Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, 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: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 18 of 74
Found at i:4600115 original size:2 final size:2
Alignment explanation
Indices: 4600108--4600135 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4600098 CATAAAGACA
4600108 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4600136 TTTTCATCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4600639 original size:2 final size:2
Alignment explanation
Indices: 4600634--4600659 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4600624 ATATATATAT
4600634 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
4600660 GCTGAAACAT
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4613678 original size:33 final size:33
Alignment explanation
Indices: 4613616--4613688 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
4613606 ATTTTCTCCC
4613616 TCAGCTTAGCTTCTTCCTGTCTTAACTCAA-TT
1 TCAGCTTAGCTTCTTCCTGTCTTAACTCAACTT
* * *
4613648 GTCAGCTTTGCTTCTT-CTTTCATTAGCTCAACTT
1 -TCAGCTTAGCTTCTTCCTGTC-TTAACTCAACTT
4613682 TCAGCTT
1 TCAGCTT
4613689 CCTATTACAG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
32 4 0.11
33 29 0.83
34 2 0.06
ACGTcount: A:0.16, C:0.27, G:0.11, T:0.45
Consensus pattern (33 bp):
TCAGCTTAGCTTCTTCCTGTCTTAACTCAACTT
Found at i:4614363 original size:13 final size:13
Alignment explanation
Indices: 4614347--4614371 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4614337 TTACTCTTTA
4614347 TTTTTATTAAAAC
1 TTTTTATTAAAAC
4614360 TTTTTATTAAAA
1 TTTTTATTAAAA
4614372 TTTCATTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTTATTAAAAC
Found at i:4615275 original size:17 final size:17
Alignment explanation
Indices: 4615253--4615285 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4615243 TGTAATTATA
*
4615253 ATTTGAATAATTTTAAT
1 ATTTGAATAAATTTAAT
4615270 ATTTGAATAAATTTAA
1 ATTTGAATAAATTTAA
4615286 AATTATCCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (17 bp):
ATTTGAATAAATTTAAT
Found at i:4618274 original size:2 final size:2
Alignment explanation
Indices: 4618267--4618304 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4618257 AGTCTGCAAA
4618267 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4618305 CCCATAAGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4618848 original size:8 final size:8
Alignment explanation
Indices: 4618837--4618862 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
4618827 GATAAATAGT
4618837 AAAATTAA
1 AAAATTAA
4618845 AAAATTAA
1 AAAATTAA
4618853 AAAATTAA
1 AAAATTAA
4618861 AA
1 AA
4618863 TATCCATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAATTAA
Found at i:4619984 original size:17 final size:17
Alignment explanation
Indices: 4619950--4619995 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
4619940 ATTTGATTTG
*
4619950 TAATTATAAT-TT-GAA
1 TAATTTTAATATTAGAA
4619965 TAATTTTAATATTAGAA
1 TAATTTTAATATTAGAA
* *
4619982 TAAATTTAAAATTA
1 TAATTTTAATATTA
4619996 TCCAGTTTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 9 0.35
16 2 0.08
17 15 0.58
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (17 bp):
TAATTTTAATATTAGAA
Found at i:4622979 original size:2 final size:2
Alignment explanation
Indices: 4622972--4623005 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4622962 AGTCTGCAAA
4622972 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4623006 CCCTAAGAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4627063 original size:2 final size:2
Alignment explanation
Indices: 4627056--4627082 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4627046 TGTAAATTAC
4627056 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
4627083 ACAAACTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4627660 original size:2 final size:2
Alignment explanation
Indices: 4627653--4627688 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
4627643 AAGTCTGCAA
*
4627653 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4627689 CAGTTACTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4633296 original size:40 final size:37
Alignment explanation
Indices: 4633240--4633422 Score: 113
Period size: 37 Copynumber: 4.5 Consensus size: 37
4633230 CCCAAGGGGC
*
4633240 TTTTATTTTTATTTTTATTATTTGTCTATTTATTAATATA
1 TTTTATTTTTATTTTTATT-TTT-T-TATCTATTAATATA
4633280 TTTT-TTTATTATTTTTATTTTTTTATCTATTAATAT-
1 TTTTATTT-TTATTTTTATTTTTTTATCTATTAATATA
* * *
4633316 TTATATTATTTATCTGCTTTTATTTTTTTTAT-TATTTATTTATTTC
1 TTTTATT-TTTA--T--TTTTA-TTTTTTTATCTA-TTA---ATATA
4633362 TTTTATTTATCTAATTATTT-TTTTTGTTATCTATTAATATA
1 TTTTATTT-T-T-ATT-TTTATTTTT-TTATCTATTAATATA
*
4633403 TTTATCTTTTTATTTTTATT
1 TTT-TATTTTTATTTTTATT
4633423 AATTTTCAGT
Statistics
Matches: 115, Mismatches: 7, Indels: 43
0.70 0.04 0.26
Matches are distributed among these distances:
36 3 0.03
37 17 0.15
38 5 0.04
39 12 0.10
40 16 0.14
41 14 0.12
42 16 0.14
43 5 0.04
44 8 0.07
45 9 0.08
46 8 0.07
47 1 0.01
48 1 0.01
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (37 bp):
TTTTATTTTTATTTTTATTTTTTTATCTATTAATATA
Found at i:4633321 original size:41 final size:42
Alignment explanation
Indices: 4633276--4633415 Score: 114
Period size: 41 Copynumber: 3.3 Consensus size: 42
4633266 TATTTATTAA
4633276 TATATTTTTTTAT-TATTTTTATTTTTTTATCTATTAATATT
1 TATATTTTTTTATCTATTTTTATTTTTTTATCTATTAATATT
* **
4633317 TATA-TTATTTATCTGCTTTTATTTTTTTTAT-TATT--TATT
1 TATATTTTTTTATCTATTTTTA-TTTTTTTATCTATTAATATT
*
4633356 TATTTCTTTTATTTATCTAATTATTT-TTTTTGTTATCTATTAATATAT
1 TA--TATTTT-TTTATCT-ATT-TTTATTTTT-TTATCTATTAATAT-T
*
4633404 T-TATCTTTTTAT
1 TATATTTTTTTAT
4633416 TTTTATTAAT
Statistics
Matches: 77, Mismatches: 9, Indels: 23
0.71 0.08 0.21
Matches are distributed among these distances:
39 6 0.08
40 7 0.09
41 15 0.19
42 11 0.14
43 12 0.16
44 10 0.13
45 11 0.14
47 3 0.04
48 2 0.03
ACGTcount: A:0.23, C:0.05, G:0.01, T:0.71
Consensus pattern (42 bp):
TATATTTTTTTATCTATTTTTATTTTTTTATCTATTAATATT
Found at i:4633360 original size:43 final size:41
Alignment explanation
Indices: 4633292--4633401 Score: 114
Period size: 43 Copynumber: 2.6 Consensus size: 41
4633282 TTTTTATTAT
4633292 TTTTATTTTTTTATCTATTAATATTTATATTATTTATCTGC
1 TTTTATTTTTTTATCTATTAATATTTATATTATTTATCTGC
* * * **
4633333 TTTTATTTTTTTTAT-TATTTATTTATTTCTTTTATTTATCTAA
1 TTTTA-TTTTTTTATCTA-TTA-ATATTTATATTATTTATCTGC
*
4633376 TTATTTTTTTTGTTATCTATTAATAT
1 TT-TTATTTTT-TTATCTATTAATAT
4633402 ATTTATCTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
41 7 0.12
42 12 0.21
43 26 0.46
44 9 0.16
45 2 0.04
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (41 bp):
TTTTATTTTTTTATCTATTAATATTTATATTATTTATCTGC
Found at i:4633378 original size:29 final size:30
Alignment explanation
Indices: 4633316--4633381 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
4633306 CTATTAATAT
* * *
4633316 TTATATTATTTATCTGCTTTTATTTTTTTTA
1 TTAT-TTATTTATCTGCTTTTATTTATCTAA
*
4633347 TTATTTATTTAT-TTCTTTTATTTATCTAA
1 TTATTTATTTATCTGCTTTTATTTATCTAA
4633376 TTATTT
1 TTATTT
4633382 TTTTTGTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 19 0.61
30 8 0.26
31 4 0.13
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (30 bp):
TTATTTATTTATCTGCTTTTATTTATCTAA
Found at i:4634198 original size:4 final size:4
Alignment explanation
Indices: 4634191--4634270 Score: 64
Period size: 4 Copynumber: 20.8 Consensus size: 4
4634181 CAGGTTTTTT
*
4634191 TTTA TTTA TTTA TTTA TTTA TTTA -TTA -TTA -TTA -TTA -TTG TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* *
4634234 TATA TTTTA TTTTA TTTTA TTT- TTTA TTTT TTTA TTT
1 TTTA -TTTA -TTTA -TTTA TTTA TTTA TTTA TTTA TTT
4634271 TTCTTTATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
3 17 0.25
4 37 0.55
5 13 0.19
ACGTcount: A:0.23, C:0.00, G:0.01, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:4634246 original size:5 final size:5
Alignment explanation
Indices: 4634185--4634310 Score: 92
Period size: 5 Copynumber: 25.8 Consensus size: 5
4634175 CGTTCCCAGG
*
4634185 TTTTT TTTTA -TTTA -TTTA -TTTA -TTTA -TTTA TTATTA TTATTA TTGTT-
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA TT-TTA TT-TTA
* *
4634232 TATATA TTTTA TTTTA TTTTA TTTT- TTATTT TTTTA TTTT- TCTTTA
1 T-TTTA TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA T-TTTA
4634278 TTTTCA TTTTA TTTTA TTTTA --TTA TTTTA TTTT
1 TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
4634311 TTTAAATAAA
Statistics
Matches: 105, Mismatches: 5, Indels: 22
0.80 0.04 0.17
Matches are distributed among these distances:
3 3 0.03
4 23 0.22
5 56 0.53
6 23 0.22
ACGTcount: A:0.20, C:0.02, G:0.01, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:4634269 original size:41 final size:40
Alignment explanation
Indices: 4634189--4634314 Score: 152
Period size: 41 Copynumber: 3.1 Consensus size: 40
4634179 CCCAGGTTTT
*
4634189 TTTTTATTTA-TTTA-TTTA-TTTATTTATTATTATTATTA
1 TTTTTATTTATTTTATTTTATTTTATTTTTTATT-TTATTA
* *
4634227 TTGTTTATATATTTTATTTTATTTTATTTTTTATTTTTTTA
1 TT-TTTATTTATTTTATTTTATTTTATTTTTTATTTTATTA
*
4634268 TTTTTCTTTATTTTCATTTTATTTTATTTTATTATTTTATT-
1 TTTTTATTTATTTT-ATTTTATTTTATTTT-TTATTTTATTA
4634309 TTTTTA
1 TTTTTA
4634315 AATAAAATTC
Statistics
Matches: 75, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
38 2 0.03
39 7 0.09
40 14 0.19
41 31 0.41
42 21 0.28
ACGTcount: A:0.21, C:0.02, G:0.01, T:0.77
Consensus pattern (40 bp):
TTTTTATTTATTTTATTTTATTTTATTTTTTATTTTATTA
Found at i:4634272 original size:16 final size:16
Alignment explanation
Indices: 4634185--4634314 Score: 79
Period size: 16 Copynumber: 7.9 Consensus size: 16
4634175 CGTTCCCAGG
*
4634185 TTTTTT-TTTATTTAT
1 TTTTTTATTTTTTTAT
* *
4634200 TTATTTATTTATTTAT
1 TTTTTTATTTTTTTAT
*
4634216 TATTATTATTATTGTTTAT
1 T-TTTTTATT-TT-TTTAT
*
4634235 ATATTTTATTTTATTT-T
1 -TTTTTTATTTT-TTTAT
4634252 ATTTTTTATTTTTTTAT
1 -TTTTTTATTTTTTTAT
* *
4634269 TTTTCTT-TATTTTCAT
1 TTTT-TTATTTTTTTAT
* *
4634285 TTTATT-TTATTTTAT
1 TTTTTTATTTTTTTAT
*
4634300 TATTTTATTTTTTTA
1 TTTTTTATTTTTTTA
4634315 AATAAAATTC
Statistics
Matches: 90, Mismatches: 17, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
15 17 0.19
16 34 0.38
17 21 0.23
18 6 0.07
19 11 0.12
20 1 0.01
ACGTcount: A:0.20, C:0.02, G:0.01, T:0.78
Consensus pattern (16 bp):
TTTTTTATTTTTTTAT
Found at i:4634288 original size:46 final size:44
Alignment explanation
Indices: 4634195--4634314 Score: 145
Period size: 46 Copynumber: 2.7 Consensus size: 44
4634185 TTTTTTTTTA
* *
4634195 TTTA-TTTA-TTTATTTATTTATTATTATTATTATTGTTTATATAT
1 TTTATTTTATTTTATTT-TTTATT-TTTTTATTATTCTTTATATAT
* *
4634239 TTTATTTTATTTTATTTTTTATTTTTTTATTTTTCTTTATTTTCAT
1 TTTATTTTATTTTATTTTTTATTTTTTTATTATTCTTTA-TAT-AT
4634285 TTTATTTTATTTTATTATTTTATTTTTTTA
1 TTTATTTTATTTTATT-TTTTATTTTTTTA
4634315 AATAAAATTC
Statistics
Matches: 67, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
44 17 0.25
45 12 0.18
46 25 0.37
47 13 0.19
ACGTcount: A:0.21, C:0.02, G:0.01, T:0.77
Consensus pattern (44 bp):
TTTATTTTATTTTATTTTTTATTTTTTTATTATTCTTTATATAT
Found at i:4634390 original size:58 final size:57
Alignment explanation
Indices: 4634328--4634779 Score: 577
Period size: 58 Copynumber: 7.8 Consensus size: 57
4634318 AAAATTCAAA
*
4634328 AAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAGCATTCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGC-TTCT
* * *
4634386 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGCTTCCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTT-CT
4634444 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTCCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTT-CT
*
4634502 AAAAAATATTTTTGAGGAAAATTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTCCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTT-CT
* *
4634560 AAAAAATATTTTTG-GAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGCTTTCT
1 AAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGC-TTCT
* * * * *
4634618 AAACAAAATATTTTTGAAGAAAAGTTGAAAGTCTCAATTTTTCTTAAAAATAAG-TTTT
1 -AA-AAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTCT
* * * * **
4634676 CAAAAATGGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAATTTCT
1 AAAAAAT--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAGCTTCT
** * *
4634736 AAAAAA-ATATTTTGAAAAAAAGTTAAAAATATCAATTTTCCTTG
1 AAAAAATAT-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
4634780 TACAAGAGCA
Statistics
Matches: 354, Mismatches: 29, Indels: 22
0.87 0.07 0.05
Matches are distributed among these distances:
56 5 0.01
57 6 0.02
58 282 0.80
59 6 0.02
60 55 0.16
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.36
Consensus pattern (57 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTCT
Found at i:4634740 original size:234 final size:232
Alignment explanation
Indices: 4634328--4634779 Score: 644
Period size: 234 Copynumber: 1.9 Consensus size: 232
4634318 AAAATTCAAA
*
4634328 AAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAGCATTCTAAAAAAT
1 AAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAGCATTCTAAAAAAT
4634393 ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGCTTCCTAAAAAATATTTTTG
66 ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGCTTCCTAAAAAATATTTTTG
* * ** **
4634458 AGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTCCT-AAAAAATATTTTTGAGGAAA
131 AGAAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAATTCCTAAAAAAATA-TTTTGAAAAAA
* * *
4634522 ATTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTCCT
195 AGTTAAAAATATCAATTTTCCTTGAAAATAAGCTTCCT
* * *
4634560 AAAAAATATTTTTG-GAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGCTTTCTAAACAA
1 AAAAAATATTTTTGAG-GAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAGCATTCT-AA-AA
* * *
4634624 AATATTTTTGA-AGAAAAGTTGAAAGTCTCAATTTTTCTTAAAAATAAG-TT-TTCAAAAATGGA
63 AATATTTTTGAGA-AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGCTTCCTAAAAAAT--A
* *
4634686 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAATTTCTAAAAAAATATTTTGA
125 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAATTCCTAAAAAAATATTTTGA
4634751 AAAAAAGTTAAAAATATCAATTTTCCTTG
190 AAAAAAGTTAAAAATATCAATTTTCCTTG
4634780 TACAAGAGCA
Statistics
Matches: 195, Mismatches: 18, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
231 1 0.01
232 59 0.30
233 5 0.03
234 122 0.63
235 8 0.04
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.36
Consensus pattern (232 bp):
AAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAGCATTCTAAAAAAT
ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGCTTCCTAAAAAATATTTTTG
AGAAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAATTCCTAAAAAAATATTTTGAAAAAAA
GTTAAAAATATCAATTTTCCTTGAAAATAAGCTTCCT
Found at i:4638634 original size:191 final size:191
Alignment explanation
Indices: 4638307--4638692 Score: 718
Period size: 191 Copynumber: 2.0 Consensus size: 191
4638297 CCAACCAATG
4638307 ATCACCCTCTACACTGGGGGGCATTTTTTTTCTAAAAAAAAATATATCACAAAAGGTCTCAAAGA
1 ATCACCCTCTACACTGGGGGGCATTTTTTTTCTAAAAAAAAATATATCACAAAAGGTCTCAAAGA
* * * *
4638372 TGGAAAGAGAAAGAAAAGCAAAAGACAAAATAAATGCCACACATGATTTGGGGCAAAATAATGAA
66 TGGAAAGAGAAAGAAAAGAAAAAAACAAAATAAATGCCACACATGATTTGAGACAAAATAATGAA
4638437 AATCCTTTGTGTAAGGAAAGAAAAAGTAGTGAAATGATGTGGGGGCAAAATGCCAAGTTGC
131 AATCCTTTGTGTAAGGAAAGAAAAAGTAGTGAAATGATGTGGGGGCAAAATGCCAAGTTGC
*
4638498 ATCACCCTTTACACTGGGGGGCATTTTTTTTCTAAAAAAAAATATATCACAAAAGGTCTCAAAGA
1 ATCACCCTCTACACTGGGGGGCATTTTTTTTCTAAAAAAAAATATATCACAAAAGGTCTCAAAGA
*
4638563 TGGAAAGAGAAAGAAAAGAAAAAAACAAAATAAATGCCACACATGATTTGAGACAAAATAATGAG
66 TGGAAAGAGAAAGAAAAGAAAAAAACAAAATAAATGCCACACATGATTTGAGACAAAATAATGAA
4638628 AATCCTTTGTGTAAGGAAAGAAAAAGTAGTGAAATGATGTGGGGGCAAAATGCCAAGTTGC
131 AATCCTTTGTGTAAGGAAAGAAAAAGTAGTGAAATGATGTGGGGGCAAAATGCCAAGTTGC
4638689 ATCA
1 ATCA
4638693 GATGATCCTT
Statistics
Matches: 189, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
191 189 1.00
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.22
Consensus pattern (191 bp):
ATCACCCTCTACACTGGGGGGCATTTTTTTTCTAAAAAAAAATATATCACAAAAGGTCTCAAAGA
TGGAAAGAGAAAGAAAAGAAAAAAACAAAATAAATGCCACACATGATTTGAGACAAAATAATGAA
AATCCTTTGTGTAAGGAAAGAAAAAGTAGTGAAATGATGTGGGGGCAAAATGCCAAGTTGC
Found at i:4638991 original size:16 final size:16
Alignment explanation
Indices: 4638957--4639006 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
4638947 GAAGATGATG
* **
4638957 AAAATTGAAAAAATGA
1 AAAAATGAAAAAAAAA
4638973 AAAAATGAAAAAAAAA
1 AAAAATGAAAAAAAAA
*
4638989 AAAAAAGAAAGAAAAAA
1 AAAAATGAAA-AAAAAA
4639006 A
1 A
4639007 TGAGAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 22 0.76
17 7 0.24
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.08
Consensus pattern (16 bp):
AAAAATGAAAAAAAAA
Found at i:4640911 original size:45 final size:43
Alignment explanation
Indices: 4640861--4641138 Score: 254
Period size: 45 Copynumber: 6.5 Consensus size: 43
4640851 AAGTTGTGGT
4640861 GCCTCT-ATTTAGAGGAGCTTTATTTATTTTTTTCAAAGTCGTTAA
1 GCCTCTGA-TTAGAGGAGCTTTATTTA--TTTTTCAAAGTCGTTAA
* *
4640906 GCCTCTGATTAGAGGAGTTTTATTTATTTTTTCAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCTTTATTTA-TTTTTCAAAGTCGTTAA
* * *
4640950 GCCTCTGATTAGAGAAGCTTTATTCA-TTTTCAAAGTCATTGAA
1 GCCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAGTCGTT-AA
*
4640993 -CCTCTGATTAGAGGAGC--CATTTATTTTTCAAAGTCGTTAA
1 GCCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTAA
* * * **
4641033 GCCTCTGATTAGGGGAGC--CATTTA-TTTTC-AAGATTGTGGA
1 GCCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAG-TCGTTAA
* * * *
4641073 GCCTCTGTTTAGACGAGTTTTGTTTATTTTTTTCAAAGTC-TTAGA
1 GCCTCTGATTAGAGGAGCTTTATTTA--TTTTTCAAAGTCGTTA-A
4641118 GCCTCT-ACTTAGAGGAGCTTT
1 GCCTCTGA-TTAGAGGAGCTTT
4641139 GATAAAAAAA
Statistics
Matches: 193, Mismatches: 27, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
39 3 0.02
40 29 0.15
41 35 0.18
42 33 0.17
43 1 0.01
44 41 0.21
45 47 0.24
46 4 0.02
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.41
Consensus pattern (43 bp):
GCCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTAA
Found at i:4641038 original size:41 final size:42
Alignment explanation
Indices: 4640882--4641060 Score: 222
Period size: 44 Copynumber: 4.2 Consensus size: 42
4640872 GAGGAGCTTT
**
4640882 ATTTATTTTTTTCAAAGTCGTTAAGCCTCTGATTAGAGGAGTTTT
1 ATTTA-TTTTTTCAAAGTCGTTAAGCCTCTGATTAGAGGAG--CC
* *
4640927 ATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGAAG-C
1 ATTTATTTTTTCAAAGTCGTTAAGCCTCTGATTAGAGGAGCC
*
4640968 -TTTATTCATTTTCAAAGTCATTGAA-CCTCTGATTAGAGGAGCC
1 ATTTATT--TTTTCAAAGTCGTT-AAGCCTCTGATTAGAGGAGCC
*
4641011 ATTTA-TTTTTCAAAGTCGTTAAGCCTCTGATTAGGGGAGCC
1 ATTTATTTTTTCAAAGTCGTTAAGCCTCTGATTAGAGGAGCC
4641052 ATTTATTTT
1 ATTTATTTT
4641061 CAAGATTGTG
Statistics
Matches: 119, Mismatches: 8, Indels: 17
0.83 0.06 0.12
Matches are distributed among these distances:
40 8 0.07
41 35 0.29
42 31 0.26
43 3 0.03
44 37 0.31
45 5 0.04
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.42
Consensus pattern (42 bp):
ATTTATTTTTTCAAAGTCGTTAAGCCTCTGATTAGAGGAGCC
Found at i:4641076 original size:40 final size:41
Alignment explanation
Indices: 4640792--4641085 Score: 181
Period size: 42 Copynumber: 7.0 Consensus size: 41
4640782 GATTGTTAAA
* * * * * *
4640792 GAGCTATTTGTTTTTCAAAGTTGT-AGTGCCTTTGTTTAGAG
1 GAGCCATTTATTTTTCAAAGTCGTGA-AGCCTCTGATTAGAG
* * * * **
4640833 GAGCAATTTACTTTCCAAAAGTTGTGGTGCCTCT-ATTTAGAG
1 GAGCCATTTATTTTTC-AAAGTCGTGAAGCCTCTGA-TTAGAG
* *
4640875 GAGCTTTATTTATTTTTTTCAAAGTCGTTAAGCCTCTGATTAGAG
1 GAGC--CATTTA--TTTTTCAAAGTCGTGAAGCCTCTGATTAGAG
**
4640920 GAGTTTTATTTATTTTTTCAAAGTCGTTG-AGCCTCTGATTAGAG
1 GAG--CCATTTA-TTTTTCAAAGTCG-TGAAGCCTCTGATTAGAG
* *
4640964 AAG-C-TTTATTCATTTTCAAAGTCATTGAA-CCTCTGATTAGAG
1 GAGCCATTTA-T--TTTTCAAAGTC-GTGAAGCCTCTGATTAGAG
* *
4641006 GAGCCATTTATTTTTCAAAGTCGTTAAGCCTCTGATTAGGG
1 GAGCCATTTATTTTTCAAAGTCGTGAAGCCTCTGATTAGAG
* * *
4641047 GAGCCATTTA-TTTTC-AAGATTGTGGAGCCTCTGTTTAGA
1 GAGCCATTTATTTTTCAAAG-TCGTGAAGCCTCTGATTAGA
4641086 CGAGTTTTGT
Statistics
Matches: 206, Mismatches: 28, Indels: 39
0.75 0.10 0.14
Matches are distributed among these distances:
39 3 0.01
40 29 0.14
41 45 0.22
42 52 0.25
43 3 0.01
44 40 0.19
45 29 0.14
46 5 0.02
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.41
Consensus pattern (41 bp):
GAGCCATTTATTTTTCAAAGTCGTGAAGCCTCTGATTAGAG
Found at i:4641099 original size:83 final size:85
Alignment explanation
Indices: 4640890--4641136 Score: 238
Period size: 83 Copynumber: 2.9 Consensus size: 85
4640880 TTATTTATTT
* ** *
4640890 TTTTCAAAGTCGTTAAGCCTCTGATTAGAGGAGTTTTATTTATTTTTTCAAAGTCGTTGAGCCTC
1 TTTTCAAAGTCATGGAGCCTCTGATTAGAGGAGTTTTATTTATTTTTTCAAAGTCGTTAAGCCTC
*
4640955 TGATTAGAGAAGCTTTATTCA
66 TGATTAGAGAAGC-TCATTCA
* * **
4640976 TTTTCAAAGTCATTGAACCTCTGATTAGAGGAG--CCATTTA-TTTTTCAAAGTCGTTAAGCCTC
1 TTTTCAAAGTCATGGAGCCTCTGATTAGAGGAGTTTTATTTATTTTTTCAAAGTCGTTAAGCCTC
* * *
4641038 TGATTAGGGGAGC-CATTTA
66 TGATTAGAGAAGCTCATTCA
** * * *
4641057 TTTTC-AAGATTGTGGAGCCTCTGTTTAGACGAGTTTTGTTTATTTTTTTCAAAGTC-TTAGAGC
1 TTTTCAAAG-TCATGGAGCCTCTGATTAGAGGAGTTTTATTTA-TTTTTTCAAAGTCGTTA-AGC
*
4641120 CTCT-ACTTAGAGGAGCT
63 CTCTGA-TTAGAGAAGCT
4641137 TTGATAAAAA
Statistics
Matches: 133, Mismatches: 20, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
80 3 0.02
81 27 0.20
83 36 0.27
84 9 0.07
85 28 0.21
86 30 0.23
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (85 bp):
TTTTCAAAGTCATGGAGCCTCTGATTAGAGGAGTTTTATTTATTTTTTCAAAGTCGTTAAGCCTC
TGATTAGAGAAGCTCATTCA
Found at i:4641376 original size:8 final size:8
Alignment explanation
Indices: 4641363--4641419 Score: 60
Period size: 8 Copynumber: 6.5 Consensus size: 8
4641353 GGGCTTTTTA
4641363 TTTTTATT
1 TTTTTATT
4641371 TTTTTATT
1 TTTTTATT
4641379 ATTTGTCTATT
1 -TTT-T-TATT
*
4641390 TATTAATATT
1 T-TT-TTATT
4641400 TTTTTATT
1 TTTTTATT
4641408 TTTTTATT
1 TTTTTATT
4641416 TTTT
1 TTTT
4641420 ATCTATTAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
8 24 0.57
9 5 0.12
10 7 0.17
11 6 0.14
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.79
Consensus pattern (8 bp):
TTTTTATT
Found at i:4641482 original size:21 final size:20
Alignment explanation
Indices: 4641456--4641534 Score: 70
Period size: 22 Copynumber: 3.6 Consensus size: 20
4641446 TGCTTTTTTT
*
4641456 TTTTTTTTTATTATTTATCTA
1 TTTTTTTTTATTATTAAT-TA
4641477 -TTTTTTTTATTTATCTAATTA
1 TTTTTTTTTA-TTAT-TAATTA
4641498 TTTTTTTGTTATCTATTAATATA
1 TTTTTTT-TTAT-TATTAAT-TA
4641521 TTTATCTTTTTATT
1 TTT-T-TTTTTATT
4641535 TTGATTAATT
Statistics
Matches: 49, Mismatches: 1, Indels: 14
0.77 0.02 0.22
Matches are distributed among these distances:
20 9 0.18
21 6 0.12
22 14 0.29
23 12 0.24
24 5 0.10
25 3 0.06
ACGTcount: A:0.22, C:0.05, G:0.01, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTATTATTAATTA
Found at i:4641486 original size:17 final size:17
Alignment explanation
Indices: 4641459--4641514 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 17
4641449 TTTTTTTTTT
4641459 TTTTTTATTATTTATCTA
1 TTTTTT-TTATTTATCTA
4641477 TTTTTTTTATTTATCTAA
1 TTTTTTTTATTTATCT-A
4641495 TTATTTTTT-TGTTATCTA
1 TT-TTTTTTAT-TTATCTA
4641513 TT
1 TT
4641515 AATATATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
17 10 0.29
18 13 0.37
19 12 0.34
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTTTTTTATTTATCTA
Found at i:4641497 original size:29 final size:29
Alignment explanation
Indices: 4641436--4641500 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
4641426 TAATATTTAT
* * * *
4641436 ATTATTTATCTGCTTTTTTTTTTTTTTTT
1 ATTATTTATCTGATTTTTTTTTTTATCTA
4641465 ATTATTTATCT-ATTTTTTTTATTTATCTA
1 ATTATTTATCTGATTTTTTTT-TTTATCTA
4641494 ATTATTT
1 ATTATTT
4641501 TTTTGTTATC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 8 0.26
29 23 0.74
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.74
Consensus pattern (29 bp):
ATTATTTATCTGATTTTTTTTTTTATCTA
Found at i:4641853 original size:14 final size:15
Alignment explanation
Indices: 4641828--4641857 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4641818 TTTTTTAGAA
4641828 TTTTTGACAAATTTT
1 TTTTTGACAAATTTT
4641843 TTTTTGA-AAATTTT
1 TTTTTGACAAATTTT
4641857 T
1 T
4641858 GAAAATTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.27, C:0.03, G:0.07, T:0.63
Consensus pattern (15 bp):
TTTTTGACAAATTTT
Found at i:4641854 original size:25 final size:23
Alignment explanation
Indices: 4641818--4641866 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 23
4641808 TCTGTGAAAA
*
4641818 TTTTTTAGAATTTTTGACAAATTT
1 TTTTTTAAAATTTTTGA-AAATTT
4641842 TTTTTTGAAAATTTTTGAAAATTT
1 TTTTTT-AAAATTTTTGAAAATTT
4641866 T
1 T
4641867 CCAAATTTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (23 bp):
TTTTTTAAAATTTTTGAAAATTT
Found at i:4642341 original size:4 final size:4
Alignment explanation
Indices: 4642332--4642357 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
4642322 CCCATGTTTT
4642332 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
4642358 ATTATTATTA
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:4642400 original size:5 final size:5
Alignment explanation
Indices: 4642390--4642495 Score: 119
Period size: 5 Copynumber: 20.2 Consensus size: 5
4642380 TTGTTTTATA
4642390 TATTT TATTT TATTT TATTTTT TATTT TATTT TATTT TATTT T-TCTT
1 TATTT TATTT TATTT TA--TTT TATTT TATTT TATTT TATTT TAT-TT
4642437 TATTTT TATTT TCATTT TCATTT TCATTTT TATTT TATTT TATTT TA--T
1 TA-TTT TATTT T-ATTT T-ATTT T-A-TTT TATTT TATTT TATTT TATTT
4642485 TATTT TATTT T
1 TATTT TATTT T
4642496 CTTTAAATAA
Statistics
Matches: 92, Mismatches: 0, Indels: 18
0.84 0.00 0.16
Matches are distributed among these distances:
3 3 0.03
4 1 0.01
5 60 0.65
6 18 0.20
7 10 0.11
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:4642500 original size:22 final size:23
Alignment explanation
Indices: 4642383--4642495 Score: 133
Period size: 22 Copynumber: 4.7 Consensus size: 23
4642373 ATTAAAATTG
4642383 TTTTATATATTTTATTTTATTTTA
1 TTTTAT-TATTTTATTTTATTTTA
4642407 TTTT-TTATTTTATTTTATTTTA
1 TTTTATTATTTTATTTTATTTTA
*
4642429 TTTTTCTTTATTTTTATTTTCATTTTCA
1 -TTTT-ATTA-TTTTATTTT-ATTTT-A
4642457 TTTTCA-T-TTTTATTTTATTTTA
1 TTTT-ATTATTTTATTTTATTTTA
4642479 TTTTATTATTTTATTTT
1 TTTTATTATTTTATTTT
4642496 CTTTAAATAA
Statistics
Matches: 80, Mismatches: 1, Indels: 17
0.82 0.01 0.17
Matches are distributed among these distances:
21 1 0.01
22 23 0.29
23 19 0.24
24 13 0.16
25 3 0.04
26 10 0.12
27 10 0.12
28 1 0.01
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTATTATTTTATTTTATTTTA
Found at i:4642662 original size:58 final size:58
Alignment explanation
Indices: 4642514--4643020 Score: 692
Period size: 58 Copynumber: 8.8 Consensus size: 58
4642504 AAAATTCAAA
* * *
4642514 AAAAAATATTTTTGAAAAAAAGTTAAAAGTATCAATTTTCTTTGAAAATAAGCTTTCT
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
4642572 -AAAAATATTTTTGA-AGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
1 AAAAAATATTTTTGAGA-AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
* *
4642629 AAAAAATATTTTTGAGAAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAGCTTTCT
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
*
4642687 AAAAAAAATATTTTTGAGAAAAAGTTG---GTATCAATTTTCTTTGAAAATAAGCTTTCT
1 --AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
4642744 -AAAAATATTTTTGA-AGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
1 AAAAAATATTTTTGAGA-AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
* *
4642801 AAAAAATATTTTTGAGAAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAGCTTTCT
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
* * *
4642859 AAAAAAAATATTTTTGAGAAAAAGTTGAAAGTCTCAATTTTTCTTAAAAATAAG-TTT-T
1 --AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
* * * * * **
4642917 CAAAAATGAATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTCGAAATTAAAATTTCT
1 AAAAAAT--ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
*
4642977 AAAAAA-ATATTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAAAATAT-TTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTG
4643021 TATAAGAGCA
Statistics
Matches: 404, Mismatches: 27, Indels: 36
0.87 0.06 0.08
Matches are distributed among these distances:
53 1 0.00
54 22 0.05
56 7 0.02
57 112 0.28
58 175 0.43
59 8 0.02
60 79 0.20
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.37
Consensus pattern (58 bp):
AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
Found at i:4642731 original size:172 final size:172
Alignment explanation
Indices: 4642512--4643019 Score: 788
Period size: 172 Copynumber: 2.9 Consensus size: 172
4642502 ATAAAATTCA
* *
4642512 AAAAAAAATATTTTTGAAAAAAAGTTAAAAGTATCAATTTTCTTTGAAAATAAGCTTTCTAAAAA
1 AAAAAAAATATTTTTGAGAAAAAGTT---GGTATCAATTTTCTTTGAAAATAAGCTTTCTAAAAA
4642577 TATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAATATTTTT
63 TATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAATATTTTT
4642642 GAGAAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAGCTTTCT
128 GAGAAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAGCTTTCT
4642687 AAAAAAAATATTTTTGAGAAAAAGTTGGTATCAATTTTCTTTGAAAATAAGCTTTCTAAAAATAT
1 AAAAAAAATATTTTTGAGAAAAAGTTGGTATCAATTTTCTTTGAAAATAAGCTTTCTAAAAATAT
4642752 TTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAATATTTTTGAG
66 TTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAATATTTTTGAG
4642817 AAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAGCTTTCT
131 AAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAGCTTTCT
* * *
4642859 AAAAAAAATATTTTTGAGAAAAAGTTGAAAGTCTCAATTTT-TCTTAAAAATAAGTTTTC-AAAA
1 AAAAAAAATATTTTTGAGAAAAAGTTG---GTATCAATTTTCT-TTGAAAATAAGCTTTCTAAAA
* * * * **
4642922 ATGAATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTCGAAATTAAAATTTCTAAAAAA-ATA
62 AT--ATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAATAT-
* *
4642986 TTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTT
124 TTTTGAGAAAAAATTGAAAGTATCAATTTTCCTT
4643020 GTATAAGAGC
Statistics
Matches: 313, Mismatches: 13, Indels: 13
0.92 0.04 0.04
Matches are distributed among these distances:
172 172 0.55
174 7 0.02
175 51 0.16
176 83 0.27
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.37
Consensus pattern (172 bp):
AAAAAAAATATTTTTGAGAAAAAGTTGGTATCAATTTTCTTTGAAAATAAGCTTTCTAAAAATAT
TTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAATATTTTTGAG
AAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAGCTTTCT
Found at i:4645076 original size:19 final size:19
Alignment explanation
Indices: 4645052--4645091 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
4645042 TTATTACAAG
4645052 AACACACAGACCTAGAAAT
1 AACACACAGACCTAGAAAT
4645071 AACACACAGACCTAGAAAT
1 AACACACAGACCTAGAAAT
4645090 AA
1 AA
4645092 TCTGCTGTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.55, C:0.25, G:0.10, T:0.10
Consensus pattern (19 bp):
AACACACAGACCTAGAAAT
Found at i:4645292 original size:24 final size:24
Alignment explanation
Indices: 4645260--4645306 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
4645250 AAGAGTGAAT
4645260 AGGAAACCTTTTAAATTGGTTTAC
1 AGGAAACCTTTTAAATTGGTTTAC
4645284 AGGAAACCTTTTAAATTGGTTTA
1 AGGAAACCTTTTAAATTGGTTTA
4645307 AAATTAACTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (24 bp):
AGGAAACCTTTTAAATTGGTTTAC
Found at i:4647288 original size:11 final size:12
Alignment explanation
Indices: 4647262--4647287 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4647252 CAGGAAATAA
4647262 TTTATAAAAATT
1 TTTATAAAAATT
4647274 TTTATAAAAATT
1 TTTATAAAAATT
4647286 TT
1 TT
4647288 ACTTATTGTA
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TTTATAAAAATT
Found at i:4650921 original size:12 final size:13
Alignment explanation
Indices: 4650892--4650930 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
4650882 TATTAATTTT
*
4650892 AAATTTATTTAATA
1 AAATTT-TTTTATA
4650906 TAAATTTTTTTATA
1 -AAATTTTTTTATA
4650920 AAATTTTTTTA
1 AAATTTTTTTA
4650931 ATTATAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 6 0.26
15 6 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
AAATTTTTTTATA
Found at i:4650929 original size:14 final size:15
Alignment explanation
Indices: 4650891--4650937 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
4650881 ATATTAATTT
*
4650891 TAAATTTATTTAATA
1 TAAATTTTTTTAATA
4650906 TAAATTTTTTT-ATA
1 TAAATTTTTTTAATA
4650920 -AAATTTTTTTAATTA
1 TAAATTTTTTTAA-TA
4650935 TAA
1 TAA
4650938 TTATAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 10 0.36
14 4 0.14
15 12 0.43
16 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TAAATTTTTTTAATA
Found at i:4650944 original size:12 final size:12
Alignment explanation
Indices: 4650929--4650971 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
4650919 AAAATTTTTT
*
4650929 TAATTATAATTA
1 TAATAATAATTA
* *
4650941 TAATAATATTTT
1 TAATAATAATTA
*
4650953 TAATCATAATTA
1 TAATAATAATTA
4650965 TAATAAT
1 TAATAAT
4650972 TTTATTATTA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (12 bp):
TAATAATAATTA
Found at i:4650961 original size:24 final size:24
Alignment explanation
Indices: 4650915--4650971 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
4650905 ATAAATTTTT
* *
4650915 TTATAA-AATTTTTTTAATTATAA
1 TTATAATAATATTTTTAATCATAA
4650938 TTATAATAATATTTTTAATCATAA
1 TTATAATAATATTTTTAATCATAA
4650962 TTATAATAAT
1 TTATAATAAT
4650972 TTTATTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 6 0.19
24 25 0.81
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
TTATAATAATATTTTTAATCATAA
Found at i:4654824 original size:2 final size:2
Alignment explanation
Indices: 4654817--4654841 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4654807 AAACTCGGGC
4654817 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
4654842 TGTGGATGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4655686 original size:2 final size:2
Alignment explanation
Indices: 4655679--4655717 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4655669 ACTTAATAAA
4655679 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4655718 CAACCTAAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4655785 original size:3 final size:3
Alignment explanation
Indices: 4655777--4655822 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
4655767 ACATGAATTT
4655777 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4655823 ATAAATAACC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4670944 original size:21 final size:21
Alignment explanation
Indices: 4670905--4670944 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4670895 ATAACCTTCG
** *
4670905 TAAACTAATTTTAATAATATA
1 TAAACTAATTCAAAAAATATA
4670926 TAAACTAATTCAAAAAATA
1 TAAACTAATTCAAAAAATA
4670945 ATCAATTAAT
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:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAACTAATTCAAAAAATATA
Found at i:4675079 original size:16 final size:16
Alignment explanation
Indices: 4675053--4675089 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
4675043 ATATTTATGT
4675053 TATAT-TTATAAAAAA
1 TATATATTATAAAAAA
4675068 TATATATTATAAAAAA
1 TATATATTATAAAAAA
4675084 TATATA
1 TATATA
4675090 AAATTATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TATATATTATAAAAAA
Found at i:4675102 original size:24 final size:25
Alignment explanation
Indices: 4675059--4675105 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
4675049 ATGTTATATT
*
4675059 TATAAAAAATATATATTATAAAAAA
1 TATAAAAAATATATAATATAAAAAA
*
4675084 TATATAAAAT-TATAATATAAAA
1 TATAAAAAATATATAATATAAAA
4675106 TTTAATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (25 bp):
TATAAAAAATATATAATATAAAAAA
Found at i:4675147 original size:13 final size:11
Alignment explanation
Indices: 4675056--4675143 Score: 50
Period size: 11 Copynumber: 7.1 Consensus size: 11
4675046 TTTATGTTAT
*
4675056 ATTTATAAAAA
1 ATTTATATAAA
4675067 ATATATATTATAAA
1 AT-T-TA-TATAAA
**
4675081 AAATATATAAA
1 ATTTATATAAA
4675092 ATTATAATATAAA
1 ATT-T-ATATAAA
*
4675105 ATTTAATTTTATTAA
1 ATTT-A---TATAAA
4675120 ATTTATATAAA
1 ATTTATATAAA
4675131 ATTTATATTAAA
1 ATTTATA-TAAA
4675143 A
1 A
4675144 ATTTTAATTA
Statistics
Matches: 61, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
11 21 0.34
12 12 0.20
13 12 0.20
14 7 0.11
15 9 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
ATTTATATAAA
Found at i:4683593 original size:12 final size:12
Alignment explanation
Indices: 4683576--4683603 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
4683566 GAAACAGACG
4683576 AAACTTAGAGAA
1 AAACTTAGAGAA
4683588 AAACTTAGAGAA
1 AAACTTAGAGAA
4683600 AAAC
1 AAAC
4683604 ACGAGATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.11, G:0.14, T:0.14
Consensus pattern (12 bp):
AAACTTAGAGAA
Found at i:4685422 original size:13 final size:13
Alignment explanation
Indices: 4685404--4685428 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4685394 TAATAAAATA
4685404 TTTCGAGTTCGAG
1 TTTCGAGTTCGAG
4685417 TTTCGAGTTCGA
1 TTTCGAGTTCGA
4685429 ATTCGAGCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.28, T:0.40
Consensus pattern (13 bp):
TTTCGAGTTCGAG
Found at i:4696820 original size:16 final size:16
Alignment explanation
Indices: 4696795--4696841 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
4696785 ACTCATCAAT
*
4696795 ATAAAGTAAACTTGAC
1 ATAAAATAAACTTGAC
*
4696811 ATAAAATAAACTAGAC
1 ATAAAATAAACTTGAC
4696827 ATAAAATAAACTTGA
1 ATAAAATAAACTTGA
4696842 TGGCGAGTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.57, C:0.11, G:0.09, T:0.23
Consensus pattern (16 bp):
ATAAAATAAACTTGAC
Found at i:4704960 original size:109 final size:104
Alignment explanation
Indices: 4704774--4704983 Score: 332
Period size: 109 Copynumber: 2.0 Consensus size: 104
4704764 GTTATGTGAT
4704774 TAATCAAAAGATTCATTGGTCATTTAAAAAATCTAACAAAGGCCTATATGTTGCATCATTATGTT
1 TAATCAAAAGATTCATTGGTCATTTAAAAAATCTAACAAAGGCCTATATGTTGCATCATTATGTT
*
4704839 TGGATACCTCAAAATCAGCAAATGCAACTGGCATTCCAC
66 TGCATACCTCAAAATCAGCAAATGCAACTGGCATTCCAC
* *
4704878 TAATCACAAGATTC-TTGGGTCATTTAAAAAATCTAACAAAACAAAGGCTTATATGTTGCATCAT
1 TAATCAAAAGATTCATT-GGTCATTTAAAAAATCT-----AACAAAGGCCTATATGTTGCATCAT
4704942 TATGTTTGCATACCTCAAAATCAGCAAATGCAACTGGCATTC
60 TATGTTTGCATACCTCAAAATCAGCAAATGCAACTGGCATTC
4704984 GACTTTTAGC
Statistics
Matches: 97, Mismatches: 3, Indels: 7
0.91 0.03 0.07
Matches are distributed among these distances:
103 2 0.02
104 30 0.31
109 65 0.67
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (104 bp):
TAATCAAAAGATTCATTGGTCATTTAAAAAATCTAACAAAGGCCTATATGTTGCATCATTATGTT
TGCATACCTCAAAATCAGCAAATGCAACTGGCATTCCAC
Found at i:4708123 original size:17 final size:17
Alignment explanation
Indices: 4708102--4708139 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 17
4708092 TTATTAAATT
4708102 AAAAATAATTAAATTATAA
1 AAAAATAA--AAATTATAA
4708121 AAAAATAAAAATTATAA
1 AAAAATAAAAATTATAA
4708138 AA
1 AA
4708140 CTTATGTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 11 0.58
19 8 0.42
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAAATAAAAATTATAA
Found at i:4708221 original size:23 final size:23
Alignment explanation
Indices: 4708195--4708238 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
4708185 ATTTATTGAA
4708195 ATTAACCAAAACAAATAAAAATG
1 ATTAACCAAAACAAATAAAAATG
4708218 ATTAACCAAAACAAATAAAAA
1 ATTAACCAAAACAAATAAAAA
4708239 CAATCAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.68, C:0.14, G:0.02, T:0.16
Consensus pattern (23 bp):
ATTAACCAAAACAAATAAAAATG
Found at i:4709596 original size:3 final size:3
Alignment explanation
Indices: 4709590--4709626 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
4709580 GATGATGATG
4709590 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4709627 AAAAAAAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4709663 original size:20 final size:18
Alignment explanation
Indices: 4709619--4709696 Score: 50
Period size: 19 Copynumber: 3.9 Consensus size: 18
4709609 TAATAATAAT
4709619 AATAATAAAAAAAAAAAGA
1 AATAA-AAAAAAAAAAAGA
**
4709638 TCTAAAAAAAAATAAAATGA
1 AATAAAAAAAAA-AAAA-GA
*
4709658 AATAAAAATGAAAACAAA-A
1 AATAAAAA--AAAAAAAAGA
4709677 AATAAATTAAAAAAGAAAAG
1 AATAAA--AAAAAA-AAAAG
4709697 GAATTACCTA
Statistics
Matches: 45, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
18 7 0.16
19 18 0.40
20 11 0.24
21 5 0.11
22 4 0.09
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.14
Consensus pattern (18 bp):
AATAAAAAAAAAAAAAGA
Found at i:4711033 original size:43 final size:42
Alignment explanation
Indices: 4710976--4711218 Score: 227
Period size: 43 Copynumber: 5.7 Consensus size: 42
4710966 GATAGGATCC
* * *
4710976 TCTAAATAGAGGCTAAATAACTTTAAAATATGAAATGGGCTCT
1 TCTAAATAAAGGCTAAACAACTTTAAAATA-GAAATGAGCTCT
** * * *
4711019 TCTATTTAAAGGCTAAACAACTTTAAAATAGGAATGGGCTCC
1 TCTAAATAAAGGCTAAACAACTTTAAAATAGAAATGAGCTCT
* * * * *
4711061 TCTAAACAGAGGCTAAACAACTTTAAAATAGGGAATGAACTTT
1 TCTAAATAAAGGCTAAACAACTTTAAAATA-GAAATGAGCTCT
* * * * * *
4711104 TTTGAACAGAGGCTAAATAACTTTAAAATATGAAACGAGCTTCT
1 TCTAAATAAAGGCTAAACAACTTTAAAATA-GAAATGAGC-TCT
* * * *
4711148 T-TGAGTAAAGGCTAAACAATTTTAAAATAAAAATGAGCTCT
1 TCTAAATAAAGGCTAAACAACTTTAAAATAGAAATGAGCTCT
*
4711189 TCTAAATAGAGGCTAAACAACTTTAAAATA
1 TCTAAATAAAGGCTAAACAACTTTAAAATA
4711219 ATTCTCTAAC
Statistics
Matches: 164, Mismatches: 33, Indels: 7
0.80 0.16 0.03
Matches are distributed among these distances:
41 4 0.02
42 67 0.41
43 90 0.55
44 3 0.02
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.28
Consensus pattern (42 bp):
TCTAAATAAAGGCTAAACAACTTTAAAATAGAAATGAGCTCT
Found at i:4711158 original size:128 final size:128
Alignment explanation
Indices: 4710983--4711218 Score: 359
Period size: 128 Copynumber: 1.8 Consensus size: 128
4710973 TCCTCTAAAT
* * *
4710983 AGAGGCTAAATAACTTTAAAATATGAAATGGGCTCTTCTATTTAAAGGCTAAACAACTTTAAAAT
1 AGAGGCTAAATAACTTTAAAATATGAAACGAGCTCTTCTATGTAAAGGCTAAACAACTTTAAAAT
** *
4711048 AGGAATGGGCTCCTCTAAACAGAGGCTAAACAACTTTAAAATAGGGAATGAACTTTTTTGAAC
66 AAAAATGAGCTCCTCTAAACAGAGGCTAAACAACTTTAAAATAGGGAATGAACTTTTTTGAAC
*
4711111 AGAGGCTAAATAACTTTAAAATATGAAACGAGCTTCTT-TGA-GTAAAGGCTAAACAATTTTAAA
1 AGAGGCTAAATAACTTTAAAATATGAAACGAGC-TCTTCT-ATGTAAAGGCTAAACAACTTTAAA
* *
4711174 ATAAAAATGAGCTCTTCTAAATAGAGGCTAAACAACTTTAAAATA
64 ATAAAAATGAGCTCCTCTAAACAGAGGCTAAACAACTTTAAAATA
4711219 ATTCTCTAAC
Statistics
Matches: 97, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
128 92 0.95
129 5 0.05
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (128 bp):
AGAGGCTAAATAACTTTAAAATATGAAACGAGCTCTTCTATGTAAAGGCTAAACAACTTTAAAAT
AAAAATGAGCTCCTCTAAACAGAGGCTAAACAACTTTAAAATAGGGAATGAACTTTTTTGAAC
Found at i:4720610 original size:17 final size:17
Alignment explanation
Indices: 4720569--4720610 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
4720559 ATAAATTGCC
4720569 CAATAAAAATAAAAAAAT
1 CAAT-AAAATAAAAAAAT
*
4720587 CAGTAAAATAAAATAAAT
1 CAATAAAATAAAA-AAAT
4720605 -AATAAA
1 CAATAAA
4720611 TTACTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (17 bp):
CAATAAAATAAAAAAAT
Found at i:4721488 original size:19 final size:19
Alignment explanation
Indices: 4721463--4721504 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
4721453 GCAGATCAAG
*
4721463 AAAAAAAAAAGAAAAAAAGT
1 AAAAAATAAA-AAAAAAAGT
*
4721483 AAAAAATAAAAATAAAAGT
1 AAAAAATAAAAAAAAAAGT
4721502 AAA
1 AAA
4721505 GTTGATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (19 bp):
AAAAAATAAAAAAAAAAGT
Found at i:4721517 original size:3 final size:3
Alignment explanation
Indices: 4721509--4721608 Score: 54
Period size: 3 Copynumber: 36.0 Consensus size: 3
4721499 AGTAAAGTTG
* * *
4721509 ATA ATA AT- ATA AT- ATA AT- ATA AT- ATA GT- ATA CT- ATA CTA -TA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
4721550 ATA AT- ATA GTA CTA GTA ATA ATA ATA ATA ATA ATA ATA GTA CTA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
4721597 ATA AAA ATA ATA
1 ATA ATA ATA ATA
4721609 TAAATAAAAT
Statistics
Matches: 74, Mismatches: 15, Indels: 16
0.70 0.14 0.15
Matches are distributed among these distances:
2 14 0.19
3 60 0.81
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:4721530 original size:15 final size:15
Alignment explanation
Indices: 4721512--4721615 Score: 61
Period size: 15 Copynumber: 6.6 Consensus size: 15
4721502 AAAGTTGATA
4721512 ATAATATAATATAAT
1 ATAATATAATATAAT
* *
4721527 ATAATATAGTATACT
1 ATAATATAATATAAT
*
4721542 ATACTATAATA-ATAT
1 ATAATATAATATA-AT
*
4721557 AGTACTAGTAATAATAAT
1 A-TAATA-TAAT-ATAAT
*
4721575 AATAATAATAATAGTACT
1 -ATAAT-ATAATA-TAAT
*
4721593 AGTAATA-AAAATAAT
1 A-TAATATAATATAAT
4721608 ATAA-ATAA
1 ATAATATAA
4721616 AATATTGAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 21
0.70 0.09 0.21
Matches are distributed among these distances:
13 1 0.01
14 6 0.09
15 28 0.40
16 8 0.11
17 7 0.10
18 17 0.24
19 3 0.04
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.35
Consensus pattern (15 bp):
ATAATATAATATAAT
Found at i:4721544 original size:20 final size:19
Alignment explanation
Indices: 4721509--4721575 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 19
4721499 AGTAAAGTTG
*
4721509 ATAATA-ATATAATATAAT
1 ATAATATATATACTATAAT
*
4721527 ATAATATAGTATACTATACT
1 ATAATATA-TATACTATAAT
4721547 ATAATAATATAGTACTAGTAAT
1 ATAAT-ATATA-TACTA-TAAT
4721569 AATAATA
1 -ATAATA
4721576 ATAATAATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 6 0.15
19 1 0.03
20 16 0.40
21 8 0.20
22 4 0.10
23 5 0.12
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.37
Consensus pattern (19 bp):
ATAATATATATACTATAAT
Found at i:4721573 original size:23 final size:21
Alignment explanation
Indices: 4721509--4721578 Score: 65
Period size: 23 Copynumber: 3.3 Consensus size: 21
4721499 AGTAAAGTTG
*
4721509 ATAATA-A-TATAATATAAT-
1 ATAATATAGTATACTATAATA
4721527 ATAATATAGTATACTATACTATA
1 ATAATATAGTATACTATA--ATA
*
4721550 ATAATATAGTACTAGTAATAATA
1 ATAATATAGTA-TACT-ATAATA
4721573 ATAATA
1 ATAATA
4721579 ATAATAATAG
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
18 6 0.14
19 1 0.02
20 8 0.19
22 2 0.05
23 20 0.47
24 3 0.07
25 3 0.07
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.37
Consensus pattern (21 bp):
ATAATATAGTATACTATAATA
Found at i:4721615 original size:30 final size:30
Alignment explanation
Indices: 4721547--4721608 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
4721537 ATACTATACT
*
4721547 ATAATAAT-ATAGTACTAGTAATAATAATA
1 ATAATAATAATAGTACTAGTAATAAAAATA
4721576 ATAATAATAATAGTACTAGTAATAAAAATA
1 ATAATAATAATAGTACTAGTAATAAAAATA
4721606 ATA
1 ATA
4721609 TAAATAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 8 0.26
30 23 0.74
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.32
Consensus pattern (30 bp):
ATAATAATAATAGTACTAGTAATAAAAATA
Found at i:4722035 original size:111 final size:110
Alignment explanation
Indices: 4721920--4722133 Score: 241
Period size: 110 Copynumber: 1.9 Consensus size: 110
4721910 GGACTAAGCC
* * *
4721920 AAGATTAAACAATCGGGATTAAA-CTGCAAGCCTAAAAAATTGACCTGGATCGAGTTGAGGTCAA
1 AAGATCAAACAATCGAGATTAAATC-GCAAGCCTAAAAAA-TGACCTGGATCGAGTCGAGGTCAA
** *
4721984 ACAACTGAGATTAAATCATAAGTATGAAAAATGATCTAGAGTAGGTT
64 ACAACCAAGATTAAATCACAAGTATGAAAAATGATCTAGAGTAGGTT
** * * * * ** *
4722031 AAGATCAAATGATCGAGATTGAATCGTAAGTCTAAAAAATGACCTGGATCGGGTCGAGGTTGAAT
1 AAGATCAAACAATCGAGATTAAATCGCAAGCCTAAAAAATGACCTGGATCGAGTCGAGGTCAAAC
* * *
4722096 GACCAAGATTAAATTACAAGTTTGAAAAATGATCTAGA
66 AACCAAGATTAAATCACAAGTATGAAAAATGATCTAGA
4722134 TTGAGCCAAG
Statistics
Matches: 84, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
110 53 0.63
111 30 0.36
112 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.25
Consensus pattern (110 bp):
AAGATCAAACAATCGAGATTAAATCGCAAGCCTAAAAAATGACCTGGATCGAGTCGAGGTCAAAC
AACCAAGATTAAATCACAAGTATGAAAAATGATCTAGAGTAGGTT
Found at i:4723495 original size:54 final size:49
Alignment explanation
Indices: 4723410--4723556 Score: 161
Period size: 49 Copynumber: 2.9 Consensus size: 49
4723400 TACTTAGTTT
* * *
4723410 AAGCCACCATTTTAGGTTTTCAACTTAAACTCTCACTTTTTTTTCCTTTGGCTC
1 AAGCC-CCCTTTTAAGTTTTCAACTTGAACTCT--CTTTTTTTT--TTTGGCTC
* * *
4723464 AAGCCGCCCTTTTATGTTTTTAACTTGAACTCT-TTTTTTTTTTTTGCTC
1 AAGCC-CCCTTTTAAGTTTTCAACTTGAACTCTCTTTTTTTTTTTGGCTC
*
4723513 AAGCCACCTTTTCAAGTTTTCAACTTGAACTCTCTTTTTTTTTT
1 AAGCCCCCTTTT-AAGTTTTCAACTTGAACTCTCTTTTTTTTTT
4723557 ACTTAAATAA
Statistics
Matches: 82, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
48 6 0.07
49 30 0.37
50 10 0.12
51 8 0.10
54 28 0.34
ACGTcount: A:0.18, C:0.23, G:0.09, T:0.50
Consensus pattern (49 bp):
AAGCCCCCTTTTAAGTTTTCAACTTGAACTCTCTTTTTTTTTTTGGCTC
Found at i:4734072 original size:8 final size:8
Alignment explanation
Indices: 4734059--4734176 Score: 67
Period size: 8 Copynumber: 14.2 Consensus size: 8
4734049 ATTACTCAAT
4734059 AAAAATAA
1 AAAAATAA
*
4734067 AAAAATAG
1 AAAAATAA
*
4734075 TAAAATAA
1 AAAAATAA
4734083 AATAAATAA
1 AA-AAATAA
* *
4734092 TAAAATACT
1 AAAAATA-A
*
4734101 AAAAATTA
1 AAAAATAA
*
4734109 AAAAATAT
1 AAAAATAA
*
4734117 AAATATAA
1 AAAAATAA
* *
4734125 AAAACTTA
1 AAAAATAA
*
4734133 AAAAACAA
1 AAAAATAA
**
4734141 AATGAT-A
1 AAAAATAA
4734148 AAAAATAA
1 AAAAATAA
*
4734156 AATCAAAAAA
1 AA--AAATAA
4734166 TAAAAATAA
1 -AAAAATAA
4734175 AA
1 AA
4734177 TGAAAATGAA
Statistics
Matches: 78, Mismatches: 26, Indels: 12
0.67 0.22 0.10
Matches are distributed among these distances:
7 5 0.06
8 49 0.63
9 17 0.22
10 5 0.06
11 2 0.03
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.19
Consensus pattern (8 bp):
AAAAATAA
Found at i:4734089 original size:17 final size:16
Alignment explanation
Indices: 4734060--4734191 Score: 67
Period size: 17 Copynumber: 7.8 Consensus size: 16
4734050 TTACTCAATA
*
4734060 AAAATAAAAAAATAGT
1 AAAATAAAAAAATAAT
4734076 AAAATAAAATAAATAAT
1 AAAATAAAA-AAATAAT
*
4734093 AAAATACTAAAAATTAA-
1 AAAATA--AAAAAATAAT
* *
4734110 AAAATATAAATATAA-
1 AAAATAAAAAAATAAT
*
4734125 AAAACTTAAAAAACAAAAT
1 AAAA--TAAAAAA-ATAAT
4734144 GATAAA-AAATAAAATCAA-
1 -A-AAATAAA-AAAAT-AAT
4734162 AAAATAAAAATAA-AAT
1 AAAATAAAAA-AATAAT
4734178 GAAAATGAAAAAAA
1 -AAAAT-AAAAAAA
4734192 GAAACCCTGT
Statistics
Matches: 91, Mismatches: 9, Indels: 31
0.69 0.07 0.24
Matches are distributed among these distances:
15 12 0.13
16 14 0.15
17 36 0.40
18 17 0.19
19 8 0.09
20 1 0.01
21 3 0.03
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (16 bp):
AAAATAAAAAAATAAT
Found at i:4734103 original size:15 final size:15
Alignment explanation
Indices: 4734085--4734170 Score: 63
Period size: 15 Copynumber: 5.8 Consensus size: 15
4734075 TAAAATAAAA
*
4734085 TAAATAATAAAATAC
1 TAAAAAATAAAATAC
* *
4734100 TAAAAATTAAAA-AA
1 TAAAAAATAAAATAC
* *
4734114 TATAAATATAAAAAAC
1 TA-AAAAATAAAATAC
*
4734130 TTAAAAAACAAAATGA-
1 -TAAAAAATAAAAT-AC
4734146 TAAAAAATAAAAT-C
1 TAAAAAATAAAATAC
4734160 -AAAAAATAAAA
1 TAAAAAATAAAA
4734171 ATAAAATGAA
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
13 11 0.20
14 3 0.05
15 30 0.54
16 9 0.16
17 3 0.05
ACGTcount: A:0.73, C:0.05, G:0.01, T:0.21
Consensus pattern (15 bp):
TAAAAAATAAAATAC
Found at i:4734114 original size:25 final size:24
Alignment explanation
Indices: 4734059--4734137 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 24
4734049 ATTACTCAAT
* *
4734059 AAAAATAAAAAAATAGT-AAAATAA
1 AAAAATAATAAAATA-TAAAAATTA
4734083 AATAAATAATAAAATACTAAAAATTA
1 AA-AAATAATAAAATA-TAAAAATTA
4734109 AAAAAT-AT-AAATATAAAAAACTTA
1 AAAAATAATAAAATAT-AAAAA-TTA
4734133 AAAAA
1 AAAAA
4734138 CAAAATGATA
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
22 1 0.02
23 10 0.21
24 12 0.25
25 17 0.35
26 8 0.17
ACGTcount: A:0.75, C:0.03, G:0.01, T:0.22
Consensus pattern (24 bp):
AAAAATAATAAAATATAAAAATTA
Found at i:4734119 original size:31 final size:30
Alignment explanation
Indices: 4734075--4734171 Score: 92
Period size: 31 Copynumber: 3.2 Consensus size: 30
4734065 AAAAAAATAG
*
4734075 TAAAATAAAATAAATAATAAAATACTAAAAA
1 TAAAA-AATATAAATAATAAAATACTAAAAA
*
4734106 TTAAAAAATATAAAT-ATAAAAAACTTAAAAA
1 -TAAAAAATATAAATAATAAAATAC-TAAAAA
* * *
4734137 -ACAAAATGATAAAAAATAAAAT-CAAAAAA
1 TAAAAAAT-ATAAATAATAAAATACTAAAAA
4734166 TAAAAA
1 TAAAAA
4734172 TAAAATGAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
29 11 0.20
30 18 0.33
31 20 0.37
32 5 0.09
ACGTcount: A:0.74, C:0.04, G:0.01, T:0.21
Consensus pattern (30 bp):
TAAAAAATATAAATAATAAAATACTAAAAA
Found at i:4734190 original size:19 final size:18
Alignment explanation
Indices: 4734147--4734182 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
4734137 ACAAAATGAT
4734147 AAAAAATAAAATCAAAAA
1 AAAAAATAAAATCAAAAA
*
4734165 ATAAAAATAAAATGAAAA
1 A-AAAAATAAAATCAAAA
4734183 TGAAAAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 1 0.06
19 15 0.94
ACGTcount: A:0.81, C:0.03, G:0.03, T:0.14
Consensus pattern (18 bp):
AAAAAATAAAATCAAAAA
Found at i:4735013 original size:3 final size:3
Alignment explanation
Indices: 4735000--4735102 Score: 103
Period size: 3 Copynumber: 36.3 Consensus size: 3
4734990 AAATAAAGAA
*
4735000 AAT AA- AAT AAT AAT -AT AA- CAT AAT AAT AAT ATAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
* * * *
4735042 -AT ACT -AT ACT -AT AAT AAT GAT AAT GAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4735087 AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
4735103 TACATAAAAG
Statistics
Matches: 82, Mismatches: 10, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
2 11 0.13
3 68 0.83
4 3 0.04
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:4737436 original size:33 final size:33
Alignment explanation
Indices: 4737399--4737461 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
4737389 TATTGTTAGT
* **
4737399 CATTTTTTTAATAAACAAATGAATAAATAAAGA
1 CATTTTTTTAAAAAACAAACAAATAAATAAAGA
*
4737432 CATTTTTTTAAAAAATAAACAAATAAATAA
1 CATTTTTTTAAAAAACAAACAAATAAATAA
4737462 GTAAAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.33
Consensus pattern (33 bp):
CATTTTTTTAAAAAACAAACAAATAAATAAAGA
Found at i:4737555 original size:21 final size:24
Alignment explanation
Indices: 4737517--4737562 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 24
4737507 GATGATGATG
4737517 ATAATAATAATATCTAAAAAATAA
1 ATAATAATAATATCTAAAAAATAA
*
4737541 ATAA-AATAA-AT-TAAAAGATAA
1 ATAATAATAATATCTAAAAAATAA
4737562 A
1 A
4737563 AGGAATTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 10 0.48
22 2 0.10
23 5 0.24
24 4 0.19
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (24 bp):
ATAATAATAATATCTAAAAAATAA
Found at i:4743284 original size:44 final size:44
Alignment explanation
Indices: 4743199--4743279 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
4743189 ATAAATCTTT
* *
4743199 TAAAAAATTAATTAATTTTATCGATTTAATTATTATTTTAAAAA
1 TAAAAAATCAATTAAATTTATCGATTTAATTATTATTTTAAAAA
4743243 TAAAAAATCAATTAAATTTATC-ATTTAA--ATTATTTTA
1 TAAAAAATCAATTAAATTTATCGATTTAATTATTATTTTA
4743280 TTAAATTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
41 9 0.26
43 6 0.17
44 20 0.57
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (44 bp):
TAAAAAATCAATTAAATTTATCGATTTAATTATTATTTTAAAAA
Found at i:4744137 original size:21 final size:23
Alignment explanation
Indices: 4744113--4744155 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
4744103 TTCGAATCTT
*
4744113 TATTTTTGTAAT-TT-TTTTTTA
1 TATTCTTGTAATGTTATTTTTTA
4744134 TATTCTTGTAATGTTATTTTTT
1 TATTCTTGTAATGTTATTTTTT
4744156 TCATATTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 2 0.11
23 6 0.32
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.72
Consensus pattern (23 bp):
TATTCTTGTAATGTTATTTTTTA
Found at i:4753765 original size:23 final size:22
Alignment explanation
Indices: 4753738--4753795 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
4753728 ATCTAGTTTA
4753738 TTAATTTTTAAAATTATATT-TTT
1 TTAATTTTTAAAATT-T-TTATTT
*
4753761 TTAATTTTTAATATTTTTATTT
1 TTAATTTTTAAAATTTTTATTT
4753783 TT-ATTTTATAAAA
1 TTAATTTT-TAAAA
4753796 ATTTAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 7 0.23
22 10 0.32
23 14 0.45
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
TTAATTTTTAAAATTTTTATTT
Found at i:4754840 original size:32 final size:32
Alignment explanation
Indices: 4754780--4754842 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
4754770 TAATGACTCG
* *
4754780 TATATTTATATTTTATAAGATATTAAAATTAA
1 TATATTTATATTATATAAGATATAAAAATTAA
***
4754812 TATATTTATATTATATTTTATATAAAAATTA
1 TATATTTATATTATATAAGATATAAAAATTA
4754843 TGTATCATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (32 bp):
TATATTTATATTATATAAGATATAAAAATTAA
Found at i:4754952 original size:19 final size:19
Alignment explanation
Indices: 4754930--4754986 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
4754920 AAATTTTAAA
4754930 TTATATCATTTTTATATTT
1 TTATATCATTTTTATATTT
*
4754949 TTATATCATATTTATA---
1 TTATATCATTTTTATATTT
4754965 TTATATCATCTTATTATATTT
1 TTATATCAT-TT-TTATATTT
4754986 T
1 T
4754987 AAATTATCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
16 9 0.29
17 1 0.03
18 5 0.16
19 15 0.48
21 1 0.03
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (19 bp):
TTATATCATTTTTATATTT
Found at i:4754959 original size:24 final size:24
Alignment explanation
Indices: 4754913--4754959 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
4754903 ATAAATAATT
*
4754913 ATTTTTAAAATTTTAAATTATATC
1 ATTTTTAAAATTTTAAATCATATC
* * *
4754937 ATTTTTATATTTTTATATCATAT
1 ATTTTTAAAATTTTAAATCATAT
4754960 TTATATTATA
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:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (24 bp):
ATTTTTAAAATTTTAAATCATATC
Found at i:4762356 original size:2 final size:2
Alignment explanation
Indices: 4762349--4762385 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4762339 GAAGATGATA
4762349 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
4762386 ATATATATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:4762390 original size:2 final size:2
Alignment explanation
Indices: 4762385--4762428 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
4762375 TCTCTCTCTC
* *
4762385 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA GA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4762427 TA
1 TA
4762429 CCATTAACTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (2 bp):
TA
Found at i:4766516 original size:225 final size:225
Alignment explanation
Indices: 4766124--4767024 Score: 1339
Period size: 225 Copynumber: 4.0 Consensus size: 225
4766114 ATTAATGTTA
4766124 ATTATTACAAAGCGACAACAAAATGCAATCAAGATATGCTCCTCAACTAACCAACATATATAGAA
1 ATTATTACAAAGCGACAACAAAATGCAATCAAGATATGCTCCTCAACTAACCAACATATATAGAA
* * ** *
4766189 AAAAGAAAAAGTTTATTGCTTATTAACAACATCTAGTTCAATTTGCATCTAAAGGTAATTATCAT
66 AAAAGAAAATGTTTATTGCTTATCAACAACATCTAGTTCTGTTCGCATCTAAAGGTAATTATCAT
* *
4766254 TAACTATTGGTAATTATCAGAACATGACACTGAAAAAAATCCAGACATCCTTTATTACCAATGAG
131 TAACCATTGGTAATTATCAGAACACGACACTGAAAAAAATCCAGACATCCTTTATTACCAATGAG
*
4766319 CAATAGCTTATTTTACTATCATTTAATCGT
196 CAATAGCTTATTTTACTATCATTTAAACGT
*
4766349 ATTATTA-AATAGCGACAACCAAAA-GCAATCAAGATGTGCTCCTCAACTAACCAACATATATAG
1 ATTATTACAA-AGCGACAA-CAAAATGCAATCAAGATATGCTCCTCAACTAACCAACATATATAG
* * * **
4766412 GAAAAAGAAAATGTTTATTGCTTATCAACAACATCTAGTTGTGTTCACATCTACCGGTAATTATC
64 AAAAAAGAAAATGTTTATTGCTTATCAACAACATCTAGTTCTGTTCGCATCTAAAGGTAATTATC
* * * *
4766477 ATTAACCATTGGTAATTATCAGAACATGACCCCGAAAAAATTCCAGACATCCTTTATTACCAATG
129 ATTAACCATTGGTAATTATCAGAACACGACACTGAAAAAAATCCAGACATCCTTTATTACCAATG
*
4766542 AGCAATAGCTTATTTTACTATCATTTAAACAT
194 AGCAATAGCTTATTTTACTATCATTTAAACGT
* *
4766574 ATTATTACAAAGCAACAACCAAAA-GCAATCAAGCTGA-GCTCCTCAACTAACCAACATATATAG
1 ATTATTACAAAGCGACAA-CAAAATGCAATCAAGAT-ATGCTCCTCAACTAACCAACATATATAG
4766637 AAAAAAGAAAATGTTTATTGCTTATCAACAACATCTAGTTCTGTTCGCATCTAAAGGTAATTATC
64 AAAAAAGAAAATGTTTATTGCTTATCAACAACATCTAGTTCTGTTCGCATCTAAAGGTAATTATC
* * ** *
4766702 ATTAACCATTAGTAAATATCAGAATGCGAAACTG-AAAAAATCCAGACATCCTTTATTACCAATG
129 ATTAACCATTGGTAATTATCAGAACACGACACTGAAAAAAATCCAGACATCCTTTATTACCAATG
*
4766766 AGCAATAGCTTATTTTACTATCATTTAAAAGT
194 AGCAATAGCTTATTTTACTATCATTTAAACGT
* * * * *
4766798 ATTATTACAGAGCGACAACAAAATGCAATCAATATATGCTTCTCAACTAATCAACATACATAGAA
1 ATTATTACAAAGCGACAACAAAATGCAATCAAGATATGCTCCTCAACTAACCAACATATATAGAA
** ** * *
4766863 AAAAGAAAACATTTATTGCTTATCCCCAACATCAAGTTCT-TTTGCATCTAAAGGTAATTATCAT
66 AAAAGAAAATGTTTATTGCTTATCAACAACATCTAGTTCTGTTCGCATCTAAAGGTAATTATCAT
* *
4766927 TAACTATTGGTAATTATCAGAA-AGCGACACTGAAAAAAATCCAGACATTCTTTATTACCAATGA
131 TAACCATTGGTAATTATCAGAACA-CGACACTGAAAAAAATCCAGACATCCTTTATTACCAATGA
*
4766991 GCAATAGCTTATTTTACTATCATTTAAATGT
195 GCAATAGCTTATTTTACTATCATTTAAACGT
4767022 ATT
1 ATT
4767025 TCATGTTCTC
Statistics
Matches: 612, Mismatches: 56, Indels: 17
0.89 0.08 0.02
Matches are distributed among these distances:
223 55 0.09
224 209 0.34
225 341 0.56
226 7 0.01
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (225 bp):
ATTATTACAAAGCGACAACAAAATGCAATCAAGATATGCTCCTCAACTAACCAACATATATAGAA
AAAAGAAAATGTTTATTGCTTATCAACAACATCTAGTTCTGTTCGCATCTAAAGGTAATTATCAT
TAACCATTGGTAATTATCAGAACACGACACTGAAAAAAATCCAGACATCCTTTATTACCAATGAG
CAATAGCTTATTTTACTATCATTTAAACGT
Found at i:4766966 original size:449 final size:449
Alignment explanation
Indices: 4766124--4767018 Score: 1343
Period size: 449 Copynumber: 2.0 Consensus size: 449
4766114 ATTAATGTTA
*
4766124 ATTATTACAAAGCGACAACAAAATGCAATCAAGATATGCTCCTCAACTAACCAACATATATAGAA
1 ATTATTACAAAGCAACAACAAAATGCAATCAAGATATGCTCCTCAACTAACCAACATATATAGAA
* *
4766189 AAAAGAAAAAGTTTATTGCTTATTAACAACATCTAGTTCAATTTGCATCTAAAGGTAATTATCAT
66 AAAAGAAAAAGTTTATTGCTTATCAACAACATCTAGTTCAATTCGCATCTAAAGGTAATTATCAT
* * * * *
4766254 TAACTATTGGTAATTATCAGAACATGACACTGAAAAAAATCCAGACATCCTTTATTACCAATGAG
131 TAACCATTAGTAAATATCAGAACACGAAACTGAAAAAAATCCAGACATCCTTTATTACCAATGAG
** *
4766319 CAATAGCTTATTTTACTATCATTTAATCGTATTATTAAATAGCGACAACCAAAAGCAATCAAGAT
196 CAATAGCTTATTTTACTATCATTTAAAAGTATTATTAAAGAGCGACAACCAAAAGCAATCAAGAT
* * * ** *
4766384 GTGCTCCTCAACTAACCAACATATATAGGAAAAAGAAAATGTTTATTGCTTATCAACAACATCTA
261 ATGCTCCTCAACTAACCAACATACATAGAAAAAAGAAAACATTTATTGCTTATCAACAACATCAA
* ** * *
4766449 GTTGTGTTCACATCTACCGGTAATTATCATTAACCATTGGTAATTATCAGAACATGACCCCGAAA
326 GTTCTGTTCACATCTAAAGGTAATTATCATTAACCATTGGTAATTATCAGAACACGACACCGAAA
4766514 AAATTCCAGACATCCTTTATTACCAATGAGCAATAGCTTATTTTACTATCATTTAAACAT
391 AAA-TCCAGACATCCTTTATTACCAATGAGCAATAGCTTATTTTACTATCATTTAAACAT
*
4766574 ATTATTACAAAGCAACAACCAAAA-GCAATCAAGCTGA-GCTCCTCAACTAACCAACATATATAG
1 ATTATTACAAAGCAACAA-CAAAATGCAATCAAGAT-ATGCTCCTCAACTAACCAACATATATAG
* **
4766637 AAAAAAGAAAATGTTTATTGCTTATCAACAACATCTAGTTCTGTTCGCATCTAAAGGTAATTATC
64 AAAAAAGAAAAAGTTTATTGCTTATCAACAACATCTAGTTCAATTCGCATCTAAAGGTAATTATC
**
4766702 ATTAACCATTAGTAAATATCAGAATGCGAAACTG-AAAAAATCCAGACATCCTTTATTACCAATG
129 ATTAACCATTAGTAAATATCAGAACACGAAACTGAAAAAAATCCAGACATCCTTTATTACCAATG
*
4766766 AGCAATAGCTTATTTTACTATCATTTAAAAGTATTATTACAGAGCGACAA-CAAAATGCAATCAA
194 AGCAATAGCTTATTTTACTATCATTTAAAAGTATTATTAAAGAGCGACAACCAAAA-GCAATCAA
* * * **
4766830 TATATGCTTCTCAACTAATCAACATACATAGAAAAAAGAAAACATTTATTGCTTATCCCCAACAT
258 GATATGCTCCTCAACTAACCAACATACATAGAAAAAAGAAAACATTTATTGCTTATCAACAACAT
** * *
4766895 CAAGTTCT-TTTGCATCTAAAGGTAATTATCATTAACTATTGGTAATTATCAGAA-AGCGACACT
323 CAAGTTCTGTTCACATCTAAAGGTAATTATCATTAACCATTGGTAATTATCAGAACA-CGACACC
*
4766958 GAAAAAAATCCAGACATTCTTTATTACCAATGAGCAATAGCTTATTTTACTATCATTTAAA
387 G-AAAAAATCCAGACATCCTTTATTACCAATGAGCAATAGCTTATTTTACTATCATTTAAA
4767019 TGTATTTCAT
Statistics
Matches: 401, Mismatches: 39, Indels: 12
0.89 0.09 0.03
Matches are distributed among these distances:
447 1 0.00
448 103 0.26
449 151 0.38
450 140 0.35
451 6 0.01
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.30
Consensus pattern (449 bp):
ATTATTACAAAGCAACAACAAAATGCAATCAAGATATGCTCCTCAACTAACCAACATATATAGAA
AAAAGAAAAAGTTTATTGCTTATCAACAACATCTAGTTCAATTCGCATCTAAAGGTAATTATCAT
TAACCATTAGTAAATATCAGAACACGAAACTGAAAAAAATCCAGACATCCTTTATTACCAATGAG
CAATAGCTTATTTTACTATCATTTAAAAGTATTATTAAAGAGCGACAACCAAAAGCAATCAAGAT
ATGCTCCTCAACTAACCAACATACATAGAAAAAAGAAAACATTTATTGCTTATCAACAACATCAA
GTTCTGTTCACATCTAAAGGTAATTATCATTAACCATTGGTAATTATCAGAACACGACACCGAAA
AAATCCAGACATCCTTTATTACCAATGAGCAATAGCTTATTTTACTATCATTTAAACAT
Found at i:4769786 original size:15 final size:16
Alignment explanation
Indices: 4769731--4769797 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 16
4769721 TACTTATTTT
* *
4769731 TTAATATTAAAGATTA
1 TTAAAATTAAAAATTA
4769747 TTAAAATTTAAATCGTAATTA
1 TTAAAA-TTAAA----AATTA
4769768 TTAAAATTAAAAATT-
1 TTAAAATTAAAAATTA
*
4769783 TTAACATTAAAAATT
1 TTAAAATTAAAAATT
4769798 CACCTGACCA
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
15 14 0.33
16 9 0.21
17 5 0.12
20 5 0.12
21 10 0.23
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (16 bp):
TTAAAATTAAAAATTA
Found at i:4770065 original size:56 final size:56
Alignment explanation
Indices: 4769958--4770065 Score: 162
Period size: 56 Copynumber: 1.9 Consensus size: 56
4769948 AGGGAAGACT
* * * *
4769958 ATTTTTTTATAAGAAAAGGGATAGATTTCAATTCCTTTTCTTCAGATTCAAAACAA
1 ATTTTTTTATAAGAAAAGGGATAAATTTCAATTCCTCTTCTTCAAAATCAAAACAA
* *
4770014 ATTTTTTTATCAGAAAAGGGATAAATTTCAATTCCTCTTCTTTAAAATCAAA
1 ATTTTTTTATAAGAAAAGGGATAAATTTCAATTCCTCTTCTTCAAAATCAAA
4770066 TTTATTTCTA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 46 1.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (56 bp):
ATTTTTTTATAAGAAAAGGGATAAATTTCAATTCCTCTTCTTCAAAATCAAAACAA
Found at i:4786802 original size:11 final size:11
Alignment explanation
Indices: 4786786--4786810 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4786776 ATGGCTCTAC
4786786 TTTTTTTTTCT
1 TTTTTTTTTCT
4786797 TTTTTTTTTCT
1 TTTTTTTTTCT
4786808 TTT
1 TTT
4786811 AAAATTCTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:4790877 original size:78 final size:76
Alignment explanation
Indices: 4790809--4791006 Score: 201
Period size: 76 Copynumber: 2.6 Consensus size: 76
4790799 TTTTTATAGT
* *
4790809 TTCAACAAAAAAAGACATTTTTAAGGTTAAAAATAT-ATTTTTTGTTTAAAATATATTATAAAAA
1 TTCAACAAAAAAA-ACATTTTTAA-GATAAAAATATGA-TTTTTGTTGAAAATATATTATAAAAA
4790873 TTTATTTTTTAAAA
63 TTTATTTTTTAAAA
* * **
4790887 TTCAACAAAAACAACATTTTTAAGATAAAAATGTGATTTTTGTTGAAAATATA--A-AAAAAAGT
1 TTCAACAAAAAAAACATTTTTAAGATAAAAATATGATTTTTGTTGAAAATATATTATAAAAATTT
* *
4790949 ATTGTTTCATAA
66 ATT-TTTTAAAA
*
4790961 TTCAACAAAAAAAA-ATGTTTTTA-ATATAAAATATGCAATTTTTGTT
1 TTCAACAAAAAAAACAT-TTTTAAGATA-AAAATATG--ATTTTTGTT
4791007 TTCAAAATTT
Statistics
Matches: 103, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
73 14 0.14
74 32 0.31
76 34 0.33
77 11 0.11
78 12 0.12
ACGTcount: A:0.47, C:0.06, G:0.07, T:0.40
Consensus pattern (76 bp):
TTCAACAAAAAAAACATTTTTAAGATAAAAATATGATTTTTGTTGAAAATATATTATAAAAATTT
ATTTTTTAAAA
Found at i:4792507 original size:30 final size:30
Alignment explanation
Indices: 4792460--4792575 Score: 101
Period size: 30 Copynumber: 3.9 Consensus size: 30
4792450 TAGTAAGAGA
*
4792460 TTATTTATG-TACTAATTAAAGATTAAAAAT
1 TTATTTA-GATACAAATTAAAGATTAAAAAT
* * * ** *
4792490 TTATTTAAATACAAATTAGAGGTTATGAGT
1 TTATTTAGATACAAATTAAAGATTAAAAAT
* *
4792520 TTATTTAGATATAAATTAAA-AGTTAAAAAC
1 TTATTTAGATACAAATTAAAGA-TTAAAAAT
* *
4792550 TTATTTGGATACAAATTAAAAATTAA
1 TTATTTAGATACAAATTAAAGATTAA
4792576 TGACTTATTT
Statistics
Matches: 66, Mismatches: 17, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
30 65 0.98
31 1 0.02
ACGTcount: A:0.47, C:0.03, G:0.09, T:0.40
Consensus pattern (30 bp):
TTATTTAGATACAAATTAAAGATTAAAAAT
Found at i:4792582 original size:30 final size:28
Alignment explanation
Indices: 4792520--4792631 Score: 93
Period size: 30 Copynumber: 3.8 Consensus size: 28
4792510 GGTTATGAGT
* *
4792520 TTATTTAGATATAAATTAAAAGTTAAAAAC
1 TTATTTAGATA-AAATTAAAAATT-AAGAC
*
4792550 TTATTTGGATACAAATTAAAAATTAATGAC
1 TTATTTAGATA-AAATTAAAAATTAA-GAC
* *
4792580 TTATTTTGATATAA-TAAAAATATAGAGAC
1 TTATTTAGATAAAATTAAAAAT-TA-AGAC
*
4792609 TTATTTAAATAAAA-TAATAAATT
1 TTATTTAGATAAAATTAA-AAATT
4792632 TTAATAATTT
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
28 7 0.10
29 24 0.35
30 38 0.55
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (28 bp):
TTATTTAGATAAAATTAAAAATTAAGAC
Found at i:4796053 original size:36 final size:36
Alignment explanation
Indices: 4795963--4796057 Score: 129
Period size: 36 Copynumber: 2.6 Consensus size: 36
4795953 AAAGTTTATG
** *
4795963 CATATATAATAAATCTTTAATTCTTTTCTTTTCACA
1 CATATATAATAAATCTTTGGTTCTTTTCTTTTCAAA
* *
4795999 CATATATAGTACATCTTTGGTTCTTTT-TTTCTCAAA
1 CATATATAATAAATCTTTGGTTCTTTTCTTT-TCAAA
4796035 CATATATAATAAATCTTTGGTTC
1 CATATATAATAAATCTTTGGTTC
4796058 AGCATATACT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
35 3 0.06
36 48 0.94
ACGTcount: A:0.31, C:0.16, G:0.05, T:0.48
Consensus pattern (36 bp):
CATATATAATAAATCTTTGGTTCTTTTCTTTTCAAA
Found at i:4796862 original size:25 final size:25
Alignment explanation
Indices: 4796815--4796862 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
4796805 ATATCACAAT
* *
4796815 TTTTTTTTTAAAAAATGTATTATTC
1 TTTTTTATTAAAAAATATATTATTC
* *
4796840 TTTTTTATTATAAAATATTTTAT
1 TTTTTTATTAAAAAATATATTAT
4796863 CACCAAGTAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTTTTATTAAAAAATATATTATTC
Found at i:4797390 original size:7 final size:7
Alignment explanation
Indices: 4797380--4797517 Score: 55
Period size: 7 Copynumber: 17.9 Consensus size: 7
4797370 TTCGATTTAA
4797380 GATTTTG
1 GATTTTG
4797387 GATTTTAGG
1 GATTTT--G
4797396 GATTTTG
1 GATTTTG
4797403 GATTTTG
1 GATTTTG
*
4797410 AAGTTTTG
1 GA-TTTTG
4797418 GATTTTAAGGG
1 GATTTT----G
4797429 GATTTTG
1 GATTTTG
4797436 GATTTTAGG
1 GATTTT--G
*
4797445 GA-TTTA
1 GATTTTG
4797451 GATTTTAG
1 GATTTT-G
*
4797459 G-GTTTG
1 GATTTTG
4797465 GATTTTAGG
1 GATTTT--G
* *
4797474 GGTTTCG
1 GATTTTG
*
4797481 AATTTTAG
1 GATTTT-G
*
4797489 GGTTTTG
1 GATTTTG
*
4797496 GATTTAGG
1 GATTT-TG
4797504 AGATTTTG
1 -GATTTTG
4797512 GATTTT
1 GATTTT
4797518 TAAAGGGTTT
Statistics
Matches: 98, Mismatches: 16, Indels: 34
0.66 0.11 0.23
Matches are distributed among these distances:
6 4 0.04
7 50 0.51
8 17 0.17
9 20 0.20
11 7 0.07
ACGTcount: A:0.20, C:0.01, G:0.30, T:0.49
Consensus pattern (7 bp):
GATTTTG
Found at i:4797401 original size:16 final size:16
Alignment explanation
Indices: 4797380--4797551 Score: 155
Period size: 16 Copynumber: 10.9 Consensus size: 16
4797370 TTCGATTTAA
4797380 GATTTTGGATTTTAGG
1 GATTTTGGATTTTAGG
4797396 GATTTTGGATTTT--G
1 GATTTTGGATTTTAGG
*
4797410 AAGTTTTGGATTTTAAGGG
1 GA-TTTTGGATTTT-A-GG
4797429 GATTTTGGATTTTAGG
1 GATTTTGGATTTTAGG
*
4797445 GA-TTTAGATTTTAGG
1 GATTTTGGATTTTAGG
4797460 G--TTTGGATTTTAGG
1 GATTTTGGATTTTAGG
* * *
4797474 GGTTTCGAATTTTAGG
1 GATTTTGGATTTTAGG
4797490 G-TTTTGGA-TTTAGG
1 GATTTTGGATTTTAGG
4797504 AGATTTTGGATTTTTAAAGG
1 -GATTTTGGA-TTTT--AGG
*
4797524 G--TTTGGATTTAAGG
1 GATTTTGGATTTTAGG
*
4797538 AATTTTGGATTTTA
1 GATTTTGGATTTTA
4797552 AGGGGTTTTA
Statistics
Matches: 130, Mismatches: 11, Indels: 30
0.76 0.06 0.18
Matches are distributed among these distances:
14 24 0.18
15 30 0.23
16 49 0.38
17 7 0.05
18 14 0.11
19 3 0.02
20 3 0.02
ACGTcount: A:0.22, C:0.01, G:0.30, T:0.48
Consensus pattern (16 bp):
GATTTTGGATTTTAGG
Found at i:4797436 original size:33 final size:30
Alignment explanation
Indices: 4797382--4797560 Score: 114
Period size: 33 Copynumber: 5.6 Consensus size: 30
4797372 CGATTTAAGA
4797382 TTTTGGATTTTAGGGATTTTGGATTTTGAAG
1 TTTTGGATTTTAGGG-TTTTGGATTTTGAAG
*
4797413 TTTTGGATTTTAAGGGGATTTTGGATTTT-AGGG
1 TTTTGGATTTT-A-GGG-TTTTGGATTTTGA-AG
* * **
4797446 ATTTAGATTTTAGGG-TTTGGATTTTAGGGG
1 TTTTGGATTTTAGGGTTTTGGATTTT-GAAG
* * * *
4797476 TTTCGAATTTTAGGGTTTTGGATTTAGGAG
1 TTTTGGATTTTAGGGTTTTGGATTTTGAAG
*
4797506 ATTTTGGATTTTTAAAGGG-TTTGGATTTAAGGAA-
1 -TTTTGGA-TTTT--AGGGTTTTGGATTT--TGAAG
4797540 TTTTGGATTTTAAGGGGTTTT
1 TTTTGGATTTT-A-GGGTTTT
4797561 AAAAACTTAA
Statistics
Matches: 120, Mismatches: 14, Indels: 26
0.75 0.09 0.16
Matches are distributed among these distances:
29 10 0.08
30 16 0.13
31 30 0.25
32 14 0.12
33 44 0.37
34 4 0.03
35 2 0.02
ACGTcount: A:0.21, C:0.01, G:0.30, T:0.49
Consensus pattern (30 bp):
TTTTGGATTTTAGGGTTTTGGATTTTGAAG
Found at i:4797986 original size:22 final size:21
Alignment explanation
Indices: 4797961--4798001 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4797951 AAATAACAAA
*
4797961 AAAAATAATATAAAAAATTTAG
1 AAAAATAA-AAAAAAAATTTAG
*
4797983 AAAATTAAAAAAAAAATTT
1 AAAAATAAAAAAAAAATTT
4798002 TTTTTACCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAAATAAAAAAAAAATTTAG
Found at i:4799132 original size:15 final size:14
Alignment explanation
Indices: 4799112--4799170 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 14
4799102 TATTTCTTTA
4799112 TTTATTAATAATTAT
1 TTTATTAAT-ATTAT
4799127 TTTATT--TCATT-T
1 TTTATTAAT-ATTAT
4799139 TTTATTAAATTATTAT
1 TTTATT-AA-TATTAT
4799155 TATTATTAATATTAT
1 T-TTATTAATATTAT
4799170 T
1 T
4799171 ATTAAAATGA
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
12 7 0.19
13 4 0.11
15 16 0.43
16 5 0.14
17 5 0.14
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTATTAATATTAT
Found at i:4799132 original size:27 final size:28
Alignment explanation
Indices: 4799099--4799161 Score: 85
Period size: 27 Copynumber: 2.2 Consensus size: 28
4799089 TTTTTTATTT
4799099 TTTTATTTC-TTTATTTATT-AATAATTA
1 TTTTATTTCATTT-TTTATTAAATAATTA
*
4799126 TTTTATTTCATTTTTTATTAAATTATTA
1 TTTTATTTCATTTTTTATTAAATAATTA
4799154 TTATTATT
1 TT-TTATT
4799162 AATATTATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 15 0.47
28 12 0.38
29 5 0.16
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (28 bp):
TTTTATTTCATTTTTTATTAAATAATTA
Found at i:4799562 original size:110 final size:109
Alignment explanation
Indices: 4799314--4799753 Score: 423
Period size: 110 Copynumber: 4.0 Consensus size: 109
4799304 AAACACAAAA
* * * ** * *
4799314 CGATTGGGATGACACTGCAAGTCGAAAAATAATGAATCGATCGAGATAATATCGCGAATCGAATT
1 CGATTGGGATAACACCGTAAGTC-AAAAATAAAAAATCGATCGAGATAACATCGCAAATCGAATT
* * * * * * **
4799379 TATGCTCGGAGGTCTTACAAATCATGTCCGGAGGTCTTACAGAAT
65 TATGCCCAGAAGCCTTAGAAATCATGCCCAAAGGTCTTACAGAAT
* * ** * *
4799424 CGATTGGGATAACACCGCAAGTTGAAAAATAAAAAATTAATCGAGATAACACCGTAAATCGAATT
1 CGATTGGGATAACACCGTAAG-TCAAAAATAAAAAATCGATCGAGATAACATCGCAAATCGAATT
* * * *
4799489 TATGCCC-GAAAGCCTTATAGAGTTATGCTCAAAGGTCTTACAGAAT
65 TATGCCCAG-AAGCCTTAGA-AATCATGCCCAAAGGTCTTACAGAAT
* * * *
4799535 CGATTGAGATAACACCGTAAGTCAAAAATAAAGAATCGATCGAGACAACATCGCAAATCGAAATT
1 CGATTGGGATAACACCGTAAGTCAAAAATAAAAAATCGATCGAGATAACATCGCAAATCGAATTT
* * **
4799600 ATGCCCAGAGGTCTTAGAAATCATGCCCTTAGGTCTTACAGAAT
66 ATGCCCAGAAGCCTTAGAAATCATGCCCAAAGGTCTTACAGAAT
* ** *
4799644 CGATTGGGAGAACACTATAAGTCAAAAGATAAAAAATCGATCGGGATAACATCGCAAATCGAATT
1 CGATTGGGATAACACCGTAAGTCAAAA-ATAAAAAATCGATCGAGATAACATCGCAAATCGAATT
** * * * * **
4799709 TATGCCTGGAGGTCTTAGAAATCATACTCGGAGGTCTTACAGAAT
65 TATGCCCAGAAGCCTTAGAAATCATGCCCAAAGGTCTTACAGAAT
4799754 TATGTTCGGA
Statistics
Matches: 272, Mismatches: 53, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
109 45 0.17
110 186 0.68
111 41 0.15
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (109 bp):
CGATTGGGATAACACCGTAAGTCAAAAATAAAAAATCGATCGAGATAACATCGCAAATCGAATTT
ATGCCCAGAAGCCTTAGAAATCATGCCCAAAGGTCTTACAGAAT
Found at i:4799625 original size:22 final size:22
Alignment explanation
Indices: 4799594--4799637 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4799584 ATCGCAAATC
*
4799594 GAAATTATGCCCAGAGGTCTTA
1 GAAATCATGCCCAGAGGTCTTA
**
4799616 GAAATCATGCCCTTAGGTCTTA
1 GAAATCATGCCCAGAGGTCTTA
4799638 CAGAATCGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (22 bp):
GAAATCATGCCCAGAGGTCTTA
Found at i:4799744 original size:22 final size:23
Alignment explanation
Indices: 4799716--4799777 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
4799706 ATTTATGCCT
*
4799716 GGAGGTCTTAGA-AATCATACTC
1 GGAGGTCTTACAGAATCATACTC
* **
4799738 GGAGGTCTTACAGAATTATGTTC
1 GGAGGTCTTACAGAATCATACTC
4799761 GGAGGTCTTACAGAATC
1 GGAGGTCTTACAGAATC
4799778 GACTGAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 11 0.32
23 23 0.68
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (23 bp):
GGAGGTCTTACAGAATCATACTC
Found at i:4799807 original size:133 final size:132
Alignment explanation
Indices: 4799594--4800020 Score: 534
Period size: 133 Copynumber: 3.2 Consensus size: 132
4799584 ATCGCAAATC
* * * * ** ** *
4799594 GAAATTATGCCCAGAGGTCTTAGA-AATCATGCCCTTAGGTCTTACAGAATCGATTGGGAGAACA
1 GAAATCATGCCCGGAGGTCTTACAGAATCATGCTCGAAGGTCTTACAGAATCGATTGAAATAACA
* * *
4799658 CTATAAGTCAAAAGATAAAAAATCGATCGGGATAACATCGCAAATCGAATTTATGCCTGGAGGTC
66 CCACAAGTCAAAAGATAAAAAATCGATCGGGATAACA-CGCGAATCGAATTTATGCCTGGAGGTC
4799723 TTA
130 TTA
* * * * * * *
4799726 GAAATCATACTCGGAGGTCTTACAGAATTATGTTCGGAGGTCTTACAGAATCGACTGAAATAATA
1 GAAATCATGCCCGGAGGTCTTACAGAATCATGCTCGAAGGTCTTACAGAATCGATTGAAATAACA
* * * *
4799791 CCACAAGTCAAAAGATAAAGAATCGATCGGGATAACACCGCGAATCGAATTTATGCCTGAAAGTT
66 CCACAAGTCAAAAGATAAAAAATCGATCGGGATAACA-CGCGAATCGAATTTATGCCTGGAGGTC
4799856 TTA
130 TTA
* * *
4799859 GAAATCATGCCCGGAGGTCTTACAGAATCATGCTCGAAGATCTTACAAAATCAATTGAAATAACA
1 GAAATCATGCCCGGAGGTCTTACAGAATCATGCTCGAAGGTCTTACAGAATCGATTGAAATAACA
* ** *
4799924 ACACAAGTCAAAAGA-AAAAGAATCGATCAAGATAACACTGTGAATCGAATTTATGCCTGGAGGT
66 CCACAAGTCAAAAGATAAAA-AATCGATCGGGATAACAC-GCGAATCGAATTTATGCCTGGAGGT
4799988 CTTA
129 CTTA
4799992 GAAATCATGCCCGGAGGTCTTACAGAATC
1 GAAATCATGCCCGGAGGTCTTACAGAATC
4800021 GATTGAAATA
Statistics
Matches: 251, Mismatches: 41, Indels: 5
0.85 0.14 0.02
Matches are distributed among these distances:
132 23 0.09
133 228 0.91
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (132 bp):
GAAATCATGCCCGGAGGTCTTACAGAATCATGCTCGAAGGTCTTACAGAATCGATTGAAATAACA
CCACAAGTCAAAAGATAAAAAATCGATCGGGATAACACGCGAATCGAATTTATGCCTGGAGGTCT
TA
Found at i:4799888 original size:23 final size:23
Alignment explanation
Indices: 4799860--4799911 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
4799850 AAAGTTTTAG
* *
4799860 AAATCATGCCCGGAGGTCTTACA
1 AAATCATGCCCGAAGATCTTACA
* *
4799883 GAATCATGCTCGAAGATCTTACA
1 AAATCATGCCCGAAGATCTTACA
4799906 AAATCA
1 AAATCA
4799912 ATTGAAATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (23 bp):
AAATCATGCCCGAAGATCTTACA
Found at i:4800028 original size:110 final size:109
Alignment explanation
Indices: 4799865--4800109 Score: 296
Period size: 110 Copynumber: 2.2 Consensus size: 109
4799855 TTTAGAAATC
* * *
4799865 ATGCCCGGAGGTCTTACAGAATCATGCTCGAAGATCTTACAAAATCAATTGAAATAACAACACAA
1 ATGCCTGGAGGTCTTAGA-AATCATGCCCGAAGATCTTACAAAATCAATTGAAATAACAACACAA
*
4799930 GTCAAAAGAAAAAGAATCGATCAAGATAACA-CTGTGAATCGAATTT
65 GTCAAAAGAAAAAGAATCGAT-AAGATAACATC-GCGAATCGAATTT
* * * * ***
4799976 ATGCCTGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCGATTGAAATAATGTCACAAG
1 ATGCCTGGAGGTCTTAGAAATCATGCCCGAAGATCTTACAAAATCAATTGAAATAACAACACAAG
* * **
4800041 TCAAAAGATAAAGTATCGATGGGATAACATCGCGAATCGAATTT
66 TCAAAAGAAAAAGAATCGATAAGATAACATCGCGAATCGAATTT
*
4800085 ATG-CTCGGAGGTCTTAGAAACCATG
1 ATGCCT-GGAGGTCTTAGAAATCATG
4800110 TTCAGAGGTC
Statistics
Matches: 116, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
108 2 0.02
109 40 0.34
110 58 0.50
111 16 0.14
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (109 bp):
ATGCCTGGAGGTCTTAGAAATCATGCCCGAAGATCTTACAAAATCAATTGAAATAACAACACAAG
TCAAAAGAAAAAGAATCGATAAGATAACATCGCGAATCGAATTT
Found at i:4800118 original size:109 final size:110
Alignment explanation
Indices: 4799899--4800122 Score: 283
Period size: 109 Copynumber: 2.0 Consensus size: 110
4799889 TGCTCGAAGA
4799899 TCTTACAAAATCAATTGAAATAACAACACAAGTCAAAAGAAAAAGAATCGATCAAGATAACACTG
1 TCTTACAAAATCAATTGAAATAACAACACAAGTCAAAAGAAAAAGAATCGATCAAGATAACACTG
* * *
4799964 TGAATCGAATTTATGCCTGGAGGTCTTAGAAATCATGCCCGGAGG
66 CGAATCGAATTTATGCCTGGAGGTCTTAGAAACCATGCCCAGAGG
* * *** * * **
4800009 TCTTACAGAATCGATTGAAATAATGTCACAAGTCAAAAGATAAAGTATCGAT-GGGATAACA-TC
1 TCTTACAAAATCAATTGAAATAACAACACAAGTCAAAAGAAAAAGAATCGATCAAGATAACACT-
**
4800072 GCGAATCGAATTTATG-CTCGGAGGTCTTAGAAACCATGTTCAGAGG
65 GCGAATCGAATTTATGCCT-GGAGGTCTTAGAAACCATGCCCAGAGG
4800118 TCTTA
1 TCTTA
4800123 GAAATCATGC
Statistics
Matches: 98, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
108 3 0.03
109 50 0.51
110 45 0.46
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.25
Consensus pattern (110 bp):
TCTTACAAAATCAATTGAAATAACAACACAAGTCAAAAGAAAAAGAATCGATCAAGATAACACTG
CGAATCGAATTTATGCCTGGAGGTCTTAGAAACCATGCCCAGAGG
Found at i:4800140 original size:22 final size:22
Alignment explanation
Indices: 4800092--4800134 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4800082 TTTATGCTCG
**
4800092 GAGGTCTTAGAAACCATGTTCA
1 GAGGTCTTAGAAACCATGCCCA
*
4800114 GAGGTCTTAGAAATCATGCCC
1 GAGGTCTTAGAAACCATGCCC
4800135 GAAGGTTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (22 bp):
GAGGTCTTAGAAACCATGCCCA
Found at i:4800150 original size:131 final size:130
Alignment explanation
Indices: 4799983--4800281 Score: 318
Period size: 131 Copynumber: 2.3 Consensus size: 130
4799973 TTTATGCCTG
* * * *
4799983 GAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCGA-TTGA-AATAATGTCACAAGTCAAA
1 GAGGTCTTAGAAATCATGCCCGAAGGTCTTACAGAATCGACTGGATAACAACGT-A-AA-TCAAA
* * * * *
4800046 AGATAAAGTATCGAT-GGGATAACATCGCGAATCGAATTTATGCTCGGAGGTCTTAGAAACCATG
63 A-ATAAAGAATCGATCGGGATAACACCGCGAATCAAAATTATGCCCGGAGGTCTTAGAAACCATG
4800110 TTCA
127 TTCA
* * * * *
4800114 GAGGTCTTAGAAATCATGCCCGAAGGTTTTATAGAATTGACTGGATAACACCGTAAATCAGAAAT
1 GAGGTCTTAGAAATCATGCCCGAAGGTCTTACAGAATCGACTGGATAACAACGTAAATCAAAAAT
* * * *
4800179 AAAGAATCGATCGGGATAACACCGCTAATCAAAATTATGCCCGGAGGTCTTAGAAATCATG-CCT
66 AAAGAATCGATCGGGATAACACCGCGAATCAAAATTATGCCCGGAGGTCTTAGAAACCATGTTCA
* * * *
4800243 GAAAGTCTTATAGAATCATACCCTAAGGTCTTACAGAAT
1 G-AGGTCTTAGA-AATCATGCCCGAAGGTCTTACAGAAT
4800282 TACCCTGAGG
Statistics
Matches: 139, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
129 14 0.10
130 56 0.40
131 60 0.43
132 4 0.03
133 5 0.04
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (130 bp):
GAGGTCTTAGAAATCATGCCCGAAGGTCTTACAGAATCGACTGGATAACAACGTAAATCAAAAAT
AAAGAATCGATCGGGATAACACCGCGAATCAAAATTATGCCCGGAGGTCTTAGAAACCATGTTCA
Found at i:4800240 original size:22 final size:22
Alignment explanation
Indices: 4800209--4800318 Score: 62
Period size: 22 Copynumber: 5.0 Consensus size: 22
4800199 ACCGCTAATC
*
4800209 AAAATTATGCCCGGAGGTCTTA
1 AAAATCATGCCCGGAGGTCTTA
* * * *
4800231 GAAATCATGCCTGAAAGTCTTA
1 AAAATCATGCCCGGAGGTCTTA
* * **
4800253 TAGAATCATACCCTAAGGTCTTA
1 -AAAATCATGCCCGGAGGTCTTA
* * *
4800276 CAGAAT--TACCCTGAGGTCTTA
1 -AAAATCATGCCCGGAGGTCTTA
* *
4800297 AAAATCATGCCTGGAGATCTTA
1 AAAATCATGCCCGGAGGTCTTA
4800319 CAGAATTGAC
Statistics
Matches: 67, Mismatches: 18, Indels: 6
0.74 0.20 0.07
Matches are distributed among these distances:
20 4 0.06
21 14 0.21
22 28 0.42
23 21 0.31
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (22 bp):
AAAATCATGCCCGGAGGTCTTA
Found at i:4800251 original size:130 final size:130
Alignment explanation
Indices: 4800048--4800282 Score: 303
Period size: 130 Copynumber: 1.8 Consensus size: 130
4800038 AAGTCAAAAG
* * * * * *
4800048 ATAAAGTATCGATGGGATAACATCGCGAATCGAATTTATGCTCGGAGGTCTTAGAAACCATGTTC
1 ATAAAGAATCGATGGGATAACACCGCGAATCAAAATTATGCCCGGAGGTCTTAGAAACCATGCTC
* * * *
4800113 AGAGGTCTTAGA-AATCATGCCCGAAGGTTTTATAGAATTGACTGGATAACACCGTAAATCAGAA
66 AGAAGTCTTAGAGAATCATACCCGAAGGTCTTACAGAATTGACTGGATAACACCGTAAATCAGAA
* *
4800177 ATAAAGAATCGATCGGGATAACACCGCTAATCAAAATTATGCCCGGAGGTCTTAGAAATCATGC-
1 ATAAAGAATCGAT-GGGATAACACCGCGAATCAAAATTATGCCCGGAGGTCTTAGAAACCATGCT
* * *
4800241 CTGAAAGTCTTATAGAATCATACCCTAAGGTCTTACAGAATT
65 CAG-AAGTCTTAGAGAATCATACCCGAAGGTCTTACAGAATT
4800283 ACCCTGAGGT
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
129 14 0.16
130 51 0.58
131 23 0.26
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (130 bp):
ATAAAGAATCGATGGGATAACACCGCGAATCAAAATTATGCCCGGAGGTCTTAGAAACCATGCTC
AGAAGTCTTAGAGAATCATACCCGAAGGTCTTACAGAATTGACTGGATAACACCGTAAATCAGAA
Found at i:4800273 original size:23 final size:22
Alignment explanation
Indices: 4800247--4800304 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 22
4800237 ATGCCTGAAA
4800247 GTCTTATAGAATCATACCCTAAG
1 GTCTTA-AGAATCATACCCTAAG
*
4800270 GTCTTACAGAAT--TACCCTGAG
1 GTCTTA-AGAATCATACCCTAAG
*
4800291 GTCTTAAAAATCAT
1 GTCTTAAGAATCAT
4800305 GCCTGGAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 4 0.13
21 14 0.47
22 1 0.03
23 11 0.37
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (22 bp):
GTCTTAAGAATCATACCCTAAG
Found at i:4800413 original size:22 final size:23
Alignment explanation
Indices: 4800385--4800493 Score: 84
Period size: 22 Copynumber: 4.9 Consensus size: 23
4800375 CCGCGAATCG
4800385 AAATTATACCCGAAGGTCTTA-A
1 AAATTATACCCGAAGGTCTTACA
*
4800407 AAATTATACCC-AGAGGTCTTATA
1 AAATTATACCCGA-AGGTCTTACA
* * * * *
4800430 GAATCATGCTCGGAGGTCTTACA
1 AAATTATACCCGAAGGTCTTACA
* *
4800453 AAA-T-TACTCGGAGGTCTTA-A
1 AAATTATACCCGAAGGTCTTACA
* *
4800473 AAATCATGCCCGAAGGTCTTA
1 AAATTATACCCGAAGGTCTTA
4800494 TAGAACTGAC
Statistics
Matches: 69, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
20 4 0.06
21 15 0.22
22 31 0.45
23 19 0.28
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (23 bp):
AAATTATACCCGAAGGTCTTACA
Found at i:4800464 original size:21 final size:20
Alignment explanation
Indices: 4800438--4800476 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
4800428 TAGAATCATG
4800438 CTCGGAGGTCTTACAAAATTA
1 CTCGGAGGTCTTA-AAAATTA
4800459 CTCGGAGGTCTTAAAAAT
1 CTCGGAGGTCTTAAAAAT
4800477 CATGCCCGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (20 bp):
CTCGGAGGTCTTAAAAATTA
Found at i:4800601 original size:22 final size:23
Alignment explanation
Indices: 4800576--4800631 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
4800566 TGTCAAGAGA
4800576 TCTTAGA-AATCATGTCC-GAAGG
1 TCTTAGAGAATCATG-CCTGAAGG
*
4800598 TCTTATAGAATCATGCCTGAAGG
1 TCTTAGAGAATCATGCCTGAAGG
*
4800621 TCTTATAGAAT
1 TCTTAGAGAAT
4800632 TACTCGACGA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
22 8 0.26
23 23 0.74
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (23 bp):
TCTTAGAGAATCATGCCTGAAGG
Done.