Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 36 of 160
Found at i:8882635 original size:43 final size:43
Alignment explanation
Indices: 8882525--8882649 Score: 128
Period size: 43 Copynumber: 2.9 Consensus size: 43
8882515 TATTATTAAA
* * *
8882525 TTATTAATGATTTACTATTAAGTTATAAATGATTTACTACTAAG
1 TTATTAATAATTTACTA-TAAGTTATAGATAATTTACTACTAAG
* * * *
8882569 TTATTGATAATTTAGTACTAAGTTATTGATAATTTATTA-TAAG
1 TTATTAATAATTTACTA-TAAGTTATAGATAATTTACTACTAAG
*
8882612 TTA-TAACTAATTTACTATGAAGTTATCGATAATTTACT
1 TTATTAA-TAATTTACTAT-AAGTTATAGATAATTTACT
8882650 CCAAAATTAC
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 3 0.04
43 33 0.49
44 31 0.46
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (43 bp):
TTATTAATAATTTACTATAAGTTATAGATAATTTACTACTAAG
Found at i:8882635 original size:65 final size:66
Alignment explanation
Indices: 8882525--8882647 Score: 169
Period size: 65 Copynumber: 1.9 Consensus size: 66
8882515 TATTATTAAA
* * *
8882525 TTATTAATGATTTACTATTAAGTTATAAATGATTTACTACTAAGTTATTGATAATTTAGTACTAA
1 TTATTAATAATTTACTATTAAGTTATAAATAATTTACTACTAAGTTATCGATAATTTAGTACTAA
8882590 G
66 G
* * *
8882591 TTATTGATAATTTATTA-TAAGTTATAACTAATTTACTA-TGAAGTTATCGATAATTTA
1 TTATTAATAATTTACTATTAAGTTATAAATAATTTACTACT-AAGTTATCGATAATTTA
8882648 CTCCAAAATT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
64 1 0.02
65 35 0.70
66 14 0.28
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (66 bp):
TTATTAATAATTTACTATTAAGTTATAAATAATTTACTACTAAGTTATCGATAATTTAGTACTAA
G
Found at i:8883157 original size:22 final size:22
Alignment explanation
Indices: 8883131--8883181 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
8883121 AAATTATCAC
*
8883131 GATTTATCAT-TAAGTTATAGAT
1 GATTTATC-TCTAAGTTATAAAT
8883153 GATTTA-CTGCTAAGTTATAAAT
1 GATTTATCT-CTAAGTTATAAAT
8883175 GATTTAT
1 GATTTAT
8883182 TACTTAGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 1 0.04
21 1 0.04
22 23 0.92
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.45
Consensus pattern (22 bp):
GATTTATCTCTAAGTTATAAAT
Found at i:8883219 original size:22 final size:22
Alignment explanation
Indices: 8883139--8883270 Score: 101
Period size: 22 Copynumber: 6.0 Consensus size: 22
8883129 ACGATTTATC
*
8883139 ATTAAGTTA-TAGATGATTTACT
1 ATTAAGTTATTA-ATAATTTACT
** * * *
8883161 GCTAAGTTATAAATGATTTATT
1 ATTAAGTTATTAATAATTTACT
*
8883183 ACTT-AG-TATTGATAATTTACT
1 A-TTAAGTTATTAATAATTTACT
*
8883204 ATTAAGTTATTAATAATTTATT
1 ATTAAGTTATTAATAATTTACT
* *
8883226 A-TAATGTTGTTAATGATTTACT
1 ATTAA-GTTATTAATAATTTACT
* *
8883248 ATAAAGTTATTAATAATTAACT
1 ATTAAGTTATTAATAATTTACT
8883270 A
1 A
8883271 ATTTACAACT
Statistics
Matches: 85, Mismatches: 19, Indels: 12
0.73 0.16 0.10
Matches are distributed among these distances:
20 2 0.02
21 17 0.20
22 62 0.73
23 4 0.05
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.47
Consensus pattern (22 bp):
ATTAAGTTATTAATAATTTACT
Found at i:8883226 original size:11 final size:11
Alignment explanation
Indices: 8883189--8883265 Score: 50
Period size: 11 Copynumber: 7.0 Consensus size: 11
8883179 TATTACTTAG
*
8883189 TATTGATAATT
1 TATTAATAATT
* * *
8883200 TACTATTAAGT
1 TATTAATAATT
8883211 TATTAATAATT
1 TATTAATAATT
8883222 TATT-ATAATGT
1 TATTAATAAT-T
* *
8883233 TGTTAATGATT
1 TATTAATAATT
* *
8883244 TACT-ATAAAGT
1 TATTAAT-AATT
8883255 TATTAATAATT
1 TATTAATAATT
8883266 AACTAATTTA
Statistics
Matches: 47, Mismatches: 15, Indels: 8
0.67 0.21 0.11
Matches are distributed among these distances:
10 7 0.15
11 34 0.72
12 6 0.13
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.51
Consensus pattern (11 bp):
TATTAATAATT
Found at i:8883376 original size:65 final size:65
Alignment explanation
Indices: 8883284--8883412 Score: 145
Period size: 65 Copynumber: 2.0 Consensus size: 65
8883274 TACAACTAAA
* * * *
8883284 TTATCATTGATTTATAACTAAATTATCACTGATTTACAATTAAGTT-TCAATGTTTTACTATTAT
1 TTATCATTGATTTATAACTAAATTATCA-TAATTTACAACTAAATTATCAATGATTTACTATTAT
8883348 G
65 G
* * * * *
8883349 TTATTATTGATTTACT-ATTAAGTTATCATAATTTACTACTAAATTATTAATGATTTACTATTAT
1 TTATCATTGATTTA-TAACTAAATTATCATAATTTACAACTAAATTATCAATGATTTACTATTAT
8883413 AACTATTATA
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
64 13 0.25
65 39 0.74
66 1 0.02
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (65 bp):
TTATCATTGATTTATAACTAAATTATCATAATTTACAACTAAATTATCAATGATTTACTATTATG
Found at i:8883382 original size:21 final size:21
Alignment explanation
Indices: 8883284--8883526 Score: 109
Period size: 22 Copynumber: 11.2 Consensus size: 21
8883274 TACAACTAAA
* *
8883284 TTATCATTGATTTA-TAACTAAA
1 TTATCA-TGATTTACT-ATTAAG
*
8883306 TTATCACTGATTTACAATTAAG
1 TTATCA-TGATTTACTATTAAG
* *
8883328 TT-TCAATGTTTTACTATTATG
1 TTATC-ATGATTTACTATTAAG
*
8883349 TTATTATTGATTTACTATTAAG
1 TTATCA-TGATTTACTATTAAG
* * *
8883371 TTATCATAATTTACTACTAAA
1 TTATCATGATTTACTATTAAG
* *
8883392 TTATTAATGATTTACTATTATAA
1 TTA-TCATGATTTACTATTA-AG
* * * * *
8883415 CTATTATACATTTGCTATT-TG
1 TTATCAT-GATTTACTATTAAG
*
8883436 TTATCATTGATTTACTATTGAG
1 TTATCA-TGATTTACTATTAAG
* *
8883458 TT-TTAGTGA-TTAGCTATTAAA
1 TTATCA-TGATTTA-CTATTAAG
* **
8883479 TTATCATTGATTTATTGCTAAG
1 TTATCA-TGATTTACTATTAAG
* * *
8883501 TTATTTATGATTTACTACTAAT
1 TTA-TCATGATTTACTATTAAG
8883523 TTAT
1 TTAT
8883527 AATTTAATTA
Statistics
Matches: 166, Mismatches: 42, Indels: 27
0.71 0.18 0.11
Matches are distributed among these distances:
20 3 0.02
21 59 0.36
22 86 0.52
23 18 0.11
ACGTcount: A:0.33, C:0.09, G:0.08, T:0.50
Consensus pattern (21 bp):
TTATCATGATTTACTATTAAG
Found at i:8883384 original size:43 final size:43
Alignment explanation
Indices: 8883313--8883459 Score: 136
Period size: 43 Copynumber: 3.4 Consensus size: 43
8883303 AAATTATCAC
* **
8883313 TGATTTACAATTAAGTT-TCAATGTTTTACTATTATGTTATTAT
1 TGATTTACTATTAAGTTATC-ATAATTTACTATTATGTTATTAT
* ** *
8883356 TGATTTACTATTAAGTTATCATAATTTACTACTAAATTATTAA
1 TGATTTACTATTAAGTTATCATAATTTACTATTATGTTATTAT
** * * *
8883399 TGATTTACTATTATAACTATTATACATTTGCTATT-TGTTATCAT
1 TGATTTACTATTA-AGTTATCATA-ATTTACTATTATGTTATTAT
*
8883443 TGATTTACTATTGAGTT
1 TGATTTACTATTAAGTT
8883460 TTAGTGATTA
Statistics
Matches: 82, Mismatches: 19, Indels: 6
0.77 0.18 0.06
Matches are distributed among these distances:
43 48 0.59
44 26 0.32
45 8 0.10
ACGTcount: A:0.32, C:0.09, G:0.08, T:0.51
Consensus pattern (43 bp):
TGATTTACTATTAAGTTATCATAATTTACTATTATGTTATTAT
Found at i:8883468 original size:65 final size:64
Alignment explanation
Indices: 8883306--8883476 Score: 157
Period size: 65 Copynumber: 2.6 Consensus size: 64
8883296 TATAACTAAA
* * * ** **
8883306 TTATCACTGATTTACAATTAAGTTTCAATGTTTTACTATTATGTTATTATTGATTTACTATTAAG
1 TTATCA-TGATTTACTATTAAGTTTTAATGATTTACTATTATACTATTATACATTTACTATTAAG
* * * * *
8883371 TTATCATAATTTACTACTAAATTATTAATGATTTACTATTATAACTATTATACATTTGCTATT-T
1 TTATCATGATTTACTATTAAGTT-TTAATGATTTACTATTAT-ACTATTATACATTTACTATTAA
8883435 G
64 G
* *
8883436 TTATCATTGATTTACTATTGAGTTTTAGTGA-TTAGCTATTA
1 TTATCA-TGATTTACTATTAAGTTTTAATGATTTA-CTATTA
8883477 AATTATCATT
Statistics
Matches: 85, Mismatches: 17, Indels: 8
0.77 0.15 0.07
Matches are distributed among these distances:
64 16 0.19
65 41 0.48
66 28 0.33
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (64 bp):
TTATCATGATTTACTATTAAGTTTTAATGATTTACTATTATACTATTATACATTTACTATTAAG
Found at i:8883673 original size:22 final size:22
Alignment explanation
Indices: 8883648--8883706 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
8883638 TTTTTATGAA
*
8883648 GTTATCATTAATTTACAACTAT
1 GTTATAATTAATTTACAACTAT
* **
8883670 GTTATTATGCATTTACAACTAT
1 GTTATAATTAATTTACAACTAT
*
8883692 GTTATAATTGATTTA
1 GTTATAATTAATTTA
8883707 TTATTAAGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.34, C:0.10, G:0.08, T:0.47
Consensus pattern (22 bp):
GTTATAATTAATTTACAACTAT
Found at i:8883933 original size:47 final size:45
Alignment explanation
Indices: 8883835--8883933 Score: 105
Period size: 47 Copynumber: 2.2 Consensus size: 45
8883825 TTTACTGATG
* *
8883835 ATTACTATTAAGTTATATTGATTTACTTTTAATTTTCAATTATTA
1 ATTACTATTAAGTTATATTGATTTACTTTAAATTATCAATTATTA
*
8883880 ATTACTACTT-AGTTATAAATT-ATTTACTATTAAATTATC-ATTGATTT
1 ATTACTA-TTAAGTTAT--ATTGATTTACT-TTAAATTATCAATT-ATTA
8883927 ATTACTA
1 ATTACTA
8883934 AGCTATTATG
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
45 13 0.28
46 12 0.26
47 21 0.46
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.53
Consensus pattern (45 bp):
ATTACTATTAAGTTATATTGATTTACTTTAAATTATCAATTATTA
Found at i:8884267 original size:11 final size:11
Alignment explanation
Indices: 8884248--8884356 Score: 62
Period size: 11 Copynumber: 9.9 Consensus size: 11
8884238 TGAATCTTAT
*
8884248 TTATTATTAAG
1 TTATCATTAAG
*
8884259 TTATCATTAAT
1 TTATCATTAAG
8884270 TTA-CTATTAAG
1 TTATC-ATTAAG
8884281 TTATCATTGAA-
1 TTATCATT-AAG
* *
8884292 TTATTACTAAG
1 TTATCATTAAG
*
8884303 TTATCAATAA-
1 TTATCATTAAG
* *
8884313 TTAACTACTAAG
1 TTATC-ATTAAG
* *
8884325 TTATCATTTAT
1 TTATCATTAAG
* *
8884336 TTTTTATTAAG
1 TTATCATTAAG
*
8884347 TTATCTTTAA
1 TTATCATTAA
8884357 TTTACTCATA
Statistics
Matches: 72, Mismatches: 20, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
10 7 0.10
11 58 0.81
12 7 0.10
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (11 bp):
TTATCATTAAG
Found at i:8884271 original size:22 final size:22
Alignment explanation
Indices: 8884246--8884360 Score: 133
Period size: 22 Copynumber: 5.2 Consensus size: 22
8884236 ACTGAATCTT
8884246 ATTTATTATTAAGTTATCATTA
1 ATTTATTATTAAGTTATCATTA
*
8884268 ATTTACTATTAAGTTATCATTGA
1 ATTTATTATTAAGTTATCATT-A
* *
8884291 A-TTATTACTAAGTTATCAATA
1 ATTTATTATTAAGTTATCATTA
* * * *
8884312 ATTAACTACTAAGTTATCATTT
1 ATTTATTATTAAGTTATCATTA
* *
8884334 ATTTTTTATTAAGTTATCTTTA
1 ATTTATTATTAAGTTATCATTA
8884356 ATTTA
1 ATTTA
8884361 CTCATATGTG
Statistics
Matches: 76, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
21 2 0.03
22 72 0.95
23 2 0.03
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.51
Consensus pattern (22 bp):
ATTTATTATTAAGTTATCATTA
Found at i:8884296 original size:44 final size:44
Alignment explanation
Indices: 8884248--8884362 Score: 158
Period size: 44 Copynumber: 2.6 Consensus size: 44
8884238 TGAATCTTAT
*
8884248 TTATTATTAAGTTATCATTAATTTACTATTAAGTTATCATTGAA
1 TTATTATTAAGTTATCATTAATTTACTACTAAGTTATCATTGAA
* * * * *
8884292 TTATTACTAAGTTATCAATAATTAACTACTAAGTTATCATTTAT
1 TTATTATTAAGTTATCATTAATTTACTACTAAGTTATCATTGAA
* *
8884336 TTTTTATTAAGTTATCTTTAATTTACT
1 TTATTATTAAGTTATCATTAATTTACT
8884363 CATATGTGTT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 60 1.00
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (44 bp):
TTATTATTAAGTTATCATTAATTTACTACTAAGTTATCATTGAA
Found at i:8884436 original size:22 final size:22
Alignment explanation
Indices: 8884411--8884458 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
8884401 TACTGTTAAA
*
8884411 TTATT-TGTTATTTCTTATTATG
1 TTATTATG-TATTTATTATTATG
8884433 TTATTATGTATTTATTATTATG
1 TTATTATGTATTTATTATTATG
8884455 TTAT
1 TTAT
8884459 CATACACTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.23, C:0.02, G:0.08, T:0.67
Consensus pattern (22 bp):
TTATTATGTATTTATTATTATG
Found at i:8884550 original size:22 final size:22
Alignment explanation
Indices: 8884483--8884615 Score: 83
Period size: 22 Copynumber: 6.1 Consensus size: 22
8884473 TTTAATTATG
* * * *
8884483 TACTACTAAATTATTATTTATT
1 TACTATTAAGTTATCATTAATT
* *
8884505 TACTATTAAGTTATTATTATTT
1 TACTATTAAGTTATCATTAATT
8884527 TACTATTAAGTTATCCA-TAATT
1 TACTATTAAGTTAT-CATTAATT
* *
8884549 TATTA-TACAATTATCATTAATT
1 TACTATTA-AGTTATCATTAATT
* * * *
8884571 TAGTATAAAGTTATTACTAATT
1 TACTATTAAGTTATCATTAATT
*** *
8884593 T-CGCCTAAATTATCATTAATT
1 TACTATTAAGTTATCATTAATT
8884614 TA
1 TA
8884616 TAACAAAATT
Statistics
Matches: 85, Mismatches: 21, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
21 17 0.20
22 66 0.78
23 2 0.02
ACGTcount: A:0.37, C:0.10, G:0.04, T:0.50
Consensus pattern (22 bp):
TACTATTAAGTTATCATTAATT
Found at i:8885969 original size:36 final size:37
Alignment explanation
Indices: 8885922--8885998 Score: 111
Period size: 39 Copynumber: 2.1 Consensus size: 37
8885912 GCTTCAGACT
**
8885922 ATATTAAAAAAAGTA-AATTGAAAAAATAAGTGAGTG
1 ATATTAAAAAAAAAACAATTGAAAAAATAAGTGAGTG
8885958 ATATTAAAAAAAAAACCTAATTGAAAAAATAAGTGAGTG
1 ATATTAAAAAAAAAA-C-AATTGAAAAAATAAGTGAGTG
8885997 AT
1 AT
8885999 GTGTTAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
36 13 0.36
39 23 0.64
ACGTcount: A:0.58, C:0.03, G:0.14, T:0.25
Consensus pattern (37 bp):
ATATTAAAAAAAAAACAATTGAAAAAATAAGTGAGTG
Found at i:8886440 original size:23 final size:24
Alignment explanation
Indices: 8886413--8886459 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
8886403 TACTCTTCTC
8886413 AATAATATTTGGAT-AA-TTTAATT
1 AATAAT-TTTGGATGAACTTTAATT
*
8886436 AATAATTTTGTATGAACTTTAATT
1 AATAATTTTGGATGAACTTTAATT
8886460 CTAATTGATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 8 0.38
24 7 0.33
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (24 bp):
AATAATTTTGGATGAACTTTAATT
Found at i:8886544 original size:20 final size:24
Alignment explanation
Indices: 8886519--8886565 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
8886509 GATATGTCCT
8886519 ATTAAT-ATTTTG-AT-AA-TTTA
1 ATTAATAATTTTGTATGAACTTTA
8886539 ATTAATAATTTTGTATGAACTTTA
1 ATTAATAATTTTGTATGAACTTTA
8886563 ATT
1 ATT
8886566 TTAATTGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.26
21 6 0.26
22 2 0.09
23 2 0.09
24 7 0.30
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.53
Consensus pattern (24 bp):
ATTAATAATTTTGTATGAACTTTA
Found at i:8886571 original size:106 final size:109
Alignment explanation
Indices: 8886415--8886634 Score: 374
Period size: 106 Copynumber: 2.0 Consensus size: 109
8886405 CTCTTCTCAA
8886415 TAATATTTGGATAATTTAATTAATAATTTTGTATGAACTTTAATTCTAATTGATCT-A-AAATAA
1 TAATATTTGGATAATTTAATTAATAATTTTGTATGAACTTTAATTCTAATTGATCTAATAAATAA
*
8886478 ATAAATAATATAAATATATTTAAGAACTCATG-ATATGTCCTAT
66 ATAAATAATATAAATATATTTAAGAACTCATGAATATGTACTAT
* *
8886521 TAATATTTTGATAATTTAATTAATAATTTTGTATGAACTTTAATTTTAATTGATCTAAATTAAAT
1 TAATATTTGGATAATTTAATTAATAATTTTGTATGAACTTTAATTCTAATTGATCT-AA-TAAAT
8886586 AAATAAATAATATAAATATATTTAAGAACTCATGAATATGTACTAT
64 AAATAAATAATATAAATATATTTAAGAACTCATGAATATGTACTAT
8886632 TAA
1 TAA
8886635 AGAAGATAAA
Statistics
Matches: 106, Mismatches: 3, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
106 54 0.51
108 1 0.01
110 38 0.36
111 13 0.12
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (109 bp):
TAATATTTGGATAATTTAATTAATAATTTTGTATGAACTTTAATTCTAATTGATCTAATAAATAA
ATAAATAATATAAATATATTTAAGAACTCATGAATATGTACTAT
Found at i:8887345 original size:6 final size:6
Alignment explanation
Indices: 8887325--8887369 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
8887315 TTCACACTTT
* * * *
8887325 TATATA TAAATA TATAAA TATATA TATATA TATATG TATGTA TAT
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TAT
8887370 TGGATTATAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (6 bp):
TATATA
Found at i:8887349 original size:4 final size:4
Alignment explanation
Indices: 8887325--8887369 Score: 54
Period size: 4 Copynumber: 11.2 Consensus size: 4
8887315 TTCACACTTT
* * * *
8887325 TATA TATA AATA TATA AATA TATA TATA TATA TATG TATG TATA T
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA T
8887370 TGGATTATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (4 bp):
TATA
Found at i:8888334 original size:18 final size:18
Alignment explanation
Indices: 8888294--8888334 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
8888284 AATATATAAA
8888294 AATTATGATATAAATTATT
1 AATT-TGATATAAATTATT
8888313 -ATTTGATATTAAA-TATT
1 AATTTGATA-TAAATTATT
8888330 AATTT
1 AATTT
8888335 AATTAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (18 bp):
AATTTGATATAAATTATT
Found at i:8888560 original size:26 final size:25
Alignment explanation
Indices: 8888513--8888570 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
8888503 AGATTATAAA
* *
8888513 AAAATTAATTAATATTATGTATTTT
1 AAAATTAAATAATATTATGTATTAT
8888538 AAAATTAAATAATAATGTA-GTATTAT
1 AAAATTAAATAAT-AT-TATGTATTAT
*
8888564 AACATTA
1 AAAATTA
8888571 TAATTTATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 12 0.43
26 14 0.50
27 2 0.07
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (25 bp):
AAAATTAAATAATATTATGTATTAT
Found at i:8893350 original size:48 final size:48
Alignment explanation
Indices: 8893108--8893358 Score: 145
Period size: 48 Copynumber: 5.2 Consensus size: 48
8893098 GTAGAGGTGA
* * * * *
8893108 AGACTTGTAGATGTAAGGAGGATGTGGTGAATGAACTAGTGGTGGAAGG
1 AGACTTGTAGATGTAAGGAGAAGGTGATGAATGGACTAGTGGT-GATGG
* * * * * **
8893157 -GACTTGTAAATGTAGAGAAG-AGGTGATGAATAGACTGGAGGTGGCGG
1 AGACTTGTAGATGTA-AGGAGAAGGTGATGAATGGACTAGTGGTGATGG
* * * * * * *
8893204 GGACTTGTGGTTATAA-GAAAGAGGTGA-GAAGTGGAC-AGGTGGTGGTGA
1 AGACTTGTAGATGTAAGGAGA-AGGTGATGAA-TGGACTA-GTGGTGATGG
* * * * * * *
8893252 AAACTTGTAGATATAAAGAGGAGGTGGTGAATGGATTGGTGGTG-TAGG
1 AGACTTGTAGATGTAAGGAGAAGGTGATGAATGGACTAGTGGTGAT-GG
* *
8893300 AGACTTGTAAATGTAAGGAGAAGGTGATGAATGGACTAGAGGTGATGG
1 AGACTTGTAGATGTAAGGAGAAGGTGATGAATGGACTAGTGGTGATGG
*
8893348 AGACTTTTAGA
1 AGACTTGTAGA
8893359 CATATGAAGG
Statistics
Matches: 149, Mismatches: 42, Indels: 23
0.70 0.20 0.11
Matches are distributed among these distances:
46 1 0.01
47 8 0.05
48 130 0.87
49 10 0.07
ACGTcount: A:0.32, C:0.04, G:0.39, T:0.24
Consensus pattern (48 bp):
AGACTTGTAGATGTAAGGAGAAGGTGATGAATGGACTAGTGGTGATGG
Found at i:8893689 original size:48 final size:48
Alignment explanation
Indices: 8893637--8893730 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
8893627 GTGGTGAGAA
8893637 AGACTTGTACACATAT-AGAGG-TGATGGTGAATAGATTGGTGGTGGAGG
1 AGACTTGTACACATATGA-AGGCT-ATGGTGAATAGATTGGTGGTGGAGG
*
8893685 AGACTTGTACACATATGAAGGCTATGGTGAATGGATTGGTGGTGGA
1 AGACTTGTACACATATGAAGGCTATGGTGAATAGATTGGTGGTGGA
8893731 AAAGATTTGT
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
48 41 0.95
49 2 0.05
ACGTcount: A:0.29, C:0.07, G:0.36, T:0.28
Consensus pattern (48 bp):
AGACTTGTACACATATGAAGGCTATGGTGAATAGATTGGTGGTGGAGG
Found at i:8894241 original size:48 final size:48
Alignment explanation
Indices: 8894184--8894276 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
8894174 TAGATATAAT
* *
8894184 GAAGAGGTGGGGAGTGGACTGGTGGTGGTAAAGACTTGTAAACATTTG
1 GAAGAGGTGGGGAATGGACTAGTGGTGGTAAAGACTTGTAAACATTTG
* * **
8894232 GAAGGGGTGGTGAATGGACTAGTGGTGGTGGAGACTTGTAAACAT
1 GAAGAGGTGGGGAATGGACTAGTGGTGGTAAAGACTTGTAAACAT
8894277 ATAGAGGAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.27, C:0.06, G:0.42, T:0.25
Consensus pattern (48 bp):
GAAGAGGTGGGGAATGGACTAGTGGTGGTAAAGACTTGTAAACATTTG
Found at i:8894290 original size:48 final size:48
Alignment explanation
Indices: 8894198--8894473 Score: 148
Period size: 48 Copynumber: 5.8 Consensus size: 48
8894188 AGGTGGGGAG
* ** * * *
8894198 TGGACTGGTGGTGGTAAAGACTTGTAAACATTTGGAAGG-GGTGGTGAA
1 TGGACTAGTGGTGGTGGAGACTTGTAAACATATAG-AGGAAGTGGTGAA
*
8894246 TGGACTAGTGGTGGTGGAGACTTGTAAACATATAGAGGAAGTGGTTAA
1 TGGACTAGTGGTGGTGGAGACTTGTAAACATATAGAGGAAGTGGTGAA
* * * * *** **
8894294 TGGACAAGTGATGGTGGAGACTTATAGACATGGGGA-GAAGGTGAG-GGG
1 TGGACTAGTGGTGGTGGAGACTTGTAAACATATAGAGGAA-GTG-GTGAA
* * ** * * * *
8894342 TGGATTGGTGGTAATGGAAACTTGTACACAAATAGAGGAGGTGGTGAA
1 TGGACTAGTGGTGGTGGAGACTTGTAAACATATAGAGGAAGTGGTGAA
* * * * * * * *
8894390 TGGACTAGTGGTAGTGGGGACTTATAGACATAGATAAGAAGT--TAGAG
1 TGGACTAGTGGTGGTGGAGACTTGTAAACATATAGAGGAAGTGGT-GAA
* * * * *
8894437 TGGATTGGTGGTTGAGGAGACTTGTACACATATAGAG
1 TGGACTAGTGGTGGTGGAGACTTGTAAACATATAGAG
8894474 ATGGTGATGA
Statistics
Matches: 166, Mismatches: 56, Indels: 13
0.71 0.24 0.06
Matches are distributed among these distances:
46 1 0.01
47 36 0.22
48 126 0.76
49 3 0.02
ACGTcount: A:0.30, C:0.07, G:0.38, T:0.25
Consensus pattern (48 bp):
TGGACTAGTGGTGGTGGAGACTTGTAAACATATAGAGGAAGTGGTGAA
Found at i:8894353 original size:96 final size:95
Alignment explanation
Indices: 8894253--8894473 Score: 255
Period size: 96 Copynumber: 2.3 Consensus size: 95
8894243 GAATGGACTA
* * * *
8894253 GTGGTGGTGGAGACTTGTAAACATATAGAGGAAGTGGTTAATGGACAAGTGATGGTGGAGACTTA
1 GTGGTAGTGGAGACTTGTACACATATAGAGGAAGTGGTGAATGGACAAGTGATAGTGGAGACTTA
* * *
8894318 TAGACAT-GGGGAGAAGGTGAGGGGTGGATTG
66 TAGACATAGAGAAGAA-GTGA-GAGTGGATTG
* * * * * * *
8894349 GTGGTAATGGAAACTTGTACACAAATAGAGGAGGTGGTGAATGGACTAGTGGTAGTGGGGACTTA
1 GTGGTAGTGGAGACTTGTACACATATAGAGGAAGTGGTGAATGGACAAGTGATAGTGGAGACTTA
* *
8894414 TAGACATAGATAAGAAGTTAGAGTGGATTG
66 TAGACATAGAGAAGAAGTGAGAGTGGATTG
* *
8894444 GTGGTTGAGGAGACTTGTACACATATAGAG
1 GTGGTAGTGGAGACTTGTACACATATAGAG
8894474 ATGGTGATGA
Statistics
Matches: 103, Mismatches: 21, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
95 34 0.33
96 64 0.62
97 5 0.05
ACGTcount: A:0.31, C:0.06, G:0.38, T:0.25
Consensus pattern (95 bp):
GTGGTAGTGGAGACTTGTACACATATAGAGGAAGTGGTGAATGGACAAGTGATAGTGGAGACTTA
TAGACATAGAGAAGAAGTGAGAGTGGATTG
Found at i:8896117 original size:18 final size:18
Alignment explanation
Indices: 8896060--8896118 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
8896050 TTATCGAATA
* *
8896060 ATTTCAAATAATCATGAT
1 ATTTTAAATAATTATGAT
* * *
8896078 AATTTGAATAATTAT-CT
1 ATTTTAAATAATTATGAT
8896095 ATTTTAAATAATTATGAT
1 ATTTTAAATAATTATGAT
8896113 ATTTTA
1 ATTTTA
8896119 TTTTATTATA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
17 14 0.44
18 18 0.56
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (18 bp):
ATTTTAAATAATTATGAT
Found at i:8896391 original size:15 final size:16
Alignment explanation
Indices: 8896373--8896405 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
8896363 TTAATATTTT
8896373 AAAAATTAAAAAG-TA
1 AAAAATTAAAAAGATA
*
8896388 AAAAATTTAAAAGATA
1 AAAAATTAAAAAGATA
8896404 AA
1 AA
8896406 TTTATCTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (16 bp):
AAAAATTAAAAAGATA
Found at i:8896627 original size:362 final size:358
Alignment explanation
Indices: 8895355--8896810 Score: 1569
Period size: 362 Copynumber: 4.1 Consensus size: 358
8895345 TTGTCTATTA
* * * * * * * *
8895355 AAATAGTTATTACTATTTAAACAATTATCTGTTTCATATAATTATGATTTTTTATCTTATCATAG
1 AAATAGTTATGACTATTTGAATAATTATCTATTTCAAATAATTATGATATTTTATTTTATCATAA
* * *
8895420 CATAATTGTTTCTATTCATACAAGTTTA-TCTAGAATAAAATAATATTAATTTATTAATA-TTAA
66 AATAATTGTTTCTATTAATATAAGTTTATTC-AGAATAAAATAATATTAATTTATTAATATTTAA
* * * * * * * *
8895483 AAAAGTCAATAAACAAAAGATTTAAATGATAAATCT-TT-CTAACAAGTTTAAATTGTTGAGACT
130 AAAA-TTAATAAATAAAACATTTAAAAGATAAATATGTTACGAACAAGTTTAAATAGTT-AAACT
* * * * * *
8895546 ATTTGAACAATTATCTCTTTCAAATAATTATAACTATTTGTTTTGTCATAGAGCAATTATTTCTG
193 ATTTGAATAATTATCTTTTTCAAATAATTATAGCT-TTTGTTTTGTCATAAAACAATTATTTCTA
8895611 TTTATACAA-CTTTATTCCGAAATAAAATAATATTAATTTATTAATATTTCAAAAATTAATAAGT
257 TTTATACAAGC-TTATT-CGAAATAAAATAATATTAATTTATTAATATTTCAAAAATTAATAAGT
*
8895675 AAAAGATTTAAAAGATAAATTTATTTATCGAACAAGTTA
320 AAAAGATTTAAAAGATAAATTTATTTATCGAACAAGTTC
* * * * * *
8895714 AAATAGTTGTGACTATTTTAACAATTATTTATTTCAAATAATTATG--ACTTT-TTTTAT--T-G
1 AAATAGTTATGACTATTTGAATAATTATCTATTTCAAATAATTATGATATTTTATTTTATCATAA
* * * * * * *
8895773 TAGAA-TGTTTCTATTCATATTAGTTTATTCAAAATAAAATAATATTAATTT-TTAATTTTTTAA
66 AATAATTGTTTCTATTAATATAAGTTTATTCAGAATAAAATAATATTAATTTATTAATATTTAAA
* * * *
8895836 AAATTAA-AAATAAAATATTTAAAAGATAAATATGTGTACCAAACAAGTTCAAATAGTCAAGACT
131 AAATTAATAAATAAAACATTTAAAAGATAAATATGT-TA-CGAACAAGTTTAAATAGTTAA-ACT
* * *
8895900 ATTTGAATAATTATCTATTTCAAATAATTAT-GACATTTTGATTTT-TCATAAAATAATTATTTT
193 ATTTGAATAATTATCTTTTTCAAATAATTATAG-C-TTTTG-TTTTGTCATAAAACAATTATTTC
* * *
8895963 TGTTTATACAAGTTTATTCGAAATAAAATAATAATAATTTATTAATATTT-AAAAATTAATAAGT
255 TATTTATACAAGCTTATTCGAAATAAAATAATATTAATTTATTAATATTTCAAAAATTAATAAGT
* * *
8896027 AAAAGATTT-AAAGATAAATTTGTTTATCGAATAATTTC
320 AAAAGATTTAAAAGATAAATTTATTTATCGAACAAGTTC
* * * *
8896065 AAATAATCATGA-TAATTTGAATAATTATCTATTTTAAATAATTATGATATTTTATTTTATTATA
1 AAATAGTTATGACT-ATTTGAATAATTATCTATTTCAAATAATTATGATATTTTATTTTATCATA
* *
8896129 AAATAATTATTTTTATTCAA-ATAAGTTTATTC-GAATAAAATAATATTAATTTATTAATATTCT
65 AAATAATTGTTTCTATT-AATATAAGTTTATTCAGAATAAAATAATATTAATTTATTAATATT-T
* * *
8896192 -AAAAATTAATAAGTAAAACATTTAAAAAATAAATATGTTTATCGAACAAGTTTAAATA-ATAAT
128 AAAAAATTAATAAATAAAACATTTAAAAGATAAATATG-TTA-CGAACAAGTTTAAATAGTTAA-
* * *
8896255 GACTATTTGAATAATTATCTTTTTCAAATAATTATAGCATTTTGCTTTGTCATAGAACAATTGTT
190 -ACTATTTGAATAATTATCTTTTTCAAATAATTATAGC-TTTTGTTTTGTCATAAAACAATTATT
* * * *
8896320 TCTATTCATACAAGCTTATTC-AGAATATAATAATATTAATTTATTAATATTTTAAAAATTAAAA
253 TCTATTTATACAAGCTTATTCGA-AATAAAATAATATTAATTTATTAATATTTCAAAAATTAATA
* * *
8896384 AGTAAAAAATTTAAAAGATAAATTTATCTAACGAACAAGTTC
317 AGTAAAAGATTTAAAAGATAAATTTATTTATCGAACAAGTTC
* * * * *
8896426 AAATAGTTATAACTATTTGAATAATTATTTATTTTAAAAAATTATGATATTTTGTTTTATCATAA
1 AAATAGTTATGACTATTTGAATAATTATCTATTTCAAATAATTATGATATTTTATTTTATCATAA
** * *
8896491 AATAATTGTTTCTATTAATATAAACTTATTCGGAATAAAATAATATTAATTTCTTAATATTTAAA
66 AATAATTGTTTCTATTAATATAAGTTTATTCAGAATAAAATAATATTAATTTATTAATATTTAAA
* * * *
8896556 AAATTAATAAGTAAAACATTTAAAAGATAAATCTATATAACGAACAAGTTTAAATAGTTATAACA
131 AAATTAATAAATAAAACATTTAAAAGATAAA--TATGTTACGAACAAGTTTAAATAGTTA-AACT
* * * * * *
8896621 ATTTGAATAACTATCTATTTT-AAATAATTATGATCTTTTGTTTTATTATAAAACAATTGTTCCT
193 ATTTGAATAATTATCT-TTTTCAAATAATTAT-AGCTTTTGTTTTGTCATAAAACAATTATTTCT
* * * * **
8896685 ATTAACACAAGCTTATTCGAAATATAATAATATTAATTTATTAATATTTCGATGATTAATAAGTA
256 ATTTATACAAGCTTATTCGAAATAAAATAATATTAATTTATTAATATTTCAAAAATTAATAAGTA
* * * * * * *
8896750 AAAGATCTAACAGATAAATTTGTTTACCAAATAAATTC
321 AAAGATTTAAAAGATAAATTTATTTATCGAACAAGTTC
8896788 AAATAGTTATGACTATTT-AATAA
1 AAATAGTTATGACTATTTGAATAA
8896811 GTAAAAAATT
Statistics
Matches: 933, Mismatches: 123, Indels: 80
0.82 0.11 0.07
Matches are distributed among these distances:
350 23 0.02
351 71 0.08
352 71 0.08
353 42 0.05
354 89 0.10
355 5 0.01
356 6 0.01
357 25 0.03
358 41 0.04
359 180 0.19
360 25 0.03
361 110 0.12
362 230 0.25
363 11 0.01
364 4 0.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (358 bp):
AAATAGTTATGACTATTTGAATAATTATCTATTTCAAATAATTATGATATTTTATTTTATCATAA
AATAATTGTTTCTATTAATATAAGTTTATTCAGAATAAAATAATATTAATTTATTAATATTTAAA
AAATTAATAAATAAAACATTTAAAAGATAAATATGTTACGAACAAGTTTAAATAGTTAAACTATT
TGAATAATTATCTTTTTCAAATAATTATAGCTTTTGTTTTGTCATAAAACAATTATTTCTATTTA
TACAAGCTTATTCGAAATAAAATAATATTAATTTATTAATATTTCAAAAATTAATAAGTAAAAGA
TTTAAAAGATAAATTTATTTATCGAACAAGTTC
Found at i:8896825 original size:181 final size:181
Alignment explanation
Indices: 8895355--8896810 Score: 1424
Period size: 181 Copynumber: 8.1 Consensus size: 181
8895345 TTGTCTATTA
* * * * * * * * * *
8895355 AAATAGTTATTACTATTTAAACAATTATCTGTTTCATATAATTATGATTTTTTATCTTATCATAG
1 AAATAGTTATGACTATTTGAATAATTATCTATTTTAAATAATTATGATCTTTTGTTTTATCATAA
* * * * *
8895420 CATAATTGTTTCTATTCATACAAGTTTA-TCTAGAATAAAATAATATTAATTTATTAATA-TTAA
66 AATAATTGTTTCTATTAATACAAGCTTATTCGA-AATAAAATAATATTAATTTATTAATATTTCA
* ** * * * *
8895483 AAAAGTCAATAAACAAAAGATTTAAATGATAAA--T-CTT-TCTAACAAGTTT
130 AAAA-TTAATAAGTAAAAGATTTAAAAGATAAATTTGTTTATCGAACAAGTTC
* * * * * *
8895532 AAATTGTTGA-GACTATTTGAACAATTATCTCTTTCAAATAATTAT-AACTATTTGTTTTGTCAT
1 AAATAGTT-ATGACTATTTGAATAATTATCTATTTTAAATAATTATGATCT-TTTGTTTTATCAT
* ** * * *
8895595 AGAGCAATTATTTCTGTTTATACAA-CTTTATTCCGAAATAAAATAATATTAATTTATTAATATT
64 AAAATAATTGTTTCTATTAATACAAGC-TTATT-CGAAATAAAATAATATTAATTTATTAATATT
* *
8895659 TCAAAAATTAATAAGTAAAAGATTTAAAAGATAAATTTATTTATCGAACAAGTTA
127 TCAAAAATTAATAAGTAAAAGATTTAAAAGATAAATTTGTTTATCGAACAAGTTC
* * * * * *
8895714 AAATAGTTGTGACTATTTTAACAATTATTTATTTCAAATAATTATGA-C-TTT-TTTTAT--T-G
1 AAATAGTTATGACTATTTGAATAATTATCTATTTTAAATAATTATGATCTTTTGTTTTATCATAA
* * * ** * * * *
8895773 TAGAA-TGTTTCTATTCATATTAGTTTATTCAAAATAAAATAATATTAATTT-TTAATTTTTTAA
66 AATAATTGTTTCTATTAATACAAGCTTATTCGAAATAAAATAATATTAATTTATTAATATTTCAA
* * * * * *
8895836 AAATTAA-AAATAAAATATTTAAAAGATAAATATGTGTACCAAACAAGTTC
131 AAATTAATAAGTAAAAGATTTAAAAGATAAATTTGTTTATCGAACAAGTTC
* * *
8895886 AAATAGTCAAGACTATTTGAATAATTATCTATTTCAAATAATTATGA-CATTTTGATTTT-TCAT
1 AAATAGTTATGACTATTTGAATAATTATCTATTTTAAATAATTATGATC-TTTTG-TTTTATCAT
* * * * * *
8895949 AAAATAATTATTTTTGTTTATACAAGTTTATTCGAAATAAAATAATAATAATTTATTAATATTT-
64 AAAATAATTGTTTCTATTAATACAAGCTTATTCGAAATAAAATAATATTAATTTATTAATATTTC
* *
8896013 AAAAATTAATAAGTAAAAGATTT-AAAGATAAATTTGTTTATCGAATAATTTC
129 AAAAATTAATAAGTAAAAGATTTAAAAGATAAATTTGTTTATCGAACAAGTTC
* * * * *
8896065 AAATAATCATGA-TAATTTGAATAATTATCTATTTTAAATAATTATGATATTTTATTTTATTATA
1 AAATAGTTATGACT-ATTTGAATAATTATCTATTTTAAATAATTATGATCTTTTGTTTTATCATA
* * * *
8896129 AAATAATTATTTTTATTCAA-ATAAGTTTATTCG-AATAAAATAATATTAATTTATTAATA-TTC
65 AAATAATTGTTTCTATT-AATACAAGCTTATTCGAAATAAAATAATATTAATTTATTAATATTTC
* * * *
8896191 TAAAAATTAATAAGTAAAACATTTAAAAAATAAATATGTTTATCGAACAAGTTT
129 -AAAAATTAATAAGTAAAAGATTTAAAAGATAAATTTGTTTATCGAACAAGTTC
* * * * *
8896245 AAATAATAATGACTATTTGAATAATTATCT-TTTTCAAATAATTAT-AGCATTTTGCTTTGTCAT
1 AAATAGTTATGACTATTTGAATAATTATCTATTTT-AAATAATTATGATC-TTTTGTTTTATCAT
* * * *
8896308 AGAACAATTGTTTCTATTCATACAAGCTTATTC-AGAATATAATAATATTAATTTATTAATATTT
64 AAAATAATTGTTTCTATTAATACAAGCTTATTCGA-AATAAAATAATATTAATTTATTAATATTT
* * * * * *
8896372 TAAAAATTAAAAAGTAAAAAATTTAAAAGATAAATTTATCTAACGAACAAGTTC
128 CAAAAATTAATAAGTAAAAGATTTAAAAGATAAATTTGTTTATCGAACAAGTTC
* * * *
8896426 AAATAGTTATAACTATTTGAATAATTATTTATTTTAAAAAATTATGATATTTTGTTTTATCATAA
1 AAATAGTTATGACTATTTGAATAATTATCTATTTTAAATAATTATGATCTTTTGTTTTATCATAA
* * * * *
8896491 AATAATTGTTTCTATTAATATAAACTTATTCGGAATAAAATAATATTAATTTCTTAATATTTAAA
66 AATAATTGTTTCTATTAATACAAGCTTATTCGAAATAAAATAATATTAATTTATTAATATTTCAA
* * * * * *
8896556 AAATTAATAAGTAAAACATTTAAAAGATAAATCTATATAACGAACAAGTTT
131 AAATTAATAAGTAAAAGATTTAAAAGATAAATTTGTTTATCGAACAAGTTC
* * * *
8896607 AAATAGTTATAACAATTTGAATAACTATCTATTTTAAATAATTATGATCTTTTGTTTTATTATAA
1 AAATAGTTATGACTATTTGAATAATTATCTATTTTAAATAATTATGATCTTTTGTTTTATCATAA
* * * * *
8896672 AACAATTGTTCCTATTAACACAAGCTTATTCGAAATATAATAATATTAATTTATTAATATTTCGA
66 AATAATTGTTTCTATTAATACAAGCTTATTCGAAATAAAATAATATTAATTTATTAATATTTCAA
** * * * * * *
8896737 TGATTAATAAGTAAAAGATCTAACAGATAAATTTGTTTACCAAATAAATTC
131 AAATTAATAAGTAAAAGATTTAAAAGATAAATTTGTTTATCGAACAAGTTC
8896788 AAATAGTTATGACTATTT-AATAA
1 AAATAGTTATGACTATTTGAATAA
8896811 GTAAAAAATT
Statistics
Matches: 1067, Mismatches: 172, Indels: 77
0.81 0.13 0.06
Matches are distributed among these distances:
172 77 0.07
173 17 0.02
174 24 0.02
175 18 0.02
176 9 0.01
177 74 0.07
178 85 0.08
179 190 0.18
180 124 0.12
181 391 0.37
182 57 0.05
183 1 0.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (181 bp):
AAATAGTTATGACTATTTGAATAATTATCTATTTTAAATAATTATGATCTTTTGTTTTATCATAA
AATAATTGTTTCTATTAATACAAGCTTATTCGAAATAAAATAATATTAATTTATTAATATTTCAA
AAATTAATAAGTAAAAGATTTAAAAGATAAATTTGTTTATCGAACAAGTTC
Found at i:8896841 original size:64 final size:64
Alignment explanation
Indices: 8896740--8896871 Score: 176
Period size: 64 Copynumber: 2.1 Consensus size: 64
8896730 ATTTCGATGA
* * * *
8896740 TTAATAAGTAAAAGATCTAACAGATAAATTTGTTTACCAAATAAATTCAAATAGTTATGACTAT
1 TTAATAAGTAAAAAATCTAAAAGATAAATTTATTTACCAAATAAATTCAAATAGTTATGACAAT
* * * *
8896804 TTAATAAGTAAAAAATTTTAAAAG-TAAATTTATTTACCGAATAAATTTAAATAGTTGTGACAAT
1 TTAATAAGTAAAAAA-TCTAAAAGATAAATTTATTTACCAAATAAATTCAAATAGTTATGACAAT
8896868 TTAA
1 TTAA
8896872 ATAATTATAT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
64 53 0.90
65 6 0.10
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (64 bp):
TTAATAAGTAAAAAATCTAAAAGATAAATTTATTTACCAAATAAATTCAAATAGTTATGACAAT
Found at i:8896892 original size:17 final size:17
Alignment explanation
Indices: 8896866--8896903 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
8896856 AGTTGTGACA
8896866 ATTTAAATAATTAT-AT
1 ATTTAAATAATTATGAT
8896882 ATTTCAAATAATTATGAT
1 ATTT-AAATAATTATGAT
8896900 ATTT
1 ATTT
8896904 TGTTTTGTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 4 0.20
17 10 0.50
18 6 0.30
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (17 bp):
ATTTAAATAATTATGAT
Found at i:8896990 original size:245 final size:245
Alignment explanation
Indices: 8896559--8897037 Score: 611
Period size: 245 Copynumber: 2.0 Consensus size: 245
8896549 ATTTAAAAAA
* *
8896559 TTAATAAGTAAAACATTTAAAAGATAAATCTATATAACGAACAAGTTTAAATAGTTATAACAATT
1 TTAATAAGTAAAAAATTTAAAAGATAAATCTATATAACGAACAAATTTAAATAGTTATAACAATT
* * * * * * *
8896624 TGAATAACTATCTATTTTAAATAATTATGATCTTTTGTTTTATTATAAAACAATTGTTCCTATTA
66 TAAATAACTATATATTTCAAATAATTATGATATTTTGTTTTATCATAAAACAACTATTCCTATTA
* * ** *
8896689 ACACAAGCTTATTCGAAATATAATAATATTAATTTATTAATATTTCGATGATTAATAAGTAAAAG
131 ACACAAGCTTATTCGAAATAAAATAATATTAATTTATTAATATTTCAAAAATTAATAAGTAAAAA
* *
8896754 ATCTAACAGATAAATTTGTTTACCAAATAAATTCAAATAGTTATGACTAT
196 ATCTAAAAGATAAATTTATTTACCAAATAAATTCAAATAGTTATGACTAT
* * * * * *
8896804 TTAATAAGTAAAAAATTTTAAAAG-TAAATTTATTTACCGAATAAATTTAAATAGTTGTGACAAT
1 TTAATAAGTAAAAAA-TTTAAAAGATAAATCTATATAACGAACAAATTTAAATAGTTATAACAAT
* * * *
8896868 TTAAATAATTATATATTTCAAATAATTATGATATTTTGTTTTGTCATAAAACAACTATTTCTGTT
65 TTAAATAACTATATATTTCAAATAATTATGATATTTTGTTTTATCATAAAACAACTATTCCTATT
* ** *
8896933 CATGCAAGCTTATTTCG-AATAAAATAATATTAATTTATTAATATTTTAAAAATTAATAAGTAAA
130 AACACAAGCTTA-TTCGAAATAAAATAATATTAATTTATTAATATTTCAAAAATTAATAAGTAAA
* * ** *
8896997 AAATTTAAAAGATAGATTTATTTACTGAATAATTTCAAATA
194 AAATCTAAAAGATAAATTTATTTACCAAATAAATTCAAATA
8897038 ATCACAACTA
Statistics
Matches: 197, Mismatches: 35, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
245 185 0.94
246 12 0.06
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.40
Consensus pattern (245 bp):
TTAATAAGTAAAAAATTTAAAAGATAAATCTATATAACGAACAAATTTAAATAGTTATAACAATT
TAAATAACTATATATTTCAAATAATTATGATATTTTGTTTTATCATAAAACAACTATTCCTATTA
ACACAAGCTTATTCGAAATAAAATAATATTAATTTATTAATATTTCAAAAATTAATAAGTAAAAA
ATCTAAAAGATAAATTTATTTACCAAATAAATTCAAATAGTTATGACTAT
Found at i:8897078 original size:607 final size:603
Alignment explanation
Indices: 8896197--8897410 Score: 1520
Period size: 607 Copynumber: 2.0 Consensus size: 603
8896187 ATTCTAAAAA
* * * * *
8896197 TTAATAAGTAAAACATTTAAAAAATAAATATGTTTATCGAACAAGTTTAAATAATAATGACTATT
1 TTAATAAGTAAAAAATTTAAAAAATAAATATATTTACCGAACAAATTTAAATAATAATGACAATT
* * * * * *
8896262 TGAATAATTATCTTTTTCAAATAATTATAGCATTTTGCTTTGTCATAGAACAATTGTTTCTATTC
66 TAAATAATTATATATTTCAAATAATTATAGCATTTTGCTTTGTCATAAAACAACTATTTCTATTC
*
8896327 ATACAAGCTTATTCAGAATATAATAATATTAATTTATTAATATTTTAAAAATTAAAAAGTAAAAA
131 ATACAAGCTTATTCAGAATAAAATAATATTAATTTATTAATATTTTAAAAATTAAAAAGTAAAAA
* * * * *
8896392 ATTTAAAAGATAAATTTATCTAACGAACAAGTTCAAATAGTTATAACTATTTGAATAATTATTTA
196 ATTTAAAAGATAAATTTATCTAACGAACAAGTTCAAATAATCACAACTATTTGAACAATTATCTA
* * * * * *
8896457 TTTTAAAAAATTATGATATTTTGTTTTATCATAAAATAATTGTTTCTATTAATATAAACTTATTC
261 ATTCAAAAAATTATGA-A-TTTATTTTATCATAAAACAATTATTTCTATTAATACAAACTTATTC
* * * *
8896522 GGAATAAAATAATATTAATTTCTTAATATTTAAAAAATTAATAAGTAAAACATTTAAAAGATAAA
324 -AAAT-AAATAATATTAATTTATTAATATTTAAAAAATT-ATAAGTAAAACACTTAAAAAATAAA
* * *
8896587 TCTATATAAC-GAACAAGTTTAAATAGTTATAACAATTTGAATAACTATCTATTTTAAATAATTA
386 TCTAT-TAACTGAACAAGTTCAAATAGTTATAACAATTTGAACAACTATCTATTTCAAATAATTA
* * * * *
8896651 TGA-TCTTTTGTTTTATTATAAAACAATTGTTCCTATTAACACAAGCTTATTCGAAATATAATAA
450 TGACTCTTTTATTTTATCATAAAACAATTATTCCTATTAACACAAACTTATTCGAAATAAAATAA
* ** * * * *
8896715 TATTAATTTATTAATATTTCGATGATTAATAAGTAAAAGATCTAACAGATAAATTTGTTTACCAA
515 TATTAATTTATTAATATTTCAAAAATTAATAAGTAAAAGATCTAAAAAATAAATATATTTACCAA
* **
8896780 ATAAATTCAAATAGTTATGACTAT
580 ACAAATTCAAATAACTATGACTAT
* * * * * **
8896804 TTAATAAGTAAAAAATTTTAAAAGTAAATTTATTTACCGAATAAATTTAAATAGTTGTGACAATT
1 TTAATAAGTAAAAAATTTAAAAAATAAATATATTTACCGAACAAATTTAAATAATAATGACAATT
* * *
8896869 TAAATAATTATATATTTCAAATAATTAT-GATATTTTGTTTTGTCATAAAACAACTATTTCTGTT
66 TAAATAATTATATATTTCAAATAATTATAG-CATTTTGCTTTGTCATAAAACAACTATTTCTATT
* *
8896933 CATGCAAGCTTATTTC-GAATAAAATAATATTAATTTATTAATATTTTAAAAATTAATAAGTAAA
130 CATACAAGCTTA-TTCAGAATAAAATAATATTAATTTATTAATATTTTAAAAATTAAAAAGTAAA
* * * *
8896997 AAATTTAAAAGATAGATTTAT-TTACTGAATAATTTCAAATAATCACAACTATTTGAACAATTAT
194 AAATTTAAAAGATAAATTTATCTAAC-GAACAAGTTCAAATAATCACAACTATTTGAACAATTAT
* * * * *
8897061 CTAATTCAAATAATTATGAATTTATTTTATTATAAAACAATTATTTCTATTCATGCAAGCTTATT
258 CTAATTCAAAAAATTATGAATTTATTTTATCATAAAACAATTATTTCTATTAATACAAACTTATT
* * * *
8897126 CAAATAAATAGTATTTATTTATTAATATTTTAAAAATTATAAGTAAAATACTTAAAAAATAAATC
323 CAAATAAATAATATTAATTTATTAATATTTAAAAAATTATAAGTAAAACACTTAAAAAATAAATC
* * * * * *
8897191 TGTTTACTGAATAAGTTCAAATAGTTATAACTATTTGAGCAATTATCTATTTCAAATAATTATGA
388 TATTAACTGAACAAGTTCAAATAGTTATAACAATTTGAACAACTATCTATTTCAAATAATTATGA
* * ** * * *
8897256 CTTTTTTATTTTATCATAAAATAATTATTTTTGTTCATACAAACTTATTCGAAATAAAATAATAT
453 CTCTTTTATTTTATCATAAAACAATTATTCCTATTAACACAAACTTATTCGAAATAAAATAATAT
* * * *
8897321 TAATTTATTGATATTTCAAAAATTAATAAGTAAAATATTTAAAAAATAAATATATTTACCGAACA
518 TAATTTATTAATATTTCAAAAATTAATAAGTAAAAGATCTAAAAAATAAATATATTTACCAAACA
*
8897386 AGTTCAAATAACTATGACTAT
583 AATTCAAATAACTATGACTAT
8897407 TTAA
1 TTAA
8897411 ATAAATATAT
Statistics
Matches: 514, Mismatches: 88, Indels: 14
0.83 0.14 0.02
Matches are distributed among these distances:
601 3 0.01
602 76 0.15
603 156 0.30
604 3 0.01
605 38 0.07
606 5 0.01
607 230 0.45
608 3 0.01
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.41
Consensus pattern (603 bp):
TTAATAAGTAAAAAATTTAAAAAATAAATATATTTACCGAACAAATTTAAATAATAATGACAATT
TAAATAATTATATATTTCAAATAATTATAGCATTTTGCTTTGTCATAAAACAACTATTTCTATTC
ATACAAGCTTATTCAGAATAAAATAATATTAATTTATTAATATTTTAAAAATTAAAAAGTAAAAA
ATTTAAAAGATAAATTTATCTAACGAACAAGTTCAAATAATCACAACTATTTGAACAATTATCTA
ATTCAAAAAATTATGAATTTATTTTATCATAAAACAATTATTTCTATTAATACAAACTTATTCAA
ATAAATAATATTAATTTATTAATATTTAAAAAATTATAAGTAAAACACTTAAAAAATAAATCTAT
TAACTGAACAAGTTCAAATAGTTATAACAATTTGAACAACTATCTATTTCAAATAATTATGACTC
TTTTATTTTATCATAAAACAATTATTCCTATTAACACAAACTTATTCGAAATAAAATAATATTAA
TTTATTAATATTTCAAAAATTAATAAGTAAAAGATCTAAAAAATAAATATATTTACCAAACAAAT
TCAAATAACTATGACTAT
Found at i:8897225 original size:176 final size:179
Alignment explanation
Indices: 8896804--8897462 Score: 743
Period size: 181 Copynumber: 3.7 Consensus size: 179
8896794 TTATGACTAT
* * * * * * *
8896804 TTAATAAGTAAAAAATTTTAAAAGTAAATTTATTTACCGAATAAATTTAAATAGTTGTGACAATT
1 TTAATAAGTAAAAAATTTAAAAAATAAATTTATTTACCGAATAAGTTCAAATAGTTATAACTATT
* * * * * *
8896869 TAAATAATTATATATTTCAAATAATTATGATATTTTGTTTTGTCATAAAACAACTATTTCTGTTC
66 TGAACAATTATCTATTTCAAATAATTATGATA-TTTATTTTATCATAAAACAATTATTTCTGTTC
*
8896934 ATGCAAGCTTATTTCGAATAAAATAATATTAATTTATTAATATTTTAAAAA
130 ATGCAAGCTTA-TTCAAATAAAATAATATTAATTTATTAATATTTTAAAAA
* * * * * * *
8896985 TTAATAAGTAAAAAATTTAAAAGATAGATTTATTTACTGAATAATTTCAAATAATCACAACTATT
1 TTAATAAGTAAAAAATTTAAAAAATAAATTTATTTACCGAATAAGTTCAAATAGTTATAACTATT
* * *
8897050 TGAACAATTATCTAATTCAAATAATTATGA-ATTTATTTTATTATAAAACAATTATTTCTATTCA
66 TGAACAATTATCTATTTCAAATAATTATGATATTTATTTTATCATAAAACAATTATTTCTGTTCA
* *
8897114 TGCAAGCTTATTCAAAT-AAATAGTATTTATTTATTAATATTTTAAAAA
131 TGCAAGCTTATTCAAATAAAATAATATTAATTTATTAATATTTTAAAAA
* * * * *
8897162 TT-ATAAGTAAAATACTTAAAAAATAAATCTGTTTACTGAATAAGTTCAAATAGTTATAACTATT
1 TTAATAAGTAAAAAATTTAAAAAATAAATTTATTTACCGAATAAGTTCAAATAGTTATAACTATT
* * * *
8897226 TGAGCAATTATCTATTTCAAATAATTATGACTTTTTTATTTTATCATAAAATAATTATTTTTGTT
66 TGAACAATTATCTATTTCAAATAATTATGA--TATTTATTTTATCATAAAACAATTATTTCTGTT
* * * *
8897291 CATACAAACTTATTCGAAATAAAATAATATTAATTTATTGATATTTCAAAAA
129 CATGCAAGCTTATTC-AAATAAAATAATATTAATTTATTAATATTTTAAAAA
* * * ** *
8897343 TTAATAAGTAAAATATTTAAAAAATAAATATATTTACCGAACAAGTTCAAATAACTATGACTATT
1 TTAATAAGTAAAAAATTTAAAAAATAAATTTATTTACCGAATAAGTTCAAATAGTTATAACTATT
* * * * * * *
8897408 TAAATAAATATATTTTTCAAATATTTATGA-ACTTT-TGTTATATCATAAAATAATT
66 TGAACAATTATCTATTTCAAATAATTATGATA-TTTAT-TT-TATCATAAAACAATT
8897463 TTAGAACCAT
Statistics
Matches: 405, Mismatches: 64, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
176 80 0.20
177 31 0.08
178 6 0.01
179 79 0.20
180 10 0.02
181 122 0.30
182 77 0.19
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.42
Consensus pattern (179 bp):
TTAATAAGTAAAAAATTTAAAAAATAAATTTATTTACCGAATAAGTTCAAATAGTTATAACTATT
TGAACAATTATCTATTTCAAATAATTATGATATTTATTTTATCATAAAACAATTATTTCTGTTCA
TGCAAGCTTATTCAAATAAAATAATATTAATTTATTAATATTTTAAAAA
Found at i:8899336 original size:2 final size:2
Alignment explanation
Indices: 8899331--8899356 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8899321 CATGTGTTAA
8899331 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
8899357 GTAATTCACC
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:8899680 original size:28 final size:29
Alignment explanation
Indices: 8899628--8899683 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
8899618 TTTTCTAAAC
** *
8899628 GTAAAACATACTTTTTGGCCAAAAAAAAT
1 GTAAAACATACTTTTTAACAAAAAAAAAT
8899657 GTAAAACATAC-TTTTAACAAAAAAAAA
1 GTAAAACATACTTTTTAACAAAAAAAAA
8899684 ATGAAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.55, C:0.12, G:0.07, T:0.25
Consensus pattern (29 bp):
GTAAAACATACTTTTTAACAAAAAAAAAT
Found at i:8900669 original size:16 final size:17
Alignment explanation
Indices: 8900650--8900688 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
8900640 ATTTAAAAAT
8900650 TTTTTTATTATTA-AAC
1 TTTTTTATTATTATAAC
*
8900666 TTTTTTGTTATTATTAAC
1 TTTTTTATTATTA-TAAC
8900684 TTTTT
1 TTTTT
8900689 CATATAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
18 8 0.40
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTTTTATTATTATAAC
Found at i:8900676 original size:19 final size:17
Alignment explanation
Indices: 8900649--8900688 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 17
8900639 AATTTAAAAA
8900649 TTTTTTTATTATTAAACT
1 TTTTTTTATTATT-AACT
8900667 TTTTTGTTATTATTAACT
1 TTTTT-TTATTATTAACT
8900685 TTTT
1 TTTT
8900689 CATATAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTTTTTATTATTAACT
Found at i:8901315 original size:2 final size:2
Alignment explanation
Indices: 8901302--8901332 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
8901292 AAATCTTAAG
*
8901302 AT AT AT AC 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
8901333 ACATATCTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:8902707 original size:30 final size:30
Alignment explanation
Indices: 8902673--8902733 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
8902663 CGAGTTATTC
8902673 TAAGTAGAGAATTATTAAATAAAGTAAGAT
1 TAAGTAGAGAATTATTAAATAAAGTAAGAT
8902703 TAAGTAGAGAATTATTAAATAAAGTAAGAT
1 TAAGTAGAGAATTATTAAATAAAGTAAGAT
8902733 T
1 T
8902734 CATTACATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.31
Consensus pattern (30 bp):
TAAGTAGAGAATTATTAAATAAAGTAAGAT
Found at i:8902719 original size:15 final size:15
Alignment explanation
Indices: 8902673--8902720 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
8902663 CGAGTTATTC
8902673 TAAGTAGAGAATTAT
1 TAAGTAGAGAATTAT
* * *
8902688 TAAATAAAGTAA-GAT
1 TAAGTAGAG-AATTAT
8902703 TAAGTAGAGAATTAT
1 TAAGTAGAGAATTAT
8902718 TAA
1 TAA
8902721 ATAAAGTAAG
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
14 2 0.08
15 21 0.84
16 2 0.08
ACGTcount: A:0.52, C:0.00, G:0.17, T:0.31
Consensus pattern (15 bp):
TAAGTAGAGAATTAT
Found at i:8903531 original size:30 final size:30
Alignment explanation
Indices: 8903459--8903550 Score: 80
Period size: 30 Copynumber: 3.1 Consensus size: 30
8903449 TATAATTTTC
*
8903459 TTGTATCCAAATAAACACTTAGCTTTTAAT
1 TTGTATCCAAATAAACACTTAACTTTTAAT
* * *
8903489 TTGCA-CTTAAATAAACTCTTAAAC-TTTAAT
1 TTGTATC-CAAATAAACACTT-AACTTTTAAT
* * * *
8903519 TTGTATCCAAATAAGCCCCTAATTTTTAAT
1 TTGTATCCAAATAAACACTTAACTTTTAAT
8903549 TT
1 TT
8903551 ATACCTAAAT
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
29 3 0.06
30 42 0.88
31 3 0.06
ACGTcount: A:0.36, C:0.17, G:0.05, T:0.41
Consensus pattern (30 bp):
TTGTATCCAAATAAACACTTAACTTTTAAT
Found at i:8904792 original size:19 final size:20
Alignment explanation
Indices: 8904768--8904807 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
8904758 CTTGGATTTG
*
8904768 TTTAATTTTTAAATTT-AAT
1 TTTAATATTTAAATTTGAAT
*
8904787 TTTAATATTTCAATTTGAAT
1 TTTAATATTTAAATTTGAAT
8904807 T
1 T
8904808 AACATTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (20 bp):
TTTAATATTTAAATTTGAAT
Found at i:8904923 original size:17 final size:19
Alignment explanation
Indices: 8904901--8904941 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
8904891 AATTTTATTT
8904901 TTATTGTT-TT-ATTTTTG
1 TTATTGTTCTTAATTTTTG
*
8904918 TTATTGTTCTTAATTTTTT
1 TTATTGTTCTTAATTTTTG
8904937 TTATT
1 TTATT
8904942 TATTGAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.38
18 2 0.10
19 11 0.52
ACGTcount: A:0.15, C:0.02, G:0.07, T:0.76
Consensus pattern (19 bp):
TTATTGTTCTTAATTTTTG
Found at i:8906463 original size:24 final size:24
Alignment explanation
Indices: 8906436--8906482 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
8906426 AATTTTAGAT
* * *
8906436 TTTATTAGATTATATCTTTACAAG
1 TTTATAAGATTACATCTCTACAAG
*
8906460 TTTATAAGGTTACATCTCTACAA
1 TTTATAAGATTACATCTCTACAA
8906483 CATTATTTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.45
Consensus pattern (24 bp):
TTTATAAGATTACATCTCTACAAG
Found at i:8909455 original size:21 final size:23
Alignment explanation
Indices: 8909429--8909480 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 23
8909419 CATTTCTCTC
*
8909429 AAATAAAATGAAAA-AATAAA-A
1 AAATAAAATAAAAAGAATAAAGA
8909450 AAATAAAA-AAAAAGAATAAAGA
1 AAATAAAATAAAAAGAATAAAGA
*
8909472 AACTAAAAT
1 AAATAAAAT
8909481 TTAGAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 4 0.15
21 14 0.54
22 8 0.31
ACGTcount: A:0.79, C:0.02, G:0.06, T:0.13
Consensus pattern (23 bp):
AAATAAAATAAAAAGAATAAAGA
Found at i:8913103 original size:13 final size:15
Alignment explanation
Indices: 8913085--8913116 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
8913075 TAAATGGTGA
8913085 AAAATTTA-AAAA-T
1 AAAATTTATAAAATT
8913098 AAAATTTATAAAATT
1 AAAATTTATAAAATT
8913113 AAAA
1 AAAA
8913117 ATAAAGTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 4 0.24
15 5 0.29
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAATTTATAAAATT
Found at i:8918798 original size:105 final size:108
Alignment explanation
Indices: 8918689--8918905 Score: 257
Period size: 105 Copynumber: 2.0 Consensus size: 108
8918679 AAAGAAAAAA
* * * *
8918689 AAAGAGCAAAAGAATAAAGGCATGCACCTT-AAAGATGATGATCCGA-GGT-AAAA-TGAATAAA
1 AAAGAGCAAAAAAAGAAAGGCATGCA-CTTCAAAAATGAGGAT-CGAGGGTAAAAAGTGAATAAA
* * *
8918750 GCTTCAGTCA-ATATCTTAAGT-AAAAAAAGAAGATAGAATTCAAG
64 ACTTCAGTCAGA-ATCTCAAGTAAAAAAAAAAAGATAGAATTCAAG
* * *
8918794 AAAGAGTAAAAAAAGAAAGGTATGCACTTCAAAAATGAGGATCTAGGGTAAAAAGTGAATAAAAC
1 AAAGAGCAAAAAAAGAAAGGCATGCACTTCAAAAATGAGGATCGAGGGTAAAAAGTGAATAAAAC
* *
8918859 TTCAGTTAGAATCTCCAGTAAAAAAAAAAAGATAGAATTCAAG
66 TTCAGTCAGAATCTCAAGTAAAAAAAAAAAGATAGAATTCAAG
8918902 AAAG
1 AAAG
8918906 TTGAATACTA
Statistics
Matches: 94, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
104 5 0.05
105 35 0.37
106 4 0.04
107 23 0.24
108 27 0.29
ACGTcount: A:0.52, C:0.10, G:0.19, T:0.19
Consensus pattern (108 bp):
AAAGAGCAAAAAAAGAAAGGCATGCACTTCAAAAATGAGGATCGAGGGTAAAAAGTGAATAAAAC
TTCAGTCAGAATCTCAAGTAAAAAAAAAAAGATAGAATTCAAG
Found at i:8918969 original size:149 final size:148
Alignment explanation
Indices: 8918843--8919112 Score: 325
Period size: 148 Copynumber: 1.8 Consensus size: 148
8918833 GATCTAGGGT
* * *
8918843 AAAAAGTGAATAAAACTTCAGTTAGAATCTCCAGTAAAA-AAAAA-AAGATAGAATTCAAGAAAG
1 AAAAAATGAATAAAACTTCACTTAAAAT-T-CA--AAAAGAAAAAGAAGATAGAATTCAAGAAAG
* * * *
8918906 -TTGAATACTAAAGTCGAAGTCAGATATT-TAAAAAAAAAAAAAG-CAAAGAAAGAAAGACATGC
62 CAT-AATACAAAAGTCGAAGTCAAATATTCAAAAAAAAAAAAAAGACAAA-AAAGAAAGACATGC
*
8918968 ACCTTAAAGATGAAAGTCTAAGCC
125 ACCTTAAAAATGAAAGTCTAAGCC
* *
8918992 AAAAAATGAATAAAGCTTCACTTAAAATTCAAAAAGTAAAAAGGAGATAGAATTCAAGAAAGCAT
1 AAAAAATGAATAAAACTTCACTTAAAATTCAAAAAG-AAAAAGAAGATAGAATTCAAGAAAGCAT
* *
8919057 AATAGAAAAGTTGAAGTCAAATATTGCAAAAAAAAAAAAAAGACAAAAAAGAAAGA
65 AATACAAAAGTCGAAGTCAAATATT-CAAAAAAAAAAAAAAGACAAAAAAGAAAGA
8919113 GCAACGAAAG
Statistics
Matches: 103, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
145 4 0.04
147 7 0.07
148 40 0.39
149 25 0.24
150 23 0.22
151 4 0.04
ACGTcount: A:0.58, C:0.10, G:0.15, T:0.18
Consensus pattern (148 bp):
AAAAAATGAATAAAACTTCACTTAAAATTCAAAAAGAAAAAGAAGATAGAATTCAAGAAAGCATA
ATACAAAAGTCGAAGTCAAATATTCAAAAAAAAAAAAAAGACAAAAAAGAAAGACATGCACCTTA
AAAATGAAAGTCTAAGCC
Found at i:8920100 original size:26 final size:26
Alignment explanation
Indices: 8920069--8920125 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
8920059 CATCATCTAT
* *
8920069 ATCATAACCAAGAAATTTGCATTTGC
1 ATCATAACAAAGAAATTTACATTTGC
* *
8920095 ATCATAAGAAAGACATTTACATTTGC
1 ATCATAACAAAGAAATTTACATTTGC
8920121 ATCAT
1 ATCAT
8920126 GGCATTTGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.32
Consensus pattern (26 bp):
ATCATAACAAAGAAATTTACATTTGC
Found at i:8920588 original size:23 final size:22
Alignment explanation
Indices: 8920521--8920591 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
8920511 ATATTAACTA
*
8920521 GCACCTAAGCCCAATTCAGTTG
1 GCACCTAAGCCCAATTTAGTTG
* *
8920543 GCACCTATGCCTAGA-TTAGTTG
1 GCACCTAAGCCCA-ATTTAGTTG
*
8920565 GCACTTTAAGCCCAATTTAGTTG
1 GCAC-CTAAGCCCAATTTAGTTG
8920588 GCAC
1 GCAC
8920592 GGTTGAGATT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
22 22 0.55
23 18 0.45
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (22 bp):
GCACCTAAGCCCAATTTAGTTG
Found at i:8920875 original size:104 final size:103
Alignment explanation
Indices: 8920692--8921009 Score: 326
Period size: 104 Copynumber: 3.1 Consensus size: 103
8920682 AGCTAATTTT
* * *
8920692 CAAGACCTCTGGGTAAAATATTTT-AAATTTTCAAAGTTTCAATGCCTCTGATATTATGA-GCAT
1 CAAGACCTCTAGGT-AAATATTTTAAAATTTTCAAAGTTTCAATACCTCTG--ATTAAGAGGCAT
* * *
8920755 TCAAAGATGCTGAGATTTGTAAGACCT-TCAGGCATAATCTC
63 TCAAAGATGTTAAGATTTGTAAGACCTCTGA-GCATAATCTC
* * * *
8920796 CAAGATCTCTAGGTAAATATTTTAAAATTTT-AAAGCTTCAATACCTCTGATTGAGAGGTGCAAT
1 CAAGACCTCTAGGTAAATATTTTAAAATTTTCAAAGTTTCAATACCTCTGATTAAGA-G-GCATT
8920860 CAAAGATGTTAAGATTTGTAAGACCTCTGAGCATAATCTC
64 CAAAGATGTTAAGATTTGTAAGACCTCTGAGCATAATCTC
* * * * * *
8920900 TAAGACCT-TCGGATAAA-ATATTTAAAATTTTCAAAGTTTCAATTCCT-TTAATAAAATGAGCA
1 CAAGACCTCTAGG-TAAATAT-TTTAAAATTTTCAAAGTTTCAATACCTCTGATTAAGA-G-GCA
* *
8920962 TTCAAAGATATTAAGATTTGTAAAACCTCTGAGCATAATCTC
62 TTCAAAGATGTTAAGATTTGTAAGACCTCTGAGCATAATCTC
*
8921004 TAAGAC
1 CAAGAC
8921010 TTCCAAGCAT
Statistics
Matches: 182, Mismatches: 24, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
101 5 0.03
103 30 0.16
104 132 0.73
105 15 0.08
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.33
Consensus pattern (103 bp):
CAAGACCTCTAGGTAAATATTTTAAAATTTTCAAAGTTTCAATACCTCTGATTAAGAGGCATTCA
AAGATGTTAAGATTTGTAAGACCTCTGAGCATAATCTC
Found at i:8921155 original size:22 final size:22
Alignment explanation
Indices: 8921102--8921157 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
8921092 AAGATGTCAA
8921102 AATTTATAAGACTTCCAAGCAT
1 AATTTATAAGACTTCCAAGCAT
* * *
8921124 AATCTCTAAGA-TCTCCGAGCAT
1 AATTTATAAGACT-TCCAAGCAT
8921146 AATTTATAAGAC
1 AATTTATAAGAC
8921158 CTCTGGGTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
21 1 0.04
22 26 0.96
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (22 bp):
AATTTATAAGACTTCCAAGCAT
Found at i:8921270 original size:126 final size:125
Alignment explanation
Indices: 8920878--8921270 Score: 484
Period size: 126 Copynumber: 3.1 Consensus size: 125
8920868 TTAAGATTTG
* * * * *
8920878 TAAGACCTCTGAGCATAATCTCTAAGACCTTCGGATAAAATATTTAAAATTTTCAAAGTTTCAAT
1 TAAGACCTCCGAGCATAATTTATAAGACCTT-GGGTAAAATATTTTAAATTTTCAAAGTTTCAAT
* * ** * * *
8920943 TCCTTTAATAAAATGAGCATTCAAAGATATTAAGATTTGTAAAACC-TCTGAGCATAATCTC
65 ACCTATAATATGATGAGCATTCAAAGATGTTAAGATTTGTAAGACCTTC-AAGCATAATCTC
* * * *
8921004 TAAGACTTCCAAGCATAATTTGTAAAACCTTTGGGTAAAATATTTTAAATTTTCAAAGTTTCAAT
1 TAAGACCTCCGAGCATAATTTATAAGACC-TTGGGTAAAATATTTTAAATTTTCAAAGTTTCAAT
* * * *
8921069 ACCTATAATATGAGGAGCATTCAAAGATGTCAAAATTTATAAGA-CTTCCAAGCATAATCTC
65 ACCTATAATATGATGAGCATTCAAAGATGTTAAGATTTGTAAGACCTT-CAAGCATAATCTC
*
8921130 TAAGATCTCCGAGCATAATTTATAAGACCTCTGGGTAAAATATTTTAAATTTTCAAAGTTTCAAT
1 TAAGACCTCCGAGCATAATTTATAAGACCT-TGGGTAAAATATTTTAAATTTTCAAAGTTTCAAT
* * * * *
8921195 ACCTCTAATATGATAAGCATTTAAAAATGTTGAGATTTGTAAGACCTTCAAGCATAATCTC
65 ACCTATAATATGATGAGCATTCAAAGATGTTAAGATTTGTAAGACCTTCAAGCATAATCTC
*
8921256 TAAGACCTCTGAGCA
1 TAAGACCTCCGAGCA
8921271 AAATATTTTA
Statistics
Matches: 227, Mismatches: 35, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
125 2 0.01
126 219 0.96
127 6 0.03
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.33
Consensus pattern (125 bp):
TAAGACCTCCGAGCATAATTTATAAGACCTTGGGTAAAATATTTTAAATTTTCAAAGTTTCAATA
CCTATAATATGATGAGCATTCAAAGATGTTAAGATTTGTAAGACCTTCAAGCATAATCTC
Found at i:8921323 original size:104 final size:105
Alignment explanation
Indices: 8921141--8921364 Score: 292
Period size: 104 Copynumber: 2.1 Consensus size: 105
8921131 AAGATCTCCG
* * * * *
8921141 AGCATAATTTATAAGACCTCTGGGTAAAATATTTTAAATTTTCAAAGTTTCAATACCTCTAATAT
1 AGCATAATCTCTAAGACCTCTGAGCAAAATATTTTAAATTTTCAAAGTTTCAATACCTCTAATAG
* * *
8921206 GATAAGCATTTAAAA-ATGTTGAGATTTGTAAGACCTTCA
66 GAAAAACATTTAAAAGATGTTAAGATTTGTAAGACCTTCA
*
8921245 AGCATAATCTCTAAGACCTCTGAGCAAAATATTTTAAAATTTT-AAAGTTTCAATACCTTTAATT
1 AGCATAATCTCTAAGACCTCTGAGCAAAATATTTT-AAATTTTCAAAGTTTCAATACCTCTAA-T
* *
8921309 AGGAAAAACA-TTAAAAGATTTTAAGATTTGTAAGACTTTCA
64 AGGAAAAACATTTAAAAGATGTTAAGATTTGTAAGACCTTCA
* *
8921350 AACGTAATCTCTAAG
1 AGCATAATCTCTAAG
8921365 TTCTCCAAGA
Statistics
Matches: 104, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
104 55 0.53
105 49 0.47
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (105 bp):
AGCATAATCTCTAAGACCTCTGAGCAAAATATTTTAAATTTTCAAAGTTTCAATACCTCTAATAG
GAAAAACATTTAAAAGATGTTAAGATTTGTAAGACCTTCA
Found at i:8921917 original size:26 final size:27
Alignment explanation
Indices: 8921874--8921924 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
8921864 AGAGAAATAA
8921874 AGGGGTGTTCAAGCACCCATTTCATAG
1 AGGGGTGTTCAAGCACCCATTTCATAG
* *
8921901 AGGGG-GTTCGAGTACCCATTTCAT
1 AGGGGTGTTCAAGCACCCATTTCAT
8921925 CAAACCAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (27 bp):
AGGGGTGTTCAAGCACCCATTTCATAG
Found at i:8922239 original size:21 final size:21
Alignment explanation
Indices: 8922174--8922244 Score: 74
Period size: 21 Copynumber: 3.3 Consensus size: 21
8922164 TATGATGACA
*
8922174 CAAAATT-TATCAATAATTAT
1 CAAAATTATATCAAGAATTAT
*
8922194 CAAAATTATAT-ATGAAAGGTTAT
1 CAAAATTATATCAAG-AA--TTAT
*
8922217 CAAAATTACATCAAGAATTAT
1 CAAAATTATATCAAGAATTAT
8922238 CAAAATT
1 CAAAATT
8922245 TGATTAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
20 8 0.19
21 16 0.38
23 16 0.38
24 2 0.05
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.34
Consensus pattern (21 bp):
CAAAATTATATCAAGAATTAT
Found at i:8922256 original size:21 final size:20
Alignment explanation
Indices: 8922174--8922262 Score: 63
Period size: 21 Copynumber: 4.2 Consensus size: 20
8922164 TATGATGACA
*
8922174 CAAAATTTATCAATAATTAT
1 CAAAATTTATCAAAAATTAT
*
8922194 CAAAATTATAT-ATGAAAGGTTAT
1 CAAAATT-TATCA--AAA-ATTAT
* *
8922217 CAAAATTACATCAAGAATTAT
1 CAAAATT-TATCAAAAATTAT
* *
8922238 CAAAATTTGATTAAAAATTAC
1 CAAAATTT-ATCAAAAATTAT
8922259 CAAA
1 CAAA
8922263 TTTGTATGAA
Statistics
Matches: 54, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
20 8 0.15
21 27 0.50
22 4 0.07
23 14 0.26
24 1 0.02
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.33
Consensus pattern (20 bp):
CAAAATTTATCAAAAATTAT
Found at i:8922361 original size:20 final size:19
Alignment explanation
Indices: 8922335--8922409 Score: 71
Period size: 20 Copynumber: 3.7 Consensus size: 19
8922325 AATTGTATAG
8922335 AAAGTTATCAAATTTTATC
1 AAAGTTATCAAATTTTATC
*
8922354 AAAGGTTATGAAACTTTTAAT-
1 AAA-GTTATCAAA-TTTT-ATC
* *
8922375 AGAAGTTATCAAAATATATC
1 A-AAGTTATCAAATTTTATC
8922395 AAAAGTTATCAAATT
1 -AAAGTTATCAAATT
8922410 CAAGATTATA
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
19 5 0.11
20 22 0.49
21 14 0.31
22 4 0.09
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.36
Consensus pattern (19 bp):
AAAGTTATCAAATTTTATC
Found at i:8925274 original size:20 final size:20
Alignment explanation
Indices: 8925248--8925293 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
8925238 GTTTAAATTT
*
8925248 ATTTTTTTTCTTTT-TTGAA
1 ATTTTTTTCCTTTTGTTGAA
*
8925267 ATTTTTTTCCTTTTGTTGGA
1 ATTTTTTTCCTTTTGTTGAA
8925287 ATTTTTT
1 ATTTTTT
8925294 GTTGTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.13, C:0.07, G:0.09, T:0.72
Consensus pattern (20 bp):
ATTTTTTTCCTTTTGTTGAA
Found at i:8926824 original size:2 final size:2
Alignment explanation
Indices: 8926817--8926850 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
8926807 GGTCAATTTG
8926817 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8926851 TTTATCATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8926975 original size:18 final size:18
Alignment explanation
Indices: 8926952--8926987 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
8926942 AAAAAAAGTA
8926952 AGTAAGATTTTTAATTAT
1 AGTAAGATTTTTAATTAT
8926970 AGTAAGATTTTTAATTAT
1 AGTAAGATTTTTAATTAT
8926988 TTTTTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (18 bp):
AGTAAGATTTTTAATTAT
Found at i:8932667 original size:14 final size:14
Alignment explanation
Indices: 8932648--8932677 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8932638 ATATTAACAG
8932648 ATTATCTCATAATT
1 ATTATCTCATAATT
*
8932662 ATTATCTTATAATT
1 ATTATCTCATAATT
8932676 AT
1 AT
8932678 GTTGATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (14 bp):
ATTATCTCATAATT
Found at i:8934313 original size:21 final size:21
Alignment explanation
Indices: 8934289--8934328 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
8934279 ATATATACAT
*
8934289 TCAA-AATCAAATTTCATATTG
1 TCAACAATAAAATTT-ATATTG
8934310 TCAACAATAAAATTTATAT
1 TCAACAATAAAATTTATAT
8934329 GAAATATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (21 bp):
TCAACAATAAAATTTATATTG
Found at i:8938003 original size:42 final size:42
Alignment explanation
Indices: 8937957--8938069 Score: 156
Period size: 42 Copynumber: 2.7 Consensus size: 42
8937947 AAGGAAGAGG
*
8937957 TGGTGAGTGAGGTGATGGTGGTGGTGGAGACTTGTAGGCATA
1 TGGTGAGTGAGGTGAAGGTGGTGGTGGAGACTTGTAGGCATA
* *
8937999 TGGTGAGTGAGGTGACGGTGGTAGTGGAGACTTGTAGGCATA
1 TGGTGAGTGAGGTGAAGGTGGTGGTGGAGACTTGTAGGCATA
* * *
8938041 TGGAGGAG-GTGGTGAAGGTGATGGTGGAG
1 TGG-TGAGTGAGGTGAAGGTGGTGGTGGAG
8938070 GTGGAGATTT
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
42 60 0.95
43 3 0.05
ACGTcount: A:0.20, C:0.04, G:0.50, T:0.26
Consensus pattern (42 bp):
TGGTGAGTGAGGTGAAGGTGGTGGTGGAGACTTGTAGGCATA
Found at i:8938074 original size:48 final size:48
Alignment explanation
Indices: 8937850--8938169 Score: 215
Period size: 48 Copynumber: 6.7 Consensus size: 48
8937840 TTTATAATAG
* * * * * *
8937850 TATGGAGGAGGAGGCGAGGGTGAAGGTGGTGGAGGGGACTTGTA--CAA
1 TATGGAGGAGGTGGTGAAGGTGATGGTGGTGGTGGAGACTTGTAGGC-A
* * ** * * * ***
8937897 GTAAGGAAGAGGTAATGATGGTGATGGTGGTGGAGGAGATTTGTAGATG
1 -TATGGAGGAGGTGGTGAAGGTGATGGTGGTGGTGGAGACTTGTAGGCA
* *
8937946 TAAGGAAGAGGTGGTGAGTGAGGTGATGGTGGTGGTGGAGACTTGTAGGCA
1 TATGGAGGAGGTGGTGA---AGGTGATGGTGGTGGTGGAGACTTGTAGGCA
* * *
8937997 TATGG-TGA----GTG-AGGTGACGGTGGTAGTGGAGACTTGTAGGCA
1 TATGGAGGAGGTGGTGAAGGTGATGGTGGTGGTGGAGACTTGTAGGCA
* * * **
8938039 TATGGAGGAGGTGGTGAAGGTGATGGTGGAGGTGGAGATTTATAAACA
1 TATGGAGGAGGTGGTGAAGGTGATGGTGGTGGTGGAGACTTGTAGGCA
** * * * * * *
8938087 TAAAGAGGTGGAGGGGATGGAGATGGGGGTGGTGGAGACTTGTAGGCA
1 TATGGAGGAGGTGGTGAAGGTGATGGTGGTGGTGGAGACTTGTAGGCA
* *
8938135 TATGGAGGAGGTGGTGAACGTGATGATGGTGGTGG
1 TATGGAGGAGGTGGTGAAGGTGATGGTGGTGGTGG
8938170 TGGTGAAGGT
Statistics
Matches: 206, Mismatches: 55, Indels: 22
0.73 0.19 0.08
Matches are distributed among these distances:
42 34 0.17
43 2 0.01
46 3 0.01
47 3 0.01
48 133 0.65
50 2 0.01
51 29 0.14
ACGTcount: A:0.25, C:0.04, G:0.48, T:0.23
Consensus pattern (48 bp):
TATGGAGGAGGTGGTGAAGGTGATGGTGGTGGTGGAGACTTGTAGGCA
Found at i:8938169 original size:72 final size:72
Alignment explanation
Indices: 8938093--8938243 Score: 176
Period size: 72 Copynumber: 2.1 Consensus size: 72
8938083 AACATAAAGA
* * * * ** * * *
8938093 GGTGGAGGGGATGGAGATGGGGGTGGTGGAGACTTGTAGGCATATGGAGGAGGTGGTGAACGTGA
1 GGTGGAGGGGAAGGAGATGGGGGAGGTGGAGACTTATAGACATAAAGAGGAGGAGGTGAAAGAGA
8938158 TGATGGT
66 TGATGGT
* * * *
8938165 GGTGGTGGTGAAGGTGATGGTGGAGGTGGAGACTTATAGACATAAAGAGGAGGAGGTGAAAGAGA
1 GGTGGAGGGGAAGGAGATGGGGGAGGTGGAGACTTATAGACATAAAGAGGAGGAGGTGAAAGAGA
*
8938230 TGGTGGT
66 TGATGGT
8938237 GGTGGAG
1 GGTGGAG
8938244 ACTTGTAGAC
Statistics
Matches: 64, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
72 64 1.00
ACGTcount: A:0.25, C:0.03, G:0.51, T:0.21
Consensus pattern (72 bp):
GGTGGAGGGGAAGGAGATGGGGGAGGTGGAGACTTATAGACATAAAGAGGAGGAGGTGAAAGAGA
TGATGGT
Found at i:8938171 original size:24 final size:24
Alignment explanation
Indices: 8938136--8938193 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
8938126 TTGTAGGCAT
*
8938136 ATGGAGGAGGTGGTGAACGTGATG
1 ATGGAGGTGGTGGTGAACGTGATG
* *
8938160 ATGGTGGTGGTGGTGAAGGTGATG
1 ATGGAGGTGGTGGTGAACGTGATG
*
8938184 GTGGAGGTGG
1 ATGGAGGTGG
8938194 AGACTTATAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.19, C:0.02, G:0.55, T:0.24
Consensus pattern (24 bp):
ATGGAGGTGGTGGTGAACGTGATG
Found at i:8938193 original size:120 final size:120
Alignment explanation
Indices: 8938048--8938289 Score: 376
Period size: 120 Copynumber: 2.0 Consensus size: 120
8938038 ATATGGAGGA
* * **
8938048 GGTGGTGAAGGTGATGGTGGAGGTGGAGATTTATAAACATAAAGAGGTGGAGGGGATGGAGATGG
1 GGTGGTGAAGGTGATGGTGGAGGTGGAGACTTATAAACATAAAGAGGAGGAGGGGAAAGAGATGG
* * *
8938113 GGGTGGTGGAGACTTGTAGGCATATGGAGGAGGTGGTGAACGTGATGATGGTGGT
66 GGGTGGTGGAGACTTGTAGACATATGGAGGAGGAGGTGAACGTGAAGATGGTGGT
* *
8938168 GGTGGTGAAGGTGATGGTGGAGGTGGAGACTTATAGACATAAAGAGGAGGAGGTGAAAGAGATGG
1 GGTGGTGAAGGTGATGGTGGAGGTGGAGACTTATAAACATAAAGAGGAGGAGGGGAAAGAGATGG
* * *
8938233 TGGTGGTGGAGACTTGTAGACATATGGAGGAGGAGGTGAAGGTGAAGGTGGTGGT
66 GGGTGGTGGAGACTTGTAGACATATGGAGGAGGAGGTGAACGTGAAGATGGTGGT
8938288 GG
1 GG
8938290 AGATTTATAA
Statistics
Matches: 110, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
120 110 1.00
ACGTcount: A:0.26, C:0.03, G:0.48, T:0.22
Consensus pattern (120 bp):
GGTGGTGAAGGTGATGGTGGAGGTGGAGACTTATAAACATAAAGAGGAGGAGGGGAAAGAGATGG
GGGTGGTGGAGACTTGTAGACATATGGAGGAGGAGGTGAACGTGAAGATGGTGGT
Found at i:8938223 original size:48 final size:48
Alignment explanation
Indices: 8938171--8939098 Score: 860
Period size: 48 Copynumber: 19.1 Consensus size: 48
8938161 TGGTGGTGGT
* **
8938171 GGTGAAGGTGATGGTGGAGGTGGAGACTTATAGACATAAAGAGGAGGA
1 GGTGAAGGTGATGGTGGTGGTGGAGACTTATAGACATATGGAGGAGGA
* * *
8938219 GGTGAAAGAGATGGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGA
1 GGTGAAGGTGATGGTGGTGGTGGAGACTTATAGACATATGGAGGAGGA
* * * *
8938267 GGTGAAGGTGAAGGTGGTGGTGGAGATTTATAAACATATGGAGGTGGA
1 GGTGAAGGTGATGGTGGTGGTGGAGACTTATAGACATATGGAGGAGGA
* * * * * *
8938315 GGGGATGGAGATTGG-GGTGGTGGAGAGTTATAGACATATAGAGGAGGT
1 GGTGAAGGTGA-TGGTGGTGGTGGAGACTTATAGACATATGGAGGAGGA
* *
8938363 GGTGAAGGTGATGGTGGAGGTGGAGACTTGTAGACATATGGAGGAGGA
1 GGTGAAGGTGATGGTGGTGGTGGAGACTTATAGACATATGGAGGAGGA
* * ** *
8938411 GGTGAAGGTGATGGTGGTGGTGGAGATTTATAAACATAAAGAGGTGGAA
1 GGTGAAGGTGATGGTGGTGGTGGAGACTTATAGACATATGGAGGAGG-A
* * * * *
8938460 GG-GATGGAGATGAG-GGTGGTGGAGAGTTATAGGCATATGGAGGAGGT
1 GGTGAAGGTGATG-GTGGTGGTGGAGACTTATAGACATATGGAGGAGGA
* * *
8938507 GGTGAAGGTGATGGTGGAGGTGGAGACTTATAGGCATATGGAGGAGGT
1 GGTGAAGGTGATGGTGGTGGTGGAGACTTATAGACATATGGAGGAGGA
* * * *
8938555 GGTGAAGGTGATGGTGGAGGTGGAGACTTGTAGGCATATGGAGGAGGT
1 GGTGAAGGTGATGGTGGTGGTGGAGACTTATAGACATATGGAGGAGGA
* * * * * *
8938603 GGTGAACGTGATGGTGGTGGTGGAGATTTATAAACATAAGGAGGTGAA
1 GGTGAAGGTGATGGTGGTGGTGGAGACTTATAGACATATGGAGGAGGA
* * * * * * *
8938651 GGGGATGGAGATGGGGGTGGTGGAGACTTGTA-AGCATATGGTGGAGGT
1 GGTGAAGGTGATGGTGGTGGTGGAGACTTATAGA-CATATGGAGGAGGA
* * *
8938699 GGTGAAGGTGATGGTGGAGGTGGAGACTTATAGACATAAGGAAGAGGA
1 GGTGAAGGTGATGGTGGTGGTGGAGACTTATAGACATATGGAGGAGGA
** *
8938747 GGTGAAGGAAATGGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGA
1 GGTGAAGGTGATGGTGGTGGTGGAGACTTATAGACATATGGAGGAGGA
* * * * *
8938795 GGTGAAGGTGAAGGTGGTGGTGGAGATTTATAAACATAAGGAGGTGGA
1 GGTGAAGGTGATGGTGGTGGTGGAGACTTATAGACATATGGAGGAGGA
* * * * * * * *
8938843 GGGGATGGAGATGGGGGTGGTGGAGAGTTGTA-AGCATATGGAGGGGGT
1 GGTGAAGGTGATGGTGGTGGTGGAGACTTATAGA-CATATGGAGGAGGA
* * * * *
8938891 GGTGAAGGTGATGATGGAGGTGGAGATTTGTAGACATAAGGAGGTA-GA
1 GGTGAAGGTGATGGTGGTGGTGGAGACTTATAGACATATGGAGG-AGGA
* * * * * * *
8938939 GGGGATGGAGATGGGGGTGGTGGAGAGTTGTAGGCATATGGAGGAGGA
1 GGTGAAGGTGATGGTGGTGGTGGAGACTTATAGACATATGGAGGAGGA
* * * *
8938987 GGTGATGGAGATGGAGGTGGTGGTGGTGGTGGTGGAGAATTGTAGACATATGGAGGAGGT
1 -G-G-T---GA---A---GGTGATGGTGGTGGTGGAGACTTATAGACATATGGAGGAGGA
* * * * *
8939047 GGTGAAGCTGATGGTGGAGGTGGAGACTTGTAGACATATGGAGAAGGT
1 GGTGAAGGTGATGGTGGTGGTGGAGACTTATAGACATATGGAGGAGGA
8939095 GGTG
1 GGTG
8939099 GTGGTGGAGA
Statistics
Matches: 717, Mismatches: 139, Indels: 48
0.79 0.15 0.05
Matches are distributed among these distances:
47 9 0.01
48 654 0.91
49 9 0.01
50 1 0.00
51 1 0.00
54 4 0.01
57 1 0.00
58 1 0.00
59 1 0.00
60 36 0.05
ACGTcount: A:0.27, C:0.03, G:0.47, T:0.22
Consensus pattern (48 bp):
GGTGAAGGTGATGGTGGTGGTGGAGACTTATAGACATATGGAGGAGGA
Found at i:8938520 original size:21 final size:21
Alignment explanation
Indices: 8938496--8938577 Score: 67
Period size: 21 Copynumber: 3.6 Consensus size: 21
8938486 TTATAGGCAT
8938496 ATGGAGGAGGTGGTGAAGGTG
1 ATGGAGGAGGTGGTGAAGGTG
* *
8938517 ATGGTGGAGGTGGAGACTTATAGGCAT-
1 ATGGAGGAGGT-G-G--TGA-AGG--TG
8938544 ATGGAGGAGGTGGTGAAGGTG
1 ATGGAGGAGGTGGTGAAGGTG
*
8938565 ATGGTGGAGGTGG
1 ATGGAGGAGGTGG
8938578 AGACTTGTAG
Statistics
Matches: 48, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
20 1 0.02
21 22 0.46
22 4 0.08
23 3 0.06
25 3 0.06
26 4 0.08
27 10 0.21
28 1 0.02
ACGTcount: A:0.23, C:0.02, G:0.52, T:0.22
Consensus pattern (21 bp):
ATGGAGGAGGTGGTGAAGGTG
Found at i:8938547 original size:27 final size:27
Alignment explanation
Indices: 8938477--8938604 Score: 86
Period size: 27 Copynumber: 5.2 Consensus size: 27
8938467 AGATGAGGGT
*
8938477 GGTGGAGAGTTATAGGCATATGGAGGA
1 GGTGGAGACTTATAGGCATATGGAGGA
* *
8938504 GGT-G-G--TGA-AGG--TGATGGTGGA
1 GGTGGAGACTTATAGGCAT-ATGGAGGA
8938525 GGTGGAGACTTATAGGCATATGGAGGA
1 GGTGGAGACTTATAGGCATATGGAGGA
* *
8938552 GGT-G-G--TGA-AGG--TGATGGTGGA
1 GGTGGAGACTTATAGGCAT-ATGGAGGA
*
8938573 GGTGGAGACTTGTAGGCATATGGAGGA
1 GGTGGAGACTTATAGGCATATGGAGGA
8938600 GGTGG
1 GGTGG
8938605 TGAACGTGAT
Statistics
Matches: 76, Mismatches: 9, Indels: 32
0.65 0.08 0.27
Matches are distributed among these distances:
20 2 0.03
21 20 0.26
22 8 0.11
23 6 0.08
25 5 0.07
26 8 0.11
27 25 0.33
28 2 0.03
ACGTcount: A:0.24, C:0.04, G:0.49, T:0.23
Consensus pattern (27 bp):
GGTGGAGACTTATAGGCATATGGAGGA
Found at i:8938548 original size:24 final size:24
Alignment explanation
Indices: 8938521--8938598 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
8938511 AAGGTGATGG
8938521 TGGAGGTGGAGACTTATAGGCATA
1 TGGAGGTGGAGACTTATAGGCATA
* * * * * *
8938545 TGGAGGAGGTG-GTGA-AGGTGATGG
1 TGGAGGTGGAGACTTATAGG-CAT-A
*
8938569 TGGAGGTGGAGACTTGTAGGCATA
1 TGGAGGTGGAGACTTATAGGCATA
8938593 TGGAGG
1 TGGAGG
8938599 AGGTGGTGAA
Statistics
Matches: 37, Mismatches: 13, Indels: 8
0.64 0.22 0.14
Matches are distributed among these distances:
22 3 0.08
23 4 0.11
24 24 0.65
25 3 0.08
26 3 0.08
ACGTcount: A:0.24, C:0.05, G:0.47, T:0.23
Consensus pattern (24 bp):
TGGAGGTGGAGACTTATAGGCATA
Found at i:8938699 original size:192 final size:192
Alignment explanation
Indices: 8938168--8939009 Score: 1091
Period size: 192 Copynumber: 4.4 Consensus size: 192
8938158 TGATGGTGGT
* ** * *
8938168 GGTGGTGAAGGTGATGGTGGAGGTGGAGACTTATAGACATAAAGAGGAGGAGGTGAAAGAGATGG
1 GGTGGTGAAGGTGATGGTGGAGGTGGAGACTTGTAGACATATGGAGGAGGAGGTGAAGGTGATGG
* * * * * * * * * * * *
8938233 TGGTGGTGGAGACTTGTAGACATATGGAGGAGGAGGTGAAGGTGAAGGTGGTGGTGGAGATTTAT
66 TGGTGGTGGAGATTTATAAACATAAGGAGGTGAAGGGGATGGAGATGGGGGTGGTGGAGAGTTAT
* * * * * * * *
8938298 AAACATATGGAGGTGGAGGGGATGGAGATTGG-GGTGGTGGAGAGTTATAGACATATA-GAGGA
131 AAGCATATGGAGGAGGTGGTGAAGGTGA-TGGTGGAGGTGGAGACTTATAGACATA-AGGAGGA
8938360 GGTGGTGAAGGTGATGGTGGAGGTGGAGACTTGTAGACATATGGAGGAGGAGGTGAAGGTGATGG
1 GGTGGTGAAGGTGATGGTGGAGGTGGAGACTTGTAGACATATGGAGGAGGAGGTGAAGGTGATGG
* *
8938425 TGGTGGTGGAGATTTATAAACATAAAGAGGTGGAA-GGGATGGAGATGAGGGTGGTGGAGAGTTA
66 TGGTGGTGGAGATTTATAAACATAAGGAGGT-GAAGGGGATGGAGATGGGGGTGGTGGAGAGTTA
* * *
8938489 TAGGCATATGGAGGAGGTGGTGAAGGTGATGGTGGAGGTGGAGACTTATAGGCATATGGAGGA
130 TAAGCATATGGAGGAGGTGGTGAAGGTGATGGTGGAGGTGGAGACTTATAGACATAAGGAGGA
* * *
8938552 GGTGGTGAAGGTGATGGTGGAGGTGGAGACTTGTAGGCATATGGAGGAGGTGGTGAACGTGATGG
1 GGTGGTGAAGGTGATGGTGGAGGTGGAGACTTGTAGACATATGGAGGAGGAGGTGAAGGTGATGG
* *
8938617 TGGTGGTGGAGATTTATAAACATAAGGAGGTGAAGGGGATGGAGATGGGGGTGGTGGAGACTTGT
66 TGGTGGTGGAGATTTATAAACATAAGGAGGTGAAGGGGATGGAGATGGGGGTGGTGGAGAGTTAT
* *
8938682 AAGCATATGGTGGAGGTGGTGAAGGTGATGGTGGAGGTGGAGACTTATAGACATAAGGAAGA
131 AAGCATATGGAGGAGGTGGTGAAGGTGATGGTGGAGGTGGAGACTTATAGACATAAGGAGGA
* ** * *
8938744 GGAGGTGAAGGAAATGGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGAGGTGAAGGTGAAGG
1 GGTGGTGAAGGTGATGGTGGAGGTGGAGACTTGTAGACATATGGAGGAGGAGGTGAAGGTGATGG
* *
8938809 TGGTGGTGGAGATTTATAAACATAAGGAGGTGGAGGGGATGGAGATGGGGGTGGTGGAGAGTTGT
66 TGGTGGTGGAGATTTATAAACATAAGGAGGTGAAGGGGATGGAGATGGGGGTGGTGGAGAGTTAT
* * * *
8938874 AAGCATATGGAGGGGGTGGTGAAGGTGATGATGGAGGTGGAGATTTGTAGACATAAGGAGGTA
131 AAGCATATGGAGGAGGTGGTGAAGGTGATGGTGGAGGTGGAGACTTATAGACATAAGGAGG-A
* * * * * * * *
8938937 GAG-GG-GATGGAGATGGGGGTGGTGGAGAGTTGTAGGCATATGGAGGAGGAGGTGATGGAGATG
1 G-GTGGTGAAGGTGATGGTGGAGGTGGAGACTTGTAGACATATGGAGGAGGAGGTGAAGGTGATG
*
8939000 GAGGTGGTGG
65 GTGGTGGTGG
8939010 TGGTGGTGGT
Statistics
Matches: 577, Mismatches: 67, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
191 6 0.01
192 564 0.98
193 6 0.01
194 1 0.00
ACGTcount: A:0.27, C:0.03, G:0.48, T:0.22
Consensus pattern (192 bp):
GGTGGTGAAGGTGATGGTGGAGGTGGAGACTTGTAGACATATGGAGGAGGAGGTGAAGGTGATGG
TGGTGGTGGAGATTTATAAACATAAGGAGGTGAAGGGGATGGAGATGGGGGTGGTGGAGAGTTAT
AAGCATATGGAGGAGGTGGTGAAGGTGATGGTGGAGGTGGAGACTTATAGACATAAGGAGGA
Found at i:8939047 original size:27 final size:26
Alignment explanation
Indices: 8939017--8939096 Score: 64
Period size: 27 Copynumber: 3.2 Consensus size: 26
8939007 TGGTGGTGGT
8939017 GGTGGAGAATTGTAGACATATGGAGGA
1 GGTGGAG-ATTGTAGACATATGGAGGA
* *
8939044 GGT-G-G--TGAAG-C-TGATGGTGGA
1 GGTGGAGATTGTAGACAT-ATGGAGGA
*
8939065 GGTGGAGACTTGTAGACATATGGAGAA
1 GGTGGAGA-TTGTAGACATATGGAGGA
8939092 GGTGG
1 GGTGG
8939097 TGGTGGTGGA
Statistics
Matches: 40, Mismatches: 5, Indels: 16
0.66 0.08 0.26
Matches are distributed among these distances:
20 1 0.03
21 11 0.28
22 5 0.12
23 1 0.03
25 1 0.03
26 5 0.12
27 15 0.38
28 1 0.03
ACGTcount: A:0.28, C:0.05, G:0.45, T:0.23
Consensus pattern (26 bp):
GGTGGAGATTGTAGACATATGGAGGA
Found at i:8939060 original size:60 final size:60
Alignment explanation
Indices: 8938954--8939069 Score: 160
Period size: 60 Copynumber: 1.9 Consensus size: 60
8938944 TGGAGATGGG
* * * * *
8938954 GGTGGTGGAGAGTTGTAGGCATATGGAGGAGGAGGTGATGGAGATGGAGGTGGTGGTGGT
1 GGTGGTGGAGAATTGTAGACATATGGAGGAGGAGGTGAAGCAGATGGAGGAGGTGGTGGT
* * *
8939014 GGTGGTGGAGAATTGTAGACATATGGAGGAGGTGGTGAAGCTGATGGTGGAGGTGG
1 GGTGGTGGAGAATTGTAGACATATGGAGGAGGAGGTGAAGCAGATGGAGGAGGTGG
8939070 AGACTTGTAG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.22, C:0.03, G:0.53, T:0.23
Consensus pattern (60 bp):
GGTGGTGGAGAATTGTAGACATATGGAGGAGGAGGTGAAGCAGATGGAGGAGGTGGTGGT
Found at i:8940510 original size:12 final size:12
Alignment explanation
Indices: 8940495--8940520 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8940485 TAAAATTTAA
8940495 TTTTATTTAATT
1 TTTTATTTAATT
8940507 TTTTATTTAATT
1 TTTTATTTAATT
8940519 TT
1 TT
8940521 AATATTAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTATTTAATT
Found at i:8949532 original size:24 final size:23
Alignment explanation
Indices: 8949505--8949549 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
8949495 TTTAAATTTA
* *
8949505 ATTTAATTTAATATTACATAAATC
1 ATTTAATCTAAAATTA-ATAAATC
8949529 ATTTAATCTAAAATTAATAAA
1 ATTTAATCTAAAATTAATAAA
8949550 ATATTTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTTAATCTAAAATTAATAAATC
Found at i:8949551 original size:24 final size:23
Alignment explanation
Indices: 8949505--8949556 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
8949495 TTTAAATTTA
* *
8949505 ATTTAATTTAATATTACATAAAT
1 ATTTAATCTAAAATTACATAAAT
8949528 CATTTAATCTAAAATTA-ATAAAAT
1 -ATTTAATCTAAAATTACAT-AAAT
8949552 ATTTA
1 ATTTA
8949557 TTTTTTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTTAATCTAAAATTACATAAAT
Found at i:8949586 original size:21 final size:21
Alignment explanation
Indices: 8949562--8949602 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8949552 ATTTATTTTT
8949562 TAATATAAATAAAAAATTAAA
1 TAATATAAATAAAAAATTAAA
* *
8949583 TAATATAAATATAAATTTAA
1 TAATATAAATAAAAAATTAA
8949603 TTGATTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
TAATATAAATAAAAAATTAAA
Found at i:8950668 original size:28 final size:26
Alignment explanation
Indices: 8950629--8950693 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 26
8950619 AATAAAACCC
* * *
8950629 TAAATAATTTTAGAGAAAATATTAATAAA
1 TAAA-AATTTTAAACAAAATA-AAAT-AA
8950658 TAAAAATTTTAAACAAAATAAAATAA
1 TAAAAATTTTAAACAAAATAAAATAA
8950684 TAAAATATTT
1 TAAAA-ATTT
8950694 ATATAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 7 0.22
27 7 0.22
28 14 0.44
29 4 0.12
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.34
Consensus pattern (26 bp):
TAAAAATTTTAAACAAAATAAAATAA
Found at i:8951365 original size:11 final size:11
Alignment explanation
Indices: 8951340--8951375 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
8951330 TTAAATAATT
8951340 TTATTTTTATA
1 TTATTTTTATA
8951351 -TATTTTTATA
1 TTATTTTTATA
*
8951361 TTATTTTTATG
1 TTATTTTTATA
8951372 TTAT
1 TTAT
8951376 GTAGCCTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (11 bp):
TTATTTTTATA
Found at i:8962935 original size:21 final size:21
Alignment explanation
Indices: 8962894--8962937 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
8962884 TATACTCTGC
*
8962894 TCATTCTCAAGCCTCATCCTT
1 TCATTCTCAAGCCTCAACCTT
*
8962915 TCATTCTCCAA-CCTTAACCTT
1 TCATTCT-CAAGCCTCAACCTT
8962936 TC
1 TC
8962938 TAGTTCTCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.20, C:0.39, G:0.02, T:0.39
Consensus pattern (21 bp):
TCATTCTCAAGCCTCAACCTT
Found at i:8967294 original size:2 final size:2
Alignment explanation
Indices: 8967284--8967318 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
8967274 TTTTCGTGTG
* *
8967284 TA TA AA TA TA TG 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 TA TA T
8967319 TACAAGTGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:8970677 original size:62 final size:62
Alignment explanation
Indices: 8970611--8970777 Score: 205
Period size: 62 Copynumber: 2.7 Consensus size: 62
8970601 AAATTGGAGT
*
8970611 AATTATTAAAGGTATTTTTTGTAAAAAATACCTTAAATAATCCTCTCGTAAAAAA-TAGAAA
1 AATTATTAAAGGTATTTTTTGTAAAAAATACCTTAAATAATCCTCTCCTAAAAAATTAGAAA
* * ** * *
8970672 CAATTATTGAAGGTATTTTCTGTTGAAAATACCTTTAATAAT--TCTCCTAAAAAATTATAAA
1 -AATTATTAAAGGTATTTTTTGTAAAAAATACCTTAAATAATCCTCTCCTAAAAAATTAGAAA
* *
8970733 AGATTATTAAAGGTATTTTTTATCAAAAAATACCTTCAATAATCC
1 A-ATTATTAAAGGTATTTTTTGT-AAAAAATACCTTAAATAATCC
8970778 CTTTTATTTT
Statistics
Matches: 87, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
60 12 0.14
61 23 0.26
62 52 0.60
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (62 bp):
AATTATTAAAGGTATTTTTTGTAAAAAATACCTTAAATAATCCTCTCCTAAAAAATTAGAAA
Found at i:8970823 original size:62 final size:63
Alignment explanation
Indices: 8970734--8970875 Score: 180
Period size: 62 Copynumber: 2.3 Consensus size: 63
8970724 AATTATAAAA
* * * **
8970734 GATTATTAAAGGTATTTTTTATCAAAAAATACCTTCAATAATC-CCTTTTATTTTTTATGAAGG
1 GATTATTGAAGGTGTTTTGTATCAAAAAATACCTTCAATAATCTCCTTCAATTTTTTATG-AGG
* * * *
8970797 GATTATTGAAGGTGTTTTGTGT-AAAAAATGCCTTTAATAATCTTCTTCAATTTTTTATGAGG
1 GATTATTGAAGGTGTTTTGTATCAAAAAATACCTTCAATAATCTCCTTCAATTTTTTATGAGG
8970859 GATTATTGAAGGTGTTT
1 GATTATTGAAGGTGTTT
8970876 CAGGCAAAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
62 38 0.55
63 31 0.45
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.45
Consensus pattern (63 bp):
GATTATTGAAGGTGTTTTGTATCAAAAAATACCTTCAATAATCTCCTTCAATTTTTTATGAGG
Found at i:8970885 original size:62 final size:63
Alignment explanation
Indices: 8970756--8970901 Score: 172
Period size: 62 Copynumber: 2.3 Consensus size: 63
8970746 TATTTTTTAT
* ** *
8970756 CAAAAAATACCTTCAATAATC-CCTTTTATTTTTTATGAAGGGATTATTGAAGGTGTTTTGTG
1 CAAAAAATGCCTTCAATAATCTCCTTCAATTTTTTATGAAGGGATTATTGAAGGTGTTTAGTG
* * *
8970818 TAAAAAATGCCTTTAATAATCTTCTTCAATTTTTTATG-AGGGATTATTGAAGGTGTTTCAG-G
1 CAAAAAATGCCTTCAATAATCTCCTTCAATTTTTTATGAAGGGATTATTGAAGGTGTTT-AGTG
* * *
8970880 CAAAAAACGTCTTGAATAATCT
1 CAAAAAATGCCTTCAATAATCT
8970902 ACTCATAAAA
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
62 57 0.80
63 14 0.20
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.40
Consensus pattern (63 bp):
CAAAAAATGCCTTCAATAATCTCCTTCAATTTTTTATGAAGGGATTATTGAAGGTGTTTAGTG
Found at i:8971475 original size:65 final size:65
Alignment explanation
Indices: 8971400--8971583 Score: 200
Period size: 63 Copynumber: 2.9 Consensus size: 65
8971390 AAAAACGCTA
* *
8971400 TCAATAATCTCCTCTAAAAAACTAAAAGGGATTATTGAAGGTATTTTTTTATAAAAAAAATACTT
1 TCAATAATCTCCTCTAAAAAATTAAAAGGGATTATTGAAAGTATTTTTTTATAAAAAAAATACTT
* * * * * *
8971465 TCAATAATCTCCTC-ATCAAAATTTAAAGGGATTATTGAAAGT-GTTTTTGAT-CAAAAAATATT
1 TCAATAATCTCCTCTA-AAAAATTAAAAGGGATTATTGAAAGTATTTTTTTATAAAAAAAATACT
8971527 T
65 T
* * *
8971528 TCAATAATC-CTCTCTAAAAATTTTAAAA-AGATTATTGAACGTATTTTTTTA-AAAAA
1 TCAATAATCTC-CTCTAAAAA-ATTAAAAGGGATTATTGAAAGTATTTTTTTATAAAAA
8971584 GTAAACACCG
Statistics
Matches: 97, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 37 0.38
64 23 0.24
65 36 0.37
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.38
Consensus pattern (65 bp):
TCAATAATCTCCTCTAAAAAATTAAAAGGGATTATTGAAAGTATTTTTTTATAAAAAAAATACTT
Found at i:8974486 original size:34 final size:34
Alignment explanation
Indices: 8974418--8974489 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
8974408 TATAACAATA
* * *
8974418 TTTTCAGATGCAAACGCCGCTATATTAGCGGTAT
1 TTTTCAGATACAAACGCAGCTATATTAGCAGTAT
*
8974452 TTTTCAGATACAAACGCAGTTA-ATATAGCAGTAT
1 TTTTCAGATACAAACGCAGCTATAT-TAGCAGTAT
8974486 TTTT
1 TTTT
8974490 TTTAAAACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 2 0.06
34 31 0.94
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (34 bp):
TTTTCAGATACAAACGCAGCTATATTAGCAGTAT
Found at i:8975754 original size:29 final size:30
Alignment explanation
Indices: 8975682--8975779 Score: 101
Period size: 29 Copynumber: 3.2 Consensus size: 30
8975672 ACATATTATT
8975682 TTTAAATTATAATAAATTATTTAATATAATA
1 TTTAAATTATAA-AAATTATTTAATATAATA
* * *
8975713 ATTACATTTTAAAAA-TATTTAATA-AGATA
1 TTTAAATTATAAAAATTATTTAATATA-ATA
* *
8975742 TTTAAATTATAAATTTATTAATTAATATAATA
1 TTTAAATTATAAA--AATTATTTAATATAATA
8975774 TTTAAA
1 TTTAAA
8975780 GAATTGTTTG
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
28 1 0.02
29 22 0.41
30 3 0.06
31 10 0.19
32 17 0.31
33 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (30 bp):
TTTAAATTATAAAAATTATTTAATATAATA
Found at i:8975950 original size:49 final size:49
Alignment explanation
Indices: 8975895--8975990 Score: 124
Period size: 49 Copynumber: 1.9 Consensus size: 49
8975885 ACGTAAGATA
* * *
8975895 ATTTTAAAAATTTTTATATTTAT-T-AATTTTAAATTATTTATAAAAATAT
1 ATTTTAAAAATTATTA-AATTATCTAAATTTTAAATT-TTAATAAAAATAT
8975944 ATTTTAAAAATTATTAAATTATCTAAAATTTTAAATTTTAATAAAAA
1 ATTTTAAAAATTATTAAATTATCT-AAATTTTAAATTTTAATAAAAA
8975991 AGTCAATTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
48 5 0.12
49 16 0.39
50 9 0.22
51 11 0.27
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (49 bp):
ATTTTAAAAATTATTAAATTATCTAAATTTTAAATTTTAATAAAAATAT
Found at i:8975958 original size:12 final size:13
Alignment explanation
Indices: 8975925--8975958 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
8975915 TATTAATTTT
8975925 AAATTATTTATAA
1 AAATTATTTATAA
8975938 AAATATATTT-TAA
1 AAAT-TATTTATAA
8975951 AAATTATT
1 AAATTATT
8975959 AAATTATCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 4 0.20
13 11 0.55
14 5 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AAATTATTTATAA
Found at i:8978467 original size:3 final size:3
Alignment explanation
Indices: 8978459--8978494 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
8978449 TTACCTGTAG
8978459 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8978495 AACAATTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:8978994 original size:19 final size:19
Alignment explanation
Indices: 8978934--8978994 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 19
8978924 ATAAAATCCC
* *
8978934 TATTAAATTACATATGAAGT
1 TATTAAA-TACATATTAAAT
8978954 T-TTAAGATA-ATA-TAAA-
1 TATTAA-ATACATATTAAAT
8978970 -ATTAAATACATATTAAAT
1 TATTAAATACATATTAAAT
8978988 TATTAAA
1 TATTAAA
8978995 ATATCTTTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 13
0.69 0.04 0.27
Matches are distributed among these distances:
15 3 0.09
16 7 0.21
17 6 0.18
18 3 0.09
19 12 0.36
20 2 0.06
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.39
Consensus pattern (19 bp):
TATTAAATACATATTAAAT
Found at i:8979554 original size:3 final size:3
Alignment explanation
Indices: 8979537--8979585 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
8979527 ATATGTTTAG
* *
8979537 AAT AAT AA- AAA AAT AAT ACAT AAT AGT AAT AA- AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
8979581 AAT AA
1 AAT AA
8979586 ATTTTGACAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
2 4 0.10
3 33 0.82
4 3 0.08
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:8979561 original size:21 final size:20
Alignment explanation
Indices: 8979537--8979586 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 20
8979527 ATATGTTTAG
8979537 AATAATAAAAAAATAATACAT
1 AATAATAAAAAAATAATA-AT
* *
8979558 AATAGTAATAAAATAATAAT
1 AATAATAAAAAAATAATAAT
8979578 AATAATAAA
1 AATAATAAA
8979587 TTTTGACAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (20 bp):
AATAATAAAAAAATAATAAT
Found at i:8979566 original size:24 final size:23
Alignment explanation
Indices: 8979539--8979584 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
8979529 ATGTTTAGAA
8979539 TAATAAAAAAATAATACATAATAG
1 TAATAAAAAAATAATA-ATAATAG
*
8979563 TAATAAAATAATAATAATAATA
1 TAATAAAAAAATAATAATAATA
8979585 AATTTTGACA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (23 bp):
TAATAAAAAAATAATAATAATAG
Found at i:8979578 original size:17 final size:18
Alignment explanation
Indices: 8979538--8979586 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
8979528 TATGTTTAGA
*
8979538 ATAATAA-AAAAATAATAC
1 ATAATAATAATAA-AATAC
*
8979556 ATAATAGTAATAAAATA-
1 ATAATAATAATAAAATAC
8979573 ATAATAATAATAAA
1 ATAATAATAATAAA
8979587 TTTTGACAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 13 0.48
18 10 0.37
19 4 0.15
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (18 bp):
ATAATAATAATAAAATAC
Found at i:8980254 original size:17 final size:18
Alignment explanation
Indices: 8980214--8980254 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
8980204 AGAATAGGAT
*
8980214 AATTTATTTATTTATCAA
1 AATTTATCTATTTATCAA
*
8980232 AA-TTATCT-TTTCTCAA
1 AATTTATCTATTTATCAA
8980248 AATTTAT
1 AATTTAT
8980255 ATAATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 9 0.45
17 9 0.45
18 2 0.10
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.54
Consensus pattern (18 bp):
AATTTATCTATTTATCAA
Found at i:8980632 original size:27 final size:26
Alignment explanation
Indices: 8980602--8980659 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
8980592 CATGTTTGTC
* *
8980602 TATTTATTA-ATTTATTATAATAAAATT
1 TATTTATTATATTAAAT-TAATAAAA-T
8980629 TATTTATTATATTAAATTAATAAAAT
1 TATTTATTATATTAAATTAATAAAAT
8980655 TATTT
1 TATTT
8980660 TAAATATTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 6 0.21
27 17 0.61
28 5 0.18
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
TATTTATTATATTAAATTAATAAAAT
Found at i:8982051 original size:20 final size:19
Alignment explanation
Indices: 8982026--8982064 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
8982016 ATAACAAAAC
8982026 TTTTTAATTTATCAATTTTA
1 TTTTTAATTT-TCAATTTTA
*
8982046 TTTTTAATTTTTAATTTTA
1 TTTTTAATTTTCAATTTTA
8982065 ATTTAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTAATTTTCAATTTTA
Found at i:8982057 original size:7 final size:7
Alignment explanation
Indices: 8982026--8982081 Score: 55
Period size: 7 Copynumber: 8.1 Consensus size: 7
8982016 ATAACAAAAC
8982026 TTTTTAA
1 TTTTTAA
*
8982033 TTTATCAA
1 TTT-TTAA
8982041 -TTTT-A
1 TTTTTAA
8982046 TTTTTAA
1 TTTTTAA
8982053 TTTTTAA
1 TTTTTAA
8982060 -TTTTAA
1 TTTTTAA
*
8982066 TTTAATAA
1 TTT-TTAA
8982074 TTTTTAA
1 TTTTTAA
8982081 T
1 T
8982082 AAAAATTTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
5 1 0.03
6 11 0.28
7 19 0.47
8 9 0.22
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (7 bp):
TTTTTAA
Found at i:8982062 original size:14 final size:14
Alignment explanation
Indices: 8982026--8982081 Score: 55
Period size: 13 Copynumber: 4.1 Consensus size: 14
8982016 ATAACAAAAC
*
8982026 TTTTTAATTTATCAA
1 TTTTTAATTT-TTAA
8982041 -TTTT-ATTTTTAA
1 TTTTTAATTTTTAA
8982053 TTTTTAA-TTTTAA
1 TTTTTAATTTTTAA
*
8982066 TTTAATAATTTTTAA
1 TTT-TTAATTTTTAA
8982081 T
1 T
8982082 AAAAATTTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
12 3 0.09
13 17 0.49
14 8 0.23
15 7 0.20
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTTAATTTTTAA
Found at i:8982088 original size:21 final size:21
Alignment explanation
Indices: 8982050--8982089 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8982040 ATTTTATTTT
***
8982050 TAATTTTTAATTTTAATTTAA
1 TAATTTTTAATAAAAATTTAA
8982071 TAATTTTTAATAAAAATTT
1 TAATTTTTAATAAAAATTT
8982090 TCACAAATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TAATTTTTAATAAAAATTTAA
Found at i:8988273 original size:4 final size:4
Alignment explanation
Indices: 8988266--8988291 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
8988256 TATATATATA
8988266 TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TA
8988292 CATAAGAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:8995282 original size:2 final size:2
Alignment explanation
Indices: 8995277--8995302 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8995267 TATATATATA
8995277 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
8995303 AAGGGATCAA
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:8995624 original size:2 final size:2
Alignment explanation
Indices: 8995619--8995650 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8995609 ACACACAAAT
8995619 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
8995651 CCCAACATGC
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:9002129 original size:18 final size:17
Alignment explanation
Indices: 9002106--9002161 Score: 60
Period size: 18 Copynumber: 3.3 Consensus size: 17
9002096 TATTTTACAA
9002106 TAAATATAATTGACTTAT
1 TAAATATAATTGA-TTAT
*
9002124 TAAATATATTTGATTAT
1 TAAATATAATTGATTAT
* * *
9002141 TAAGTA-AATTAATTTT
1 TAAATATAATTGATTAT
9002157 TAAAT
1 TAAAT
9002162 TTAAATTATG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
16 11 0.34
17 9 0.28
18 12 0.38
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (17 bp):
TAAATATAATTGATTAT
Found at i:9006018 original size:3 final size:3
Alignment explanation
Indices: 9006012--9006041 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
9006002 AGGTAGTAGT
9006012 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
9006042 TATAAAGGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:9014571 original size:18 final size:18
Alignment explanation
Indices: 9014534--9014571 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
9014524 TTTGTAAATC
*
9014534 ATTATTATATGCTTTTAT
1 ATTATTATATGCTTTCAT
9014552 ATTATTATAT-CTTCTCAT
1 ATTATTATATGCTT-TCAT
9014570 AT
1 AT
9014572 GCCTATTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.29, C:0.11, G:0.03, T:0.58
Consensus pattern (18 bp):
ATTATTATATGCTTTCAT
Found at i:9015752 original size:18 final size:17
Alignment explanation
Indices: 9015729--9015783 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 17
9015719 TTTTTTTTGT
9015729 TAAAATAAATAAAGGAAA
1 TAAAATAAATAAA-GAAA
*
9015747 TAAAATTTAAAT-TAGAAA
1 TAAAA--TAAATAAAGAAA
9015765 TAAAAATAAATAAA-AAA
1 T-AAAATAAATAAAGAAA
9015782 TA
1 TA
9015784 TTTACCCAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
16 1 0.03
17 9 0.29
18 11 0.35
19 5 0.16
20 5 0.16
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (17 bp):
TAAAATAAATAAAGAAA
Found at i:9015914 original size:6 final size:7
Alignment explanation
Indices: 9015896--9015921 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
9015886 CGAAATAATT
9015896 TAAAAAA
1 TAAAAAA
9015903 TAAAAAA
1 TAAAAAA
9015910 TAAAAAA
1 TAAAAAA
9015917 TAAAA
1 TAAAA
9015922 TGTTGGAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:9017136 original size:133 final size:134
Alignment explanation
Indices: 9016894--9017165 Score: 476
Period size: 133 Copynumber: 2.0 Consensus size: 134
9016884 CTTCATCTTG
** *
9016894 AATA-CATAAAATTTACCTATGAGATCTTCAAATATCTCTTGAATTTTATAATCTTTTTTTTTTT
1 AATACCATAAAATTTACCTATGAGATCTTCAAATATCTCTTGAATTTTATAATCTCCTTTTTTCT
9016958 AAAATCATAAGTATAAATATATCTTTAATTAATTTGAATATTAAATAATATTAAAATAATTTTTA
66 AAAATCATAAGTATAAATATATCTTTAATTAATTTGAATATTAAATAATATTAAAATAATTTTTA
9017023 ACTC
131 ACTC
*
9017027 AATACCATAAAATTTACCTTTGAGATCTTCAAATATCTCTTGAATTTTATAATCTCCTTTTTTCT
1 AATACCATAAAATTTACCTATGAGATCTTCAAATATCTCTTGAATTTTATAATCTCCTTTTTTCT
*
9017092 -AAATCATAAGTATAAATATATCTTTAATTAATTTGAGTATTAAATAATATTAAAATAATTTTTA
66 AAAATCATAAGTATAAATATATCTTTAATTAATTTGAATATTAAATAATATTAAAATAATTTTTA
*
9017156 ACTT
131 ACTC
9017160 AATACC
1 AATACC
9017166 TTAATAGATA
Statistics
Matches: 132, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
133 76 0.58
134 56 0.42
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.45
Consensus pattern (134 bp):
AATACCATAAAATTTACCTATGAGATCTTCAAATATCTCTTGAATTTTATAATCTCCTTTTTTCT
AAAATCATAAGTATAAATATATCTTTAATTAATTTGAATATTAAATAATATTAAAATAATTTTTA
ACTC
Found at i:9017243 original size:133 final size:130
Alignment explanation
Indices: 9016894--9017201 Score: 359
Period size: 133 Copynumber: 2.3 Consensus size: 130
9016884 CTTCATCTTG
* ** ** * *
9016894 AATA-CATAAAATTTACCTATGAGATCTTCAAATATCTCTTGAATTTTATAATCTTTTTTTTTTT
1 AATACCATAAAATTTACATAAAAGATCTT-AAATATCTCTTGAA-TTTATAA-CTCCTTATTTCT
9016958 AAAATCATAAGTATAAATATATCTTTAATTAATTTGAATATTAAATAATATTAAAATAATTTTTA
63 -AAATCATAAGTATAAATATATCTTTAATTAATTTGAATATTAAATAATATTAAAATAATTTTTA
9017023 ACTC
127 ACTC
* *** *
9017027 AATACCATAAAATTTACCTTTGAGATCTTCAAATATCTCTTGAATTTTATAATCTCCTTTTTTCT
1 AATACCATAAAATTTACATAAAAGATCTT-AAATATCTCTTGAA-TTTATAA-CTCCTTATTTCT
*
9017092 AAATCATAAGTATAAATATATCTTTAATTAATTTGAGTATTAAATAATATTAAAATAATTTTTAA
63 AAATCATAAGTATAAATATATCTTTAATTAATTTGAATATTAAATAATATTAAAATAATTTTTAA
*
9017157 CTT
128 CTC
* *
9017160 AATACCTTAATAGATATTTCATAAAAGATCCTT-AATATCTCT
1 AATACCATAA-A-AT-TTACATAAAAGAT-CTTAAATATCTCT
9017202 ATTAATTAAA
Statistics
Matches: 158, Mismatches: 12, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
133 79 0.50
134 57 0.36
135 11 0.07
136 8 0.05
137 3 0.02
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.44
Consensus pattern (130 bp):
AATACCATAAAATTTACATAAAAGATCTTAAATATCTCTTGAATTTATAACTCCTTATTTCTAAA
TCATAAGTATAAATATATCTTTAATTAATTTGAATATTAAATAATATTAAAATAATTTTTAACTC
Found at i:9018112 original size:15 final size:15
Alignment explanation
Indices: 9018092--9018124 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
9018082 GTACATTAAT
*
9018092 ATTTTATCAAATGAA
1 ATTTTACCAAATGAA
9018107 ATTTTACCAAATGAA
1 ATTTTACCAAATGAA
9018122 ATT
1 ATT
9018125 AAATGAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.39
Consensus pattern (15 bp):
ATTTTACCAAATGAA
Found at i:9019804 original size:23 final size:23
Alignment explanation
Indices: 9019774--9019823 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
9019764 TAATTATTGA
*
9019774 AATATGTATTTGAATATAAATAT
1 AATATGTATTTGAATATAAATAC
*
9019797 AATATGTATTTGAATGTAAATAC
1 AATATGTATTTGAATATAAATAC
9019820 AATA
1 AATA
9019824 CTGACAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (23 bp):
AATATGTATTTGAATATAAATAC
Done.