
Indices: 5364281--5364324 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
5364271 TTACTGTAGG
**
5364281 CCCATAAAAAGTAATTTTCTTTA
1 CCCATAAAAAGTAATGCTCTTTA
*
5364304 CCCATAAATAGTAATGCTCTT
1 CCCATAAAAAGTAATGCTCTT
5364325 GCTTTATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.36
Consensus pattern (23 bp):
CCCATAAAAAGTAATGCTCTTTA
Found at i:5364524 original size:13 final size:13
Alignment explanation
Indices: 5364506--5364535 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
5364496 TTTAAAGAGG
5364506 AATATTTTACTTA
1 AATATTTTACTTA
*
5364519 AATATTTTTCTTA
1 AATATTTTACTTA
5364532 AATA
1 AATA
5364536 AATAAAACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (13 bp):
AATATTTTACTTA
Found at i:5365512 original size:6 final size:6
Alignment explanation
Indices: 5365501--5365535 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
5365491 TTCTAGAAAC
* *
5365501 TAAAAA TAAAAA TAAAGA TAAAGA TAAAAA TAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
5365536 TTGTACTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:5366325 original size:22 final size:22
Alignment explanation
Indices: 5366260--5366392 Score: 101
Period size: 22 Copynumber: 6.0 Consensus size: 22
5366250 TAAAATGTTT
*
5366260 TGCCAAGAGGTCTTAAAAATTA
1 TGCCTAGAGGTCTTAAAAATTA
* * * * * *
5366282 TGCCCAAAAGTTTTACAGATTA
1 TGCCTAGAGGTCTTAAAAATTA
* *
5366304 TGCCTATAGGTCTTAGAAATTA
1 TGCCTAGAGGTCTTAAAAATTA
*
5366326 TG-TTCAGAGGTCTTAAAAATTA
1 TGCCT-AGAGGTCTTAAAAATTA
* *
5366348 TGTCCATA-A-GTCTTAGAGATTA
1 TG-CC-TAGAGGTCTTAAAAATTA
*
5366370 TGCCTAGAGGTCTTAAAGATTA
1 TGCCTAGAGGTCTTAAAAATTA
5366392 T
1 T
5366393 ACCCGAAAGT
Statistics
Matches: 86, Mismatches: 19, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
20 2 0.02
21 4 0.05
22 77 0.90
23 1 0.01
24 1 0.01
25 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.34
Consensus pattern (22 bp):
TGCCTAGAGGTCTTAAAAATTA
Found at i:5366348 original size:44 final size:44
Alignment explanation
Indices: 5366300--5366392 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 44
5366290 AGTTTTACAG
* *
5366300 ATTATG-CCTATAGGTCTTAGAAATTATG-TTCAGAGGTCTTAAAA
1 ATTATGTCC-ATAAGTCTTAGAAATTATGCCT-AGAGGTCTTAAAA
* *
5366344 ATTATGTCCATAAGTCTTAGAGATTATGCCTAGAGGTCTTAAAG
1 ATTATGTCCATAAGTCTTAGAAATTATGCCTAGAGGTCTTAAAA
5366388 ATTAT
1 ATTAT
5366393 ACCCGAAAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
44 40 0.93
45 3 0.07
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (44 bp):
ATTATGTCCATAAGTCTTAGAAATTATGCCTAGAGGTCTTAAAA
Found at i:5366407 original size:22 final size:22
Alignment explanation
Indices: 5366382--5366436 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
5366372 CCTAGAGGTC
5366382 TTAAAGATTATACCCGAAAGTT
1 TTAAAGATTATACCCGAAAGTT
*
5366404 TTAAAGATTATACCCGAAGGTT
1 TTAAAGATTATACCCGAAAGTT
*
5366426 TTAATGATTAT
1 TTAAAGATTAT
5366437 CCTTAGAGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (22 bp):
TTAAAGATTATACCCGAAAGTT
Found at i:5366412 original size:44 final size:44
Alignment explanation
Indices: 5366331--5366414 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
5366321 AATTATGTTC
** *
5366331 AGAGGTCTTAAAAATTATGTCCATAAGTCTTAGAGATTATGCCT
1 AGAGGTCTTAAAAATTATACCCATAAGTCTTAAAGATTATGCCT
* *
5366375 AGAGGTCTTAAAGATTATACCCGA-AAGTTTTAAAGATTAT
1 AGAGGTCTTAAAAATTATACCC-ATAAGTCTTAAAGATTAT
5366415 ACCCGAAGGT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 33 0.97
45 1 0.03
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (44 bp):
AGAGGTCTTAAAAATTATACCCATAAGTCTTAAAGATTATGCCT
Found at i:5366456 original size:22 final size:23
Alignment explanation
Indices: 5366331--5366474 Score: 79
Period size: 22 Copynumber: 6.5 Consensus size: 23
5366321 AATTATGTTC
* * *
5366331 AGAGGTCTTAAAAATTATGTCCAT
1 AGAGGTCTTAAAGATTAT-ACCTT
* *
5366355 A-A-GTCTTAGAGATTATGCC-T
1 AGAGGTCTTAAAGATTATACCTT
**
5366375 AGAGGTCTTAAAGATTATACCCG
1 AGAGGTCTTAAAGATTATACCTT
* * **
5366398 A-AAGTTTTAAAGATTATACCCG
1 AGAGGTCTTAAAGATTATACCTT
* *
5366420 A-AGGTTTTAATGATTAT-CCTT
1 AGAGGTCTTAAAGATTATACCTT
*
5366441 AGAGGTCTTAGAGATTATGA--TT
1 AGAGGTCTTAAAGATTAT-ACCTT
*
5366463 GGAGGTCTTAAA
1 AGAGGTCTTAAA
5366475 ATTTATGCTT
Statistics
Matches: 97, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
20 2 0.02
21 6 0.06
22 86 0.89
23 2 0.02
24 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (23 bp):
AGAGGTCTTAAAGATTATACCTT
Found at i:5366474 original size:66 final size:65
Alignment explanation
Indices: 5366266--5366482 Score: 199
Period size: 66 Copynumber: 3.3 Consensus size: 65
5366256 GTTTTGCCAA
* *
5366266 GAGGTCTTAAAAATTATGCCCAAAAGTTTTACAGATTATGCCTATAGGTCTTAGAAATTATG-TT
1 GAGGTCTTAAAAATTATGCCC-AAAGTTTTACAGATTATGCCTAGAGGTCTTAGAGATTATGATT
*
5366330 CA
65 -G
* * * * *
5366332 GAGGTCTTAAAAATTATGTCCATAAGTCTTAGAGATTATGCCTAGAGGTCTTAAAGATTAT-ACC
1 GAGGTCTTAAAAATTATGCCCA-AAGTTTTACAGATTATGCCTAGAGGTCTTAGAGATTATGA-T
*
5366396 CG
64 TG
* * * * * *
5366398 AAAGTTTTAAAGATTATACCCGAAGGTTTTA-ATGATTAT-CCTTAGAGGTCTTAGAGATTATGA
1 GAGGTCTTAAAAATTATGCCC-AAAGTTTTACA-GATTATGCC-TAGAGGTCTTAGAGATTATGA
5366461 TTG
63 TTG
*
5366464 GAGGTCTTAAAATTTATGC
1 GAGGTCTTAAAAATTATGC
5366483 TTAGACATCT
Statistics
Matches: 118, Mismatches: 26, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
65 4 0.03
66 112 0.95
67 2 0.02
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (65 bp):
GAGGTCTTAAAAATTATGCCCAAAGTTTTACAGATTATGCCTAGAGGTCTTAGAGATTATGATTG
Found at i:5366711 original size:40 final size:40
Alignment explanation
Indices: 5366598--5366773 Score: 194
Period size: 40 Copynumber: 4.3 Consensus size: 40
5366588 AAATCCTAAG
* * *
5366598 GTCTTGGAAATCATTTAAAAAATCTAAGGTTTTGCCCAGAA
1 GTCTTAGAAATCA-TTCAAAAATCTAAGATTTTGCCCAGAA
* * * * *
5366639 GTCTTTGAAAATCATCCAAAAATTTAAAATTTTGCCTAGAA
1 GTCTTAG-AAATCATTCAAAAATCTAAGATTTTGCCCAGAA
*
5366680 GTCTTAGAGATCATTCAAAAATCTAAGATTTTGCCCA-AA
1 GTCTTAGAAATCATTCAAAAATCTAAGATTTTGCCCAGAA
* *
5366719 GATCTTAGAAATCATTAAAAAATCTAAGATTTTG-CCAGGAG
1 G-TCTTAGAAATCATTCAAAAATCTAAGATTTTGCCCA-GAA
*
5366760 GTCTTGGAAATCAT
1 GTCTTAGAAATCAT
5366774 ATACTCATTT
Statistics
Matches: 114, Mismatches: 17, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
39 6 0.05
40 67 0.59
41 35 0.31
42 6 0.05
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.32
Consensus pattern (40 bp):
GTCTTAGAAATCATTCAAAAATCTAAGATTTTGCCCAGAA
Found at i:5366764 original size:80 final size:81
Alignment explanation
Indices: 5366592--5366773 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 81
5366582 TCATTCAAAT
* * *
5366592 CCTA-AGGTCTTGGAAATCATTTAAAAAATCTAAGGTTTTGCCCAGAAGTCTTTGAAAATCATCC
1 CCTAGAGGTCTTGGAAATCA-TTAAAAAATCTAAGATTTTGCCCAGAAGTCTTAGAAAATCATCA
*
5366656 AAAAATTTAAAATTTTG
65 AAAAATCTAAAATTTTG
* * * * *
5366673 CCTAGAAGTCTTAGAGATCATTCAAAAATCTAAGATTTTGCCCA-AAGATCTTAG-AAATCATTA
1 CCTAGAGGTCTTGGAAATCATTAAAAAATCTAAGATTTTGCCCAGAAG-TCTTAGAAAATCATCA
*
5366736 AAAAATCTAAGATTTTG
65 AAAAATCTAAAATTTTG
5366753 CC-AGGAGGTCTTGGAAATCAT
1 CCTA-GAGGTCTTGGAAATCAT
5366774 ATACTCATTT
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
79 1 0.01
80 41 0.48
81 31 0.36
82 12 0.14
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (81 bp):
CCTAGAGGTCTTGGAAATCATTAAAAAATCTAAGATTTTGCCCAGAAGTCTTAGAAAATCATCAA
AAAATCTAAAATTTTG
Found at i:5367121 original size:20 final size:19
Alignment explanation
Indices: 5367098--5367157 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 19
5367088 AATGCCTCAT
5367098 TTCATATGCAAATGCAAATG
1 TTCATAT-CAAATGCAAATG
**
5367118 TTCAT-TCCCCGATGCAAATG
1 TTCATAT--CAAATGCAAATG
5367138 TTCCATA-CAAATGCAAATG
1 TT-CATATCAAATGCAAATG
5367157 T
1 T
5367158 CTGTCTTAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
19 12 0.38
20 17 0.53
21 3 0.09
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (19 bp):
TTCATATCAAATGCAAATG
Found at i:5368280 original size:26 final size:29
Alignment explanation
Indices: 5368251--5368304 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
5368241 CACATTCATA
5368251 TTTTTT-TCTTTT-CTT-TTCTTTTTTTG
1 TTTTTTGTCTTTTGCTTCTTCTTTTTTTG
*
5368277 TTTTTTGTTTTTTGCTTCTTCTTTTTTT
1 TTTTTTGTCTTTTGCTTCTTCTTTTTTT
5368305 TATTATTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 6 0.25
27 5 0.21
28 3 0.12
29 10 0.42
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (29 bp):
TTTTTTGTCTTTTGCTTCTTCTTTTTTTG
Found at i:5368282 original size:15 final size:15
Alignment explanation
Indices: 5368264--5368304 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
5368254 TTTTCTTTTC
5368264 TTTTCTTTTTTTG-T
1 TTTTCTTTTTTTGCT
5368278 TTTT-TGTTTTTTGCT
1 TTTTCT-TTTTTTGCT
*
5368293 TCTTCTTTTTTT
1 TTTTCTTTTTTT
5368305 TATTATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 1 0.04
14 11 0.48
15 10 0.43
16 1 0.04
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (15 bp):
TTTTCTTTTTTTGCT
Found at i:5369065 original size:28 final size:27
Alignment explanation
Indices: 5369033--5369092 Score: 97
Period size: 25 Copynumber: 2.3 Consensus size: 27
5369023 TAAATTTTTA
5369033 CATTTATGAAAGGATGATGAAAGATGGT
1 CATTTAT-AAAGGATGATGAAAGATGGT
5369061 CA-TT-TAAAGGATGATGAAAGATGGT
1 CATTTATAAAGGATGATGAAAGATGGT
5369086 CATTTAT
1 CATTTAT
5369093 CATCTCAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
25 22 0.73
26 3 0.10
27 3 0.10
28 2 0.07
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.32
Consensus pattern (27 bp):
CATTTATAAAGGATGATGAAAGATGGT
Found at i:5369069 original size:25 final size:25
Alignment explanation
Indices: 5369041--5369091 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
5369031 TACATTTATG
5369041 AAAGGATGATGAAAGATGGTCATTT
1 AAAGGATGATGAAAGATGGTCATTT
5369066 AAAGGATGATGAAAGATGGTCATTT
1 AAAGGATGATGAAAGATGGTCATTT
5369091 A
1 A
5369092 TCATCTCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.04, G:0.27, T:0.27
Consensus pattern (25 bp):
AAAGGATGATGAAAGATGGTCATTT
Found at i:5369300 original size:17 final size:17
Alignment explanation
Indices: 5369275--5369308 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
5369265 AAAGGTTTTT
5369275 TTTCCTCTTTTTCTTTC
1 TTTCCTCTTTTTCTTTC
* *
5369292 TTTCTTCTTTTTTTTTC
1 TTTCCTCTTTTTCTTTC
5369309 ATGCCCCCAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTCCTCTTTTTCTTTC
Found at i:5370016 original size:30 final size:27
Alignment explanation
Indices: 5369976--5370039 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 27
5369966 AAGAAACTTC
*
5369976 TTTTTCTCTTTCTTTATCTTTCTTCTCTTT
1 TTTTTTTCTTTCTTT-TC-TTCTT-TCTTT
*
5370006 TTTTTTTCTTTCTTTTCTTCTTTTTTT
1 TTTTTTTCTTTCTTTTCTTCTTTCTTT
5370033 TTTTTTT
1 TTTTTTT
5370040 GCAAAACACT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
27 11 0.34
28 5 0.16
29 2 0.06
30 14 0.44
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (27 bp):
TTTTTTTCTTTCTTTTCTTCTTTCTTT
Found at i:5370017 original size:20 final size:20
Alignment explanation
Indices: 5369973--5370033 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
5369963 CAAAAGAAAC
*
5369973 TTCTTT-TTCTC-TTTCTTT
1 TTCTTTCTTCTCTTTTTTTT
*
5369991 ATCTTTCTTCTCTTTTTTTT
1 TTCTTTCTTCTCTTTTTTTT
*
5370011 TTCTTTCTTTTCTTCTTTTTT
1 TTCTTTCTTCTCTT-TTTTTT
5370032 TT
1 TT
5370034 TTTTTTGCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 5 0.14
19 5 0.14
20 18 0.50
21 8 0.22
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (20 bp):
TTCTTTCTTCTCTTTTTTTT
Found at i:5370022 original size:25 final size:26
Alignment explanation
Indices: 5369974--5370037 Score: 85
Period size: 25 Copynumber: 2.5 Consensus size: 26
5369964 AAAAGAAACT
*
5369974 TCTTTTTCTCTTTCTTTATCTTTCTTC
1 TCTTTTT-TTTTTCTTTATCTTTCTTC
*
5370001 TCTTTTTTTTTTCTTTCT-TTTCTTC
1 TCTTTTTTTTTTCTTTATCTTTCTTC
*
5370026 TTTTTTTTTTTT
1 TCTTTTTTTTTT
5370038 TTGCAAAACA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 18 0.53
26 9 0.26
27 7 0.21
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.80
Consensus pattern (26 bp):
TCTTTTTTTTTTCTTTATCTTTCTTC
Found at i:5374188 original size:35 final size:35
Alignment explanation
Indices: 5374095--5374230 Score: 96
Period size: 35 Copynumber: 3.8 Consensus size: 35
5374085 GCGATGTGCA
* * *
5374095 TGAGATGTAATGTATGTATTATCTATTAAGATGCT
1 TGAGATGGAATGCATGTATTATCTATTAAGATGCG
* * * * *
5374130 TGAAATATG-ATACATGTACTATCTATTAGGATGCG
1 TGAGAT-GGAATGCATGTATTATCTATTAAGATGCG
* * *
5374165 TGAGATGGAATGCATATATTATCTTATTATGATGTGCA
1 TGAGATGGAATGCATGTATTATC-TATTAAGA--TGCG
* *
5374203 TGAGATGG-GTACATGTATTATCTTATTA
1 TGAGATGGAATGCATGTATTATC-TATTA
5374231 CTTTTATTTT
Statistics
Matches: 78, Mismatches: 18, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
34 1 0.01
35 42 0.54
36 7 0.09
37 17 0.22
38 11 0.14
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.40
Consensus pattern (35 bp):
TGAGATGGAATGCATGTATTATCTATTAAGATGCG
Found at i:5376266 original size:17 final size:17
Alignment explanation
Indices: 5376244--5376294 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
5376234 CCATCATCAG
5376244 AATTTTCATTATTTATT
1 AATTTTCATTATTTATT
* *
5376261 AATTTTTACTATTTCATT
1 AATTTTCATTATTT-ATT
* *
5376279 CATTTTCATTTTTTAT
1 AATTTTCATTATTTAT
5376295 ACATATTTCC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
17 14 0.52
18 13 0.48
ACGTcount: A:0.25, C:0.10, G:0.00, T:0.65
Consensus pattern (17 bp):
AATTTTCATTATTTATT
Found at i:5376923 original size:26 final size:23
Alignment explanation
Indices: 5376859--5376925 Score: 62
Period size: 26 Copynumber: 2.7 Consensus size: 23
5376849 ATAACTAGAG
*
5376859 CTTTTTTTCCTCTTCTTTTTTTTT
1 CTTTTTTTTCTC-TCTTTTTTTTT
** *
5376883 CTTTTTCCTCACTCTTTTTCCTTTT
1 CTTTTTTTTCTCTCTTTTT--TTTT
5376908 CTTTTTTTTTCTCTCTTT
1 C-TTTTTTTTCTCTCTTT
5376926 ATCACCGTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
23 7 0.21
24 8 0.24
25 5 0.15
26 13 0.39
ACGTcount: A:0.01, C:0.25, G:0.00, T:0.73
Consensus pattern (23 bp):
CTTTTTTTTCTCTCTTTTTTTTT
Found at i:5377347 original size:3 final size:3
Alignment explanation
Indices: 5377339--5377400 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
5377329 TTGATTTTTG
5377339 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5377387 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
5377401 GTCATTTTTA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:5377608 original size:21 final size:22
Alignment explanation
Indices: 5377559--5377609 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
5377549 AATATGGATT
*
5377559 AAAGGGTTTAATTAATATAGTT
1 AAAGGGTTTAATTAATATAGTC
*
5377581 AAA-GGTTTAAATTCATA-A-TC
1 AAAGGGTTT-AATTAATATAGTC
5377601 AAAGGGTTT
1 AAAGGGTTT
5377610 TTGGATTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
20 4 0.16
21 11 0.44
22 10 0.40
ACGTcount: A:0.41, C:0.04, G:0.18, T:0.37
Consensus pattern (22 bp):
AAAGGGTTTAATTAATATAGTC
Found at i:5378282 original size:6 final size:6
Alignment explanation
Indices: 5378273--5378328 Score: 53
Period size: 6 Copynumber: 9.5 Consensus size: 6
5378263 ATTGTAGGTT
* * *
5378273 TTTTTT TTTTTA TTTTTA TTTTTA --TTTA TTTTATA TTTTGA TTTTGA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT-TA TTTTTA TTTTTA
*
5378320 TTTTAA TTT
1 TTTTTA TTT
5378329 ATTTTATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
4 4 0.09
6 34 0.77
7 6 0.14
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:5378305 original size:5 final size:5
Alignment explanation
Indices: 5378271--5378339 Score: 52
Period size: 5 Copynumber: 13.0 Consensus size: 5
5378261 GAATTGTAGG
*
5378271 TTTT- TTTTT TTTTA TTTTTA TTTT- TATTTA TTTTATA TTTTGA TTTTGA
1 TTTTA TTTTA TTTTA -TTTTA TTTTA T-TTTA -TTT-TA TTTT-A TTTT-A
*
5378320 TTTTA ATTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA
5378340 CTGGTTTCTA
Statistics
Matches: 55, Mismatches: 3, Indels: 13
0.77 0.04 0.18
Matches are distributed among these distances:
4 5 0.09
5 26 0.47
6 21 0.38
7 3 0.05
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:5378309 original size:23 final size:21
Alignment explanation
Indices: 5378271--5378338 Score: 68
Period size: 23 Copynumber: 3.2 Consensus size: 21
5378261 GAATTGTAGG
*
5378271 TTTTT-TTTTTTTTATTTTTA
1 TTTTTATTTTTTTTATTTTGA
5378291 TTTTTATTTATTTTATATTTTGA
1 TTTTTATTT-TTTT-TATTTTGA
* *
5378314 TTTTGATTTTAATTTATTTT-A
1 TTTTTATTTT-TTTTATTTTGA
5378335 TTTT
1 TTTT
5378339 ACTGGTTTCT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
20 5 0.12
21 8 0.20
22 11 0.27
23 17 0.41
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (21 bp):
TTTTTATTTTTTTTATTTTGA
Found at i:5378316 original size:29 final size:29
Alignment explanation
Indices: 5378279--5378335 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
5378269 GGTTTTTTTT
* * *
5378279 TTTTTATTTTTATTTTTATTTATTTTATA
1 TTTTGATTTTGATTTTAATTTATTTTATA
5378308 TTTTGATTTTGATTTTAATTTATTTTAT
1 TTTTGATTTTGATTTTAATTTATTTTAT
5378336 TTTACTGGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (29 bp):
TTTTGATTTTGATTTTAATTTATTTTATA
Found at i:5378442 original size:12 final size:13
Alignment explanation
Indices: 5378425--5378467 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 13
5378415 ATTTTTGGAA
5378425 AATAAAA-AAAAT
1 AATAAAACAAAAT
5378437 AATAAAACAAAA-
1 AATAAAACAAAAT
* *
5378449 AAGAAAACAAAAA
1 AATAAAACAAAAT
5378462 AATAAA
1 AATAAA
5378468 TAAATAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 18 0.67
13 9 0.33
ACGTcount: A:0.84, C:0.05, G:0.02, T:0.09
Consensus pattern (13 bp):
AATAAAACAAAAT
Found at i:5379264 original size:64 final size:64
Alignment explanation
Indices: 5379196--5379462 Score: 201
Period size: 64 Copynumber: 4.2 Consensus size: 64
5379186 CAAACCACAT
* *
5379196 CTTTAATAATCCCTTCAAT-AAATTTTTATG-A-GAGATTATCAAAGGTGTTTTTTGTCGAAAAT
1 CTTTAATAATCCCTTCAATAAAATTTTT-TGTATG-GATTATCAAAGGCG-TTTTTGTCCAAAAT
5379258 GA
63 GA
* *
5379260 CTTTAATAATCCCTTTAATAAAATTTTTTGTATGGATTATTAAAGGCGTTTTTGTCCAAAAATG-
1 CTTTAATAATCCCTTCAATAAAATTTTTTGTATGGATTATCAAAGGCGTTTTTGTCC-AAAATGA
* ** * ** * *
5379324 CATTCAATAATAACTTC--CAAAATTTTTTGTATGGATTATTGAAGGCATTTTTAGTCGAAAAT-
1 C-TTTAATAATCCCTTCAATAAAATTTTTTGTATGGATTATCAAAGGCGTTTTT-GTCCAAAATG
5379386 A
64 A
* * * ** * *
5379387 CCTTCAATAATCCCTCTC--CAAAATTTTTTGAATGGATTATTGAAGGTGTTTTTGGCCAAAAAT
1 -CTTTAATAATCCCT-TCAATAAAATTTTTTGTATGGATTATCAAAGGCGTTTTTGTCC-AAAAT
*
5379450 GC
63 GA
*
5379452 CTTCAATAATC
1 CTTTAATAATC
5379463 ACATTCAAAT
Statistics
Matches: 172, Mismatches: 20, Indels: 22
0.80 0.09 0.10
Matches are distributed among these distances:
63 50 0.29
64 83 0.48
65 38 0.22
66 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (64 bp):
CTTTAATAATCCCTTCAATAAAATTTTTTGTATGGATTATCAAAGGCGTTTTTGTCCAAAATGA
Found at i:5379369 original size:63 final size:64
Alignment explanation
Indices: 5379279--5379461 Score: 253
Period size: 64 Copynumber: 2.9 Consensus size: 64
5379269 TCCCTTTAAT
* *
5379279 AAAATTTTTTGTATGGATTATTAAAGGCGTTTTTGTCCAAAAATGCATTCAATAATAACT-TCC
1 AAAATTTTTTGTATGGATTATTGAAGGCGTTTTTGTCCAAAAATGCCTTCAATAATAACTCTCC
* * * **
5379342 AAAATTTTTTGTATGGATTATTGAAGGCATTTTTAGT-CGAAAATACCTTCAATAATCCCTCTCC
1 AAAATTTTTTGTATGGATTATTGAAGGCGTTTTT-GTCCAAAAATGCCTTCAATAATAACTCTCC
* * *
5379406 AAAATTTTTTGAATGGATTATTGAAGGTGTTTTTGGCCAAAAATGCCTTCAATAAT
1 AAAATTTTTTGTATGGATTATTGAAGGCGTTTTTGTCCAAAAATGCCTTCAATAAT
5379462 CACATTCAAA
Statistics
Matches: 104, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
63 51 0.49
64 53 0.51
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.39
Consensus pattern (64 bp):
AAAATTTTTTGTATGGATTATTGAAGGCGTTTTTGTCCAAAAATGCCTTCAATAATAACTCTCC
Found at i:5380042 original size:368 final size:368
Alignment explanation
Indices: 5379348--5380044 Score: 981
Period size: 368 Copynumber: 1.9 Consensus size: 368
5379338 TTCCAAAATT
5379348 TTTTGTATGGATTATTGAAGGCATTTTTAGTCGAAAATACCTTCAATAATCCCTCTCCAAAATTT
1 TTTTGTATGGATTATTGAAGGCATTTTTAGTCGAAAATACCTTCAATAATCCCTCTCCAAAATTT
* * * ** *
5379413 TTTGAATGGATTATTGAAGGTGTTTTTGGCCAAAAATGCCTTCAATAATCACATTCAAATTTTTG
66 TTTGAATGGATTATTAAAAGTGTTTTTGACCAAAAACACCTTCAATAATCACAATCAAATTTTTG
* * * * ** *
5379478 TAAGCTAATAGTTTTTTTGTTTTAAGCCTATATTGATGGTTACGTTAATAATAATTAATATATAA
131 TAAGCCAATAATTTTTTTGTTTTAAGCCTATACTAACAGTTACATTAATAATAATTAATATATAA
* * * *
5379543 CATATTTATATTGACGGATAGTCATATACCATCAAAAAAAATTTATTTATACTGACGGTTAAATA
196 CATATTTATATTGACAGATAATCAGATACCATCAAAAAAAATTTATTTATACCGACGGTTAAATA
* * **
5379608 AATTGTTCATATAAATATGGTATATTTTGATGGTATTAAAAATCTATCAATAAAAGGTTTTTTTA
261 AAATGTTCATATAAATATGGTATATTCTGATGGTATTAAAAATCTATCAATAAAAGGTCCTTTTA
5379673 CTGAAGGAATTTAGCCGTCAGTAAATAATTCATACAAAAAAAA
326 CTGAAGGAATTTAGCCGTCAGTAAATAATTCATACAAAAAAAA
* * * *
5379716 TTTTGTATTGATTATTGAAGGC-TTTTTTGGCTGAAAATGCCTTCAATAATCCCTCTCCAAAATT
1 TTTTGTATGGATTATTGAAGGCATTTTTAGTC-GAAAATACCTTCAATAATCCCTCTCCAAAATT
* *
5379780 TTTTGAATGGATTATTAAAAGTGTTTTTGACCAAAAACACCTTCAATAATCTCAATCAATTTTTT
65 TTTTGAATGGATTATTAAAAGTGTTTTTGACCAAAAACACCTTCAATAATCACAATCAAATTTTT
* *
5379845 GTAAGCCAATAATTTTTTTGTTTTGAGCCTATACTAACAGTTACATTAAT-AT-CTGTCAATATA
130 GTAAGCCAATAATTTTTTTGTTTTAAGCCTATACTAACAGTTACATTAATAATAAT-T-AATATA
* * *
5379908 TAACATATTTATATTGATAGATAATCAGATACCATCAAAAAAAGTTTATTTATACCGATGGTTAA
193 TAACATATTTATATTGACAGATAATCAGATACCATCAAAAAAAATTTATTTATACCGACGGTTAA
** * * *
5379973 ATAAAATGTTGGTATAAGTATGGTATATTCTGATGGTATTAAAAAT-TCGTCAGTAAAA-GTCCC
258 ATAAAATGTTCATATAAATATGGTATATTCTGATGGTATTAAAAATCT-ATCAATAAAAGGT-CC
5380036 TTTTACTGA
321 TTTTACTGA
5380045 TGAAATTTGA
Statistics
Matches: 287, Mismatches: 37, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
366 1 0.00
367 13 0.05
368 273 0.95
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (368 bp):
TTTTGTATGGATTATTGAAGGCATTTTTAGTCGAAAATACCTTCAATAATCCCTCTCCAAAATTT
TTTGAATGGATTATTAAAAGTGTTTTTGACCAAAAACACCTTCAATAATCACAATCAAATTTTTG
TAAGCCAATAATTTTTTTGTTTTAAGCCTATACTAACAGTTACATTAATAATAATTAATATATAA
CATATTTATATTGACAGATAATCAGATACCATCAAAAAAAATTTATTTATACCGACGGTTAAATA
AAATGTTCATATAAATATGGTATATTCTGATGGTATTAAAAATCTATCAATAAAAGGTCCTTTTA
CTGAAGGAATTTAGCCGTCAGTAAATAATTCATACAAAAAAAA
Found at i:5384453 original size:15 final size:15
Alignment explanation
Indices: 5384414--5384454 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
5384404 TTTCTCAATT
* *
5384414 CAATATCATAAGATG
1 CAATATCATGAGATA
*
5384429 CATTATCATGAGATA
1 CAATATCATGAGATA
5384444 CAATATCATGA
1 CAATATCATGA
5384455 CTACGATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (15 bp):
CAATATCATGAGATA
Found at i:5392735 original size:21 final size:21
Alignment explanation
Indices: 5392696--5392747 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
5392686 CAAATCAACT
* *
5392696 AATAAATT-AACATATAATTA
1 AATAAATTCAACAAAAAATTA
5392716 AATAAATTCAACAAAAAATTA
1 AATAAATTCAACAAAAAATTA
5392737 AATCAAATTCA
1 AAT-AAATTCA
5392748 CATATGATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 8 0.29
21 13 0.46
22 7 0.25
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.29
Consensus pattern (21 bp):
AATAAATTCAACAAAAAATTA
Found at i:5393666 original size:19 final size:19
Alignment explanation
Indices: 5393614--5393667 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 19
5393604 AATAAGATTC
5393614 CAAATTAAATTTTCAGGTCT
1 CAAATTAAATTTT-AGGTCT
*
5393634 CAAACTTTAATTTTAGG-CT
1 CAAA-TTAAATTTTAGGTCT
5393653 CAAATTAAACTTTTA
1 CAAATTAAA-TTTTA
5393668 AGTCCAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 4 0.13
19 11 0.37
20 7 0.23
21 8 0.27
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (19 bp):
CAAATTAAATTTTAGGTCT
Found at i:5393697 original size:6 final size:6
Alignment explanation
Indices: 5393678--5393707 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
5393668 AGTCCAATTG
*
5393678 TATTTT TATCTT TATTTT TATTTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT
5393708 CCAAAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (6 bp):
TATTTT
Found at i:5394928 original size:129 final size:129
Alignment explanation
Indices: 5394803--5395043 Score: 358
Period size: 129 Copynumber: 1.9 Consensus size: 129
5394793 CATTTTTAGT
* * *
5394803 AAAAAAAGCCTTCAATAATCTCTTG-AAAATTTTGGAAGGGATTATGGAAGGCATTTTTGGCCAA
1 AAAAAAA-CCTTCAATAATCCCTTGAAAAAATTTGGAAGGGATTATGGAAGGCATTTTTGACCAA
* *
5394867 AAATACTTATAATAATCTCTCATAAAAATTTATTGAGGGGATTATTTATGGTTTTTTTTTTTACC
65 AAATACTTACAATAATCTCTCATAAAAATTTATTGAGAGGATTATTTATGGTTTTTTTTTTTACC
* * * * * *
5394932 AGAAACACCTTCAATAATCCCTTGAAAAAATTTGGAATGGATTATTGAAGGTATTTTTGACTAAA
1 AAAAAAACCTTCAATAATCCCTTGAAAAAATTTGGAAGGGATTATGGAAGGCATTTTTGACCAAA
*
5394997 AATACTTGCAATAATCTCTCATAAAAATTTATTGAGAGGATTATTTA
66 AATACTTACAATAATCTCTCATAAAAATTTATTGAGAGGATTATTTA
5395044 AAGCATTTTT
Statistics
Matches: 99, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
128 16 0.16
129 83 0.84
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (129 bp):
AAAAAAACCTTCAATAATCCCTTGAAAAAATTTGGAAGGGATTATGGAAGGCATTTTTGACCAAA
AATACTTACAATAATCTCTCATAAAAATTTATTGAGAGGATTATTTATGGTTTTTTTTTTTACC
Found at i:5395023 original size:62 final size:61
Alignment explanation
Indices: 5394812--5395026 Score: 166
Period size: 62 Copynumber: 3.4 Consensus size: 61
5394802 TAAAAAAAGC
* * * *
5394812 CTTCAATAATCTCT--TGAAAATTTTGGAAGGGATTATGGAAGGCATTTTTGGCCAAAAATA
1 CTTCAATAATCTCTCAT-AAAAATTTGGAAGGGATTATTGAAGGTATTTTTGACCAAAAATA
* * * * * * * *
5394872 CTTATAATAATCTCTCATAAAAATTTATTGAGGGGATTATTTATGGTTTTTTTTTTTACCAGAAA
1 CTT-CAATAATCTCTCATAAAAA-TT-TGGAAGGGATTATTGAAGG---TATTTTTGACCAAAAA
*
5394937 CA
60 TA
* * * *
5394939 CCTTCAATAATCCCTTGA-AAAAATTTGGAATGGATTATTGAAGGTATTTTTGACTAAAAATA
1 -CTTCAATAATCTC-TCATAAAAATTTGGAAGGGATTATTGAAGGTATTTTTGACCAAAAATA
5395001 CTTGCAATAATCTCTCATAAAAATTT
1 CTT-CAATAATCTCTCATAAAAATTT
5395027 ATTGAGAGGA
Statistics
Matches: 115, Mismatches: 28, Indels: 22
0.70 0.17 0.13
Matches are distributed among these distances:
60 3 0.03
61 15 0.13
62 34 0.30
63 3 0.03
64 14 0.12
65 14 0.12
66 2 0.02
67 25 0.22
68 5 0.04
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (61 bp):
CTTCAATAATCTCTCATAAAAATTTGGAAGGGATTATTGAAGGTATTTTTGACCAAAAATA
Found at i:5395053 original size:129 final size:125
Alignment explanation
Indices: 5394811--5395083 Score: 350
Period size: 129 Copynumber: 2.2 Consensus size: 125
5394801 GTAAAAAAAG
* * *
5394811 CCTTCAATAATCTCTTG-AAAATTTTGGAAGGGATTATGGAAGGCATTTTTGGCCAAAAATACTT
1 CCTTCAATAATCCCTTGAAAAAATTTGGAAGGGATTATGGAAGGCATTTTTGACCAAAAATACTT
* * ** **
5394875 ATAATAATCTCTCATAAAAATTTATTGAGGGGATTATTTATGGTTTTTTTTTTTACCAGAAACA
66 ACAATAATCTCTCATAAAAATTTATTGAGAGGATTATTTAAAG----CATTTTTACCAGAAACA
* * * *
5394939 CCTTCAATAATCCCTTGAAAAAATTTGGAATGGATTATTGAAGGTATTTTTGACTAAAAATACTT
1 CCTTCAATAATCCCTTGAAAAAATTTGGAAGGGATTATGGAAGGCATTTTTGACCAAAAATACTT
*
5395004 GCAATAATCTCTCATAAAAATTTATTGAGAGGATTATTTAAAGCATTTTTACCAGAAACA
66 ACAATAATCTCTCATAAAAATTTATTGAGAGGATTATTTAAAGCATTTTTACCAGAAACA
* *
5395064 CCTTAAATAACCCCATTGAA
1 CCTTCAATAATCCC-TTGAA
5395084 TTTTTTGTAA
Statistics
Matches: 127, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
125 27 0.21
126 5 0.04
128 16 0.13
129 79 0.62
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.36
Consensus pattern (125 bp):
CCTTCAATAATCCCTTGAAAAAATTTGGAAGGGATTATGGAAGGCATTTTTGACCAAAAATACTT
ACAATAATCTCTCATAAAAATTTATTGAGAGGATTATTTAAAGCATTTTTACCAGAAACA
Found at i:5395137 original size:125 final size:126
Alignment explanation
Indices: 5394824--5395137 Score: 287
Period size: 129 Copynumber: 2.5 Consensus size: 126
5394814 TCAATAATCT
* * ** * * * * * **
5394824 CTTG-AAAATTTTGGAAGGGATTATGGAAGGCATTTTTGGCCAAAAATACTTATAATAATCTCTC
1 CTTGAAAAAATTTGGAATGGATTATTCAAGGTATTTCTGACAAAAAAGACTTGCAATAATCTCTC
* ** ** * *
5394888 ATAAAAATTTATTGAGGGGATTATTTATGGTTTTTTTTTTTACCAGAAACACCTTCAATAATCC
66 ATAAAAATTTATTGAGAGGATTATTTAAAG---TCATTTTTACCAGAAACACCTTAAATAACCC
* * * *
5394952 CTTGAAAAAATTTGGAATGGATTATTGAAGGTATTTTTGACTAAAAATACTTGCAATAATCTCTC
1 CTTGAAAAAATTTGGAATGGATTATTCAAGGTATTTCTGACAAAAAAGACTTGCAATAATCTCTC
5395017 ATAAAAATTTATTGAGAGGATTATTTAAAG-CATTTTTACCAGAAACACCTTAAATAACCC
66 ATAAAAATTTATTGAGAGGATTATTTAAAGTCATTTTTACCAGAAACACCTTAAATAACCC
*** * * *
5395077 CATTG-AATTTTTTGTAA-GGAATTATTCAAGGTGTTTCTGGCAAAAAAGACCTTG-AATAATC
1 C-TTGAAAAAATTTGGAATGG-ATTATTCAAGGTATTTCTGACAAAAAAGA-CTTGCAATAATC
5395138 CAAAAAAAAA
Statistics
Matches: 157, Mismatches: 25, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
124 2 0.01
125 65 0.41
126 7 0.04
128 4 0.03
129 79 0.50
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (126 bp):
CTTGAAAAAATTTGGAATGGATTATTCAAGGTATTTCTGACAAAAAAGACTTGCAATAATCTCTC
ATAAAAATTTATTGAGAGGATTATTTAAAGTCATTTTTACCAGAAACACCTTAAATAACCC
Found at i:5409969 original size:24 final size:24
Alignment explanation
Indices: 5409929--5409975 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
5409919 AAACCATATT
* *
5409929 ATATTATGATTATAAATA-AATTA
1 ATATTATAATTAAAAATATAATTA
5409952 ATATTAATAATTAAAAATATAATT
1 ATATT-ATAATTAAAAATATAATT
5409976 CAAAAGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 11 0.55
25 4 0.20
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
ATATTATAATTAAAAATATAATTA
Found at i:5411108 original size:22 final size:22
Alignment explanation
Indices: 5411080--5411127 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
5411070 CGCCAGGATT
*
5411080 TCAAGGTTTATTTTCTTAATCC
1 TCAAGGTTTATTTTCTTAATCA
*
5411102 TCAAGGTTTGTTTTCTTAATCA
1 TCAAGGTTTATTTTCTTAATCA
5411124 TCAA
1 TCAA
5411128 TATTGAATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.48
Consensus pattern (22 bp):
TCAAGGTTTATTTTCTTAATCA
Found at i:5412474 original size:27 final size:27
Alignment explanation
Indices: 5412424--5412481 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
5412414 TTTATGAAAC
* *
5412424 TAAATCATAATTTTTTAACCAAAAAAT
1 TAAATCATAATTTTTTAACAAAAAAAA
*
5412451 TAAATCATAATTTTTTAATAAAAAAAA
1 TAAATCATAATTTTTTAACAAAAAAAA
5412478 TAAA
1 TAAA
5412482 AAAAAGATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (27 bp):
TAAATCATAATTTTTTAACAAAAAAAA
Found at i:5416209 original size:10 final size:10
Alignment explanation
Indices: 5416165--5416219 Score: 55
Period size: 10 Copynumber: 5.9 Consensus size: 10
5416155 GATTGATCAC
5416165 TTATTAAAAT
1 TTATTAAAAT
**
5416175 TTA-T-ATTT
1 TTATTAAAAT
*
5416183 TTAATAAAA-
1 TTATTAAAAT
5416192 TT-TTAAAAT
1 TTATTAAAAT
5416201 TTATTAAAAT
1 TTATTAAAAT
5416211 TTATTAAAA
1 TTATTAAAA
5416220 AGATAATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
8 10 0.28
9 6 0.17
10 20 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (10 bp):
TTATTAAAAT
Found at i:5418354 original size:15 final size:15
Alignment explanation
Indices: 5418322--5418454 Score: 85
Period size: 15 Copynumber: 8.9 Consensus size: 15
5418312 TTTAGGGTTT
5418322 GGGTTTTGAGATTT--
1 GGGTTTTG-GATTTAA
*
5418336 GGGTTTTTGATTTAA
1 GGGTTTTGGATTTAA
*
5418351 GGG-TTTGGATTTTA
1 GGGTTTTGGATTTAA
* * *
5418365 GGAATTTTGAATTTTA
1 GG-GTTTTGGATTTAA
*
5418381 GGG-TTTGGATTTTAT
1 GGGTTTTGGA-TTTAA
* *
5418396 GGGTTTCGGATTTTA
1 GGGTTTTGGATTTAA
*
5418411 GGGGTTTGGATTTAA
1 GGGTTTTGGATTTAA
** *
5418426 GGGATTTTAAATTTTA
1 GGG-TTTTGGATTTAA
*
5418442 GGATTTTGGATTT
1 GGGTTTTGGATTT
5418455 TATGAGATTT
Statistics
Matches: 90, Mismatches: 22, Indels: 13
0.72 0.18 0.10
Matches are distributed among these distances:
13 5 0.06
14 23 0.26
15 35 0.39
16 27 0.30
ACGTcount: A:0.20, C:0.01, G:0.30, T:0.50
Consensus pattern (15 bp):
GGGTTTTGGATTTAA
Found at i:5418419 original size:31 final size:31
Alignment explanation
Indices: 5418346--5418480 Score: 130
Period size: 31 Copynumber: 4.4 Consensus size: 31
5418336 GGGTTTTTGA
* *
5418346 TTTAAGGGTTTGGATTTTA-GGAATTTTGAAT
1 TTTAGGGGTTTGGATTTTATGG-ATTTCGAAT
* *
5418377 TTTA-GGGTTTGGATTTTATGGGTTTCGGAT
1 TTTAGGGGTTTGGATTTTATGGATTTCGAAT
* * **
5418407 TTTAGGGGTTTGGATTTAAGGGATTTTAAAT
1 TTTAGGGGTTTGGATTTTATGGATTTCGAAT
** **
5418438 TTTAGGATTTTGGATTTTATGAGATTTCGGCT
1 TTTAGGGGTTTGGATTTTATG-GATTTCGAAT
5418470 TTTAGGGGTTT
1 TTTAGGGGTTT
5418481 TAGAAACCTA
Statistics
Matches: 82, Mismatches: 19, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
30 24 0.29
31 43 0.52
32 15 0.18
ACGTcount: A:0.20, C:0.02, G:0.29, T:0.49
Consensus pattern (31 bp):
TTTAGGGGTTTGGATTTTATGGATTTCGAAT
Found at i:5418455 original size:15 final size:15
Alignment explanation
Indices: 5418354--5418475 Score: 93
Period size: 16 Copynumber: 7.9 Consensus size: 15
5418344 GATTTAAGGG
5418354 TTTGGATTTTAGGAAT
1 TTTGGATTTTAGG-AT
* *
5418370 TTTGAATTTTAGG-G
1 TTTGGATTTTAGGAT
*
5418384 TTTGGATTTTATGGGT
1 TTTGGATTTTA-GGAT
* **
5418400 TTCGGATTTTAGGGG
1 TTTGGATTTTAGGAT
*
5418415 TTTGGATTTAAGGGAT
1 TTTGGATTTTA-GGAT
**
5418431 TTTAAATTTTAGGAT
1 TTTGGATTTTAGGAT
5418446 TTTGGATTTTATGAGAT
1 TTTGGATTTTA-G-GAT
* *
5418463 TTCGGCTTTTAGG
1 TTTGGATTTTAGG
5418476 GGTTTTAGAA
Statistics
Matches: 84, Mismatches: 17, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
14 10 0.12
15 28 0.33
16 34 0.40
17 12 0.14
ACGTcount: A:0.20, C:0.02, G:0.28, T:0.49
Consensus pattern (15 bp):
TTTGGATTTTAGGAT
Found at i:5419626 original size:20 final size:18
Alignment explanation
Indices: 5419584--5419626 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
5419574 TGTGTGTGTC
5419584 TTTTGTTTTTGTTTTTCT
1 TTTTGTTTTTGTTTTTCT
* *
5419602 GTTTGTGTTTGTGTTTTTTT
1 -TTT-TGTTTTTGTTTTTCT
5419622 TTTTG
1 TTTTG
5419627 GTTGGTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 2 0.10
19 6 0.29
20 13 0.62
ACGTcount: A:0.00, C:0.02, G:0.19, T:0.79
Consensus pattern (18 bp):
TTTTGTTTTTGTTTTTCT
Found at i:5419996 original size:3 final size:3
Alignment explanation
Indices: 5419963--5419987 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
5419953 CTTTTTTAAA
5419963 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
5419988 AAATTATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:5420374 original size:88 final size:87
Alignment explanation
Indices: 5420173--5420408 Score: 292
Period size: 88 Copynumber: 2.7 Consensus size: 87
5420163 ACACCGTAAA
* * ** * *
5420173 TCAAAAAATAATGAATCGATCAAGATAACATCATTAATCGAATTTATGCCCGAAGGTCTTAAGAA
1 TCAAAAAATAATGAATCGATCAGGATAACACCACAAATCGAAATTATGCCCGGAGGTCTTAAGAA
*
5420238 TTGACTGAGATAACACCACAAG
66 TCGACTGAGATAACACCACAAG
*
5420260 TCAAAAAATAAAGAATCGATCAGGATAACACCACAAATCGAAATTATGCCCGGAGGTCTTATAGA
1 TCAAAAAATAATGAATCGATCAGGATAACACCACAAATCGAAATTATGCCCGGAGGTCTTA-AGA
* *
5420325 ATCGACTGGGATAACTCCACAAG
65 ATCGACTGAGATAACACCACAAG
** * * * * * * *
5420348 TTGAAAGATAATGAATCAATCGGGATATCACTACGAATCGAAATTATGCCCGGAGGACTTA
1 TCAAAAAATAATGAATCGATCAGGATAACACCACAAATCGAAATTATGCCCGGAGGTCTTA
5420409 GAAATCATAC
Statistics
Matches: 128, Mismatches: 20, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
87 54 0.42
88 74 0.58
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (87 bp):
TCAAAAAATAATGAATCGATCAGGATAACACCACAAATCGAAATTATGCCCGGAGGTCTTAAGAA
TCGACTGAGATAACACCACAAG
Found at i:5420442 original size:110 final size:110
Alignment explanation
Indices: 5420299--5420650 Score: 384
Period size: 110 Copynumber: 3.2 Consensus size: 110
5420289 ACCACAAATC
* * * * *
5420299 GAAATTATGCCCGGAGGTCTTATAGAATCGACTGGGATAACTCCACAAGTTGAAAGATAATGAAT
1 GAAATCATACCCGGAGGTCTTATAGAATCGACTGGGATAACTCCGCAAGTCGAAAGATAAGGAAT
* * *
5420364 CAATCGGGATATCACTACGAATCGAAATTATGCCCGGAGGACTTA
66 CAATCGGGATAACACCACGAATCAAAATTATGCCCGGAGGACTTA
** * *
5420409 GAAATCATACTTGGAGGTCTTACAGAATCGACTGGGATAACAT-CGCAAGTCGAAAGATAAGGAT
1 GAAATCATACCCGGAGGTCTTATAGAATCGACTGGGATAAC-TCCGCAAGTCGAAAGATAAGGAA
* * *
5420473 TCGATTGGGATAACACCGCGAATCAAAATTATGCCCGGAGGACTTA
65 TCAATCGGGATAACACCACGAATCAAAATTATGCCCGGAGGACTTA
* * * * * * *
5420519 GAAATCATGCCCAGAGGTCTTATAGAATCAACTGGGATAACACCGCAAGTCAAAATATAAAGAAT
1 GAAATCATACCCGGAGGTCTTATAGAATCGACTGGGATAACTCCGCAAGTCGAAAGATAAGGAAT
* * * * * * *
5420584 CGATCGAGATAACATCGCGAATCAAAATTATACCCAGAGGTCTT-
66 CAATCGGGATAACACCACGAATCAAAATTATGCCCGGAGGACTTA
* * *
5420628 GAAAGTTATGCCCAGAGGTCTTA
1 GAAA-TCATACCCGGAGGTCTTA
5420651 GAGATTATGC
Statistics
Matches: 206, Mismatches: 33, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
109 4 0.02
110 201 0.98
111 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (110 bp):
GAAATCATACCCGGAGGTCTTATAGAATCGACTGGGATAACTCCGCAAGTCGAAAGATAAGGAAT
CAATCGGGATAACACCACGAATCAAAATTATGCCCGGAGGACTTA
Found at i:5420528 original size:22 final size:22
Alignment explanation
Indices: 5420498--5420540 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
5420488 CCGCGAATCA
* *
5420498 AAATTATGCCCGGAGGACTTAG
1 AAATCATGCCCAGAGGACTTAG
*
5420520 AAATCATGCCCAGAGGTCTTA
1 AAATCATGCCCAGAGGACTTA
5420541 TAGAATCAAC
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:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (22 bp):
AAATCATGCCCAGAGGACTTAG
Found at i:5420641 original size:22 final size:22
Alignment explanation
Indices: 5420610--5420672 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
5420600 GCGAATCAAA
*
5420610 ATTATACCCAGAGGTCTTGAAAG
1 ATTATGCCCAGAGGTCTT-AAAG
*
5420633 -TTATGCCCAGAGGTCTTAGAG
1 ATTATGCCCAGAGGTCTTAAAG
*
5420654 ATTATGCCCAGGGGTCTTA
1 ATTATGCCCAGAGGTCTTA
5420673 CAAATATCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 3 0.08
22 33 0.92
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (22 bp):
ATTATGCCCAGAGGTCTTAAAG
Found at i:5421111 original size:23 final size:22
Alignment explanation
Indices: 5421078--5421149 Score: 63
Period size: 25 Copynumber: 3.1 Consensus size: 22
5421068 GCGGATGCCA
* *
5421078 TGGTGCAAATGTGAAGTTTCTTG
1 TGGTGCAAATG-CAAATTTCTTG
*
5421101 TGGTGCGAATGCAAATTTCTTG
1 TGGTGCAAATGCAAATTTCTTG
* *
5421123 TGCAAGTGTAAATGCAAATATCTTG
1 TG---GTGCAAATGCAAATTTCTTG
5421148 TG
1 TG
5421150 CAAGTGCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
22 11 0.28
23 10 0.25
25 19 0.47
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.36
Consensus pattern (22 bp):
TGGTGCAAATGCAAATTTCTTG
Found at i:5421141 original size:25 final size:25
Alignment explanation
Indices: 5421103--5421160 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
5421093 GTTTCTTGTG
* *
5421103 GTGCGAATGCAAATTTCTTGTGCAA
1 GTGCAAATGCAAATATCTTGTGCAA
*
5421128 GTGTAAATGCAAATATCTTGTGCAA
1 GTGCAAATGCAAATATCTTGTGCAA
5421153 GTGCAAAT
1 GTGCAAAT
5421161 ACAAGTGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (25 bp):
GTGCAAATGCAAATATCTTGTGCAA
Found at i:5421266 original size:25 final size:25
Alignment explanation
Indices: 5421231--5421292 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
5421221 TTTTCTTATG
* *
5421231 GTGCGAATGCAAATTTCTTGTGCAA
1 GTGCAAATGCAAATATCTTGTGCAA
*
5421256 GTGTAAATGCAAATATCTTGTGCAA
1 GTGCAAATGCAAATATCTTGTGCAA
5421281 GTGCAAATGCAA
1 GTGCAAATGCAA
5421293 GTGATGCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.29
Consensus pattern (25 bp):
GTGCAAATGCAAATATCTTGTGCAA
Found at i:5421285 original size:128 final size:128
Alignment explanation
Indices: 5421057--5421318 Score: 497
Period size: 128 Copynumber: 2.0 Consensus size: 128
5421047 ACAAATACCT
*
5421057 TTTCTTAGGATGCGGATGCCATGGTGCAAATGTGAAGTTTCTTGTGGTGCGAATGCAAATTTCTT
1 TTTCTTAGGATGCGGATGCCATGGTGCAAATGTGAAGTTTCTTATGGTGCGAATGCAAATTTCTT
5421122 GTGCAAGTGTAAATGCAAATATCTTGTGCAAGTGCAAATACAAGTGATGCAAATGCGAATGTC
66 GTGCAAGTGTAAATGCAAATATCTTGTGCAAGTGCAAATACAAGTGATGCAAATGCGAATGTC
*
5421185 TTTCTTAGGATGCGGATGCCATGGTGCAAATGTGAATTTTCTTATGGTGCGAATGCAAATTTCTT
1 TTTCTTAGGATGCGGATGCCATGGTGCAAATGTGAAGTTTCTTATGGTGCGAATGCAAATTTCTT
*
5421250 GTGCAAGTGTAAATGCAAATATCTTGTGCAAGTGCAAATGCAAGTGATGCAAATGCGAATGTC
66 GTGCAAGTGTAAATGCAAATATCTTGTGCAAGTGCAAATACAAGTGATGCAAATGCGAATGTC
5421313 TTTCTT
1 TTTCTT
5421319 GTGGTACAAA
Statistics
Matches: 131, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 131 1.00
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (128 bp):
TTTCTTAGGATGCGGATGCCATGGTGCAAATGTGAAGTTTCTTATGGTGCGAATGCAAATTTCTT
GTGCAAGTGTAAATGCAAATATCTTGTGCAAGTGCAAATACAAGTGATGCAAATGCGAATGTC
Found at i:5421723 original size:130 final size:130
Alignment explanation
Indices: 5421536--5421909 Score: 466
Period size: 130 Copynumber: 2.9 Consensus size: 130
5421526 TTGGGGTAAA
* * * * *
5421536 ATAAACTGGGCTTAAA-TTTTATTGAAGGCCAGCTAAACTGGGCTTAAAACCTTATTTGAGGCCA
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAGATAAACTGGGCTTAAAACCTCATTTGAGGCCA
* * * *
5421600 AATAAAATGGACTTAAACTTTATTGATGTCCAAATAAACTGGACTTAAATGTCATTGATGACTAG
66 AATAAAATGGACTTAAACTTCATTGATGGCCAAATAAACTGGACTTAAATGTCATCGATGACCAG
* * *
5421665 ATAAACTAGGCTTAAAGCTTCATTGATGGCCAGATAAATTGGGCTTAAAACCTCATTTGAGGCTA
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAGATAAACTGGGCTTAAAACCTCATTTGAGGCCA
* * *
5421730 GATAAAATGGGCTTAAACTTCATTGATGGCCAAATAAACTGGGCTTAAATGTCATCGATGACCAG
66 AATAAAATGGACTTAAACTTCATTGATGGCCAAATAAACTGGACTTAAATGTCATCGATGACCAG
* *** *
5421795 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAGATAAACTAGGCTTAAAGTTTCA-TTAATGGCC
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAGATAAACTGGGCTTAAAACCTCATTTGA-GGCC
* * * * * *
5421859 AGATTAACTGGGCTTAAATCTTCATTTGA-GGCCAGATAAACTGGGCTTAAA
65 AAATAAAATGGACTTAAA-CTTCA-TTGATGGCCAAATAAACTGGACTTAAA
5421910 GCTTTATCGA
Statistics
Matches: 215, Mismatches: 26, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
129 18 0.08
130 167 0.78
131 26 0.12
132 4 0.02
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (130 bp):
ATAAACTGGGCTTAAAGCTTCATTGATGGCCAGATAAACTGGGCTTAAAACCTCATTTGAGGCCA
AATAAAATGGACTTAAACTTCATTGATGGCCAAATAAACTGGACTTAAATGTCATCGATGACCAG
Found at i:5421816 original size:65 final size:64
Alignment explanation
Indices: 5421536--5421909 Score: 376
Period size: 65 Copynumber: 5.8 Consensus size: 64
5421526 TTGGGGTAAA
* * * * ** * *
5421536 ATAAACTGGGCTTAAATTTTATTGAAGGCCAGCTAAACTGGGCTTAAAACCTTATTTGA-GGCCA
1 ATAAACTGGGCTTAAACTTCATTGATGGCCAGATAAACTGGGCTT-AAATGTCA-TTGATGACCA
*
5421600 A
64 G
* * * * * * *
5421601 ATAAAATGGACTTAAACTTTATTGATGTCCAAATAAACTGGACTTAAATGTCATTGATGACTAG
1 ATAAACTGGGCTTAAACTTCATTGATGGCCAGATAAACTGGGCTTAAATGTCATTGATGACCAG
* * ** * *
5421665 ATAAACTAGGCTTAAAGCTTCATTGATGGCCAGATAAATTGGGCTTAAAACCTCATTTGA-GGCT
1 ATAAACTGGGCTTAAA-CTTCATTGATGGCCAGATAAACTGGGCTT-AAATGTCA-TTGATGACC
5421729 AG
63 AG
* * *
5421731 ATAAAATGGGCTTAAACTTCATTGATGGCCAAATAAACTGGGCTTAAATGTCATCGATGACCAG
1 ATAAACTGGGCTTAAACTTCATTGATGGCCAGATAAACTGGGCTTAAATGTCATTGATGACCAG
* * * *
5421795 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAGATAAACTAGGCTTAAAGTTTCATTAATGGCCA
1 ATAAACTGGGCTTAAA-CTTCATTGATGGCCAGATAAACTGGGCTTAAA-TGTCATTGATGACCA
5421860 G
64 G
*
5421861 ATTAACTGGGCTTAAATCTTCATTTGA-GGCCAGATAAACTGGGCTTAAA
1 ATAAACTGGGCTTAAA-CTTCA-TTGATGGCCAGATAAACTGGGCTTAAA
5421910 GCTTTATCGA
Statistics
Matches: 257, Mismatches: 44, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
63 7 0.03
64 46 0.18
65 118 0.46
66 78 0.30
67 8 0.03
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (64 bp):
ATAAACTGGGCTTAAACTTCATTGATGGCCAGATAAACTGGGCTTAAATGTCATTGATGACCAG
Found at i:5421943 original size:33 final size:33
Alignment explanation
Indices: 5421536--5421943 Score: 388
Period size: 33 Copynumber: 12.5 Consensus size: 33
5421526 TTGGGGTAAA
* * *
5421536 ATAAACTGGGCTTAAA-TTTTATTGAAGGCCAG
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
* * *
5421568 CTAAACTGGGCTTAAAACCTT-ATTTGA-GGCCAA
1 ATAAACTGGGCTT-AAAGCTTCA-TTGATGGCCAG
* * * * *
5421601 ATAAAATGGACTTAAA-CTTTATTGATGTCCAA
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
* * *
5421633 ATAAACTGGACTTAAA--TGTCATTGATGACTAG
1 ATAAACTGGGCTTAAAGCT-TCATTGATGGCCAG
*
5421665 ATAAACTAGGCTTAAAGCTTCATTGATGGCCAG
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
* * * *
5421698 ATAAATTGGGCTTAAAACCTCATTTGA-GGCTAG
1 ATAAACTGGGCTTAAAGCTTCA-TTGATGGCCAG
* *
5421731 ATAAAATGGGCTTAAA-CTTCATTGATGGCCAA
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
* *
5421763 ATAAACTGGGCTTAAA--TGTCATCGATGACCAG
1 ATAAACTGGGCTTAAAGCT-TCATTGATGGCCAG
5421795 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
* * *
5421828 ATAAACTAGGCTTAAAGTTTCATTAATGGCCAG
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
* *
5421861 ATTAACTGGGCTTAAATCTTCATTTGA-GGCCAG
1 ATAAACTGGGCTTAAAGCTTCA-TTGATGGCCAG
* * *
5421894 ATAAACTGGGCTTAAAGCTTTATCGATGGCTAG
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
* *
5421927 ATATATTGGGCTTAAAG
1 ATAAACTGGGCTTAAAG
5421944 TTTTTTTTTT
Statistics
Matches: 315, Mismatches: 46, Indels: 29
0.81 0.12 0.07
Matches are distributed among these distances:
31 13 0.04
32 113 0.36
33 174 0.55
34 15 0.05
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (33 bp):
ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
Found at i:5422796 original size:18 final size:15
Alignment explanation
Indices: 5422758--5422804 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
5422748 TTTCCACCCA
5422758 TTCATTTCTTTTTTT
1 TTCATTTCTTTTTTT
5422773 TT-ATTTCTTCCTTTTCT
1 TTCATTTCTT--TTTT-T
5422790 TTCATTT-TTTTTTT
1 TTCATTTCTTTTTTT
5422804 T
1 T
5422805 GCATCCTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
14 9 0.32
15 6 0.21
16 4 0.14
17 5 0.18
18 4 0.14
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (15 bp):
TTCATTTCTTTTTTT
Found at i:5422811 original size:27 final size:27
Alignment explanation
Indices: 5422762--5422813 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
5422752 CACCCATTCA
* *
5422762 TTTCTTTTTTTTTATTTCTTCCTTTTC
1 TTTCTTTTTTTTTATTGCATCCTTTTC
5422789 TTTCATTTTTTTTT-TTGCATCCTTT
1 TTTC-TTTTTTTTTATTGCATCCTTT
5422814 CACTGAGTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 13 0.59
28 9 0.41
ACGTcount: A:0.06, C:0.17, G:0.02, T:0.75
Consensus pattern (27 bp):
TTTCTTTTTTTTTATTGCATCCTTTTC
Found at i:5425064 original size:25 final size:25
Alignment explanation
Indices: 5425030--5425086 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
5425020 ACTGGTATTA
**
5425030 CTTCAAGAATGCCTATGATAAATTG
1 CTTCAAGAATGCCTATGATAAATCC
5425055 CTTCAAGAATGCCTATGATAAATCC
1 CTTCAAGAATGCCTATGATAAATCC
5425080 CTTCAAG
1 CTTCAAG
5425087 TACGAATTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (25 bp):
CTTCAAGAATGCCTATGATAAATCC
Found at i:5429892 original size:16 final size:16
Alignment explanation
Indices: 5429871--5429901 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5429861 TTAGGGTTTT
5429871 GATTTTAGAGTTTGGA
1 GATTTTAGAGTTTGGA
*
5429887 GATTTTAGGGTTTGG
1 GATTTTAGAGTTTGG
5429902 GTTTTGAGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.45
Consensus pattern (16 bp):
GATTTTAGAGTTTGGA
Found at i:5429968 original size:31 final size:31
Alignment explanation
Indices: 5429922--5430013 Score: 98
Period size: 31 Copynumber: 2.9 Consensus size: 31
5429912 TTGCGGTTTT
*
5429922 GATTTAAG-GGTTTGGATTTTAGGAGTTTCA
1 GATTTTAGAGGTTTGGATTTTAGGAGTTTCA
* *
5429952 GATTTTAGAGGTTTGGATTTAAAGGA-TTTTA
1 GATTTTAGAGGTTTGGATTT-TAGGAGTTTCA
* *
5429983 GATTTTAGGAGATTTTGGATTTTAGGGGTTT
1 GATTTTA-GAG-GTTTGGATTTTAGGAGTTT
5430014 TAGAAACCTA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
30 7 0.14
31 22 0.43
32 10 0.20
33 12 0.24
ACGTcount: A:0.24, C:0.01, G:0.29, T:0.46
Consensus pattern (31 bp):
GATTTTAGAGGTTTGGATTTTAGGAGTTTCA
Found at i:5429996 original size:17 final size:16
Alignment explanation
Indices: 5429936--5430017 Score: 78
Period size: 16 Copynumber: 5.1 Consensus size: 16
5429926 TAAGGGTTTG
*
5429936 GATTTTAGGAGTTTCA
1 GATTTTAGGAGTTTTA
* *
5429952 GATTTTA-GAGGTTTG
1 GATTTTAGGAGTTTTA
*
5429967 GATTTAAAGGA-TTTTA
1 GATTT-TAGGAGTTTTA
*
5429983 GATTTTAGGAGATTTTG
1 GATTTTAGGAG-TTTTA
*
5430000 GATTTTAGGGGTTTTA
1 GATTTTAGGAGTTTTA
5430016 GA
1 GA
5430018 AACCTAGGAT
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
15 14 0.27
16 22 0.42
17 16 0.31
ACGTcount: A:0.26, C:0.01, G:0.28, T:0.45
Consensus pattern (16 bp):
GATTTTAGGAGTTTTA
Found at i:5431125 original size:5 final size:6
Alignment explanation
Indices: 5431111--5431145 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
5431101 TGTGTGTGTC
*
5431111 TTTTGT TTTTGT TTTTCT ATTTTGT TTTTGT TTTT
1 TTTTGT TTTTGT TTTTGT -TTTTGT TTTTGT TTTT
5431146 TGGTTGGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.03, C:0.03, G:0.11, T:0.83
Consensus pattern (6 bp):
TTTTGT
Found at i:5431481 original size:15 final size:15
Alignment explanation
Indices: 5431463--5431494 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
5431453 GTTTTTCTCT
5431463 TTTTTTGTTTTTTTA
1 TTTTTTGTTTTTTTA
5431478 TTTTTTGTTTTTTTA
1 TTTTTTGTTTTTTTA
5431493 TT
1 TT
5431495 ATAATTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.00, G:0.06, T:0.88
Consensus pattern (15 bp):
TTTTTTGTTTTTTTA
Found at i:5432159 original size:19 final size:19
Alignment explanation
Indices: 5432131--5432172 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
5432121 TTAGCCTAAC
* *
5432131 TATTATTTTATTTATTTGT
1 TATTAGTTTATTTATTTAT
5432150 TATTAGTTTATTTATTTAT
1 TATTAGTTTATTTATTTAT
5432169 TATT
1 TATT
5432173 TTTAGGGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (19 bp):
TATTAGTTTATTTATTTAT
Found at i:5432788 original size:15 final size:15
Alignment explanation
Indices: 5432752--5432791 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
5432742 GATTTTAAAG
*
5432752 AGAGAAAGAG-AGAA
1 AGAGAAAGGGAAGAA
5432766 A-A-AAAGGGAAGAA
1 AGAGAAAGGGAAGAA
5432779 AGAGAAAGGGAAG
1 AGAGAAAGGGAAG
5432792 GAGAGATCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
12 5 0.23
13 6 0.27
14 2 0.09
15 9 0.41
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (15 bp):
AGAGAAAGGGAAGAA
Found at i:5433720 original size:68 final size:69
Alignment explanation
Indices: 5433642--5433781 Score: 205
Period size: 68 Copynumber: 2.0 Consensus size: 69
5433632 ATTATTTTCT
* * *
5433642 TTCCAAAAAAATGAAAA-AAAAAAGAAAAA-AGAATTTCTAAATAAGCTCAAATGGTGGAAAATT
1 TTCCAAAAAAA--AAAATAAAAAAAAAAAAGAGAATTTCTAAATAAGCCCAAATGGTGAAAAATT
5433705 TAGAAA
64 TAGAAA
*
5433711 TTCC-AAAAAAAAAATAAAAAAAAAAAAGAGAATTTCTAAATAGGCCCAAATGGTGAAAAATTTA
1 TTCCAAAAAAAAAAATAAAAAAAAAAAAGAGAATTTCTAAATAAGCCCAAATGGTGAAAAATTTA
5433775 GAAA
66 GAAA
5433779 TTC
1 TTC
5433782 AAGAAGAGAA
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
66 4 0.06
67 11 0.17
68 46 0.71
69 4 0.06
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (69 bp):
TTCCAAAAAAAAAAATAAAAAAAAAAAAGAGAATTTCTAAATAAGCCCAAATGGTGAAAAATTTA
GAAA
Found at i:5437973 original size:8 final size:9
Alignment explanation
Indices: 5437960--5438002 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 9
5437950 ATGAAAGATG
5437960 GAAAAAAAT
1 GAAAAAAAT
5437969 GAAAAAAAAT
1 G-AAAAAAAT
5437979 GAAAAAAAAAT
1 G--AAAAAAAT
5437990 G-AAAAAAT
1 GAAAAAAAT
5437998 GAAAA
1 GAAAA
5438003 TGAGAGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.26
9 4 0.13
10 9 0.29
11 10 0.32
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (9 bp):
GAAAAAAAT
Found at i:5437975 original size:11 final size:11
Alignment explanation
Indices: 5437961--5437996 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
5437951 TGAAAGATGG
5437961 AAAAAAATG-A
1 AAAAAAATGAA
5437971 AAAAAAATGAA
1 AAAAAAATGAA
5437982 AAAAAAATGAA
1 AAAAAAATGAA
5437993 AAAA
1 AAAA
5437997 TGAAAATGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.83, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAAAAATGAA
Found at i:5437976 original size:10 final size:10
Alignment explanation
Indices: 5437961--5437996 Score: 63
Period size: 10 Copynumber: 3.5 Consensus size: 10
5437951 TGAAAGATGG
5437961 AAAAAAATGA
1 AAAAAAATGA
5437971 AAAAAAATGAA
1 AAAAAAATG-A
5437982 AAAAAAATGA
1 AAAAAAATGA
5437992 AAAAA
1 AAAAA
5437997 TGAAAATGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 15 0.60
11 10 0.40
ACGTcount: A:0.83, C:0.00, G:0.08, T:0.08
Consensus pattern (10 bp):
AAAAAAATGA
Found at i:5437984 original size:19 final size:20
Alignment explanation
Indices: 5437961--5438002 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
5437951 TGAAAGATGG
5437961 AAAAAAATGAAAAAAAATGAA
1 AAAAAAATG-AAAAAAATGAA
5437982 AAAAAAATG-AAAAAATGAA
1 AAAAAAATGAAAAAAATGAA
5438001 AA
1 AA
5438003 TGAGAGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.57
21 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.10
Consensus pattern (20 bp):
AAAAAAATGAAAAAAATGAA
Found at i:5438556 original size:22 final size:22
Alignment explanation
Indices: 5438531--5438574 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
5438521 CCTAAAAAGA
*
5438531 TGATCTAA-AAGGACATATGGTG
1 TGATCAAATAAGGA-ATATGGTG
*
5438553 TGATCAAATAATGAATATGGTG
1 TGATCAAATAAGGAATATGGTG
5438575 ATGGATTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (22 bp):
TGATCAAATAAGGAATATGGTG
Found at i:5438808 original size:63 final size:62
Alignment explanation
Indices: 5438726--5438907 Score: 251
Period size: 63 Copynumber: 2.9 Consensus size: 62
5438716 ATTGCTAGTA
*
5438726 CTAAG-AACCTATGAGTGGTGACCCAGTGATGGAGGATGAAATTTATTTTGAAATGGTTAATG
1 CTAAGAAACCTATGAGTGGTGACCCAGTGATAGAGGATGAAATTT-TTTTGAAATGGTTAATG
* *
5438788 CTAAGAAACCTATGAGTGGTGACTCAGTGATAGAGGATGAAATTTTTTCTGAAATGGTTATTG
1 CTAAGAAACCTATGAGTGGTGACCCAGTGATAGAGGATGAAATTTTTT-TGAAATGGTTAATG
* * * *
5438851 CTGAGAAACCTATGAGTGGTGACCAAGTGATAGAAGAT-AGAATTCGTTTTGAAATGG
1 CTAAGAAACCTATGAGTGGTGACCCAGTGATAGAGGATGA-AATT-TTTTTGAAATGG
5438908 CTAGCGCTAA
Statistics
Matches: 108, Mismatches: 8, Indels: 7
0.88 0.07 0.06
Matches are distributed among these distances:
62 9 0.08
63 96 0.89
64 3 0.03
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.30
Consensus pattern (62 bp):
CTAAGAAACCTATGAGTGGTGACCCAGTGATAGAGGATGAAATTTTTTTGAAATGGTTAATG
Found at i:5439323 original size:21 final size:22
Alignment explanation
Indices: 5439286--5439332 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
5439276 TTAAGTTCTC
*
5439286 AAATGAGGAAGCTTTGAGTCTT
1 AAATGAGGAAGCTTTGACTCTT
* *
5439308 AAATGA-GAATCTTTGACTTTT
1 AAATGAGGAAGCTTTGACTCTT
5439329 AAAT
1 AAAT
5439333 AAAAACCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (22 bp):
AAATGAGGAAGCTTTGACTCTT
Found at i:5439499 original size:20 final size:20
Alignment explanation
Indices: 5439474--5439512 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5439464 AAATTCGTTA
*
5439474 AATGTGAACCTTTGAACTTG
1 AATGTGAACCTTGGAACTTG
*
5439494 AATGTGAAGCTTGGAACTT
1 AATGTGAACCTTGGAACTT
5439513 TTGGATATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (20 bp):
AATGTGAACCTTGGAACTTG
Found at i:5439937 original size:41 final size:40
Alignment explanation
Indices: 5439846--5440008 Score: 161
Period size: 41 Copynumber: 4.0 Consensus size: 40
5439836 TTTAAAGAAG
* * * *
5439846 CTTTTATTTTTCAAAGTTGTGGCGCCTCTG-TTAAAGGAGC
1 CTTTT-TTTTTCAAAGTAGTTGAGCCTCTGTTTAGAGGAGC
* *
5439886 ATTTTATTTTTCAAAGTAGTTGAGCCTCTATTTAGAGGAGC
1 CTTTT-TTTTTCAAAGTAGTTGAGCCTCTGTTTAGAGGAGC
*
5439927 CTATTTTTTTTCAAAGTCA-TTGAGCCTCTGTTTAGAAGAGC
1 CT-TTTTTTTTCAAAGT-AGTTGAGCCTCTGTTTAGAGGAGC
* *
5439968 CTTTTTATTTTTTCAAAGTTG-TGAGCCTCTGTTTAGGGGAG
1 C--TTT-TTTTTTCAAAGTAGTTGAGCCTCTGTTTAGAGGAG
5440009 TTTTGTGTCA
Statistics
Matches: 104, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
40 25 0.24
41 42 0.40
42 24 0.23
43 13 0.12
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (40 bp):
CTTTTTTTTTCAAAGTAGTTGAGCCTCTGTTTAGAGGAGC
Found at i:5440336 original size:23 final size:24
Alignment explanation
Indices: 5440293--5440337 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
5440283 CAACTTTTAT
*
5440293 TTTATTTTATTTATATGTTATTAG
1 TTTATTTTATTTATATATTATTAG
*
5440317 TTTA-TTTATTTATTTATTATT
1 TTTATTTTATTTATATATTATT
5440338 TTTAGGGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (24 bp):
TTTATTTTATTTATATATTATTAG
Found at i:5440943 original size:15 final size:16
Alignment explanation
Indices: 5440920--5440960 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
5440910 TAAACAGAGA
5440920 GGGAGAGAAAAGA-AAG
1 GGGA-AGAAAAGAGAAG
5440936 GGGAAG-AAAGAGAAG
1 GGGAAGAAAAGAGAAG
5440951 GGGAATGAAA
1 GGGAA-GAAA
5440961 GATCTAAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.23
15 10 0.45
16 5 0.23
17 2 0.09
ACGTcount: A:0.54, C:0.00, G:0.44, T:0.02
Consensus pattern (16 bp):
GGGAAGAAAAGAGAAG
Found at i:5440949 original size:16 final size:15
Alignment explanation
Indices: 5440928--5440962 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
5440918 GAGGGAGAGA
5440928 AAAGA-AAGGGGAAG
1 AAAGAGAAGGGGAAG
5440942 AAAGAGAAGGGGAATG
1 AAAGAGAAGGGGAA-G
5440958 AAAGA
1 AAAGA
5440963 TCTAAAGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 8 0.42
16 6 0.32
ACGTcount: A:0.57, C:0.00, G:0.40, T:0.03
Consensus pattern (15 bp):
AAAGAGAAGGGGAAG
Found at i:5446706 original size:12 final size:13
Alignment explanation
Indices: 5446689--5446746 Score: 68
Period size: 13 Copynumber: 4.6 Consensus size: 13
5446679 AACTCTCCCA
5446689 TTTTTTTTG-G-T
1 TTTTTTTTGTGTT
5446700 TTTTTTTTGTGTT
1 TTTTTTTTGTGTT
5446713 TTTGTTTTTGT-TT
1 TTT-TTTTTGTGTT
* *
5446726 TGTGTTTTGTGTT
1 TTTTTTTTGTGTT
5446739 TTTTTTTT
1 TTTTTTTT
5446747 TTTTTAGGAG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
11 9 0.23
12 7 0.18
13 16 0.41
14 7 0.18
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (13 bp):
TTTTTTTTGTGTT
Found at i:5446714 original size:7 final size:7
Alignment explanation
Indices: 5446693--5446740 Score: 61
Period size: 6 Copynumber: 7.6 Consensus size: 7
5446683 CTCCCATTTT
5446693 TTTTG-G
1 TTTTGTG
5446699 TTTT-T-
1 TTTTGTG
5446704 TTTTGTG
1 TTTTGTG
5446711 TTTT-TG
1 TTTTGTG
5446717 TTTT-TG
1 TTTTGTG
5446723 TTTTGTG
1 TTTTGTG
5446730 TTTTGTG
1 TTTTGTG
5446737 TTTT
1 TTTT
5446741 TTTTTTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
5 4 0.11
6 17 0.45
7 17 0.45
ACGTcount: A:0.00, C:0.00, G:0.21, T:0.79
Consensus pattern (7 bp):
TTTTGTG
Found at i:5446716 original size:19 final size:19
Alignment explanation
Indices: 5446692--5446745 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 19
5446682 TCTCCCATTT
5446692 TTTTTGGTTTTTTTTTGTG
1 TTTTTGGTTTTTTTTTGTG
5446711 TTTTT-GTTTTTGTTTTGTG
1 TTTTTGGTTTTT-TTTTGTG
5446730 -TTTTGTGTTTTTTTTT
1 TTTTTG-GTTTTTTTTT
5446746 TTTTTTAGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
18 10 0.31
19 16 0.50
20 6 0.19
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (19 bp):
TTTTTGGTTTTTTTTTGTG
Found at i:5446987 original size:35 final size:35
Alignment explanation
Indices: 5446941--5447028 Score: 149
Period size: 35 Copynumber: 2.5 Consensus size: 35
5446931 GATCGAAACA
* *
5446941 AAGCCATAAGTCAAAAAATAAAGGTAACTAAGATG
1 AAGCCATAAGTCAAAAAATAAAGCTAACCAAGATG
*
5446976 AAGCCATAAGTCAAAAAATAAAGCTAACCGAGATG
1 AAGCCATAAGTCAAAAAATAAAGCTAACCAAGATG
5447011 AAGCCATAAGTCAAAAAA
1 AAGCCATAAGTCAAAAAA
5447029 AAATGATTAG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.55, C:0.15, G:0.16, T:0.15
Consensus pattern (35 bp):
AAGCCATAAGTCAAAAAATAAAGCTAACCAAGATG
Found at i:5447135 original size:35 final size:35
Alignment explanation
Indices: 5447016--5447137 Score: 135
Period size: 35 Copynumber: 3.6 Consensus size: 35
5447006 AGATGAAGCC
* *
5447016 ATAAGTCA-AAAA-AAA-ATGATTAGGATGAAACT
1 ATAAGTCAGAAAATAAAGATGACTAGGATGAAATT
*
5447048 ATAAGTCAGAAAAT-AAGAATGACTATGATGAAATT
1 ATAAGTCAGAAAATAAAG-ATGACTAGGATGAAATT
* * * *
5447083 GTATGTCAAAAAATAAAGATGACTAGGATAAAATT
1 ATAAGTCAGAAAATAAAGATGACTAGGATGAAATT
*
5447118 ATAAGTTAGAAAATAAAGAT
1 ATAAGTCAGAAAATAAAGAT
5447138 CAAATGAAGC
Statistics
Matches: 73, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
32 8 0.11
33 6 0.08
35 56 0.77
36 3 0.04
ACGTcount: A:0.54, C:0.05, G:0.16, T:0.25
Consensus pattern (35 bp):
ATAAGTCAGAAAATAAAGATGACTAGGATGAAATT
Found at i:5447406 original size:35 final size:34
Alignment explanation
Indices: 5447330--5447442 Score: 84
Period size: 35 Copynumber: 3.3 Consensus size: 34
5447320 TCATAAGTTT
* * * * **
5447330 AAAAATAAAAATGACTGAGACGAAGTCGTAAGTC
1 AAAAATAAAGATGACTAAGACAAAGCCACAAGTC
* * **
5447364 AAGAATAAGGATGA-TCAAGATGAAGCCACAAGTC
1 AAAAATAAAGATGACT-AAGACAAAGCCACAAGTC
* *
5447398 TAAAAATAAATATGACTAGGACAAAGCCACAAGTC
1 -AAAAATAAAGATGACTAAGACAAAGCCACAAGTC
5447433 AAAAAATAAA
1 -AAAAATAAA
5447443 AATGGTTGCT
Statistics
Matches: 61, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
33 1 0.02
34 24 0.39
35 35 0.57
36 1 0.02
ACGTcount: A:0.53, C:0.13, G:0.18, T:0.16
Consensus pattern (34 bp):
AAAAATAAAGATGACTAAGACAAAGCCACAAGTC
Found at i:5447798 original size:50 final size:50
Alignment explanation
Indices: 5447695--5447861 Score: 192
Period size: 50 Copynumber: 3.4 Consensus size: 50
5447685 TTTTTGAAAG
* * * *
5447695 AAATCTTGTTTGAAAATGGCACC-CCTAAATAGAGATCTTGAAACTTTAA
1 AAATCTTGTTTGAAAATGGCTCCTCCTAAACAGAGGTTTTGAAACTTTAA
* **
5447744 AAATCTTGTTTGAAAATAGCTCCTTGTAAACAGAGGTTTTGAAACTTTAA
1 AAATCTTGTTTGAAAATGGCTCCTCCTAAACAGAGGTTTTGAAACTTTAA
* * ** ** * *
5447794 AAATCTTGTCTAAAAATGGCTTGTCCCCAACAGAGGCTTTGGAACTTTAA
1 AAATCTTGTTTGAAAATGGCTCCTCCTAAACAGAGGTTTTGAAACTTTAA
5447844 AAATCTTGTTTGAAAATG
1 AAATCTTGTTTGAAAATG
5447862 CCTCATAACT
Statistics
Matches: 97, Mismatches: 20, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
49 21 0.22
50 76 0.78
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (50 bp):
AAATCTTGTTTGAAAATGGCTCCTCCTAAACAGAGGTTTTGAAACTTTAA
Found at i:5451549 original size:12 final size:13
Alignment explanation
Indices: 5451522--5451567 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
5451512 TATTAATTCT
*
5451522 ATAAAAAATAATA
1 ATAAAAAATAACA
5451535 ATAAAAAA-AACA
1 ATAAAAAATAACA
5451547 ATAAAACAATAA-A
1 ATAAAA-AATAACA
*
5451560 ACAAAAAA
1 ATAAAAAA
5451568 AAAGAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 11 0.38
13 16 0.55
14 2 0.07
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (13 bp):
ATAAAAAATAACA
Found at i:5451550 original size:25 final size:25
Alignment explanation
Indices: 5451522--5451569 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
5451512 TATTAATTCT
*
5451522 ATAAAA-AATAATAATAAAAAAAACA
1 ATAAAACAATAA-AACAAAAAAAACA
5451547 ATAAAACAATAAAACAAAAAAAA
1 ATAAAACAATAAAACAAAAAAAA
5451570 AGAAAAATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.12
Consensus pattern (25 bp):
ATAAAACAATAAAACAAAAAAAACA
Found at i:5451567 original size:15 final size:14
Alignment explanation
Indices: 5451524--5451570 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
5451514 TTAATTCTAT
*
5451524 AAAAAATAATAATAA
1 AAAAAACAATAA-AA
5451539 AAAAAACAATAAAA
1 AAAAAACAATAAAA
5451553 CAATAAAACAA-AAAA
1 -AA-AAAACAATAAAA
5451568 AAA
1 AAA
5451571 GAAAAATAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
13 1 0.03
14 4 0.14
15 17 0.59
16 7 0.24
ACGTcount: A:0.83, C:0.06, G:0.00, T:0.11
Consensus pattern (14 bp):
AAAAAACAATAAAA
Found at i:5453073 original size:33 final size:32
Alignment explanation
Indices: 5453011--5453171 Score: 134
Period size: 33 Copynumber: 5.1 Consensus size: 32
5453001 TAGGTTTCTA
* * *
5453011 AAACCCCT-GAAATCCGAAACCCCTAAAATCTT
1 AAACCCCTAAAAATCCAAAACCCCTAAAATC-C
* *
5453043 AAACCCCTAAAAATCCAAAATCCCTTAAATCC
1 AAACCCCTAAAAATCCAAAACCCCTAAAATCC
*
5453075 AAACCCCTAAAAATCCAAAACCCCCCAAAATCC
1 AAACCCCTAAAAATCCAAAA-CCCCTAAAATCC
* ** ** *
5453108 AAAATCCC-AAACCT-TTAGACCCCTAAAATCC
1 -AAACCCCTAAAAATCCAAAACCCCTAAAATCC
* *
5453139 AAA--CCTCAAAATCCAAAATCCCTAAAATCC
1 AAACCCCTAAAAATCCAAAACCCCTAAAATCC
5453169 AAA
1 AAA
5453172 ATCTTAAATC
Statistics
Matches: 102, Mismatches: 22, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
28 2 0.02
29 3 0.03
30 19 0.19
31 11 0.11
32 30 0.29
33 31 0.30
34 6 0.06
ACGTcount: A:0.47, C:0.35, G:0.02, T:0.16
Consensus pattern (32 bp):
AAACCCCTAAAAATCCAAAACCCCTAAAATCC
Found at i:5453096 original size:49 final size:47
Alignment explanation
Indices: 5453010--5453164 Score: 158
Period size: 49 Copynumber: 3.3 Consensus size: 47
5453000 CTAGGTTTCT
* * * *
5453010 AAAACCCCTGAAATCCGAAACCCCTAAAATCTTAAACCCCTAAAAATCC
1 AAAATCCCT-AAATCCTAAACCCCTAAAATC-CAAACCCCTCAAAATCC
*
5453059 AAAATCCCTTAAATCC-AAACCCCTAAAAATCCAAAACCCCCCAAAATCC
1 AAAATCCC-TAAATCCTAAACCCCT-AAAATCC-AAACCCCTCAAAATCC
*
5453108 AAAATCCC-AAA-CCTTTAGACCCCTAAAATCCAAA--CCTCAAAATCC
1 AAAATCCCTAAATCC--TAAACCCCTAAAATCCAAACCCCTCAAAATCC
5453153 AAAATCCCTAAA
1 AAAATCCCTAAA
5453165 ATCCAAAATC
Statistics
Matches: 93, Mismatches: 6, Indels: 17
0.80 0.05 0.15
Matches are distributed among these distances:
45 18 0.19
46 5 0.05
47 6 0.06
48 15 0.16
49 48 0.52
50 1 0.01
ACGTcount: A:0.46, C:0.35, G:0.02, T:0.16
Consensus pattern (47 bp):
AAAATCCCTAAATCCTAAACCCCTAAAATCCAAACCCCTCAAAATCC
Found at i:5453174 original size:16 final size:16
Alignment explanation
Indices: 5453010--5453172 Score: 131
Period size: 16 Copynumber: 10.2 Consensus size: 16
5453000 CTAGGTTTCT
*
5453010 AAAACCCCTGAAATCC
1 AAAACCCCTAAAATCC
* *
5453026 GAAACCCCTAAAATCT
1 AAAACCCCTAAAATCC
*
5453042 TAAACCCCTAAAAATCC
1 AAAACCCCT-AAAATCC
* *
5453059 AAAATCCCTTAAATCC
1 AAAACCCCTAAAATCC
5453075 -AAACCCCTAAAAATCC
1 AAAACCCCT-AAAATCC
*
5453091 AAAACCCCCCAAAATCC
1 AAAA-CCCCTAAAATCC
*
5453108 AAAATCCC--AAA-CC
1 AAAACCCCTAAAATCC
* *
5453121 TTTAGACCCCTAAAATCC
1 --AAAACCCCTAAAATCC
*
5453139 -AAACCTC-AAAATCC
1 AAAACCCCTAAAATCC
*
5453153 AAAATCCCTAAAATCC
1 AAAACCCCTAAAATCC
5453169 AAAA
1 AAAA
5453173 TCTTAAATCA
Statistics
Matches: 117, Mismatches: 19, Indels: 22
0.74 0.12 0.14
Matches are distributed among these distances:
13 2 0.02
14 10 0.09
15 22 0.19
16 47 0.40
17 30 0.26
18 6 0.05
ACGTcount: A:0.47, C:0.35, G:0.02, T:0.16
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Found at i:5453222 original size:16 final size:16
Alignment explanation
Indices: 5453201--5453231 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5453191 AACCACAAAA
5453201 CCAAACCCTAAAATCT
1 CCAAACCCTAAAATCT
*
5453217 CCAAACTCTAAAATC
1 CCAAACCCTAAAATC
5453232 AAAACCCTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.19
Consensus pattern (16 bp):
CCAAACCCTAAAATCT
Found at i:5453231 original size:50 final size:51
Alignment explanation
Indices: 5453137--5453243 Score: 139
Period size: 50 Copynumber: 2.1 Consensus size: 51
5453127 CCCCTAAAAT
* *
5453137 CCAAACCTCAAAATCCAAAATCCCTAAAATCCAAAATCTTAAATCAAAACC
1 CCAAACCACAAAATCCAAAATCCCTAAAATCCAAAATCTAAAATCAAAACC
*
5453188 CCAAACCACAAAA-CC-AAA-CCCTAAAATCTCCAAACTCTAAAATCAAAACC
1 CCAAACCACAAAATCCAAAATCCCTAAAA--TCCAAAATCTAAAATCAAAACC
*
5453238 CTAAAC
1 CCAAAC
5453244 TTTCCATATC
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
48 8 0.16
49 3 0.06
50 27 0.54
51 12 0.24
ACGTcount: A:0.51, C:0.34, G:0.00, T:0.15
Consensus pattern (51 bp):
CCAAACCACAAAATCCAAAATCCCTAAAATCCAAAATCTAAAATCAAAACC
Found at i:5457454 original size:9 final size:9
Alignment explanation
Indices: 5457415--5457448 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
5457405 GGGCATCATC
5457415 AAAAAAATA
1 AAAAAAATA
5457424 AAAAAAATA
1 AAAAAAATA
*
5457433 AAAAAAAGA
1 AAAAAAATA
5457442 AAAAAAA
1 AAAAAAA
5457449 ACAAAAGGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.91, C:0.00, G:0.03, T:0.06
Consensus pattern (9 bp):
AAAAAAATA
Found at i:5457454 original size:18 final size:19
Alignment explanation
Indices: 5457414--5457454 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
5457404 GGGGCATCAT
*
5457414 CAAAAAAATAAAAAAAATA
1 CAAAAAAAGAAAAAAAATA
5457433 -AAAAAAAGAAAAAAAA-A
1 CAAAAAAAGAAAAAAAATA
5457450 CAAAA
1 CAAAA
5457455 GGGACATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.88, C:0.05, G:0.02, T:0.05
Consensus pattern (19 bp):
CAAAAAAAGAAAAAAAATA
Found at i:5459657 original size:109 final size:109
Alignment explanation
Indices: 5459460--5459665 Score: 288
Period size: 109 Copynumber: 1.9 Consensus size: 109
5459450 AAGATTTTGA
* * * * **
5459460 GATTTGTAAGTCCTTCGGGCATAAATTTGATTCACGGTATTATCCTGATCGATTCTTTATTTTTG
1 GATTTCTAAGACCTCCGGGCATAAATTTGATTCACGATATTATCCCAATCGATTCTTTATTTTTG
* *
5459525 ACTTGCGGTGTTATCCCAGTCAATTCTGTAAGACCTCCAGATAT
66 ACTTGCGGTGTTATCCCAATCAATTCTCTAAGACCTCCAGATAT
* *
5459569 GATTTCTAAGACCTCCGGGCATAAATTTGATTCATGATGTTATCCCAATCGATTCTTTATCTTTT
1 GATTTCTAAGACCTCCGGGCATAAATTTGATTCACGATATTATCCCAATCGATTCTTTAT-TTTT
* *
5459634 GACTTGTGGTGTTAT-CTAATCAATTCTCTAAG
65 GACTTGCGGTGTTATCCCAATCAATTCTCTAAG
5459666 GGGCATGATT
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
109 66 0.79
110 18 0.21
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (109 bp):
GATTTCTAAGACCTCCGGGCATAAATTTGATTCACGATATTATCCCAATCGATTCTTTATTTTTG
ACTTGCGGTGTTATCCCAATCAATTCTCTAAGACCTCCAGATAT
Found at i:5459707 original size:22 final size:23
Alignment explanation
Indices: 5459666--5459708 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
5459656 ATTCTCTAAG
5459666 GGGCATGATTCTATAAGACCTCC
1 GGGCATGATTCTATAAGACCTCC
*
5459689 GGGCATGATT-TCTAAGACCT
1 GGGCATGATTCTATAAGACCT
5459709 TCGATCATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (23 bp):
GGGCATGATTCTATAAGACCTCC
Found at i:5459727 original size:126 final size:127
Alignment explanation
Indices: 5459547--5459922 Score: 506
Period size: 126 Copynumber: 2.9 Consensus size: 127
5459537 ATCCCAGTCA
* ** * *
5459547 ATTCTGTAAGACCTCCAGATATGATTTCTAAGACCTCCGGGCATAAATTTGATTCATGATGTTAT
1 ATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTTCGGGCATAAATTTGATTCACGATGTTAT
* *
5459612 CCCAATCGATTCTTTATCTTTTGACTTGTGGTGTTATCTAATCAATTCTCTAAG-GGGCATG
66 CCCAATCAATTCTTTATCTTTTGACTTGTGGTGTTATCTAATCAATTCTATAAGCGGGCATG
* ** * * *
5459673 ATTCTATAAGACCTCCGGGCATGATTTCTAAGACCTTCGATCATAAATTCGATTCGCGGTGTTAT
1 ATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTTCGGGCATAAATTTGATTCACGATGTTAT
* *
5459738 CCCAATCAATTCTTTATCTTTTGACTTGTGGTGTTATCTAGTCAATTCTGTAAGACCTCTGGGCA
66 CCCAATCAATTCTTTATCTTTTGACTTGTGGTGTTATCTAATCAATTCTATAAG----C-GGGCA
5459803 TG
126 TG
* *
5459805 ATTCTGTAAGACCTCTGAGCATGATTTCTAAGACC-TCTGGGCATAAATTTGATTCACGATGTTA
1 ATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTTC-GGGCATAAATTTGATTCACGATGTTA
* *
5459869 T-CCGATCAATTCTTTATCCTTTGACTTGTGGTGTTATCTAATCAATTCTATAAG
65 TCCCAATCAATTCTTTATCTTTTGACTTGTGGTGTTATCTAATCAATTCTATAAG
5459923 ACTTTCGGGC
Statistics
Matches: 217, Mismatches: 26, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
126 105 0.48
131 51 0.24
132 61 0.28
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (127 bp):
ATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTTCGGGCATAAATTTGATTCACGATGTTAT
CCCAATCAATTCTTTATCTTTTGACTTGTGGTGTTATCTAATCAATTCTATAAGCGGGCATG
Found at i:5459812 original size:23 final size:23
Alignment explanation
Indices: 5459782--5459848 Score: 109
Period size: 23 Copynumber: 3.0 Consensus size: 23
5459772 TATCTAGTCA
5459782 ATTCTGTAAGACCTCTGGGCATG
1 ATTCTGTAAGACCTCTGGGCATG
*
5459805 ATTCTGTAAGACCTCTGAGCATG
1 ATTCTGTAAGACCTCTGGGCATG
*
5459828 ATT-TCTAAGACCTCTGGGCAT
1 ATTCTGTAAGACCTCTGGGCAT
5459849 AAATTTGATT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
22 16 0.39
23 25 0.61
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (23 bp):
ATTCTGTAAGACCTCTGGGCATG
Found at i:5459859 original size:132 final size:131
Alignment explanation
Indices: 5459666--5459924 Score: 385
Period size: 132 Copynumber: 2.0 Consensus size: 131
5459656 ATTCTCTAAG
* * *
5459666 GGGCATGATTCTATAAGACCTCCGGGCATGATTTCTAAGACCTTCGATCATAAATTCGATTCGCG
1 GGGCATGATTCTATAAGACCTCCGAGCATGATTTCTAAGACCTTCGAGCATAAATTCGATTCACG
* * * *
5459731 GTGTTATCCCAATCAATTCTTTATCTTTTGACTTGTGGTGTTATCTAGTCAATTCTGTAAGACCT
66 ATGTTAT-CCAATCAATTCTTTATCCTTTGACTTGTGGTGTTATCTAATCAATTCTATAAGACCT
5459796 CT
130 CT
* * * *
5459798 GGGCATGATTCTGTAAGACCTCTGAGCATGATTTCTAAGACC-TCTGGGCATAAATTTGATTCAC
1 GGGCATGATTCTATAAGACCTCCGAGCATGATTTCTAAGACCTTC-GAGCATAAATTCGATTCAC
*
5459862 GATGTTATCCGATCAATTCTTTATCCTTTGACTTGTGGTGTTATCTAATCAATTCTATAAGAC
65 GATGTTATCCAATCAATTCTTTATCCTTTGACTTGTGGTGTTATCTAATCAATTCTATAAGAC
5459925 TTTCGGGCAT
Statistics
Matches: 114, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
131 53 0.46
132 61 0.54
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (131 bp):
GGGCATGATTCTATAAGACCTCCGAGCATGATTTCTAAGACCTTCGAGCATAAATTCGATTCACG
ATGTTATCCAATCAATTCTTTATCCTTTGACTTGTGGTGTTATCTAATCAATTCTATAAGACCTC
T
Found at i:5459989 original size:87 final size:86
Alignment explanation
Indices: 5459833--5460021 Score: 281
Period size: 87 Copynumber: 2.2 Consensus size: 86
5459823 GCATGATTTC
*
5459833 TAAGACCTCTGGGCATAAATTTGATTCACGATGTTATCCGATCAATTCTTTATCCTTTGACTTGT
1 TAAGACCTCCGGGCATAAATTTGATTCACGATGTTATCCGATCAATTCTTTATCCTTTGACTTGT
5459898 GGTGTTATCTAATCAATTCTA
66 GGTGTTATCTAATCAATTCTA
* * * * *
5459919 TAAGACTTTCGGGCATAAATTTGATTCGC-AGTGTTATCCCGATCGATTCTTTATCTTTTGACTT
1 TAAGACCTCCGGGCATAAATTTGATTCACGA-TGTTAT-CCGATCAATTCTTTATCCTTTGACTT
* *
5459983 GTGGTGTTATCTAGTCGATTCTA
64 GTGGTGTTATCTAATCAATTCTA
5460006 TAAGACCTCCGGGCAT
1 TAAGACCTCCGGGCAT
5460022 GATTTCTAAG
Statistics
Matches: 91, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
85 1 0.01
86 31 0.34
87 59 0.65
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (86 bp):
TAAGACCTCCGGGCATAAATTTGATTCACGATGTTATCCGATCAATTCTTTATCCTTTGACTTGT
GGTGTTATCTAATCAATTCTA
Found at i:5460135 original size:23 final size:23
Alignment explanation
Indices: 5460109--5460199 Score: 132
Period size: 23 Copynumber: 4.0 Consensus size: 23
5460099 TATTCCAATC
5460109 GATTTTGTAAGACCTTCGGGCAT
1 GATTTTGTAAGACCTTCGGGCAT
*
5460132 GATTTTGTAAGACTTTCGGGCAT
1 GATTTTGTAAGACCTTCGGGCAT
*
5460155 GATTTTGTAAGACTTTCGGGCAT
1 GATTTTGTAAGACCTTCGGGCAT
*
5460178 GA-TTTCTAAGACC-TCTGGGCAT
1 GATTTTGTAAGACCTTC-GGGCAT
5460200 AAATTCGATT
Statistics
Matches: 64, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
21 2 0.03
22 15 0.23
23 47 0.73
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.36
Consensus pattern (23 bp):
GATTTTGTAAGACCTTCGGGCAT
Found at i:5460199 original size:22 final size:23
Alignment explanation
Indices: 5460109--5460182 Score: 139
Period size: 23 Copynumber: 3.2 Consensus size: 23
5460099 TATTCCAATC
*
5460109 GATTTTGTAAGACCTTCGGGCAT
1 GATTTTGTAAGACTTTCGGGCAT
5460132 GATTTTGTAAGACTTTCGGGCAT
1 GATTTTGTAAGACTTTCGGGCAT
5460155 GATTTTGTAAGACTTTCGGGCAT
1 GATTTTGTAAGACTTTCGGGCAT
5460178 GATTT
1 GATTT
5460183 CTAAGACCTC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.22, C:0.14, G:0.26, T:0.39
Consensus pattern (23 bp):
GATTTTGTAAGACTTTCGGGCAT
Found at i:5460376 original size:132 final size:131
Alignment explanation
Indices: 5460150--5460456 Score: 436
Period size: 132 Copynumber: 2.3 Consensus size: 131
5460140 AAGACTTTCG
* * *
5460150 GGCATGATTTTGTAAGACTTTCGGGCATGATTTCTAAGACCTCTGGGCATAAATTCGATTCGCAG
1 GGCATGATTCTGTAAGAC-TTCGGGCATGATTTCTAAGACCTCTAGGCATAAATTCAATTCGCAG
* * *
5460215 TGTTATCCCGATCGATTCTTTATCATTTGACTTGTGGTGTTATCTAATCAATTCTGTAAAACCTC
65 TGTTATCCCGATCAATTCTTTATCATTTGACTTGTAGTGTTATCTAATCAATCCTGTAAAACCTC
5460280 CA
130 CA
* * *
5460282 GGCTTGATTCTGTAAGACTTCAGGGCATGATTTCTAGGACCTCTAGGCATAAATTCAATTCG-TG
1 GGCATGATTCTGTAAGACTTC-GGGCATGATTTCTAAGACCTCTAGGCATAAATTCAATTCGCAG
* * * *
5460346 ATGTTATCCCGATCAATTCTTTATCTTTTGACTTGTAGTGTTATCTAGTCGATCCTGTAAGACCT
65 -TGTTATCCCGATCAATTCTTTATCATTTGACTTGTAGTGTTATCTAATCAATCCTGTAAAACCT
*
5460411 CCG
129 CCA
*
5460414 GGCATGATTCTGTAAGACCTTCGAGCATGATTTCTAAGACCTC
1 GGCATGATTCTGTAAGA-CTTCGGGCATGATTTCTAAGACCTC
5460457 CAGGTATGAT
Statistics
Matches: 155, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
131 4 0.03
132 147 0.95
133 4 0.03
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.36
Consensus pattern (131 bp):
GGCATGATTCTGTAAGACTTCGGGCATGATTTCTAAGACCTCTAGGCATAAATTCAATTCGCAGT
GTTATCCCGATCAATTCTTTATCATTTGACTTGTAGTGTTATCTAATCAATCCTGTAAAACCTCC
A
Found at i:5460430 original size:23 final size:22
Alignment explanation
Indices: 5460401--5460482 Score: 92
Period size: 22 Copynumber: 3.7 Consensus size: 22
5460391 TAGTCGATCC
5460401 TGTAAGACCTCCGGGCATGATT
1 TGTAAGACCTCCGGGCATGATT
* *
5460423 CTGTAAGACCTTCGAGCATGATT
1 -TGTAAGACCTCCGGGCATGATT
* * *
5460446 TCTAAGACCTCCAGGTATGATT
1 TGTAAGACCTCCGGGCATGATT
* *
5460468 TTTAAGACCTTCGGG
1 TGTAAGACCTCCGGG
5460483 TATAAATTTG
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
22 29 0.59
23 20 0.41
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.30
Consensus pattern (22 bp):
TGTAAGACCTCCGGGCATGATT
Found at i:5460641 original size:110 final size:110
Alignment explanation
Indices: 5460448--5461036 Score: 349
Period size: 110 Copynumber: 5.3 Consensus size: 110
5460438 GCATGATTTC
* * * * * * **
5460448 TAAGACCTCCAGGTATGATTTTTAAGACCTTCGGGTATAAATTTGGTTCGCGGTGTTATCCCGAT
1 TAAGACCTCCAGGCATGATTTCTAAGACCTCCGGGCATAAATTCGATTCGCGAAGTTATCCCGAT
5460513 CGATTCTTTATCTTTTGACTTGTGGTGTTAT-TCCAATCGATTCTG
66 CGATTCTTTATCTTTTGACTTGTGGTGTTATCT-CAATCGATTCTG
* * * **
5460558 TAAGACCTCCATGCATGATTTCTAAGACCTCCGTGCATAAATTCGATTCGTGAAGTTATTTCGAT
1 TAAGACCTCCAGGCATGATTTCTAAGACCTCCGGGCATAAATTCGATTCGCGAAGTTATCCCGAT
*
5460623 CGATTCTTTATCTTTTGACTTGTGGTGTTATCTCAATCGATTTTG
66 CGATTCTTTATCTTTTGACTTGTGGTGTTATCTCAATCGATTCTG
* * * * ** * *
5460668 TAAGACCTTC-GAGCATAAATT-T-A-A-TTCACGGTGTTATCCCGATCGATTCTTTATTTTTGA
1 TAAGACCTCCAG-GCATGATTTCTAAGACCTC-CGG-G------C-ATAAATTC--GA--TTCG-
** * ** * **
5460728 CTTATGGTGTTATCCCAATCGATTC--TA---TAAGACCTCCGG-G------C-AT-GATTCTG
51 C----GAAGTTATCCCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCTCAATCGATTCTG
* * * ** * * *
5460778 TAAGACCTTCGGGCATAATTTCTAAGACCTTTGGGCATAAATTTGATTCGCGATGTTATCCTGAT
1 TAAGACCTCCAGGCATGATTTCTAAGACCTCCGGGCATAAATTCGATTCGCGAAGTTATCCCGAT
5460843 CGATTCTTTATCTTTTGACTTGTGGTGTTAT-TCCAATCGATTCTG
66 CGATTCTTTATCTTTTGACTTGTGGTGTTATCT-CAATCGATTCTG
* ** ** *
5460888 TAAGACCTCCGGGCATGATTTCTAAGACCTCTAGGCATAAATTCGATTCGCGGTGTTAGCCCGAT
1 TAAGACCTCCAGGCATGATTTCTAAGACCTCCGGGCATAAATTCGATTCGCGAAGTTATCCCGAT
* * * *
5460953 CAATTCTTTATCTTTTGACTTATGATGTTAT-TCCAATCGATTCTA
66 CGATTCTTTATCTTTTGACTTGTGGTGTTATCT-CAATCGATTCTG
* * * *
5460998 TAAGACCTTCGGGCATGATTCTGTAAGACCTTCGGGCAT
1 TAAGACCTCCAGGCATGATT-TCTAAGACCTCCGGGCAT
5461037 GATTTGTAAA
Statistics
Matches: 369, Mismatches: 70, Indels: 79
0.71 0.14 0.15
Matches are distributed among these distances:
96 17 0.05
98 2 0.01
100 1 0.00
101 10 0.03
102 1 0.00
103 1 0.00
105 5 0.01
106 3 0.01
107 3 0.01
108 3 0.01
109 3 0.01
110 258 0.70
111 19 0.05
112 3 0.01
113 3 0.01
114 2 0.01
115 6 0.02
117 1 0.00
118 1 0.00
119 10 0.03
122 2 0.01
124 15 0.04
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.39
Consensus pattern (110 bp):
TAAGACCTCCAGGCATGATTTCTAAGACCTCCGGGCATAAATTCGATTCGCGAAGTTATCCCGAT
CGATTCTTTATCTTTTGACTTGTGGTGTTATCTCAATCGATTCTG
Found at i:5460806 original size:22 final size:23
Alignment explanation
Indices: 5460749--5460817 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
5460739 ATCCCAATCG
* * *
5460749 ATTCTATAAGACCTCCGGGCATG
1 ATTCTCTAAGACCTTCGGGCATA
*
5460772 ATTCTGTAAGACCTTCGGGCATA
1 ATTCTCTAAGACCTTCGGGCATA
*
5460795 ATT-TCTAAGACCTTTGGGCATA
1 ATTCTCTAAGACCTTCGGGCATA
5460817 A
1 A
5460818 ATTTGATTCG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
22 18 0.44
23 23 0.56
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (23 bp):
ATTCTCTAAGACCTTCGGGCATA
Found at i:5460848 original size:132 final size:132
Alignment explanation
Indices: 5460668--5460917 Score: 394
Period size: 132 Copynumber: 1.9 Consensus size: 132
5460658 ATCGATTTTG
*
5460668 TAAGACCTTCGAGCATAAATTTAATTCACGGTGTTATCCCGATCGATTCTTTAT-TTTTGACTTA
1 TAAGACCTTCGAGCATAAATTTAATTCACGATGTTATCCCGATCGATTCTTTATCTTTTGACTTA
*
5460732 TGGTGTTATCCCAATCGATTCTATAAGACCTCCGGGCATGATTCTGTAAGACCTTCGGGCATAAT
66 TGGTGTTATCCCAATCGATTCTATAAGACCTCCGGGCATGATT-TCTAAGACCTTCGGGCATAAT
5460797 TTC
130 TTC
* * * * * *
5460800 TAAGACCTTTGGGCATAAATTTGATTCGCGATGTTATCCTGATCGATTCTTTATCTTTTGACTTG
1 TAAGACCTTCGAGCATAAATTTAATTCACGATGTTATCCCGATCGATTCTTTATCTTTTGACTTA
* *
5460865 TGGTGTTATTCCAATCGATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCT
66 TGGTGTTATCCCAATCGATTCTATAAGACCTCCGGGCATGATTTCTAAGACCT
5460918 CTAGGCATAA
Statistics
Matches: 107, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
132 57 0.53
133 50 0.47
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (132 bp):
TAAGACCTTCGAGCATAAATTTAATTCACGATGTTATCCCGATCGATTCTTTATCTTTTGACTTA
TGGTGTTATCCCAATCGATTCTATAAGACCTCCGGGCATGATTTCTAAGACCTTCGGGCATAATT
TC
Found at i:5461024 original size:23 final size:23
Alignment explanation
Indices: 5460991--5461058 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
5460981 TATTCCAATC
*
5460991 GATTCTATAAGACCTTCGGGCAT
1 GATTCTGTAAGACCTTCGGGCAT
5461014 GATTCTGTAAGACCTTCGGGCAT
1 GATTCTGTAAGACCTTCGGGCAT
* *
5461037 GATT-TGTAAAACCTCCGGGCAT
1 GATTCTGTAAGACCTTCGGGCAT
5461059 AAATTCGATT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
22 16 0.38
23 26 0.62
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (23 bp):
GATTCTGTAAGACCTTCGGGCAT
Found at i:5461029 original size:243 final size:242
Alignment explanation
Indices: 5460680--5461181 Score: 738
Period size: 243 Copynumber: 2.1 Consensus size: 242
5460670 AGACCTTCGA
* * * * *
5460680 GCATAAATTTAATTCACGGTGTTATCCCGATCGATTCTTTATTTTTGACTTATGGTGTTATCCCA
1 GCATAAATTTGATTCGCGGTGTTAGCCCGATCAATTCTTTATTTTTGACTTATGATGTTATCCCA
* **
5460745 ATCGATTCTATAAGACCTCCGGGCATGATTCTGTAAGACCTTCGGGCATAATTTCTAAGACCTTT
66 ATCGATTCTATAAGACCTCCGGGCATGATTCTGTAAGACCTTCGGGCATAATTTCTAAAACCTCC
* * * **
5460810 GGGCATAAATTTGATTCGCGATGTTATCCTGATCGATTCTTTATCTTTT-GACTTGTGGTGTTAT
131 GGGCATAAATTCGATTCGCGATGTTATCCCGATCGATTCTTTAT-TTTTCAACTTACGGTGTTA-
* * * *
5460874 TCC-AATCGATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCTAG
194 TCCTAATCAATTCTGTAAGACCTCCGAGCATGATTTCTAAAACCTCCAG
* *
5460922 GCATAAATTCGATTCGCGGTGTTAGCCCGATCAATTCTTTATCTTTTGACTTATGATGTTATTCC
1 GCATAAATTTGATTCGCGGTGTTAGCCCGATCAATTCTTTAT-TTTTGACTTATGATGTTATCCC
* * *
5460987 AATCGATTCTATAAGACCTTCGGGCATGATTCTGTAAGACCTTCGGGCATGATTTGTAAAACCTC
65 AATCGATTCTATAAGACCTCCGGGCATGATTCTGTAAGACCTTCGGGCATAATTTCTAAAACCTC
* *
5461052 CGGGCATAAATTCGATTCGCGGTGTTATCCCGATCGATTTTTTATTTTTCAACTTACGGTGTTAT
130 CGGGCATAAATTCGATTCGCGATGTTATCCCGATCGATTCTTTATTTTTCAACTTACGGTGTTAT
*
5461117 CCTAATCAATTCTGTAAGACCTCCGAGCATGATTTGTAAAACCTCCAG
195 CCTAATCAATTCTGTAAGACCTCCGAGCATGATTTCTAAAACCTCCAG
5461165 GCATAAATTTGATTCGC
1 GCATAAATTTGATTCGC
5461182 AATATTATCT
Statistics
Matches: 231, Mismatches: 26, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
242 44 0.19
243 187 0.81
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (242 bp):
GCATAAATTTGATTCGCGGTGTTAGCCCGATCAATTCTTTATTTTTGACTTATGATGTTATCCCA
ATCGATTCTATAAGACCTCCGGGCATGATTCTGTAAGACCTTCGGGCATAATTTCTAAAACCTCC
GGGCATAAATTCGATTCGCGATGTTATCCCGATCGATTCTTTATTTTTCAACTTACGGTGTTATC
CTAATCAATTCTGTAAGACCTCCGAGCATGATTTCTAAAACCTCCAG
Found at i:5461175 original size:133 final size:133
Alignment explanation
Indices: 5460881--5461168 Score: 384
Period size: 133 Copynumber: 2.2 Consensus size: 133
5460871 TATTCCAATC
* * *
5460881 GATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCTAGGCATAAATTCGATTCGCGGTGTTA
1 GATTCTGTAAGACCTCCGGGCATGATTTGTAAAACCTCCAGGCATAAATTCGATTCGCGGTGTTA
* * * * *
5460946 GCCCGATCAATTCTTTATCTTTTGACTTATGATGTTATTCCAATCGATTCTATAAGACCTTCGGG
66 GCCCGATCAATTCTTTATCTTTTAACTTACGATGTTATTCCAATCAATTCTATAAGACCTCCGAG
5461011 CAT
131 CAT
* *
5461014 GATTCTGTAAGACCTTCGGGCATGATTTGTAAAACCTCCGGGCATAAATTCGATTCGCGGTGTTA
1 GATTCTGTAAGACCTCCGGGCATGATTTGTAAAACCTCCAGGCATAAATTCGATTCGCGGTGTTA
* * * * *
5461079 TCCCGATCGATTTTTTAT-TTTTCAACTTACGGTGTTA-TCCTAATCAATTCTGTAAGACCTCCG
66 GCCCGATCAATTCTTTATCTTTT-AACTTACGATGTTATTCC-AATCAATTCTATAAGACCTCCG
5461142 AGCAT
129 AGCAT
* *
5461147 GATT-TGTAAAACCTCCAGGCAT
1 GATTCTGTAAGACCTCCGGGCAT
5461169 AAATTTGATT
Statistics
Matches: 135, Mismatches: 18, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
132 22 0.16
133 113 0.84
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.35
Consensus pattern (133 bp):
GATTCTGTAAGACCTCCGGGCATGATTTGTAAAACCTCCAGGCATAAATTCGATTCGCGGTGTTA
GCCCGATCAATTCTTTATCTTTTAACTTACGATGTTATTCCAATCAATTCTATAAGACCTCCGAG
CAT
Found at i:5461208 original size:110 final size:110
Alignment explanation
Indices: 5461015--5461233 Score: 296
Period size: 110 Copynumber: 2.0 Consensus size: 110
5461005 TTCGGGCATG
* * * ** *
5461015 ATTCTGTAAGACCTTCGGGCATGATTTGTAAAACCTCCGGGCATAAATTCGATTCGCGGTGTTAT
1 ATTCTGTAAGACCTCCGAGCATGATTTGTAAAACCTCCAGGCATAAATTCGATTCGCAATATTAT
* * ** * *
5461080 CCCGATCGATTTTTTATTTTTCAACTTACGGTGTTATCCTAATCA
66 CCAGATCGACTCATTATTTTTCAACTTACGGTGTCATCCCAATCA
*
5461125 ATTCTGTAAGACCTCCGAGCATGATTTGTAAAACCTCCAGGCATAAATTTGATTCGCAATATTAT
1 ATTCTGTAAGACCTCCGAGCATGATTTGTAAAACCTCCAGGCATAAATTCGATTCGCAATATTAT
*
5461190 CTCAG-TCGACTCATTATTTTTCAACTTGCGGTGTCATCCCAATC
66 C-CAGATCGACTCATTATTTTTCAACTTACGGTGTCATCCCAATC
5461234 GTTTTGTGTT
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
110 92 0.98
111 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (110 bp):
ATTCTGTAAGACCTCCGAGCATGATTTGTAAAACCTCCAGGCATAAATTCGATTCGCAATATTAT
CCAGATCGACTCATTATTTTTCAACTTACGGTGTCATCCCAATCA
Found at i:5461234 original size:243 final size:243
Alignment explanation
Indices: 5460718--5461234 Score: 648
Period size: 243 Copynumber: 2.1 Consensus size: 243
5460708 GATCGATTCT
* *
5460718 TTAT-TTTTGACTTATGGTGTTATCCCAATCGATTCTATAAGACCTCCGGGCATGATTCTGTAAG
1 TTATCTTTTAACTTACGGTGTTATCCCAATCGATTCTATAAGACCTCCGGGCATGATTCTGTAAG
* ** * *
5460782 ACCTTCGGGCATAATTTCTAAGACCTTTGGGCATAAATTTGATTCGCGATGTTATCCTGATCGAT
66 ACCTTCGGGCATAATTTCTAAAACCTCCGGGCATAAATTCGATTCGCGATGTTATCCCGATCGAT
* ** * *
5460847 TCTTTATCTTTTGACTTGTGGTGTTATTCCAATCGATTCTGTAAGACCTCCGGGCATGATTTCTA
131 TCTTTATCTTTTAACTTACGGTGTTATTCCAATCAATTCTGTAAGACCTCCGAGCATGATTTCTA
* * ** * * * *
5460912 AGACCTCTAGGCATAAATTCGATTCGCGGTGTTAGCCCGATCAATTCT
196 AAACCTCCAGGCATAAATTCGATTCGCAATATTAGCCAGATCAACTCA
* * * * *
5460960 TTATCTTTTGACTTATGATGTTATTCCAATCGATTCTATAAGACCTTCGGGCATGATTCTGTAAG
1 TTATCTTTTAACTTACGGTGTTATCCCAATCGATTCTATAAGACCTCCGGGCATGATTCTGTAAG
* * *
5461025 ACCTTCGGGCATGATTTGTAAAACCTCCGGGCATAAATTCGATTCGCGGTGTTATCCCGATCGAT
66 ACCTTCGGGCATAATTTCTAAAACCTCCGGGCATAAATTCGATTCGCGATGTTATCCCGATCGAT
* *
5461090 TTTTTAT-TTTTCAACTTACGGTGTTA-TCCTAATCAATTCTGTAAGACCTCCGAGCATGATTTG
131 TCTTTATCTTTT-AACTTACGGTGTTATTCC-AATCAATTCTGTAAGACCTCCGAGCATGATTTC
* * *
5461153 TAAAACCTCCAGGCATAAATTTGATTCGCAATATTATCTCAG-TCGACTCA
194 TAAAACCTCCAGGCATAAATTCGATTCGCAATATTAGC-CAGATCAACTCA
* *
5461203 TTAT-TTTTCAACTTGCGGTGTCATCCCAATCG
1 TTATCTTTT-AACTTACGGTGTTATCCCAATCG
5461235 TTTTGTGTTT
Statistics
Matches: 235, Mismatches: 35, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
242 15 0.06
243 218 0.93
244 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (243 bp):
TTATCTTTTAACTTACGGTGTTATCCCAATCGATTCTATAAGACCTCCGGGCATGATTCTGTAAG
ACCTTCGGGCATAATTTCTAAAACCTCCGGGCATAAATTCGATTCGCGATGTTATCCCGATCGAT
TCTTTATCTTTTAACTTACGGTGTTATTCCAATCAATTCTGTAAGACCTCCGAGCATGATTTCTA
AAACCTCCAGGCATAAATTCGATTCGCAATATTAGCCAGATCAACTCA
Found at i:5461462 original size:16 final size:16
Alignment explanation
Indices: 5461433--5461483 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
5461423 TTAATTCTAT
*
5461433 AAAAAAT-AATAATTA
1 AAAAAATAAAAAATTA
*
5461448 AAAAATTAAAAAATTA
1 AAAAAATAAAAAATTA
5461464 AAAAAATAAAAAA-TA
1 AAAAAATAAAAAATTA
5461479 AAAAA
1 AAAAA
5461484 CAAAAAGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
15 13 0.41
16 19 0.59
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAAAATAAAAAATTA
Done.