Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 11 of 130
Found at i:3076001 original size:22 final size:21
Alignment explanation
Indices: 3075971--3076027 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
3075961 TTAAGGCTTT
* *
3075971 ATTTAAATGAATAATAAAATTA
1 ATTTTAATGAA-AATAAAAATA
*
3075993 ATTTTAATGAAATTAAAAATA
1 ATTTTAATGAAAATAAAAATA
* *
3076014 ATTATAATTAAAAT
1 ATTTTAATGAAAAT
3076028 TTTTTATTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
21 19 0.66
22 10 0.34
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.39
Consensus pattern (21 bp):
ATTTTAATGAAAATAAAAATA
Found at i:3082265 original size:11 final size:11
Alignment explanation
Indices: 3082235--3082294 Score: 50
Period size: 11 Copynumber: 5.1 Consensus size: 11
3082225 TGTTAAAAAT
3082235 TTATTTATTTAAA
1 TTATTTATTT--A
3082248 TTTATTTGA-TTA
1 -TTATTT-ATTTA
3082260 TTATTTATTTA
1 TTATTTATTTA
**
3082271 TTATTTATAAA
1 TTATTTATTTA
3082282 TATATTTATTTA
1 T-TATTTATTTA
3082294 T
1 T
3082295 GTATATTCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
10 1 0.03
11 19 0.49
12 10 0.26
14 8 0.21
15 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (11 bp):
TTATTTATTTA
Found at i:3082287 original size:26 final size:25
Alignment explanation
Indices: 3082209--3082319 Score: 77
Period size: 25 Copynumber: 4.4 Consensus size: 25
3082199 TTAATTGATT
* * *
3082209 TATT-TTTATTTTTATTTGTTAAAAA
1 TATTATTTATTTATATTT-ATAAATA
* **
3082234 T-TTATTTATTTAAATTTATTTGAT-
1 TATTATTTATTTATATTTA-TAAATA
3082258 TATTATTTATTTATTATTTATAAATA
1 TATTATTTATTTA-TATTTATAAATA
*
3082284 TATTTATTTATGTATATTCT-TAAATA
1 TA-TTATTTATTTATATT-TATAAATA
3082310 TATTTATTTA
1 TA-TTATTTA
3082320 ATTTTTTTAA
Statistics
Matches: 69, Mismatches: 10, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
24 3 0.04
25 28 0.41
26 27 0.39
27 11 0.16
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (25 bp):
TATTATTTATTTATATTTATAAATA
Found at i:3082301 original size:14 final size:13
Alignment explanation
Indices: 3082206--3082319 Score: 58
Period size: 14 Copynumber: 8.7 Consensus size: 13
3082196 TGATTAATTG
3082206 ATTTATTT-TTAT
1 ATTTATTTATTAT
* * *
3082218 TTTTATTTGTTAAAA
1 ATTTATTTATT--AT
*
3082233 ATTTATTTATTTAA
1 ATTTATTTA-TTAT
3082247 ATTTATTTGATTATT
1 ATTTATTT-ATTA-T
3082262 ATTTATTTA-T-T
1 ATTTATTTATTAT
* *
3082273 ATTTA-TAAATAT
1 ATTTATTTATTAT
3082285 ATTTATTTATGTAT
1 ATTTATTTAT-TAT
* * *
3082299 A-TTCTTAAATAT
1 ATTTATTTATTAT
3082311 ATTTATTTA
1 ATTTATTTA
3082320 ATTTTTTTAA
Statistics
Matches: 78, Mismatches: 13, Indels: 21
0.70 0.12 0.19
Matches are distributed among these distances:
10 2 0.03
11 7 0.09
12 17 0.22
13 15 0.19
14 18 0.23
15 17 0.22
16 2 0.03
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (13 bp):
ATTTATTTATTAT
Found at i:3082334 original size:14 final size:14
Alignment explanation
Indices: 3082317--3082350 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
3082307 ATATATTTAT
3082317 TTAATTTTTTTAAA
1 TTAATTTTTTTAAA
*
3082331 TTAATTTTTTTAAT
1 TTAATTTTTTTAAA
3082345 TTAATT
1 TTAATT
3082351 GAATTATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTAATTTTTTTAAA
Found at i:3082337 original size:23 final size:23
Alignment explanation
Indices: 3082231--3082346 Score: 85
Period size: 23 Copynumber: 4.8 Consensus size: 23
3082221 TATTTGTTAA
* *
3082231 AAATTTATTTATTTAAATTTATTT
1 AAATATATTTATTT-AATTTTTTT
* * *
3082255 GATTATTATTTATTT-ATTATTTAT
1 AAATA-TATTTATTTAATT-TTTTT
3082279 AAATATATTTATTT-ATGTATATTCTT
1 AAATATATTTATTTAAT-T-T-TT-TT
3082305 AAATATATTTATTTAATTTTTTT
1 AAATATATTTATTTAATTTTTTT
*
3082328 AAAT-TAATTTTTTTAATTT
1 AAATAT-ATTTATTTAATTT
3082347 AATTGAATTA
Statistics
Matches: 76, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
22 1 0.01
23 32 0.42
24 13 0.17
25 12 0.16
26 16 0.21
27 2 0.03
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (23 bp):
AAATATATTTATTTAATTTTTTT
Found at i:3082355 original size:23 final size:23
Alignment explanation
Indices: 3082303--3082356 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
3082293 ATGTATATTC
**
3082303 TTAAA-TATATTTATTTAATTTTT
1 TTAAATTA-ATTTATTTAATTTAA
*
3082326 TTAAATTAATTTTTTTAATTTAA
1 TTAAATTAATTTATTTAATTTAA
*
3082349 TTGAATTA
1 TTAAATTA
3082357 TATGTTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 24 0.92
24 2 0.08
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
TTAAATTAATTTATTTAATTTAA
Found at i:3086457 original size:21 final size:23
Alignment explanation
Indices: 3086415--3086459 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
3086405 AAGTACATAT
*
3086415 ATAATATATATAAATCATTTAAA
1 ATAATATATATAAATCAATTAAA
*
3086438 ATAATATAT-TATAT-AATTAAA
1 ATAATATATATAAATCAATTAAA
3086459 A
1 A
3086460 AAAATCAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 4 0.20
23 9 0.45
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
ATAATATATATAAATCAATTAAA
Found at i:3086942 original size:2 final size:2
Alignment explanation
Indices: 3086935--3086962 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3086925 AACATTTAGA
3086935 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3086963 TGCTTAATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3094603 original size:61 final size:61
Alignment explanation
Indices: 3094508--3094631 Score: 239
Period size: 61 Copynumber: 2.0 Consensus size: 61
3094498 AACAAAGAAA
*
3094508 AGGCTATAGATGTAATCTACCTTTGAAACGGAGGAATTAGTATATGTCCAATGGAATCAGT
1 AGGCTATAGATGTAATCTACCTTTGAAACGGAGGAATTAATATATGTCCAATGGAATCAGT
3094569 AGGCTATAGATGTAATCTACCTTTGAAACGGAGGAATTAATATATGTCCAATGGAATCAGT
1 AGGCTATAGATGTAATCTACCTTTGAAACGGAGGAATTAATATATGTCCAATGGAATCAGT
3094630 AG
1 AG
3094632 TATTCTATGT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (61 bp):
AGGCTATAGATGTAATCTACCTTTGAAACGGAGGAATTAATATATGTCCAATGGAATCAGT
Found at i:3097784 original size:1 final size:1
Alignment explanation
Indices: 3097778--3097807 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
3097768 ACCAGAAATT
3097778 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3097808 CTCCATCCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:3100108 original size:17 final size:17
Alignment explanation
Indices: 3100088--3100126 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
3100078 TCCATAACTA
3100088 ATTTGAATCAAAATAAT
1 ATTTGAATCAAAATAAT
* *
3100105 ATTTTAATCATAATAAT
1 ATTTGAATCAAAATAAT
3100122 -TTTGA
1 ATTTGA
3100127 TCCAAAGATC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (17 bp):
ATTTGAATCAAAATAAT
Found at i:3101815 original size:26 final size:26
Alignment explanation
Indices: 3101773--3101829 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
3101763 ATAAGATAAG
3101773 ATAATATCATTTAATTTAA-TTTATTT
1 ATAATATCATTTAATTTAATTTTA-TT
* *
3101799 ATAATATTATCTT-ATTTTATTTTATT
1 ATAATATCAT-TTAATTTAATTTTATT
3101825 ATAAT
1 ATAAT
3101830 TTTGTACATC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 21 0.78
27 6 0.22
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATAATATCATTTAATTTAATTTTATT
Found at i:3103245 original size:22 final size:23
Alignment explanation
Indices: 3103211--3103258 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
3103201 TTGTAAATAG
*
3103211 ATTTTTTTATTAAA-TAATATAAA
1 ATTTTATTATTAAATTAAT-TAAA
3103234 ATTTTATT-TTAAATTAATTAAA
1 ATTTTATTATTAAATTAATTAAA
3103256 ATT
1 ATT
3103259 AATATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
ATTTTATTATTAAATTAATTAAA
Found at i:3106955 original size:2 final size:2
Alignment explanation
Indices: 3106948--3106979 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3106938 AGGAATCAAG
3106948 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3106980 TAGTTTCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3107204 original size:24 final size:24
Alignment explanation
Indices: 3107157--3107204 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
3107147 ATTTATTTAT
*
3107157 ATTTGATACATTGTTAATGTATAA
1 ATTTGATACATTGTTAATGAATAA
* * *
3107181 ATTTTATATATTGTTAGTGAATAA
1 ATTTGATACATTGTTAATGAATAA
3107205 GATGATGTCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (24 bp):
ATTTGATACATTGTTAATGAATAA
Found at i:3107241 original size:31 final size:31
Alignment explanation
Indices: 3107219--3107294 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
3107209 ATGTCATTTT
3107219 ATTAATGAAA-TAAATCAGATGATACCACTTC
1 ATTAAT-AAAGTAAATCAGATGATACCACTTC
* *
3107250 ATTAATAAAGTAAATCAAATGATACCACCTC
1 ATTAATAAAGTAAATCAGATGATACCACTTC
3107281 ATTAATAAA-TAAAT
1 ATTAATAAAGTAAAT
3107295 TTTTTAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
30 8 0.19
31 34 0.81
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (31 bp):
ATTAATAAAGTAAATCAGATGATACCACTTC
Found at i:3107394 original size:2 final size:2
Alignment explanation
Indices: 3107389--3107416 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3107379 AAATATAAAC
3107389 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3107417 ACTGCATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3122924 original size:22 final size:21
Alignment explanation
Indices: 3122892--3122932 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
3122882 ATTCTATCTG
3122892 AATTTGATCATTAATTATATTTT
1 AATTTGATCA-TAATT-TATTTT
3122915 AATTT-ATCATAATTTATT
1 AATTTGATCATAATTTATT
3122933 GAGTTTGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 5 0.28
22 4 0.22
23 5 0.28
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (21 bp):
AATTTGATCATAATTTATTTT
Found at i:3127311 original size:2 final size:2
Alignment explanation
Indices: 3127304--3127334 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3127294 AACCTCCTCC
3127304 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3127335 CATGTATTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3140521 original size:16 final size:16
Alignment explanation
Indices: 3140500--3140531 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
3140490 AAAATCATCG
3140500 TAAATCATCATTATCA
1 TAAATCATCATTATCA
3140516 TAAATCATCATTATCA
1 TAAATCATCATTATCA
3140532 ATCAAATCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (16 bp):
TAAATCATCATTATCA
Found at i:3143010 original size:2 final size:2
Alignment explanation
Indices: 3143003--3143032 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3142993 TTCCCAACAG
3143003 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3143033 CAGATGTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3144816 original size:3 final size:3
Alignment explanation
Indices: 3144810--3144894 Score: 77
Period size: 3 Copynumber: 29.0 Consensus size: 3
3144800 AAATAAAAAG
* * * *
3144810 ATA ATA ATA ATA ATA ATA ATG ATA ATA ATA ATT TTG ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
3144858 CTA ATA A-A CT- ATGT ATA AT- ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
3144895 TATACTATGT
Statistics
Matches: 66, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
2 4 0.06
3 60 0.91
4 2 0.03
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:3144884 original size:31 final size:29
Alignment explanation
Indices: 3144846--3144929 Score: 96
Period size: 31 Copynumber: 2.7 Consensus size: 29
3144836 AATAATTTTG
3144846 ATAATAATAATACTAATAAACTATGTATAAT
1 ATAATAATAATA-TAATAAACTATGT-TAAT
3144877 ATAATAATAATAATAATATATACTATGTTAAT
1 ATAATAATAAT-ATAATA-A-ACTATGTTAAT
*
3144909 ATATTGGAATAATATAATAAA
1 ATAAT--AATAATATAATAAA
3144930 AATAACTCTA
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
31 17 0.36
32 11 0.23
33 13 0.28
34 6 0.13
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.37
Consensus pattern (29 bp):
ATAATAATAATATAATAAACTATGTTAAT
Found at i:3144889 original size:34 final size:32
Alignment explanation
Indices: 3144846--3144911 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 32
3144836 AATAATTTTG
*
3144846 ATAATAATAATACTAATAAACTATGTATAATATA
1 ATAATAATAATAAT-ATAAACTATGT-TAATATA
*
3144880 ATAATAATAATAATATATACTATGTTAATATA
1 ATAATAATAATAATATAAACTATGTTAATATA
3144912 TTGGAATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 7 0.23
33 10 0.33
34 13 0.43
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (32 bp):
ATAATAATAATAATATAAACTATGTTAATATA
Found at i:3162383 original size:23 final size:23
Alignment explanation
Indices: 3162351--3162400 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
3162341 AAAAATGAAA
3162351 AAAATCATAAAAAAAAACAATTTT
1 AAAATCATAAAAAAAAA-AATTTT
*
3162375 AAAAT-ATAAAAAATTAAAATTTT
1 AAAATCATAAAAAA-AAAAATTTT
3162398 AAA
1 AAA
3162401 TGTTATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (23 bp):
AAAATCATAAAAAAAAAAATTTT
Found at i:3163665 original size:21 final size:21
Alignment explanation
Indices: 3163641--3163714 Score: 71
Period size: 21 Copynumber: 3.3 Consensus size: 21
3163631 TTAATTTTTA
3163641 ATTTTA-AAAATTTTATATATT
1 ATTTTATAAAATTTTATATA-T
3163662 ATTTTAATATAAATTTTA-ATAT
1 ATTTT-ATA-AAATTTTATATAT
*
3163684 ATTTAAATAAAATTTTATATGAT
1 ATTT-TATAAAATTTTATAT-AT
3163707 ATTATTAT
1 ATT-TTAT
3163715 TTTTTATTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
21 13 0.30
22 11 0.25
23 11 0.25
24 9 0.20
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (21 bp):
ATTTTATAAAATTTTATATAT
Found at i:3163708 original size:25 final size:24
Alignment explanation
Indices: 3163647--3163708 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 24
3163637 TTTAATTTTA
*
3163647 AAAATTTTATATAT-TATTTTAAT
1 AAAATTTTATATATATATTTAAAT
3163670 ATAAA-TTT-TA-ATATATTTAAAT
1 A-AAATTTTATATATATATTTAAAT
3163692 AAAATTTTATATGATAT
1 AAAATTTTATAT-ATAT
3163709 TATTATTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
21 5 0.16
22 14 0.44
23 6 0.19
24 3 0.09
25 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
AAAATTTTATATATATATTTAAAT
Found at i:3164232 original size:27 final size:27
Alignment explanation
Indices: 3164202--3164264 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
3164192 TAAATATCAC
*
3164202 ATTA-ATTAATAAATTTATAATTCAAAT
1 ATTATATTAAAAAATTTA-AATTCAAAT
*
3164229 ATTATATTAAAAAATTTAAATTTAAAT
1 ATTATATTAAAAAATTTAAATTCAAAT
*
3164256 ATTTTATTA
1 ATTATATTA
3164265 TAATTTAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 20 0.62
28 12 0.38
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (27 bp):
ATTATATTAAAAAATTTAAATTCAAAT
Found at i:3170527 original size:16 final size:17
Alignment explanation
Indices: 3170506--3170538 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
3170496 TGGAATCTGT
*
3170506 GGATATCCA-CTTTACC
1 GGATATCAATCTTTACC
3170522 GGATATCAATCTTTACC
1 GGATATCAATCTTTACC
3170539 TCTGGCCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.33
Consensus pattern (17 bp):
GGATATCAATCTTTACC
Found at i:3177161 original size:8 final size:8
Alignment explanation
Indices: 3177148--3177175 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
3177138 GTGAATCTGG
3177148 TTTTATGA
1 TTTTATGA
3177156 TTTTATGA
1 TTTTATGA
3177164 TTTTATGA
1 TTTTATGA
3177172 TTTT
1 TTTT
3177176 GTTTGTGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.11, T:0.68
Consensus pattern (8 bp):
TTTTATGA
Found at i:3187677 original size:13 final size:13
Alignment explanation
Indices: 3187659--3187683 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3187649 AACAATTTTA
3187659 GATATGATATAAT
1 GATATGATATAAT
3187672 GATATGATATAA
1 GATATGATATAA
3187684 AAATGATACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (13 bp):
GATATGATATAAT
Found at i:3188632 original size:19 final size:20
Alignment explanation
Indices: 3188610--3188650 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
3188600 TATTGTGATG
3188610 ATAATAAATAAC-AT-TTATA
1 ATAATAAA-AACTATATTATA
3188629 ATAATAAAAACTATATTATA
1 ATAATAAAAACTATATTATA
3188649 AT
1 AT
3188651 CTTAATAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 3 0.15
19 10 0.50
20 7 0.35
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.37
Consensus pattern (20 bp):
ATAATAAAAACTATATTATA
Found at i:3189184 original size:32 final size:32
Alignment explanation
Indices: 3189093--3189196 Score: 156
Period size: 33 Copynumber: 3.2 Consensus size: 32
3189083 ATTATAAAAA
*
3189093 ATTATATAATTTATT-ATGAATCATATGTATATA
1 ATTATATAATTTATTCA--AATCATATGTATATG
3189126 ATTATATAATTTATTCAAAATCATATGTATATG
1 ATTATATAATTTATTC-AAATCATATGTATATG
3189159 ATTATATAATTTATTCAAATCATATGTATATG
1 ATTATATAATTTATTCAAATCATATGTATATG
*
3189191 AGTATA
1 ATTATA
3189197 CTATATATCT
Statistics
Matches: 67, Mismatches: 2, Indels: 5
0.91 0.03 0.07
Matches are distributed among these distances:
32 21 0.31
33 45 0.67
35 1 0.01
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.46
Consensus pattern (32 bp):
ATTATATAATTTATTCAAATCATATGTATATG
Found at i:3189614 original size:20 final size:21
Alignment explanation
Indices: 3189591--3189631 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3189581 CCTAATCAAT
3189591 AACTTT-AAGGCTGATTTTTA
1 AACTTTCAAGGCTGATTTTTA
*
3189611 AACTTTCAAGGTTGATTTTTA
1 AACTTTCAAGGCTGATTTTTA
3189632 TTACCCTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (21 bp):
AACTTTCAAGGCTGATTTTTA
Found at i:3192544 original size:15 final size:16
Alignment explanation
Indices: 3192514--3192552 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
3192504 TTTTATTCTT
*
3192514 AATAAAAATAATTTAA
1 AATATAAATAATTTAA
3192530 AATATAAAT-ATTTAA
1 AATATAAATAATTTAA
*
3192545 AAAATAAA
1 AATATAAA
3192553 AATATCCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AATATAAATAATTTAA
Found at i:3197659 original size:15 final size:15
Alignment explanation
Indices: 3197639--3197700 Score: 58
Period size: 15 Copynumber: 4.2 Consensus size: 15
3197629 TAATTTTTTA
3197639 TAATAAAAAATAAAT
1 TAATAAAAAATAAAT
3197654 TAATAAAATAATAAA-
1 TAATAAAA-AATAAAT
*
3197669 TATTTAAAAAAT-AAT
1 TA-ATAAAAAATAAAT
* *
3197684 AAAT-TAAAATAAAT
1 TAATAAAAAATAAAT
3197698 TAA
1 TAA
3197701 ATATTTAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
13 5 0.13
14 8 0.21
15 14 0.37
16 11 0.29
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
TAATAAAAAATAAAT
Found at i:3197680 original size:31 final size:33
Alignment explanation
Indices: 3197642--3197708 Score: 95
Period size: 31 Copynumber: 2.1 Consensus size: 33
3197632 TTTTTTATAA
*
3197642 TAAAAAATAAATTAA-TAAAAT-AA-TAAATATT
1 TAAAAAAT-AATAAATTAAAATAAATTAAATATT
3197673 TAAAAAATAATAAATTAAAATAAATTAAATATT
1 TAAAAAATAATAAATTAAAATAAATTAAATATT
3197706 TAA
1 TAA
3197709 TTTGATTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 5 0.16
31 14 0.44
32 2 0.06
33 11 0.34
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (33 bp):
TAAAAAATAATAAATTAAAATAAATTAAATATT
Found at i:3201317 original size:30 final size:30
Alignment explanation
Indices: 3201281--3201340 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
3201271 TCTCTTTTGG
3201281 TGTGGTATTATATTGTTATTATACAAAGAA
1 TGTGGTATTATATTGTTATTATACAAAGAA
3201311 TGTGGTATTATATTGTTATTATACAAAGAA
1 TGTGGTATTATATTGTTATTATACAAAGAA
3201341 AGCAGGAGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.03, G:0.17, T:0.43
Consensus pattern (30 bp):
TGTGGTATTATATTGTTATTATACAAAGAA
Found at i:3205789 original size:95 final size:95
Alignment explanation
Indices: 3205662--3205849 Score: 358
Period size: 95 Copynumber: 2.0 Consensus size: 95
3205652 TCAACATTTT
*
3205662 CCTCTAAAGGGTTTGTATCCCTAGCACTAGCATAGCTAGTAGTTTATAAAGTAACAACAACTCCT
1 CCTCTAAAGGGTTTGTATCCCTAGCACTAGCATAGCTAGTAGTTGATAAAGTAACAACAACTCCT
3205727 AAATTTTATATACTGCTAAATCTCTCATTC
66 AAATTTTATATACTGCTAAATCTCTCATTC
3205757 CCTCTAAAGGGTTTGTATCCCTAGCACTAGCATAGCTAGTAGTTGATAAAGTAACAACAACTCCT
1 CCTCTAAAGGGTTTGTATCCCTAGCACTAGCATAGCTAGTAGTTGATAAAGTAACAACAACTCCT
*
3205822 AAATTTTATGTACTGCTAAATCTCTCAT
66 AAATTTTATATACTGCTAAATCTCTCAT
3205850 GGGATTTAGT
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 91 1.00
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (95 bp):
CCTCTAAAGGGTTTGTATCCCTAGCACTAGCATAGCTAGTAGTTGATAAAGTAACAACAACTCCT
AAATTTTATATACTGCTAAATCTCTCATTC
Found at i:3210381 original size:184 final size:186
Alignment explanation
Indices: 3210110--3210492 Score: 518
Period size: 184 Copynumber: 2.1 Consensus size: 186
3210100 GTGAAAGTGT
* * *
3210110 TTTTGAGAACAAACACCTTCAATAATTTTTTCTTAAAATTTTTGGGATTAATAAAGGCGTCTTCC
1 TTTTGAGATCAAACACCTTCAATAATTTTTTCTTAAAATTTTTGAGATTAATAAAAGCGTCTTCC
* * * *
3210175 AGTGAAAAACGCCTTTAATATTTCACAACTCAAATTTTGAAACAATTAGTGAATGTGTTTATTCT
66 AGTGAAAAACGCCTTCAATATTTCACAACTCAAATTTTGAAACAATTAGTGAAGGCGTTTATTCC
* *
3210240 AGAAAAATGCATTCACTAATTTCTTCAATTTTACATGCATAATTATTGAAGGCATC
131 AGAAAAATGCATTCACTAATTTCTTCAAATTTACATGCACAATTATTGAAGGCATC
* * * *
3210296 TTTTGAGATCAAACGCCTTTAATAATTTTTT-TTAAAA-TTTTGAGATTATTAAAAGCGTCTTTC
1 TTTTGAGATCAAACACCTTCAATAATTTTTTCTTAAAATTTTTGAGATTAATAAAAGCGTCTTCC
* * * *** *
3210359 AGTGAAAAATGCCTTCAATATTTCATAACTCAAATTTTGAGATGGTTAGTGAGGGCGTTTATTCC
66 AGTGAAAAACGCCTTCAATATTTCACAACTCAAATTTTGAAACAATTAGTGAAGGCGTTTATTCC
* * * * *
3210424 AGAATAATGCCTTCACTAATTTTTTCAAATTTACGTGCACAATTATTGAAGGCGTC
131 AGAAAAATGCATTCACTAATTTCTTCAAATTTACATGCACAATTATTGAAGGCATC
*
3210480 TTTTGATATCAAA
1 TTTTGAGATCAAA
3210493 GACACATTTA
Statistics
Matches: 171, Mismatches: 26, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
184 137 0.80
185 6 0.04
186 28 0.16
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (186 bp):
TTTTGAGATCAAACACCTTCAATAATTTTTTCTTAAAATTTTTGAGATTAATAAAAGCGTCTTCC
AGTGAAAAACGCCTTCAATATTTCACAACTCAAATTTTGAAACAATTAGTGAAGGCGTTTATTCC
AGAAAAATGCATTCACTAATTTCTTCAAATTTACATGCACAATTATTGAAGGCATC
Found at i:3210735 original size:250 final size:247
Alignment explanation
Indices: 3210283--3210742 Score: 697
Period size: 249 Copynumber: 1.9 Consensus size: 247
3210273 CATGCATAAT
* * *
3210283 TATTGAAGGCATCTTTTGAGATCAAACGCCTTTAATAATTTTTTTTAAAATTTTGAGATTATTAA
1 TATTGAAGGCATCTTTTGAGATCAAACGCCTTCAATAATTTTTCTTAAAATTTTGAGATTAATAA
* * * *
3210348 AAGCGTCTTTCAGTGAAAAATGCCTTCAATATTTCATAACTCAAATTTTGAGATGGTTAGTGAGG
66 AAGCGTCTTCCAGTGAAAAATGCCTTCAATATTTCACAACTCAAATTTTGAGATAGTTAGTGAAG
* * * * * * *
3210413 GCGTTTATTCCAGAATAATGCCTTCACTAATTTTTTCAAATTTACGTGCACAATTATTGAAGGCG
131 GCATTTATTCAAAAAAAATGCATTCACTAATTCTTTCAAATTTACATGCACAATTATTGAAGGCG
*
3210478 TCTTTTGATATCAAAGACACATTTATTAATCCCAAAAATTTTAAGAGGAAAG
196 TCTTTTGAGATCAAAGACACATTTATTAATCCCAAAAATTTTAAGAGGAAAG
*
3210530 TATTGAAGGCATCTTTTGAGAT-AAACCGCCTTCAATAATTTTCTCTTAAAATTTTTGGGATTAA
1 TATTGAAGGCATCTTTTGAGATCAAA-CGCCTTCAATAATTTT-TCTTAAAA-TTTTGAGATTAA
* * *
3210594 TAAATGTGTCTTCCAGTGAAAAATGCCTTCAATATTTTACAACTCAAATTTTGAGATAGTTAGTG
63 TAAAAGCGTCTTCCAGTGAAAAATGCCTTCAATATTTCACAACTCAAATTTTGAGATAGTTAGTG
*
3210659 AATGCATTTATTTCAAAAAAAATGCATTCACTAATTCTTTCAAATTTACATGCACAATTATTGAA
128 AAGGCATTTA-TTCAAAAAAAATGCATTCACTAATTCTTTCAAATTTACATGCACAATTATTGAA
3210724 GGCGTCTTTTGAGATCAAA
192 GGCGTCTTTTGAGATCAAA
3210743 TGCCTTCAAT
Statistics
Matches: 189, Mismatches: 20, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
246 3 0.02
247 37 0.20
248 7 0.04
249 76 0.40
250 66 0.35
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.37
Consensus pattern (247 bp):
TATTGAAGGCATCTTTTGAGATCAAACGCCTTCAATAATTTTTCTTAAAATTTTGAGATTAATAA
AAGCGTCTTCCAGTGAAAAATGCCTTCAATATTTCACAACTCAAATTTTGAGATAGTTAGTGAAG
GCATTTATTCAAAAAAAATGCATTCACTAATTCTTTCAAATTTACATGCACAATTATTGAAGGCG
TCTTTTGAGATCAAAGACACATTTATTAATCCCAAAAATTTTAAGAGGAAAG
Found at i:3211092 original size:185 final size:185
Alignment explanation
Indices: 3210530--3212024 Score: 1574
Period size: 185 Copynumber: 8.1 Consensus size: 185
3210520 AAGAGGAAAG
* * *
3210530 TATTGAAGGCATCTTTTGAGAT-AAACCGCCTTCAATAATTTTCTCTTAAAATTTTTGGGATTAA
1 TATTGAAGGCATCTTTTGAGATCAAA-CGCCTTCAATAATTTT-TTTTAAAATTTTTGAGATTAT
* * * * * **
3210594 TAAATGTGTCTTCCAGTGAAAAATGCCTTCAATATTTTACAACTCAAATTTTGAGATAGTTAGTG
64 TAAAGGTATCTTCTAGTGAAAAACGCCTTCAATATTTCACAACTCAAATTTTGAGACGGTTAGTG
* * * * * * * *
3210659 AATGCATTTATTTCAAAAAAAATGCATTCACTAATTCTTTCAAATTTACATGCACAAT
129 AAGGCATTTA-TTCTAGAAAAATACCTTCACTAATTCTTTCTAATTTACGTGCATAAT
* *
3210717 TATTGAAGGCGTCTTTTGAGATCAAATGCCTTCAATAATTTTTTTTAAAAATTTTTGAGATTATT
1 TATTGAAGGCATCTTTTGAGATCAAACGCCTTCAATAATTTTTTTT-AAAATTTTTGAGATTATT
* * * * * * *
3210782 AAAAGCATCTTCTAGTGAAAAACGCTTTCAATATTCCATAACTCAAATTTTGAGACAGTTAGTAA
65 AAAGGTATCTTCTAGTGAAAAACGCCTTCAATATTTCACAACTCAAATTTTGAGACGGTTAGTGA
* * * * *
3210847 AGGCGTTTATTCTAGAATAATGCCTTCACTAATTTTTTGTAATTTACGTGCATAAT
130 AGGCATTTATTCTAGAAAAATACCTTCACTAATTCTTTCTAATTTACGTGCATAAT
* * * * * *
3210903 TATTGAAGGTATCTTTTAAGAAT-AAATGCCTTTAATAATTTTTTCTTAAAATTTTTGGGATTAA
1 TATTGAAGGCATCTTTTGAG-ATCAAACGCCTTCAATAATTTTTT-TTAAAATTTTTGAGATTAT
* * * *
3210967 TAAAGGTATCTTCTA-TGAAAAACGTCTTCAATATTTCATAACTCAAATTTTGAAATGGTTAGTG
64 TAAAGGTATCTTCTAGTGAAAAACGCCTTCAATATTTCACAACTCAAATTTTGAGACGGTTAGTG
* * * * * * *
3211031 AAAGCATTTATTTTAGAAAAATACTTTCATTAATTCCTTCTAATTTATGTGCACAAT
129 AAGGCATTTATTCTAGAAAAATACCTTCACTAATTCTTTCTAATTTACGTGCATAAT
*
3211088 TATTGAAGGCGTCTTTTGAGATCAAACGCCTTCAATAATTTTTTTTAAAATTTTTGAGATTATTA
1 TATTGAAGGCATCTTTTGAGATCAAACGCCTTCAATAATTTTTTTTAAAATTTTTGAGATTATTA
* * ** *
3211153 AAGACGTCT-TTC-AGTAAAAAATACCTTCAATATTTCACAACTCAAATTTTGAGATGGTTAGTG
66 AAG--GTATCTTCTAGTGAAAAACGCCTTCAATATTTCACAACTCAAATTTTGAGACGGTTAGTG
* * * * *
3211216 AATGCATTTATTCCAGAATAATACCTTCACTAATT-TCTTATAATTTATGTGCATAAT
129 AAGGCATTTATTCTAGAAAAATACCTTCACTAATTCT-TTCTAATTTACGTGCATAAT
* * *
3211273 TATTGAATGCATCTTTTGAGATCAAACTCCTTTAATAATTTTTTCTTAAAATTTTTGAGATTATT
1 TATTGAAGGCATCTTTTGAGATCAAACGCCTTCAATAATTTTTT-TTAAAATTTTTGAGATTATT
* * * *
3211338 AAAGGCATCTTCTTGTGAAAAACGCATTCAATATTTCACAACTCAAATTTTAAGACGGTTAGTGA
65 AAAGGTATCTTCTAGTGAAAAACGCCTTCAATATTTCACAACTCAAATTTTGAGACGGTTAGTGA
* * * * *
3211403 AGGTATTTATTTCAAAAAAAATACCTTCATTAATTCCTTCTAATTTACGTGCATAAT
130 AGGCATTTA-TTCTAGAAAAATACCTTCACTAATTCTTTCTAATTTACGTGCATAAT
* * * *
3211460 TATTGAAGGCGTCTTTCGAGATTAAACGCCTTCAATAATTTTCTTTCAAAATTTTTGAGATTATT
1 TATTGAAGGCATCTTTTGAGATCAAACGCCTTCAATAATTTT-TTTTAAAATTTTTGAGATTATT
* * * * * * *
3211525 AAAAGTGTCTTCAAATGAAAAATGCCTTCAATATTTCACAACACAAAATTTGAGACGGTTAGTGA
65 AAAGGTATCTTCTAGTGAAAAACGCCTTCAATATTTCACAACTCAAATTTTGAGACGGTTAGTGA
* * * * * *
3211590 AGGCGTTTATTCCAGCAAAATGCCTTCACTAATTTTTTCTAATTTACATGCATAAT
130 AGGCATTTATTCTAGAAAAATACCTTCACTAATTCTTTCTAATTTACGTGCATAAT
* * * * * *
3211646 TATTGAAAGCATTTTTTGAGATCAAGCGCCTTCAATAATTTACTCTTAAAATTTTTGAG-TTATG
1 TATTGAAGGCATCTTTTGAGATCAAACGCCTTCAATAATTT-TTTTTAAAATTTTTGAGATTATT
* * ** * * * * *
3211710 AAAGGTGT-TTTTCAGTGAAAAACATCTTTAATATTCCACAACTCAAATTTTAAGACAGTTAATG
65 AAAGGTATCTTCT-AGTGAAAAACGCCTTCAATATTTCACAACTCAAATTTTGAGACGGTTAGTG
* *
3211774 AAGGCATTTATTCTAGGAAAATACCTTCACTAATTCTTTCTAATTTACATGCATAAT
129 AAGGCATTTATTCTAGAAAAATACCTTCACTAATTCTTTCTAATTTACGTGCATAAT
* * * *
3211831 TATTGAAGGCATCTTTTGAGAGCAAACACCTTCAATAAATTTTTTTTAAAA--TTTAAAATTATT
1 TATTGAAGGCATCTTTTGAGATCAAACGCCTTCAAT-AATTTTTTTTAAAATTTTTGAGATTATT
* * * * * * ** * * *
3211894 AAAAGCGT-TTTTC-AGTGAAAAACACCTTCAATATTCCATAATTAAAAGATTAAGATGATTAGT
65 -AAAG-GTATCTTCTAGTGAAAAACGCCTTCAATATTTCACAACTCAAATTTTGAGACGGTTAGT
* * * ** * ** *
3211957 GAAGGCGTTTATTCTAAAAAAATACATTTGCTAATTCTTTTTAATTTTTGTACATAAT
128 GAAGGCATTTATTCTAGAAAAATACCTTCACTAATTCTTTCTAATTTACGTGCATAAT
*
3212015 TATTAAAGGC
1 TATTGAAGGC
3212025 GATTGTCTAT
Statistics
Matches: 1096, Mismatches: 190, Indels: 47
0.82 0.14 0.04
Matches are distributed among these distances:
183 4 0.00
184 128 0.12
185 405 0.37
186 282 0.26
187 272 0.25
188 5 0.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (185 bp):
TATTGAAGGCATCTTTTGAGATCAAACGCCTTCAATAATTTTTTTTAAAATTTTTGAGATTATTA
AAGGTATCTTCTAGTGAAAAACGCCTTCAATATTTCACAACTCAAATTTTGAGACGGTTAGTGAA
GGCATTTATTCTAGAAAAATACCTTCACTAATTCTTTCTAATTTACGTGCATAAT
Found at i:3212663 original size:28 final size:28
Alignment explanation
Indices: 3212612--3212670 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
3212602 TGCTGAACCT
* * *
3212612 TATTATGTGATATTGTTTTATTGAATGG
1 TATTATATGATATTGGTATATTGAATGG
* *
3212640 TATTATATGATATTGGTATGTTGAATTG
1 TATTATATGATATTGGTATATTGAATGG
3212668 TAT
1 TAT
3212671 GTTGAATGGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (28 bp):
TATTATATGATATTGGTATATTGAATGG
Found at i:3212688 original size:12 final size:12
Alignment explanation
Indices: 3212673--3212742 Score: 52
Period size: 12 Copynumber: 5.7 Consensus size: 12
3212663 AATTGTATGT
3212673 TGAATGGTTTGC
1 TGAATGGTTTGC
*
3212685 TGAATGGGATTT-A
1 TGAAT-GG-TTTGC
* *
3212698 TGAATGATTTGT
1 TGAATGGTTTGC
*
3212710 TGAATGGTATTTC
1 TGAATGGT-TTGC
*
3212723 TGAGTGGTTTGC
1 TGAATGGTTTGC
*
3212735 TGCATGGT
1 TGAATGGT
3212743 GTGTCTAAGT
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
11 3 0.07
12 22 0.50
13 16 0.36
14 3 0.07
ACGTcount: A:0.20, C:0.06, G:0.31, T:0.43
Consensus pattern (12 bp):
TGAATGGTTTGC
Found at i:3212742 original size:25 final size:25
Alignment explanation
Indices: 3212633--3212742 Score: 96
Period size: 25 Copynumber: 4.3 Consensus size: 25
3212623 ATTGTTTTAT
* *
3212633 TGAATGGTATTATATGATATTGGTATGT
1 TGAATGGTATT-TATGA-A-TGGTTTGC
* *
3212661 TGAATTGTATGT-TGAATGGTTTGC
1 TGAATGGTATTTATGAATGGTTTGC
* * *
3212685 TGAATGGGATTTATGAATGATTTGT
1 TGAATGGTATTTATGAATGGTTTGC
* *
3212710 TGAATGGTATTTCTGAGTGGTTTGC
1 TGAATGGTATTTATGAATGGTTTGC
*
3212735 TGCATGGT
1 TGAATGGT
3212743 GTGTCTAAGT
Statistics
Matches: 66, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
24 15 0.23
25 38 0.58
26 3 0.05
27 1 0.02
28 9 0.14
ACGTcount: A:0.23, C:0.04, G:0.29, T:0.45
Consensus pattern (25 bp):
TGAATGGTATTTATGAATGGTTTGC
Found at i:3216498 original size:20 final size:20
Alignment explanation
Indices: 3216473--3216512 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
3216463 TCATTTCAAC
3216473 TTTTTTGTATGGATTATTAA
1 TTTTTTGTATGGATTATTAA
3216493 TTTTTTGTATGGATTATTAA
1 TTTTTTGTATGGATTATTAA
3216513 AGGTGTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.15, T:0.60
Consensus pattern (20 bp):
TTTTTTGTATGGATTATTAA
Found at i:3229264 original size:2 final size:2
Alignment explanation
Indices: 3229252--3229281 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
3229242 GCAAGCATCA
3229252 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3229282 GGTTAATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3230956 original size:14 final size:14
Alignment explanation
Indices: 3230937--3230997 Score: 67
Period size: 14 Copynumber: 4.6 Consensus size: 14
3230927 GTAAAAAATT
3230937 TTATTAAATATTTA
1 TTATTAAATATTTA
3230951 TTATTAAA-A-TTA
1 TTATTAAATATTTA
* *
3230963 --ATGTAAAAATTTC
1 TTAT-TAAATATTTA
3230976 TTATTAAATATTTA
1 TTATTAAATATTTA
3230990 TTATTAAA
1 TTATTAAA
3230998 ATTAACATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
10 2 0.05
11 4 0.10
12 4 0.10
13 3 0.08
14 24 0.62
15 2 0.05
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (14 bp):
TTATTAAATATTTA
Found at i:3230959 original size:25 final size:25
Alignment explanation
Indices: 3230931--3230998 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 25
3230921 AATAATGTAA
*
3230931 AAAATTTTATTAAATATTTATTATT
1 AAAATTTTATTAAAAATTTATTATT
* *
3230956 AAAA-TTAATGTAAAAATTTCTTATT
1 AAAATTTTAT-TAAAAATTTATTATT
3230981 AAATATTTATTATTAAAA
1 AAA-A-TT-TTATTAAAA
3230999 TTAACATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
24 4 0.12
25 20 0.59
26 1 0.03
28 6 0.18
29 3 0.09
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (25 bp):
AAAATTTTATTAAAAATTTATTATT
Found at i:3230986 original size:39 final size:38
Alignment explanation
Indices: 3230923--3231002 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 38
3230913 TGTAAAGCAA
3230923 TAATGTAAAAAATTTTATTAAATATTTATTATTAAAAT
1 TAATGTAAAAAATTTTATTAAATATTTATTATTAAAAT
*
3230961 TAATGTAAAAATTTCTTATTAAATATTTATTATTAAAAT
1 TAATGTAAAAAATT-TTATTAAATATTTATTATTAAAAT
3231000 TAA
1 TAA
3231003 CATTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
38 13 0.32
39 27 0.68
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (38 bp):
TAATGTAAAAAATTTTATTAAATATTTATTATTAAAAT
Found at i:3232452 original size:3 final size:3
Alignment explanation
Indices: 3232444--3232472 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
3232434 TAGTGAGAAA
3232444 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
3232473 CAATTTATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:3236924 original size:14 final size:14
Alignment explanation
Indices: 3236898--3236966 Score: 69
Period size: 14 Copynumber: 5.3 Consensus size: 14
3236888 CAATAATGTA
3236898 AAAAATTTA--ATT
1 AAAAATTTATTATT
*
3236910 AAATATTTATTATT
1 AAAAATTTATTATT
3236924 -AAAA-TTA--ATGT
1 AAAAATTTATTAT-T
*
3236935 AAAAATTTCTTATT
1 AAAAATTTATTATT
3236949 AAAAATTTATTATT
1 AAAAATTTATTATT
3236963 AAAA
1 AAAA
3236967 TTAACATTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
10 2 0.04
11 1 0.02
12 15 0.33
13 5 0.11
14 21 0.46
15 2 0.04
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (14 bp):
AAAAATTTATTATT
Found at i:3236927 original size:25 final size:27
Alignment explanation
Indices: 3236898--3236957 Score: 81
Period size: 25 Copynumber: 2.3 Consensus size: 27
3236888 CAATAATGTA
*
3236898 AAAAATTTAAT-TAAATATTTATTATT
1 AAAAATTTAATGTAAAAATTTATTATT
*
3236924 -AAAA-TTAATGTAAAAATTTCTTATT
1 AAAAATTTAATGTAAAAATTTATTATT
3236949 AAAAATTTA
1 AAAAATTTA
3236958 TTATTAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 5 0.17
25 17 0.59
26 4 0.14
27 3 0.10
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (27 bp):
AAAAATTTAATGTAAAAATTTATTATT
Found at i:3236957 original size:39 final size:38
Alignment explanation
Indices: 3236891--3236970 Score: 124
Period size: 39 Copynumber: 2.1 Consensus size: 38
3236881 TGTAAAGCAA
*
3236891 TAATGTAAAAAATTTAATTAAATATTTATTATTAAAAT
1 TAATGTAAAAAATTTAATTAAAAATTTATTATTAAAAT
* *
3236929 TAATGTAAAAATTTCTTATTAAAAATTTATTATTAAAAT
1 TAATGTAAAAAATT-TAATTAAAAATTTATTATTAAAAT
3236968 TAA
1 TAA
3236971 CATTTTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
38 13 0.34
39 25 0.66
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (38 bp):
TAATGTAAAAAATTTAATTAAAAATTTATTATTAAAAT
Found at i:3246177 original size:2 final size:2
Alignment explanation
Indices: 3246170--3246200 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
3246160 ATGAGGTTCG
3246170 AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3246201 GCCACACTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3246192 original size:15 final size:15
Alignment explanation
Indices: 3246172--3246200 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3246162 GAGGTTCGAT
3246172 ATATATATATATATA
1 ATATATATATATATA
3246187 ATATATATATATAT
1 ATATATATATATAT
3246201 GCCACACTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATATATATATATA
Found at i:3255786 original size:27 final size:27
Alignment explanation
Indices: 3255756--3255811 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
3255746 TAATTAATTA
3255756 CCGTATACTTTAATCATCAATGATACT
1 CCGTATACTTTAATCATCAATGATACT
*
3255783 CCGTATACTTTAATCATCAATGCTACT
1 CCGTATACTTTAATCATCAATGATACT
3255810 CC
1 CC
3255812 ATTTTTTTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (27 bp):
CCGTATACTTTAATCATCAATGATACT
Found at i:3256015 original size:84 final size:84
Alignment explanation
Indices: 3255921--3256084 Score: 267
Period size: 84 Copynumber: 2.0 Consensus size: 84
3255911 AGATTAATTG
*
3255921 TCTACATATATATCATTCTTTATCCACACATCCTCTTGATGTGGGATTGG-GAGCGTTACAATCT
1 TCTACATATATATCATTCTTTATCCACACATCATCTTGATGTGGGATTGGAG-GCGTTACAATCT
* *
3255985 CCTTACCTTTAATGTTAGTC
65 ACTCACCTTTAATGTTAGTC
* *
3256005 TCTACATATATATCATTCTTTATTCACACATCATTTTGATGTGGGATTGGAGGCGTTACAATCTA
1 TCTACATATATATCATTCTTTATCCACACATCATCTTGATGTGGGATTGGAGGCGTTACAATCTA
3256070 CTCACCTTTAATGTT
66 CTCACCTTTAATGTT
3256085 TGACGTCCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
84 73 0.99
85 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (84 bp):
TCTACATATATATCATTCTTTATCCACACATCATCTTGATGTGGGATTGGAGGCGTTACAATCTA
CTCACCTTTAATGTTAGTC
Found at i:3257632 original size:18 final size:19
Alignment explanation
Indices: 3257591--3257633 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
3257581 TGATTTCAAT
* *
3257591 AATTAATTAAAATTAATTT
1 AATTAATTAAAATTAAATC
*
3257610 GATTAA-TAAAATTAAATC
1 AATTAATTAAAATTAAATC
3257628 AATTAA
1 AATTAA
3257634 ATCTATTAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
AATTAATTAAAATTAAATC
Found at i:3260166 original size:21 final size:21
Alignment explanation
Indices: 3260140--3260183 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
3260130 TATTATCTCA
*
3260140 TAAAATAACTATATAAATCAAT
1 TAAATTAACTATA-AAATCAAT
* *
3260162 TAAATTAATTATAAAATTAAT
1 TAAATTAACTATAAAATCAAT
3260183 T
1 T
3260184 TTTTCAACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (21 bp):
TAAATTAACTATAAAATCAAT
Found at i:3260992 original size:23 final size:22
Alignment explanation
Indices: 3260966--3261018 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 22
3260956 AATTTAAATA
*
3260966 TTAAATTTATTGA-ATATTAATTT
1 TTAAATTTATT-ATATA-AAATTT
*
3260989 TTAAAAATTATTATATAAAATTT
1 TT-AAATTTATTATATAAAATTT
3261012 TTAAATT
1 TTAAATT
3261019 AAATTTGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 4 0.16
23 10 0.40
24 11 0.44
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TTAAATTTATTATATAAAATTT
Found at i:3265986 original size:11 final size:11
Alignment explanation
Indices: 3265972--3266003 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
3265962 ATTCTTTCTC
3265972 TATTATATATA
1 TATTATATATA
3265983 TATTATATATA
1 TATTATATATA
*
3265994 TAGTATATAT
1 TATTATATAT
3266004 TAAAAAATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (11 bp):
TATTATATATA
Found at i:3266102 original size:121 final size:119
Alignment explanation
Indices: 3265883--3266124 Score: 434
Period size: 121 Copynumber: 2.0 Consensus size: 119
3265873 ACCTTTGAGG
3265883 ATTAAAAAATCAAGTTAATTCCAGAAGACCATTGACCAGCTAAGCAGGCAGTAAAACTGTAGAAC
1 ATTAAAAAATCAAGTTAATTCCAGAAGACCATTGACCAGCTAAGCAGGCAGTAAAACTGTAGAAC
3265948 TATCTAAATCGTCTATTCTTTCTCTATTATATATATAT-TATATATATAGTATAT
66 TATCTAAATCGTCTATTCTTTCTCTATTATATATATATATATATATATA-TATAT
3266002 ATTAAAAAATGGCAAGTTAATTCC-GAAAGACCATTGACCAGCTAAGCAGGCAGTAAAACTGTAG
1 ATTAAAAAAT--CAAGTTAATTCCAG-AAGACCATTGACCAGCTAAGCAGGCAGTAAAACTGTAG
3266066 AACTATCTAAATCGTCTATTCTTTCTCTATTATATATATATATATATATATATATAT
63 AACTATCTAAATCGTCTATTCTTTCTCTATTATATATATATATATATATATATATAT
3266123 AT
1 AT
3266125 ATATATATAA
Statistics
Matches: 119, Mismatches: 0, Indels: 6
0.95 0.00 0.05
Matches are distributed among these distances:
119 10 0.08
120 1 0.01
121 98 0.82
122 10 0.08
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (119 bp):
ATTAAAAAATCAAGTTAATTCCAGAAGACCATTGACCAGCTAAGCAGGCAGTAAAACTGTAGAAC
TATCTAAATCGTCTATTCTTTCTCTATTATATATATATATATATATATATATAT
Found at i:3266103 original size:2 final size:2
Alignment explanation
Indices: 3266096--3266133 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
3266086 CTTTCTCTAT
3266096 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3266134 AGGGCAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3266635 original size:2 final size:2
Alignment explanation
Indices: 3266628--3266662 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
3266618 ATGAGGTTCG
*
3266628 AT AT AT AT A- AT AT AT AT AT AT AA AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3266663 GCCACACTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:3276255 original size:97 final size:97
Alignment explanation
Indices: 3276137--3276330 Score: 316
Period size: 97 Copynumber: 2.0 Consensus size: 97
3276127 TCTCTACCTT
** *
3276137 TAATGCTTGACATCCCTGTCAAGTCGAGTCTATCCACAGGACCAAGATCACACCAGACCATCGTG
1 TAATGCTTGACATCCCTGTCAAACCGAGTCTATCCACAAGACCAAGATCACACCAGACCATCGTG
3276202 TAACAATTAGTGACTCCCACGACTACGGACTG
66 TAACAATTAGTGACTCCCACGACTACGGACTG
*
3276234 TAATGCTTGACATCCCTGTCAAACCGAGTCTATCCACAAGACCAAGATCACACCAGACTATCGTG
1 TAATGCTTGACATCCCTGTCAAACCGAGTCTATCCACAAGACCAAGATCACACCAGACCATCGTG
* * * *
3276299 TAACACTTAGTGACTCTCACGATTGCGGACTG
66 TAACAATTAGTGACTCCCACGACTACGGACTG
3276331 ATGATCGCTC
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
97 89 1.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (97 bp):
TAATGCTTGACATCCCTGTCAAACCGAGTCTATCCACAAGACCAAGATCACACCAGACCATCGTG
TAACAATTAGTGACTCCCACGACTACGGACTG
Found at i:3276695 original size:8 final size:8
Alignment explanation
Indices: 3276682--3276706 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
3276672 TTTGAATTAA
3276682 TTTATATT
1 TTTATATT
3276690 TTTATATT
1 TTTATATT
3276698 TTTATATT
1 TTTATATT
3276706 T
1 T
3276707 AACATTATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTATATT
Found at i:3277792 original size:18 final size:19
Alignment explanation
Indices: 3277751--3277793 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
3277741 GATTTTCAAT
* *
3277751 AATTAATTAAAATTAATTT
1 AATTAATTAAAATTAAATC
*
3277770 GATTAA-TAAAATTAAATC
1 AATTAATTAAAATTAAATC
3277788 AATTAA
1 AATTAA
3277794 ATCTATTAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
AATTAATTAAAATTAAATC
Found at i:3280326 original size:21 final size:21
Alignment explanation
Indices: 3280300--3280343 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
3280290 TATTATCTCA
*
3280300 TAAAATAACTATATAAATCAAT
1 TAAATTAACTATA-AAATCAAT
* *
3280322 TAAATTAATTATAAAATTAAT
1 TAAATTAACTATAAAATCAAT
3280343 T
1 T
3280344 TTTTCAACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (21 bp):
TAAATTAACTATAAAATCAAT
Found at i:3281153 original size:23 final size:22
Alignment explanation
Indices: 3281127--3281179 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 22
3281117 AATTTAAATA
*
3281127 TTAAATTTATTGA-ATATTAATTT
1 TTAAATTTATT-ATATA-AAATTT
*
3281150 TTAAAAATTATTATATAAAATTT
1 TT-AAATTTATTATATAAAATTT
3281173 TTAAATT
1 TTAAATT
3281180 AAATTTGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 4 0.16
23 10 0.40
24 11 0.44
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TTAAATTTATTATATAAAATTT
Found at i:3281284 original size:30 final size:30
Alignment explanation
Indices: 3281250--3281312 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
3281240 ATTTTTATTA
3281250 ATTCAAACAAACTCTTAATCTTTAATTTAT
1 ATTCAAACAAACTCTTAATCTTTAATTTAT
*** * * *
3281280 ATTCAATTGAATTTTTAATTTTTAATTTAT
1 ATTCAAACAAACTCTTAATCTTTAATTTAT
3281310 ATT
1 ATT
3281313 TAAATTAGTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.52
Consensus pattern (30 bp):
ATTCAAACAAACTCTTAATCTTTAATTTAT
Found at i:3281330 original size:31 final size:31
Alignment explanation
Indices: 3281264--3281348 Score: 120
Period size: 31 Copynumber: 2.8 Consensus size: 31
3281254 AAACAAACTC
* *
3281264 TTAATCTTTAATTTATA-TTCAATTGAATTT
1 TTAATTTTTAATTTATATTTAAATTGAATTT
*
3281294 TTAATTTTTAATTTATATTTAAATT-AGTATT
1 TTAATTTTTAATTTATATTTAAATTGAAT-TT
3281325 TTAATTTTTAATTTATATTTAAAT
1 TTAATTTTTAATTTATATTTAAAT
3281349 AAATTCTTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
30 18 0.36
31 32 0.64
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (31 bp):
TTAATTTTTAATTTATATTTAAATTGAATTT
Found at i:3281418 original size:29 final size:28
Alignment explanation
Indices: 3281376--3281452 Score: 95
Period size: 28 Copynumber: 2.7 Consensus size: 28
3281366 AATTTTTCAT
*
3281376 TTAAAATA-AAAATTTATTTCAATATAAA
1 TTAAAATATAAAATTTATTTAAATAT-AA
*
3281404 TTAAAGTATAAAATTTAATTTAAATATAA
1 TTAAAATATAAAATTT-ATTTAAATATAA
3281433 -TAAAATATAAAAATTTATTT
1 TTAAAATAT-AAAATTTATTT
3281453 TTAAAAATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
28 18 0.42
29 16 0.37
30 9 0.21
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (28 bp):
TTAAAATATAAAATTTATTTAAATATAA
Found at i:3281457 original size:30 final size:29
Alignment explanation
Indices: 3281381--3281452 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
3281371 TTCATTTAAA
* *
3281381 ATAAAAATTTATTTCAATATAAATTAAAGT
1 ATAAAAATTTATTTAAATAT-AATTAAAAT
3281411 AT-AAAATTTAATTTAAATATAA-TAAAAT
1 ATAAAAATTT-ATTTAAATATAATTAAAAT
3281439 ATAAAAATTTATTT
1 ATAAAAATTTATTT
3281453 TTAAAAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
28 11 0.29
29 16 0.42
30 11 0.29
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (29 bp):
ATAAAAATTTATTTAAATATAATTAAAAT
Found at i:3281539 original size:17 final size:18
Alignment explanation
Indices: 3281506--3281541 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
3281496 AAATTTTGAA
*
3281506 TTTTACTTTTTTTTTTCT
1 TTTTACTTTTTTGTTTCT
3281524 TTTTAC-TTTTTGTTTCT
1 TTTTACTTTTTTGTTTCT
3281541 T
1 T
3281542 GTGTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.06, C:0.11, G:0.03, T:0.81
Consensus pattern (18 bp):
TTTTACTTTTTTGTTTCT
Found at i:3282326 original size:32 final size:32
Alignment explanation
Indices: 3282283--3282345 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
3282273 TAAATTTCAT
* * *
3282283 TGTGTGAATTTGATTGTTTAGTTTAATTATAG
1 TGTGTGAATTTGATTATTTAATTAAATTATAG
*
3282315 TGTGTGGATTTGATTATTTAATTAAATTATA
1 TGTGTGAATTTGATTATTTAATTAAATTATA
3282346 ATTTATAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (32 bp):
TGTGTGAATTTGATTATTTAATTAAATTATAG
Found at i:3282502 original size:22 final size:22
Alignment explanation
Indices: 3282474--3282521 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
3282464 TTGAGTGAAA
3282474 CTTATATACTAATATGCTTGAG
1 CTTATATACTAATATGCTTGAG
3282496 CTTATATACTAATATGCTTGAG
1 CTTATATACTAATATGCTTGAG
3282518 CTTA
1 CTTA
3282522 AGCTTGACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (22 bp):
CTTATATACTAATATGCTTGAG
Found at i:3305252 original size:16 final size:16
Alignment explanation
Indices: 3305233--3305267 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
3305223 CATATATTTT
*
3305233 TTATTTTATATTTAGA
1 TTATGTTATATTTAGA
*
3305249 TTATGTTATATTTTGA
1 TTATGTTATATTTAGA
3305265 TTA
1 TTA
3305268 ATTTGATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.63
Consensus pattern (16 bp):
TTATGTTATATTTAGA
Found at i:3310446 original size:12 final size:12
Alignment explanation
Indices: 3310428--3310457 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
3310418 CTTAAAAATG
3310428 ATTTAATAAAAA
1 ATTTAATAAAAA
*
3310440 TTTTAATAAAAA
1 ATTTAATAAAAA
3310452 ATTTAA
1 ATTTAA
3310458 ACTGATAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATTTAATAAAAA
Found at i:3314068 original size:2 final size:2
Alignment explanation
Indices: 3314061--3314086 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3314051 AAACTTATTC
3314061 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
3314087 CTTCCCCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3317278 original size:21 final size:21
Alignment explanation
Indices: 3317246--3317288 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
3317236 TTAAATAAGG
* *
3317246 TTATTTTGTAAATAACTAAAA
1 TTATTTTGTAAAAAAATAAAA
3317267 TTATTTAT-TAAAAAAATAAAA
1 TTATTT-TGTAAAAAAATAAAA
3317288 T
1 T
3317289 CCATATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
TTATTTTGTAAAAAAATAAAA
Found at i:3317393 original size:16 final size:16
Alignment explanation
Indices: 3317347--3317393 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
3317337 AATTTTTAAT
3317347 TATAATTTGAATATTTA
1 TATAATTTGAA-ATTTA
*
3317364 AATAAATTT-AAATTTA
1 TAT-AATTTGAAATTTA
*
3317380 TATAATTTGTAATT
1 TATAATTTGAAATT
3317394 AAAATAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 5 0.20
16 11 0.44
17 4 0.16
18 5 0.20
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (16 bp):
TATAATTTGAAATTTA
Found at i:3317486 original size:17 final size:16
Alignment explanation
Indices: 3317460--3317492 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
3317450 GCAAACTTAT
3317460 TTATATATATATATTA
1 TTATATATATATATTA
3317476 TTATATAATATATATTA
1 TTATAT-ATATATATTA
3317493 GATAAATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATATATATATATTA
Found at i:3320073 original size:2 final size:2
Alignment explanation
Indices: 3320060--3320093 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
3320050 TCTGTAACTC
*
3320060 CT CT CC CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
3320094 TTAGCCATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:3321030 original size:83 final size:83
Alignment explanation
Indices: 3320887--3321049 Score: 254
Period size: 83 Copynumber: 2.0 Consensus size: 83
3320877 TTTCTCTCTT
* ** * * *
3320887 TATTTTTCTCCTATAAATTGCCTCTTTATATGGTCCTTATTGAATTATGTATTCAGTTTGCAGAA
1 TATTTTTCTCCTACAAATTGCCTCTTTATACAGTCCTTATCGAATTATGTATGCAATTTGCAGAA
3320952 TAGATGATTTTGAGTCTC
66 TAGATGATTTTGAGTCTC
* *
3320970 TATTTTTCTCCTACAAATTGCCTCTTTATGCAGTCCTTATCGAATTATGTGTGCAATTTGCAGAA
1 TATTTTTCTCCTACAAATTGCCTCTTTATACAGTCCTTATCGAATTATGTATGCAATTTGCAGAA
3321035 TAGATGATTTTGAGT
66 TAGATGATTTTGAGT
3321050 TCACTCCTGA
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
83 72 1.00
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (83 bp):
TATTTTTCTCCTACAAATTGCCTCTTTATACAGTCCTTATCGAATTATGTATGCAATTTGCAGAA
TAGATGATTTTGAGTCTC
Found at i:3324787 original size:58 final size:58
Alignment explanation
Indices: 3324697--3324812 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
3324687 GTATTTATAT
3324697 TATTTGTTCTATAGTCAATAGGTTCTAATGAATCTCAATAGCTGCTTAATACTCGGAA
1 TATTTGTTCTATAGTCAATAGGTTCTAATGAATCTCAATAGCTGCTTAATACTCGGAA
3324755 TATTTGTTCTATAGTCAATAGGTTCTAATGAATCTCAATAGCTGCTTAATACTCGGAA
1 TATTTGTTCTATAGTCAATAGGTTCTAATGAATCTCAATAGCTGCTTAATACTCGGAA
3324813 GCCATTATTC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (58 bp):
TATTTGTTCTATAGTCAATAGGTTCTAATGAATCTCAATAGCTGCTTAATACTCGGAA
Found at i:3325538 original size:27 final size:26
Alignment explanation
Indices: 3325494--3325548 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
3325484 AGATAAAATG
* * *
3325494 ATATTATTTAATCTAATCCTATTCATA
1 ATATCATTTAATCCAATCC-AATCATA
*
3325521 ATATCATTTTATCCAATCCAATCATA
1 ATATCATTTAATCCAATCCAATCATA
3325547 AT
1 AT
3325549 CTTGTATACC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.38, C:0.18, G:0.00, T:0.44
Consensus pattern (26 bp):
ATATCATTTAATCCAATCCAATCATA
Found at i:3327004 original size:29 final size:30
Alignment explanation
Indices: 3326968--3327031 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
3326958 TTTTAGTTTT
* *
3326968 TAAA-AATTTAGTCTTTTTAATATAATTTA
1 TAAAGAATTTAATCTTTATAATATAATTTA
*
3326997 -AAAGAATTTAATCTTTATAATATTATTTA
1 TAAAGAATTTAATCTTTATAATATAATTTA
3327026 TAAAGA
1 TAAAGA
3327032 TTTCAATTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 3 0.10
29 22 0.73
30 5 0.17
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (30 bp):
TAAAGAATTTAATCTTTATAATATAATTTA
Found at i:3329565 original size:10 final size:9
Alignment explanation
Indices: 3329545--3329578 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
3329535 ATTTTTTAAT
3329545 AAAAAATAA
1 AAAAAATAA
3329554 AAAAAATAA
1 AAAAAATAA
*
3329563 AAAAAACAA
1 AAAAAATAA
3329572 AACAAAA
1 AA-AAAA
3329579 CACCAACGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 19 0.83
10 4 0.17
ACGTcount: A:0.88, C:0.06, G:0.00, T:0.06
Consensus pattern (9 bp):
AAAAAATAA
Found at i:3331385 original size:32 final size:28
Alignment explanation
Indices: 3331357--3331425 Score: 75
Period size: 31 Copynumber: 2.3 Consensus size: 28
3331347 CAAAATTTAC
*
3331357 ATAAAATTTTTAGATGAAATTTATAAATTAA
1 ATAAAATTTTTAG-TAAAATTT-TAAATT-A
* *
3331388 AAAAAATAATTTAGTAAAATTTTAAATTA
1 ATAAAAT-TTTTAGTAAAATTTTAAATTA
3331417 ATAAAATTT
1 ATAAAATTT
3331426 AATATAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
28 1 0.03
29 7 0.22
30 6 0.19
31 13 0.41
32 5 0.16
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (28 bp):
ATAAAATTTTTAGTAAAATTTTAAATTA
Found at i:3341682 original size:16 final size:16
Alignment explanation
Indices: 3341661--3341691 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3341651 TCATTACTAC
*
3341661 TTTTCTTGTTTCCTAT
1 TTTTCTTATTTCCTAT
3341677 TTTTCTTATTTCCTA
1 TTTTCTTATTTCCTA
3341692 ATCCTTTTGT
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:0.10, C:0.19, G:0.03, T:0.68
Consensus pattern (16 bp):
TTTTCTTATTTCCTAT
Found at i:3343652 original size:13 final size:13
Alignment explanation
Indices: 3343634--3343660 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3343624 TTATTATTCA
3343634 TGAAGACCTGATC
1 TGAAGACCTGATC
3343647 TGAAGACCTGATC
1 TGAAGACCTGATC
3343660 T
1 T
3343661 TATGTCCTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (13 bp):
TGAAGACCTGATC
Found at i:3344674 original size:13 final size:13
Alignment explanation
Indices: 3344649--3344681 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
3344639 GGTGATACAG
3344649 TAAAAAAATAATA
1 TAAAAAAATAATA
3344662 TAAATAAAA-AATA
1 TAAA-AAAATAATA
3344675 TAAAAAA
1 TAAAAAA
3344682 TAAGAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 12 0.63
14 4 0.21
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
TAAAAAAATAATA
Found at i:3344705 original size:11 final size:11
Alignment explanation
Indices: 3344689--3344726 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
3344679 AAATAAGAAT
3344689 TAAAAATTTAA
1 TAAAAATTTAA
3344700 TAAAAATTTTAA
1 TAAAAA-TTTAA
*
3344712 -ATAAATTTAA
1 TAAAAATTTAA
3344722 TAAAA
1 TAAAA
3344727 TTAAAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 5 0.22
11 13 0.57
12 5 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
TAAAAATTTAA
Found at i:3344742 original size:22 final size:22
Alignment explanation
Indices: 3344692--3344740 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
3344682 TAAGAATTAA
**
3344692 AAATTTAATAAAAATTTTAAAT
1 AAATTTAATAAAAATTAAAAAT
3344714 AAATTTAAT-AAAATTAAAAAT
1 AAATTTAATAAAAATTAAAAAT
*
3344735 ATATTT
1 AAATTT
3344741 TATATTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AAATTTAATAAAAATTAAAAAT
Found at i:3345977 original size:15 final size:15
Alignment explanation
Indices: 3345957--3345987 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
3345947 TCTCATAAAA
3345957 AAATTAATTTTTTTT
1 AAATTAATTTTTTTT
3345972 AAATTAATTTTTTTT
1 AAATTAATTTTTTTT
3345987 A
1 A
3345988 TTTACAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
AAATTAATTTTTTTT
Found at i:3350555 original size:2 final size:2
Alignment explanation
Indices: 3350548--3350589 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
3350538 AAGCACAGGT
3350548 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3350590 TTTCTCCAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3357321 original size:20 final size:21
Alignment explanation
Indices: 3357285--3357327 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
3357275 CAACGAAATT
3357285 TTTTAATTTATCGA-TTTTAA
1 TTTTAATTTATCGATTTTTAA
*
3357305 TTTTAATTTAAT-TATTTTTAA
1 TTTTAATTT-ATCGATTTTTAA
3357326 TT
1 TT
3357328 ATAAACTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTTAATTTATCGATTTTTAA
Found at i:3361597 original size:2 final size:2
Alignment explanation
Indices: 3361536--3361582 Score: 51
Period size: 2 Copynumber: 24.0 Consensus size: 2
3361526 ATGCATATTC
* * * *
3361536 AT AT AT AA AT AA AT AT AT AT AT AT AT AT AT AT AT -T CT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3361577 AT AT AT
1 AT AT AT
3361583 TTTATATCTT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:3362230 original size:270 final size:272
Alignment explanation
Indices: 3361744--3362269 Score: 867
Period size: 270 Copynumber: 1.9 Consensus size: 272
3361734 TAATTTAAAA
* *
3361744 ATAATTTAAAAAAACTAAATTGATTATATTTATCTTTTTATTATTAACTTTAAATCACTCTCAAT
1 ATAATTAAAAAAAACTAAATTGATTATATTTATATTTTTATTATTAACTTTAAATCACTCTCAAT
*
3361809 TCAATTCATATTAAAAGTATTAAAATTTTAAAAATTTCTTAATTTGACAAATTAAATCAATCAAT
66 TCAATTCATATTAAAAATATTAAAATTTTAAAAATTTCTTAATTTGACAAATTAAATCAATCAAT
* *
3361874 ATATAATCAATAAATTAATAAATACTACAATTACAATTATAAAATAGTTAATTCTCTAATCAATT
131 ATATAATCAATAAATTAATAAATACTACAATTACAACTATAAAATAATTAATTCTCTAATCAATT
3361939 ATTTAATACATTTATATTTGATTAAATATAATATCC-AGTAATTGATGTATTTCATATGTAAATA
196 ATTTAATACATTTATATTTGATTAAATATAATATCCTAGTAATTGATGTATTTCATATGTAAATA
3362003 TATAAAACAAAT
261 TATAAAACAAAT
* * *
3362015 ATAATTAAAAAAAACTAAATTGATTATATTTATATTTTTATTATTGATTTTACATCACTCTCAAT
1 ATAATTAAAAAAAACTAAATTGATTATATTTATATTTTTATTATTAACTTTAAATCACTCTCAAT
*
3362080 TCAATTCATATTAAAAATATTAAAA-TTTAAAAATTTCTTATTTTGACAAATTAAATCAATCAAT
66 TCAATTCATATTAAAAATATTAAAATTTTAAAAATTTCTTAATTTGACAAATTAAATCAATCAAT
* * * *
3362144 ATATAATTACTAAATTAATAAATACTACAATTACAACTATAAAGTAATTAATTCTCTAATTAATT
131 ATATAATCAATAAATTAATAAATACTACAATTACAACTATAAAATAATTAATTCTCTAATCAATT
* *
3362209 ATTTGATACATTTATATTTGATTAAATATAGTATCCGTTTGAGTAATTGATGTATTTCATA
196 ATTTAATACATTTATATTTGATTAAATATAATATCC---T-AGTAATTGATGTATTTCATA
3362270 ATATAATTCA
Statistics
Matches: 235, Mismatches: 15, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
270 131 0.56
271 84 0.36
275 20 0.09
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (272 bp):
ATAATTAAAAAAAACTAAATTGATTATATTTATATTTTTATTATTAACTTTAAATCACTCTCAAT
TCAATTCATATTAAAAATATTAAAATTTTAAAAATTTCTTAATTTGACAAATTAAATCAATCAAT
ATATAATCAATAAATTAATAAATACTACAATTACAACTATAAAATAATTAATTCTCTAATCAATT
ATTTAATACATTTATATTTGATTAAATATAATATCCTAGTAATTGATGTATTTCATATGTAAATA
TATAAAACAAAT
Found at i:3362377 original size:19 final size:21
Alignment explanation
Indices: 3362353--3362410 Score: 70
Period size: 19 Copynumber: 3.0 Consensus size: 21
3362343 TATTTTATTA
*
3362353 ATTTATATTTGATT-GATAT-
1 ATTTATATTTGATTAAATATG
*
3362372 ATTTATATTTCATTAAATATG
1 ATTTATATTTGATTAAATATG
3362393 ATTT-TATTTGA-TAAATAT
1 ATTTATATTTGATTAAATAT
3362411 TAATACACGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 20 0.59
20 10 0.29
21 4 0.12
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTTATATTTGATTAAATATG
Found at i:3362681 original size:20 final size:21
Alignment explanation
Indices: 3362639--3362681 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
3362629 TATTCACTCG
*
3362639 TAATTTTTAGTATTTTAATAT
1 TAATTTTTAGTATTTGAATAT
3362660 TAATTTTTA-TAATTTGAA-AT
1 TAATTTTTAGT-ATTTGAATAT
3362680 TA
1 TA
3362682 TCTTATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (21 bp):
TAATTTTTAGTATTTGAATAT
Found at i:3362819 original size:24 final size:25
Alignment explanation
Indices: 3362792--3362844 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 25
3362782 AACAAATTAA
* *
3362792 ATAAATCAATA-TATAATTAATAA-T
1 ATAAATAAATACTACAATT-ATAATT
3362816 AT-AATAAATACTACAATTATAATT
1 ATAAATAAATACTACAATTATAATT
3362840 ATAAA
1 ATAAA
3362845 ATAATTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
23 11 0.46
24 11 0.46
25 2 0.08
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (25 bp):
ATAAATAAATACTACAATTATAATT
Found at i:3364417 original size:2 final size:2
Alignment explanation
Indices: 3364412--3364451 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
3364402 ACACACACAC
* * *
3364412 AT AT AT AC AT AC AT CT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3364452 CCTTACCTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:3369524 original size:20 final size:20
Alignment explanation
Indices: 3369501--3369538 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3369491 TCTTTGAAAT
3369501 TTTTTTAGTT-GATTTATCTG
1 TTTTTTA-TTGGATTTATCTG
3369521 TTTTTTATTGGATTTATC
1 TTTTTTATTGGATTTATC
3369539 ATTAGTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.16, C:0.05, G:0.13, T:0.66
Consensus pattern (20 bp):
TTTTTTATTGGATTTATCTG
Found at i:3369912 original size:19 final size:19
Alignment explanation
Indices: 3369888--3369927 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
3369878 AATTTTTCAG
* *
3369888 TGAATTTTTGGACCAACTT
1 TGAATTTTTCGACCAAATT
3369907 TGAATTTTTCGACCAAATT
1 TGAATTTTTCGACCAAATT
3369926 TG
1 TG
3369928 TCAGTTTTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (19 bp):
TGAATTTTTCGACCAAATT
Found at i:3370377 original size:6 final size:6
Alignment explanation
Indices: 3370366--3370398 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
3370356 TCCTTAAATT
*
3370366 TTTTAA TTTTAA TGTTAA TTTTAA -TTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
3370399 CTTTTTAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (6 bp):
TTTTAA
Found at i:3370404 original size:17 final size:17
Alignment explanation
Indices: 3370365--3370407 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
3370355 TTCCTTAAAT
3370365 TTTTTAATTTTAATGTTA
1 TTTTTAA-TTTAATGTTA
* * *
3370383 ATTTTAATTTAATTTTC
1 TTTTTAATTTAATGTTA
3370400 TTTTTAAT
1 TTTTTAAT
3370408 GATTTTTCTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTTTAATTTAATGTTA
Found at i:3370498 original size:14 final size:15
Alignment explanation
Indices: 3370479--3370511 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
3370469 ATTTTTCTTA
3370479 AAAAT-AAAATTTCT
1 AAAATAAAAATTTCT
*
3370493 AAAATAAAAATTTTT
1 AAAATAAAAATTTCT
3370508 AAAA
1 AAAA
3370512 GCATTTTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATAAAAATTTCT
Found at i:3374246 original size:17 final size:17
Alignment explanation
Indices: 3374226--3374292 Score: 73
Period size: 17 Copynumber: 3.8 Consensus size: 17
3374216 GAAAAAATGG
3374226 AAAAAGAGAAAAATGAAAA
1 AAAAAGAGAAAAATG--AA
3374245 AAATAAGAGAAAAATGAA
1 AAA-AAGAGAAAAATGAA
*
3374263 AAAAAAATG-AAAATGAA
1 AAAAAGA-GAAAAATGAA
*
3374280 AAAAAGATAAAAA
1 AAAAAGAGAAAAA
3374293 AAAGACTCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
17 21 0.50
18 6 0.14
19 3 0.07
20 12 0.29
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (17 bp):
AAAAAGAGAAAAATGAA
Found at i:3374254 original size:20 final size:19
Alignment explanation
Indices: 3374226--3374284 Score: 86
Period size: 20 Copynumber: 3.2 Consensus size: 19
3374216 GAAAAAATGG
3374226 AAAAAGAGAAAAATGAAAA
1 AAAAAGAGAAAAATGAAAA
3374245 AAATAAGAGAAAAATGAAAA
1 AAA-AAGAGAAAAATGAAAA
*
3374265 AAAAA-TG-AAAATGAAAA
1 AAAAAGAGAAAAATGAAAA
3374282 AAA
1 AAA
3374285 GATAAAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
17 13 0.34
18 1 0.03
19 5 0.13
20 19 0.50
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (19 bp):
AAAAAGAGAAAAATGAAAA
Found at i:3375580 original size:46 final size:46
Alignment explanation
Indices: 3375526--3375910 Score: 416
Period size: 46 Copynumber: 8.5 Consensus size: 46
3375516 TTGATAAAAT
* * ** *
3375526 TTTGAGTCTTAAATGAAAATTTTTAATATGTTTTCAAATGAAAATC
1 TTTGAGTCTTAAATGAAAATCTTTAAGACATTTTCAAATGAGAATC
* * *
3375572 TTTAAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGATAAGT-
1 TTTGAGTCTTAAATGAAAATCTTTAAGACATTTTCAAATGAGAA-TC
* * *
3375618 TTTGAGTCTTAAATGAGAATCTTTAAGA-GTTTCCAAATGAGAA--
1 TTTGAGTCTTAAATGAAAATCTTTAAGACATTTTCAAATGAGAATC
* * * *
3375661 TATGAGTTTTAAATAAAAATCTTTTAGACATTTT-AAATGAGAATC
1 TTTGAGTCTTAAATGAAAATCTTTAAGACATTTTCAAATGAGAATC
*
3375706 TTTGAGTCTTAAATGAAAATCTTTAAGACATTTTTAAATGAGAATC
1 TTTGAGTCTTAAATGAAAATCTTTAAGACATTTTCAAATGAGAATC
3375752 TTTGAGTCTTAAATGAAAATCTTTAAGACATTTTCAAATGAGAATC
1 TTTGAGTCTTAAATGAAAATCTTTAAGACATTTTCAAATGAGAATC
*
3375798 TTTGAGTCTTAAATGAGAATCTTTAA-A-ATGTTTCCAAATGAGAATC
1 TTTGAGTCTTAAATGAAAATCTTTAAGACAT-TTT-CAAATGAGAATC
* * * * * * *
3375844 TTTAAATCTTCAAAT-AAGCATATTT--GA-GTGTT-AAATAAGAATC
1 TTTGAGTCTT-AAATGAA-AATCTTTAAGACATTTTCAAATGAGAATC
*
3375887 TTTGAGTCTTAAATGAGAATCTTT
1 TTTGAGTCTTAAATGAAAATCTTT
3375911 GAGTGTCAAA
Statistics
Matches: 291, Mismatches: 37, Indels: 26
0.82 0.10 0.07
Matches are distributed among these distances:
42 9 0.03
43 51 0.18
44 5 0.02
45 48 0.16
46 168 0.58
47 10 0.03
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (46 bp):
TTTGAGTCTTAAATGAAAATCTTTAAGACATTTTCAAATGAGAATC
Found at i:3375911 original size:21 final size:21
Alignment explanation
Indices: 3375561--3375954 Score: 233
Period size: 21 Copynumber: 17.8 Consensus size: 21
3375551 ATATGTTTTC
* *
3375561 AAATGAAAATCTTTAAGTCTT
1 AAATGAGAATCTTTGAGTCTT
* *
3375582 AAATGAGAATCTTTAAGACATTTT
1 AAATGAGAATCTTT--GA-GTCTT
*
3375606 CAAATGATAAGT-TTTGAGTCTT
1 -AAATGAGAA-TCTTTGAGTCTT
3375628 AAATGAGAATCTTTAAGAGT-TT
1 AAATGAGAATCTTT--GAGTCTT
* *
3375650 CCAAATGAGAA--TATGAGTTTT
1 --AAATGAGAATCTTTGAGTCTT
* * * *
3375671 AAATAAAAATCTTTTAGACATTTT
1 AAATGAGAATC-TTT-GA-GTCTT
3375695 AAATGAGAATCTTTGAGTCTT
1 AAATGAGAATCTTTGAGTCTT
* * *
3375716 AAATGAAAATCTTTAAGACATTTTT
1 AAATGAGAATCTTT--G--AGTCTT
3375741 AAATGAGAATCTTTGAGTCTT
1 AAATGAGAATCTTTGAGTCTT
* * *
3375762 AAATGAAAATCTTTAAGACATTTT
1 AAATGAGAATCTTT--GA-GTCTT
3375786 CAAATGAGAATCTTTGAGTCTT
1 -AAATGAGAATCTTTGAGTCTT
*
3375808 AAATGAGAATCTTTAAAATGT-TT
1 AAATGAGAATCTTT--GA-GTCTT
* *
3375831 CCAAATGAGAATCTTTAAATCTT
1 --AAATGAGAATCTTTGAGTCTT
* * * *
3375854 CAAATAAGCATATTTGAGTGTT
1 -AAATGAGAATCTTTGAGTCTT
*
3375876 AAATAAGAATCTTTGAGTCTT
1 AAATGAGAATCTTTGAGTCTT
* *
3375897 AAATGAGAATCTTTGAGTGTC
1 AAATGAGAATCTTTGAGTCTT
* * *
3375918 AAATAAGAATATTTGAAT-TT
1 AAATGAGAATCTTTGAGTCTT
3375938 CAAATGAGAATCTTTGA
1 -AAATGAGAATCTTTGA
3375955 TGTGTGAAAC
Statistics
Matches: 293, Mismatches: 49, Indels: 62
0.73 0.12 0.15
Matches are distributed among these distances:
19 7 0.02
20 6 0.02
21 138 0.47
22 31 0.11
23 25 0.09
24 30 0.10
25 55 0.19
26 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (21 bp):
AAATGAGAATCTTTGAGTCTT
Found at i:3376032 original size:21 final size:21
Alignment explanation
Indices: 3375984--3376054 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
3375974 ATCGAATGTG
* * *
3375984 AATCTTCGAA-TTCAAATAAA
1 AATCTTTGAATTTCAAATGAT
* *
3376004 AATTTTTGAATTTTAAATGA-
1 AATCTTTGAATTTCAAATGAT
3376024 AACTCTTTGAATTTCAAATGAT
1 AA-TCTTTGAATTTCAAATGAT
3376046 AATCTTTGA
1 AATCTTTGA
3376055 GGTGTGAAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
20 10 0.24
21 30 0.71
22 2 0.05
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (21 bp):
AATCTTTGAATTTCAAATGAT
Found at i:3376120 original size:21 final size:20
Alignment explanation
Indices: 3376083--3376134 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
3376073 TGTTGAGTGT
3376083 GAATCTTTGA-ATTCAAATGA
1 GAATCTTTGAGATTCAAAT-A
*
3376103 GAATCTTTGAGTTTCAAATA
1 GAATCTTTGAGATTCAAATA
*
3376123 AAGATCTTTGAG
1 GA-ATCTTTGAG
3376135 GTGTGAAACC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (20 bp):
GAATCTTTGAGATTCAAATA
Found at i:3376131 original size:100 final size:100
Alignment explanation
Indices: 3375882--3376133 Score: 310
Period size: 100 Copynumber: 2.5 Consensus size: 100
3375872 TGTTAAATAA
* * * *
3375882 GAATCTTTGAGTCTTAAATGAGAATCTTTGAGTGTCAAAT-AAGAATATTTGAATTTCAAATGAG
1 GAATCTTTGAAT-TCAAATGAGAATCTTTGAGTTTCAAATAAAG-ATCTTTGAATTTCAAATGAG
* *
3375946 AATCTTTGATGTGTGAAACCCAAAATTTATCGAATGT
64 AATCTTTGAGGTGTGAAACCCAAAAATTATCGAATGT
* * * * * * * *
3375983 GAATCTTCGAATTCAAATAAAAATTTTTGAATTTTAAATGAAA-CTCTTTGAATTTCAAATGATA
1 GAATCTTTGAATTCAAATGAGAATCTTTGAGTTTCAAAT-AAAGATCTTTGAATTTCAAATGAGA
* * *
3376047 ATCTTTGAGGTGTGAAACCCAAAAATTGTTGAGTGT
65 ATCTTTGAGGTGTGAAACCCAAAAATTATCGAATGT
3376083 GAATCTTTGAATTCAAATGAGAATCTTTGAGTTTCAAATAAAGATCTTTGA
1 GAATCTTTGAATTCAAATGAGAATCTTTGAGTTTCAAATAAAGATCTTTGA
3376134 GGTGTGAAAC
Statistics
Matches: 124, Mismatches: 24, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
99 3 0.02
100 109 0.88
101 10 0.08
102 2 0.02
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (100 bp):
GAATCTTTGAATTCAAATGAGAATCTTTGAGTTTCAAATAAAGATCTTTGAATTTCAAATGAGAA
TCTTTGAGGTGTGAAACCCAAAAATTATCGAATGT
Found at i:3376335 original size:23 final size:23
Alignment explanation
Indices: 3376284--3376352 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 23
3376274 GAATTTTTGG
* *
3376284 ATGAGAATCTTCAAA-ATT-CAA
1 ATGAGAATCTTGAAATCTTGCAA
* *
3376305 ATGAGAATCTTTAAATGTTGCAA
1 ATGAGAATCTTGAAATCTTGCAA
* *
3376328 ATGCGAATCTTGAGATCTTGCAA
1 ATGAGAATCTTGAAATCTTGCAA
3376351 AT
1 AT
3376353 TTGAATTCTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
21 14 0.35
22 2 0.05
23 24 0.60
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (23 bp):
ATGAGAATCTTGAAATCTTGCAA
Found at i:3376633 original size:41 final size:41
Alignment explanation
Indices: 3376537--3376633 Score: 124
Period size: 41 Copynumber: 2.4 Consensus size: 41
3376527 AAAAAAACAT
* * * *
3376537 TTTATTTTTCAAAGTTGTGGTTGCCTCTATTTAGAGGAGCA
1 TTTATTTTTCAAAATTGTGGTTACCTCTATTTAAAAGAGCA
*
3376578 TTTATTTTCCAAAATTGT-GTTACCTCTATTTAAAAGAGCAA
1 TTTATTTTTCAAAATTGTGGTTACCTCTATTTAAAAGAGC-A
*
3376619 TTTATTTTTTAAAAT
1 TTTATTTTTCAAAAT
3376634 CGTTGAGCCT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 18 0.38
41 30 0.62
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.46
Consensus pattern (41 bp):
TTTATTTTTCAAAATTGTGGTTACCTCTATTTAAAAGAGCA
Found at i:3376645 original size:41 final size:41
Alignment explanation
Indices: 3376559--3376652 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 41
3376549 AGTTGTGGTT
* * * *
3376559 GCCTCTATTTAGAGGAGCATTTATTTTCCAAAATTGTGTTA
1 GCCTCTATTTAAAAGAGCATTTATTTTCCAAAATCGTGTGA
**
3376600 -CCTCTATTTAAAAGAGCAATTTATTTTTTAAAATCGT-TGA
1 GCCTCTATTTAAAAGAGC-ATTTATTTTCCAAAATCGTGTGA
*
3376640 GCCTCTGTTTAAA
1 GCCTCTATTTAAA
3376653 GAAGCTTTGT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
40 17 0.39
41 27 0.61
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (41 bp):
GCCTCTATTTAAAAGAGCATTTATTTTCCAAAATCGTGTGA
Done.