Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold194
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: 3945165
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1023 characters in sequence are not A, C, G, or T
File 22 of 24
Found at i:3567177 original size:4 final size:4
Alignment explanation
Indices: 3567160--3567202 Score: 77
Period size: 4 Copynumber: 10.8 Consensus size: 4
3567150 TTCCTCCCTA
*
3567160 AAAG AAAG AGAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
3567203 AAAAATGGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:3571329 original size:2 final size:2
Alignment explanation
Indices: 3571322--3571351 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
3571312 TATTTGTAAG
*
3571322 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3571352 TCTCATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:3573362 original size:13 final size:13
Alignment explanation
Indices: 3573344--3573368 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3573334 GTTTGGTCAT
3573344 TTTGGGTTAATTG
1 TTTGGGTTAATTG
3573357 TTTGGGTTAATT
1 TTTGGGTTAATT
3573369 CGGATTTAAG
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:0.00, G:0.28, T:0.56
Consensus pattern (13 bp):
TTTGGGTTAATTG
Found at i:3573392 original size:16 final size:16
Alignment explanation
Indices: 3573373--3573446 Score: 60
Period size: 16 Copynumber: 4.6 Consensus size: 16
3573363 TTAATTCGGA
3573373 TTTAAGTTATTTTGAG
1 TTTAAGTTATTTTGAG
* *
3573389 TTTAGGTTATTTTGAA
1 TTTAAGTTATTTTGAG
* * *
3573405 TATAGGTTATTCTG-G
1 TTTAAGTTATTTTGAG
* *
3573420 TTTTAAGTCATTTTTAAG
1 -TTTAAGTTA-TTTTGAG
3573438 TTTAAGTTA
1 TTTAAGTTA
3573447 GTCGGTTTTG
Statistics
Matches: 44, Mismatches: 11, Indels: 5
0.73 0.18 0.08
Matches are distributed among these distances:
16 32 0.73
17 11 0.25
18 1 0.02
ACGTcount: A:0.26, C:0.03, G:0.18, T:0.54
Consensus pattern (16 bp):
TTTAAGTTATTTTGAG
Found at i:3574118 original size:3 final size:3
Alignment explanation
Indices: 3574110--3574136 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
3574100 AGGCATATAC
3574110 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
3574137 TTGCTTCTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:3575767 original size:88 final size:88
Alignment explanation
Indices: 3575666--3576044 Score: 374
Period size: 88 Copynumber: 4.3 Consensus size: 88
3575656 GTATGAATTT
* * *
3575666 AGATTC-TTTTTTATAAAAAAAAAATTGATTGATTGTAATTGTCATACTGTAAAGATTAAACTAA
1 AGATTCTTTTTTTATAAAAAAAAAATTGATTGATTATAAATGTCAAACTGTAAAGATTAAACTAA
*
3575730 TGCATGAATTATATATGAGAATC
66 TGCATGAATTATATTTGAGAATC
* * *
3575753 AGATTCTTTTTTTATAAGAAAAAAAAAAGTTGATTGAGTT-TAAATGTTAAACTGTAAGGATTAG
1 AGATTCTTTTTTTAT---AAAAAAAAAA-TTGATTGA-TTATAAATGTCAAACTGTAAAGATTAA
**
3575817 ACTAATGCATGAATTATATCGGAGAATC
61 ACTAATGCATGAATTATATTTGAGAATC
* ** * * * **
3575845 AGATT-TGTTTAGAAAAAAAAGAGAAATTGATTGAATATAAATGTCAGACTACAAAGATTAAACT
1 AGATTCTTTTTTTATAAAAAA-A-AAATTGATTGATTATAAATGTCAAACTGTAAAGATTAAACT
*
3575909 AAAGCATGAATTATATTTGAGAATC
64 AATGCATGAATTATATTTGAGAATC
* * * * * * * *
3575934 AAATTC-ATTTTGATAGAAAAAAAAGTTGATTAATTATGAATGTTAAACTG-AAAGTATTAGACT
1 AGATTCTTTTTTTATA-AAAAAAAAATTGATTGATTATAAATGTCAAACTGTAAAG-ATTAAACT
* *
3575997 AATGCATAAATTATATTTGAGAATT
64 AATGCATGAATTATATTTGAGAATC
*
3576022 AGATT-TTTTTTTATAGAAAAAAA
1 AGATTCTTTTTTTATAAAAAAAAA
3576045 GAAAGATTGA
Statistics
Matches: 239, Mismatches: 40, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
87 17 0.07
88 76 0.32
89 63 0.26
90 8 0.03
91 15 0.06
92 58 0.24
93 2 0.01
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.35
Consensus pattern (88 bp):
AGATTCTTTTTTTATAAAAAAAAAATTGATTGATTATAAATGTCAAACTGTAAAGATTAAACTAA
TGCATGAATTATATTTGAGAATC
Found at i:3576044 original size:181 final size:178
Alignment explanation
Indices: 3575680--3576027 Score: 461
Period size: 177 Copynumber: 2.0 Consensus size: 178
3575670 TCTTTTTTAT
* * * * ** *
3575680 AAAAAAAAAATTGATTGATTGTAATTGTCATACTGTAAAGATTAAACTAATGCATGAATTATATA
1 AAAAAAAAAATTGATTGAATATAAATGTCAGACTACAAAGATTAAACTAAAGCATGAATTATATA
* * * * *
3575745 TGAGAATCAGATTCTTTTTTTATAAGAAAAAAAAAAGTTGATTGAGTTTAAATGTTAAACTGTAA
66 TGAGAATCAAATTCTATTTTGATAAG-AAAAAAAAAGTTGATTGAATTTAAATGTTAAACTGAAA
*
3575810 GGATTAGACTAATGCATGAATTATATCGGAGAATCAGATTTGTTTAGAA
130 GGATTAGACTAATGCATAAATTATATCGGAGAATCAGATTTGTTTAGAA
3575859 AAAAAAGAGAAATTGATTGAATATAAATGTCAGACTACAAAGATTAAACTAAAGCATGAATTATA
1 AAAAAA-A-AAATTGATTGAATATAAATGTCAGACTACAAAGATTAAACTAAAGCATGAATTATA
* *
3575924 TTTGAGAATCAAATTC-ATTTTGAT-AG-AAAAAAAAGTTGATT-AATTATGAATGTTAAACTGA
64 TATGAGAATCAAATTCTATTTTGATAAGAAAAAAAAAGTTGATTGAATT-TAAATGTTAAACTGA
* ** *
3575985 AAGTATTAGACTAATGCATAAATTATATTTGAGAATTAGATTT
128 AAGGATTAGACTAATGCATAAATTATATCGGAGAATCAGATTT
3576028 TTTTTTATAG
Statistics
Matches: 147, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
176 3 0.02
177 66 0.45
179 8 0.05
180 7 0.05
181 63 0.43
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.34
Consensus pattern (178 bp):
AAAAAAAAAATTGATTGAATATAAATGTCAGACTACAAAGATTAAACTAAAGCATGAATTATATA
TGAGAATCAAATTCTATTTTGATAAGAAAAAAAAAGTTGATTGAATTTAAATGTTAAACTGAAAG
GATTAGACTAATGCATAAATTATATCGGAGAATCAGATTTGTTTAGAA
Found at i:3576100 original size:69 final size:71
Alignment explanation
Indices: 3575982--3576114 Score: 182
Period size: 69 Copynumber: 1.9 Consensus size: 71
3575972 AATGTTAAAC
* * *
3575982 TGAAAGTATTAGACTAATGCATAAATTATATTTGAGAATTAGA-TTTTTTTTTATAGAAAAAAAG
1 TGAAAGTATTAGACTAAAGCATAAATTATATCTGAGAATCAGATTTTTTTTTTATAGAAAAAAAG
3576046 AAAGAT
66 AAAGAT
* * *
3576052 TGAAAG-ATTAGACTAAAGCATGAATTGTATCTG-GAATCAGATTCTTTTTTTTATATAAAAAAA
1 TGAAAGTATTAGACTAAAGCATAAATTATATCTGAGAATCAGATT-TTTTTTTTATAGAAAAAAA
3576115 AGTTAATTGA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
68 7 0.13
69 24 0.44
70 24 0.44
ACGTcount: A:0.44, C:0.05, G:0.14, T:0.37
Consensus pattern (71 bp):
TGAAAGTATTAGACTAAAGCATAAATTATATCTGAGAATCAGATTTTTTTTTTATAGAAAAAAAG
AAAGAT
Found at i:3576191 original size:158 final size:157
Alignment explanation
Indices: 3575896--3576366 Score: 484
Period size: 158 Copynumber: 2.9 Consensus size: 157
3575886 TGTCAGACTA
* * * * *
3575896 CAAAGATTAAACTAAAGCATGAATTATATTTGAGAATCAAATTC--ATTTTGATAGAAAAAAAAG
1 CAAAGATTAAACTAAAGCATGAATTGTATCTG-GAATCAGATTCTTTTTTTTATA-AAAAAAAAG
* * * * * *
3575959 TTGATTAATTATGAATGTTAAACTGAAAGTATTAGACTAATGCATAAATTATATTTGAGAATTAG
64 TTGATTGATTATAAATGTTAGA-TTAAAGAATTAGACTAATGCATAAATTATA-TTGAGAATCAG
* * *
3576024 ATTTTTTTTTATAGAAAAAAAG-AAAGATTG
127 ATTCTTTTTTATAGAAAAAAAGAAAAAACTG
*
3576054 -AAAGATTAGACTAAAGCATGAATTGTATCTGGAATCAGATTCTTTTTTTTATATAAAAAAAAGT
1 CAAAGATTAAACTAAAGCATGAATTGTATCTGGAATCAGATTCTTTTTTTTATA-AAAAAAAAGT
* * * * * *
3576118 TAATTGATTGTAAATGTCAGATTATAAGAATTAGACTAATGCATGAATTGTATCTGAGGATC-GA
65 TGATTGATTATAAATGTTAGATTA-AAGAATTAGACTAATGCATAAATTATAT-TGAGAATCAG-
3576182 ATTCCTTTTTTATAGAAATAAAAAGAAAAAACTG
127 ATT-CTTTTTTATAG-AA-AAAAAGAAAAAACTG
* * * * *
3576216 CAAAGATTAAACTAATGCATGAATTGTATCTGAAATCGGATTCTTTTTTATAGAAAAAGGAAAAG
1 CAAAGATTAAACTAAAGCATGAATTGTATCTGGAATCAGATTCTTTTTTTTATAAAAA--AAAAG
* * * * * *
3576281 TTGATTGAGTATAAATGTTAGTTTGCAAGGATTAGATTAATGCATAAATTATATTAGAGAATCAT
64 TTGATTGATTATAAATGTTAGATT-AAAGAATTAGACTAATGCATAAATTATATT-GAGAATCAG
3576346 ATTCTTTTTTATAGAAAAAAA
127 ATTCTTTTTTATAGAAAAAAA
3576367 AAGTTAATTG
Statistics
Matches: 258, Mismatches: 40, Indels: 27
0.79 0.12 0.08
Matches are distributed among these distances:
156 10 0.04
157 32 0.12
158 65 0.25
159 10 0.04
160 2 0.01
161 11 0.04
162 12 0.05
163 59 0.23
164 57 0.22
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.35
Consensus pattern (157 bp):
CAAAGATTAAACTAAAGCATGAATTGTATCTGGAATCAGATTCTTTTTTTTATAAAAAAAAAGTT
GATTGATTATAAATGTTAGATTAAAGAATTAGACTAATGCATAAATTATATTGAGAATCAGATTC
TTTTTTATAGAAAAAAAGAAAAAACTG
Found at i:3576324 original size:90 final size:89
Alignment explanation
Indices: 3576212--3576444 Score: 299
Period size: 89 Copynumber: 2.6 Consensus size: 89
3576202 AAAAGAAAAA
* * *
3576212 ACTGCAAAGATTAAACTAATGCATGAATTGTATCTGA-AATCGGATTCTTTTTTATAGAAAAAGG
1 ACTGCAAGGATTAAACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGAAAAA--
* * *
3576276 AAAAGTTGATTGAGTATAAATGTTAG
64 AAAAGTTAATTGAATATAAATGTCAG
** * * * *
3576302 TTTGCAAGGATTAGATTAATGCATAAATTATAT-TAGAGAATCATATTCTTTTTTATAGAAAAAA
1 ACTGCAAGGATTAAACTAATGCATGAATTATATCT-GAGAATCAGATTCTTTTTTATAGAAAAAA
*
3576366 AAAGTTAATTGAATATAAGTGTCAG
65 AAAGTTAATTGAATATAAATGTCAG
*
3576391 ACTGTAAGGATTAAACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTT
1 ACTGCAAGGATTAAACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTT
3576445 TATAAATGTA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
89 68 0.57
90 29 0.24
91 23 0.19
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (89 bp):
ACTGCAAGGATTAAACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGAAAAAAA
AAGTTAATTGAATATAAATGTCAG
Found at i:3576355 original size:163 final size:157
Alignment explanation
Indices: 3575896--3576367 Score: 511
Period size: 163 Copynumber: 2.9 Consensus size: 157
3575886 TGTCAGACTA
* * * * *
3575896 CAAAGATTAAACTAAAGCATGAATTATATTTGAGAATCAAATTCATTTTGATAG-AAAAAAAAGT
1 CAAAGATTAAACTAAAGCATGAATTGTATCTGA-AATCAGATTCTTTTTTATAGAAAAAAAAAGT
* * * * * *
3575960 TGATTAATTATGAATGTTAAACTGAAAGTATTAGACTAATGCATAAATTATATTTGAGAATTAGA
65 TGATTGATTATAAATGTTAGATTGAAAGAATTAGACTAATGCATAAATTATA-TTGAGAATCA-A
* * *
3576025 TTTTTTTTTATAG-AAAAAAAGAAAGATTG
128 TTCTTTTTTATAGAAAAAAAAGAAAAACTG
* * * *
3576054 -AAAGATTAGACTAAAGCATGAATTGTATCTGGAATCAGATTCTTTTTTTTATATAAAAAAAAGT
1 CAAAGATTAAACTAAAGCATGAATTGTATCTGAAATCAGATTCTTTTTTATAGA-AAAAAAAAGT
* * * * * *
3576118 TAATTGATTGTAAATGTCAGATT-ATAAGAATTAGACTAATGCATGAATTGTATCTGAGGATCGA
65 TGATTGATTATAAATGTTAGATTGA-AAGAATTAGACTAATGCATAAATTATAT-TGAGAATC-A
3576182 ATTCCTTTTTTATAGAAATAAAAAGAAAAAACTG
127 ATT-CTTTTTTATAGAAA-AAAAAG-AAAAACTG
* *
3576216 CAAAGATTAAACTAATGCATGAATTGTATCTGAAATCGGATTCTTTTTTATAGAAAAAGGAAAAG
1 CAAAGATTAAACTAAAGCATGAATTGTATCTGAAATCAGATTCTTTTTTATAGAAAAA--AAAAG
* * * * *
3576281 TTGATTGAGTATAAATGTTAGTTTGCAAGGATTAGATTAATGCATAAATTATATTAGAGAATCAT
64 TTGATTGATTATAAATGTTAGATTGAAAGAATTAGACTAATGCATAAATTATATT-GAGAATCA-
3576346 ATTCTTTTTTATAGAAAAAAAA
127 ATTCTTTTTTATAGAAAAAAAA
3576368 AGTTAATTGA
Statistics
Matches: 258, Mismatches: 41, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
156 15 0.06
157 30 0.12
158 59 0.23
159 11 0.04
160 2 0.01
161 6 0.02
162 15 0.06
163 63 0.24
164 57 0.22
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.35
Consensus pattern (157 bp):
CAAAGATTAAACTAAAGCATGAATTGTATCTGAAATCAGATTCTTTTTTATAGAAAAAAAAAGTT
GATTGATTATAAATGTTAGATTGAAAGAATTAGACTAATGCATAAATTATATTGAGAATCAATTC
TTTTTTATAGAAAAAAAAGAAAAACTG
Found at i:3578103 original size:23 final size:23
Alignment explanation
Indices: 3578077--3578164 Score: 92
Period size: 23 Copynumber: 3.8 Consensus size: 23
3578067 ATAATGATAA
*
3578077 ATTTTTTAAATTTTTTAAATATT
1 ATTTTTTAAATTTATTAAATATT
* *
3578100 ATTTTTT-AATTTGTT-AATATAA
1 ATTTTTTAAATTTATTAAATAT-T
3578122 ATTTTTTTAAATTTAATTAAATATT
1 A-TTTTTTAAATTT-ATTAAATATT
*
3578147 ATTTTTT-ATTTTATTAAA
1 ATTTTTTAAATTTATTAAA
3578165 AAATAATAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
21 5 0.09
22 14 0.25
23 17 0.31
24 11 0.20
25 3 0.05
26 5 0.09
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (23 bp):
ATTTTTTAAATTTATTAAATATT
Found at i:3578106 original size:47 final size:46
Alignment explanation
Indices: 3578055--3578157 Score: 147
Period size: 46 Copynumber: 2.2 Consensus size: 46
3578045 GAATAAATCG
*
3578055 TTTTTTATTTGAATAATGATAAA-TTTTTTAAATTT-TTTAAATATTA
1 TTTTTTATTTG-ATAAT-ATAAATTTTTTTAAATTTAATTAAATATTA
*
3578101 TTTTTTAATTTGTTAATATAAATTTTTTTAAATTTAATTAAATATTA
1 TTTTTT-ATTTGATAATATAAATTTTTTTAAATTTAATTAAATATTA
3578148 TTTTTTATTT
1 TTTTTTATTT
3578158 TATTAAAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
45 5 0.10
46 26 0.50
47 21 0.40
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (46 bp):
TTTTTTATTTGATAATATAAATTTTTTTAAATTTAATTAAATATTA
Found at i:3578110 original size:22 final size:22
Alignment explanation
Indices: 3578077--3578164 Score: 81
Period size: 22 Copynumber: 3.8 Consensus size: 22
3578067 ATAATGATAA
3578077 ATTTTTTAAATTTTTTAAATATT
1 ATTTTTT-AATTTTTTAAATATT
*
3578100 ATTTTTTAATTTGTTAATATAAATT
1 ATTTTTTAATTTTTTAA-AT--ATT
* *
3578125 -TTTTTAAATTTAATTAAATATT
1 ATTTTTTAATTT-TTTAAATATT
3578147 ATTTTTT-ATTTTATTAAA
1 ATTTTTTAATTTT-TTAAA
3578165 AAATAATAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
22 21 0.39
23 14 0.26
24 12 0.22
25 7 0.13
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (22 bp):
ATTTTTTAATTTTTTAAATATT
Found at i:3578129 original size:46 final size:47
Alignment explanation
Indices: 3578055--3578163 Score: 143
Period size: 47 Copynumber: 2.3 Consensus size: 47
3578045 GAATAAATCG
* *
3578055 TTTTTT-ATTTGAATAATGATAAATTTTTTAAATTT-TTTAAATATTA
1 TTTTTTAATTTG-TTAATGATAAATTTTTTAAATTTAATTAAATATTA
3578101 TTTTTTAATTTGTTAAT-ATAAATTTTTTTAAATTTAATTAAATATTA
1 TTTTTTAATTTGTTAATGATAAA-TTTTTTAAATTTAATTAAATATTA
* *
3578148 TTTTTTATTTTATTAA
1 TTTTTTAATTTGTTAA
3578164 AAAATAATAA
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
45 5 0.09
46 22 0.39
47 29 0.52
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (47 bp):
TTTTTTAATTTGTTAATGATAAATTTTTTAAATTTAATTAAATATTA
Found at i:3578830 original size:17 final size:17
Alignment explanation
Indices: 3578808--3578857 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 17
3578798 ATATAATTTT
3578808 TTTAATTTAAATTATTA
1 TTTAATTTAAATTATTA
*
3578825 TTTAATAATTAAAAATATTA
1 TTTAAT--TT-AAATTATTA
3578845 TTTGAATTTAAAT
1 TTT-AATTTAAAT
3578858 ATTTATATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
17 6 0.22
18 3 0.11
19 4 0.15
20 11 0.41
21 3 0.11
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
TTTAATTTAAATTATTA
Found at i:3578833 original size:20 final size:20
Alignment explanation
Indices: 3578810--3578847 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3578800 ATAATTTTTT
* *
3578810 TAATTTAAATTATTATTTAA
1 TAATTAAAAATATTATTTAA
3578830 TAATTAAAAATATTATTT
1 TAATTAAAAATATTATTT
3578848 GAATTTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATTAAAAATATTATTTAA
Found at i:3578863 original size:18 final size:19
Alignment explanation
Indices: 3578794--3578870 Score: 70
Period size: 18 Copynumber: 4.1 Consensus size: 19
3578784 AATTTGAACC
* *
3578794 TTAAATATAATTTTTTTAAT
1 TTAAATAT-ATTATTTGAAT
3578814 TTAAAT-TATTATTT-AAT
1 TTAAATATATTATTTGAAT
*
3578831 AATTAAAAATATTATTTGAAT
1 --TTAAATATATTATTTGAAT
*
3578852 TTAAATAT-TTATATGAAT
1 TTAAATATATTATTTGAAT
3578870 T
1 T
3578871 ATCTTGAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
17 3 0.06
18 16 0.33
19 13 0.27
20 14 0.29
21 3 0.06
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
TTAAATATATTATTTGAAT
Found at i:3581950 original size:21 final size:22
Alignment explanation
Indices: 3581926--3581971 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
3581916 ATCAAATTAT
* * *
3581926 ATTTAA-ATTTATTTATTTTTA
1 ATTTAAGATTGATTTAATTTAA
3581947 ATTTAAGATTGATTTAATTTAA
1 ATTTAAGATTGATTTAATTTAA
3581969 ATT
1 ATT
3581972 ATTATTTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (22 bp):
ATTTAAGATTGATTTAATTTAA
Found at i:3581984 original size:36 final size:35
Alignment explanation
Indices: 3581926--3582012 Score: 95
Period size: 36 Copynumber: 2.4 Consensus size: 35
3581916 ATCAAATTAT
* *
3581926 ATTTAAATTTATTTATTTTTAATTTAAGATTGA-TTTA
1 ATTTAAA-TTA-TTATTTTTAATTAAAGAAT-ATTTTA
* *
3581963 ATTTAAATTATTATTTATTAATTAAATAATATTTTT
1 ATTTAAATTATTATTT-TTAATTAAAGAATATTTTA
3581999 ATTTAAATTATTAT
1 ATTTAAATTATTAT
3582013 AAAATATATT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
35 7 0.16
36 30 0.68
37 7 0.16
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (35 bp):
ATTTAAATTATTATTTTTAATTAAAGAATATTTTA
Found at i:3581985 original size:20 final size:19
Alignment explanation
Indices: 3581926--3582012 Score: 71
Period size: 18 Copynumber: 4.7 Consensus size: 19
3581916 ATCAAATTAT
3581926 ATTTAAATTTATTTATTTTTA
1 ATTTAAA-TTA-TTATTTTTA
*
3581947 ATTTAAGA-T-TGA--TTTA
1 ATTTAA-ATTATTATTTTTA
3581963 ATTTAAATTATTATTTATTA
1 ATTTAAATTATTATTT-TTA
*
3581983 A-TTAAA-TAATATTTTT-
1 ATTTAAATTATTATTTTTA
3581999 ATTTAAATTATTAT
1 ATTTAAATTATTAT
3582013 AAAATATATT
Statistics
Matches: 54, Mismatches: 4, Indels: 19
0.70 0.05 0.25
Matches are distributed among these distances:
15 1 0.02
16 12 0.22
17 9 0.17
18 14 0.26
19 6 0.11
20 5 0.09
21 6 0.11
22 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
ATTTAAATTATTATTTTTA
Found at i:3582022 original size:21 final size:22
Alignment explanation
Indices: 3581998--3582051 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
3581988 ATAATATTTT
3581998 TATTTAA-ATT-ATTATAAAATA
1 TATTTAATATTAATTA-AAAATA
3582019 TA-TTAATATTAATTAAAAATA
1 TATTTAATATTAATTAAAAATA
*
3582040 AATTTTAATATT
1 TA-TTTAATATT
3582052 TTATTATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 4 0.14
21 12 0.43
22 4 0.14
23 8 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TATTTAATATTAATTAAAAATA
Found at i:3582900 original size:29 final size:29
Alignment explanation
Indices: 3582852--3582909 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
3582842 AAAATTAGAT
* *
3582852 TATTTTTTATTTAACCTTTAATAAT-TTAA
1 TATTTTTTACTTAAACTTTAA-AATATTAA
*
3582881 TATTTTTTACTTAAAGTTTAAAATATTAA
1 TATTTTTTACTTAAACTTTAAAATATTAA
3582910 AGTCAAATCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 3 0.12
29 22 0.88
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (29 bp):
TATTTTTTACTTAAACTTTAAAATATTAA
Found at i:3583771 original size:18 final size:18
Alignment explanation
Indices: 3583744--3583778 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3583734 TAAAATTCAT
3583744 AATTTAAATA-TAAAATA
1 AATTTAAATATTAAAATA
3583761 AATTATAAATATTAAAAT
1 AATT-TAAATATTAAAAT
3583779 CTAAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 6 0.38
19 6 0.38
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AATTTAAATATTAAAATA
Found at i:3590949 original size:43 final size:43
Alignment explanation
Indices: 3590901--3590986 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
3590891 TCTTGACCCT
*
3590901 CAATCAAAGGATATGGGTTGTATTAGTTACCTGATTGTCTTTC
1 CAATCAAAGGATATGAGTTGTATTAGTTACCTGATTGTCTTTC
3590944 CAATCAAAGGATATGAGTTGTATTAGTTACCTGATTGTCTTTC
1 CAATCAAAGGATATGAGTTGTATTAGTTACCTGATTGTCTTTC
3590987 TTTATTTGAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.40
Consensus pattern (43 bp):
CAATCAAAGGATATGAGTTGTATTAGTTACCTGATTGTCTTTC
Found at i:3592918 original size:2 final size:2
Alignment explanation
Indices: 3592906--3592938 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
3592896 GTCAATGGTA
3592906 AT AT A- 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
3592939 CTGTATTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3596082 original size:21 final size:21
Alignment explanation
Indices: 3596058--3596097 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
3596048 TATTTTTATT
3596058 TAAAT-TTAATTATAAAATATA
1 TAAATATTAA-TATAAAATATA
3596079 TAAATATTAATATAAAATA
1 TAAATATTAATATAAAATA
3596098 ATTTTTTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATATTAATATAAAATATA
Found at i:3596554 original size:26 final size:24
Alignment explanation
Indices: 3596499--3596561 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
3596489 ATATGTTGAT
*
3596499 ATATTATATTATATATAATTTTAA
1 ATATTATATTATATATAATTATAA
* * *
3596523 ACATTATATTTTATTTATATTATACA
1 ATATTATATTATATATA-ATTATA-A
*
3596549 ATATTAGATTATA
1 ATATTATATTATA
3596562 GCACACCCAC
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
24 14 0.47
25 5 0.17
26 11 0.37
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (24 bp):
ATATTATATTATATATAATTATAA
Found at i:3597287 original size:22 final size:22
Alignment explanation
Indices: 3597259--3597300 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
3597249 ATATTATTTT
3597259 AAATTTATAA-ATAATTATATAA
1 AAATTTA-AATATAATTATATAA
*
3597281 AAATTTAAATATATTTATAT
1 AAATTTAAATATAATTATAT
3597301 CAAATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATTTAAATATAATTATATAA
Found at i:3597891 original size:20 final size:20
Alignment explanation
Indices: 3597844--3597891 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
3597834 GATTATTTAT
*
3597844 TTAATTAAATTTAAAATAAA
1 TTAATTTAATTTAAAATAAA
* *
3597864 -TATTTTTAATTTAAATTAAA
1 TTA-ATTTAATTTAAAATAAA
3597884 TTAATTTA
1 TTAATTTA
3597892 TATTATTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
19 2 0.09
20 18 0.82
21 2 0.09
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAATTTAATTTAAAATAAA
Found at i:3598192 original size:16 final size:15
Alignment explanation
Indices: 3598164--3598215 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
3598154 ATTAATAGAA
*
3598164 AATAATTTTTATAAT
1 AATAAATTTTATAAT
3598179 AATAAA-TTTATATAT
1 AATAAATTTTATA-AT
*
3598194 ATTAAATTTTA-AGAT
1 AATAAATTTTATA-AT
3598209 AATAAAT
1 AATAAAT
3598216 ACAAGTTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
14 6 0.19
15 21 0.68
16 4 0.13
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
AATAAATTTTATAAT
Found at i:3598690 original size:21 final size:20
Alignment explanation
Indices: 3598664--3598730 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
3598654 TGATGTTAAC
3598664 ATAATAAAAAATAATTATAAT
1 ATAATAAAAAATAA-TATAAT
3598685 ATAATAAAAATATAATAT--T
1 ATAATAAAAA-ATAATATAAT
3598704 AT-AT-AAAAATAATATAAAT
1 ATAATAAAAAATAATAT-AAT
*
3598723 ATATTAAA
1 ATAATAAA
3598731 TTTATATAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
16 7 0.18
17 4 0.10
18 2 0.05
19 6 0.15
20 1 0.03
21 15 0.38
22 4 0.10
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
ATAATAAAAAATAATATAAT
Found at i:3598696 original size:11 final size:11
Alignment explanation
Indices: 3598664--3598784 Score: 55
Period size: 11 Copynumber: 11.5 Consensus size: 11
3598654 TGATGTTAAC
3598664 ATAATAAAAA-
1 ATAATAAAAAT
* *
3598674 ATAATTATAAT
1 ATAATAAAAAT
3598685 ATAATAAAAAT
1 ATAATAAAAAT
*
3598696 ATAAT---ATT
1 ATAATAAAAAT
3598704 AT-AT-AAAA-
1 ATAATAAAAAT
*
3598712 ATAATATAAAT
1 ATAATAAAAAT
* *
3598723 ATATTAAATTTAT
1 ATAATAAA--AAT
*
3598736 ATAATATAAAT
1 ATAATAAAAAT
*
3598747 ATAATATAAAT
1 ATAATAAAAAT
*
3598758 -T-ATTAAAAT
1 ATAATAAAAAT
3598767 A-AATATAAATAT
1 ATAATA-AAA-AT
3598779 ATAATA
1 ATAATA
3598785 TTTTAAATTT
Statistics
Matches: 82, Mismatches: 16, Indels: 23
0.68 0.13 0.19
Matches are distributed among these distances:
7 2 0.02
8 6 0.07
9 9 0.11
10 14 0.17
11 36 0.44
12 3 0.04
13 12 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
ATAATAAAAAT
Found at i:3598711 original size:18 final size:16
Alignment explanation
Indices: 3598679--3598816 Score: 70
Period size: 16 Copynumber: 8.2 Consensus size: 16
3598669 AAAAAATAAT
3598679 TATAATATAATAAAAA
1 TATAATATAATAAAAA
*
3598695 TATAATATTATATAAAA
1 TATAATATAATA-AAAA
3598712 -ATAATATAAATATATTAAA
1 TATAATAT-AATA-A--AAA
* *
3598731 T-TTATATAATATAAA
1 TATAATATAATAAAAA
3598746 TATAATATAAATTATTAAAA
1 TATAATAT-AA-TA--AAAA
*
3598766 TA-AATATAAATATATAA
1 TATAATAT-AATA-AAAA
** **
3598783 TATTTTA-AATTTAAA
1 TATAATATAATAAAAA
3598798 TATAATAT-ATAAAAA
1 TATAATATAATAAAAA
3598813 TATA
1 TATA
3598817 TATTTATATA
Statistics
Matches: 94, Mismatches: 16, Indels: 25
0.70 0.12 0.19
Matches are distributed among these distances:
15 20 0.21
16 26 0.28
17 17 0.18
18 10 0.11
19 16 0.17
20 5 0.05
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TATAATATAATAAAAA
Found at i:3598751 original size:35 final size:31
Alignment explanation
Indices: 3598698--3598779 Score: 103
Period size: 35 Copynumber: 2.5 Consensus size: 31
3598688 ATAAAAATAT
* *
3598698 AATATTATATAAAAATAATATAAATATATTAA
1 AATATAATATAAATATAATATAAAT-TATTAA
3598730 ATTTATATAATATAAATATAATATAAATTATTAA
1 A---ATATAATATAAATATAATATAAATTATTAA
3598764 AATA-AATATAAATATA
1 AATATAATATAAATATA
3598780 TAATATTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
30 12 0.27
31 3 0.07
32 1 0.02
34 7 0.16
35 22 0.49
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (31 bp):
AATATAATATAAATATAATATAAATTATTAA
Found at i:3598810 original size:54 final size:55
Alignment explanation
Indices: 3598679--3598806 Score: 160
Period size: 54 Copynumber: 2.4 Consensus size: 55
3598669 AAAAAATAAT
*
3598679 TATAATAT-AATAAAAATATAATATTATATAAAAATAATATAAATATATTAAATTTA
1 TATAATATAAAT-ATAATATAA-ATTATATAAAAATAATATAAATATATTAAATTTA
3598735 TATAATATAAATATAATATAAATTAT-T-AAAATAAATATAAATATA-TAATATTT-
1 TATAATATAAATATAATATAAATTATATAAAAAT-AATATAAATATATTAA-ATTTA
*
3598788 TA-AATTTAAATATAATATA
1 TATAATATAAATATAATATA
3598807 TAAAAATATA
Statistics
Matches: 67, Mismatches: 2, Indels: 10
0.85 0.03 0.13
Matches are distributed among these distances:
52 16 0.24
53 10 0.15
54 17 0.25
55 5 0.07
56 16 0.24
57 3 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (55 bp):
TATAATATAAATATAATATAAATTATATAAAAATAATATAAATATATTAAATTTA
Found at i:3598821 original size:27 final size:27
Alignment explanation
Indices: 3598766--3598833 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
3598756 ATTATTAAAA
* * *
3598766 TAAATATAAATATATAATATTTTAAATT
1 TAAATAT-AATATATAAAAATATAAATT
*
3598794 TAAATATAATATATAAAAATATATATT
1 TAAATATAATATATAAAAATATAAATT
* *
3598821 TATATATGATATA
1 TAAATATAATATA
3598834 AATTTATGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 27 0.79
28 7 0.21
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (27 bp):
TAAATATAATATATAAAAATATAAATT
Found at i:3602379 original size:20 final size:20
Alignment explanation
Indices: 3602343--3602382 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
3602333 CTTTTTGGTA
*
3602343 TTTTATTTTTCATTTATAAT
1 TTTTATTTTTAATTTATAAT
3602363 TTTTA-TTTTAATATTATAAT
1 TTTTATTTTTAAT-TTATAAT
3602383 AATGTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTATTTTTAATTTATAAT
Found at i:3603299 original size:13 final size:13
Alignment explanation
Indices: 3603278--3603312 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
3603268 ATAATTCTAA
3603278 ATAATTTGAAAAC
1 ATAATTTGAAAAC
*
3603291 ATAAATTGAAAAC
1 ATAATTTGAAAAC
3603304 ATAATTTGA
1 ATAATTTGA
3603313 TCTTGATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.54, C:0.06, G:0.09, T:0.31
Consensus pattern (13 bp):
ATAATTTGAAAAC
Found at i:3603642 original size:2 final size:2
Alignment explanation
Indices: 3603635--3603680 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
3603625 AAAATGAGTT
3603635 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3603677 TA TA
1 TA TA
3603681 ACTACAATGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3604852 original size:20 final size:20
Alignment explanation
Indices: 3604815--3604853 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3604805 AGATTATTTC
* * *
3604815 AATATTTAAATTATTATAAT
1 AATATTAAAAATAATATAAT
3604835 AATATTAAAAATAATATAA
1 AATATTAAAAATAATATAA
3604854 AACATTACAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AATATTAAAAATAATATAAT
Found at i:3613336 original size:11 final size:11
Alignment explanation
Indices: 3613299--3613336 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
3613289 TGTAAAAATT
*
3613299 TTATTTTTTAA
1 TTATTTATTAA
3613310 TTATTTATT-A
1 TTATTTATTAA
3613320 -TATTTATTAA
1 TTATTTATTAA
3613330 TTATTTA
1 TTATTTA
3613337 ATATTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
9 8 0.33
10 2 0.08
11 14 0.58
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTATTTATTAA
Found at i:3614913 original size:17 final size:18
Alignment explanation
Indices: 3614891--3614927 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
3614881 TTTTATTATA
*
3614891 TTTAAAT-AAATTTTAAT
1 TTTAAATAAAATGTTAAT
3614908 TTTAAATAAAATGTTAAT
1 TTTAAATAAAATGTTAAT
3614926 TT
1 TT
3614928 ATTGCAAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TTTAAATAAAATGTTAAT
Found at i:3614928 original size:17 final size:16
Alignment explanation
Indices: 3614890--3614928 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
3614880 TTTTTATTAT
*
3614890 ATTTAAATAAATTTTA
1 ATTTAAATAAATGTTA
3614906 ATTTTAAATAAAATGTTA
1 A-TTTAAAT-AAATGTTA
3614924 ATTTA
1 ATTTA
3614929 TTGCAAAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 11 0.55
18 8 0.40
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
ATTTAAATAAATGTTA
Found at i:3616650 original size:16 final size:18
Alignment explanation
Indices: 3616621--3616653 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
3616611 TCGTCTTTTA
3616621 TTTTATGTTATTTAAATT
1 TTTTATGTTATTTAAATT
3616639 TTTTAT-TT-TTTAAAT
1 TTTTATGTTATTTAAAT
3616654 ATTTAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (18 bp):
TTTTATGTTATTTAAATT
Found at i:3621517 original size:8 final size:8
Alignment explanation
Indices: 3621506--3621532 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
3621496 AAATATAATA
3621506 TATATTAT
1 TATATTAT
3621514 TATATTAT
1 TATATTAT
3621522 TATATTAT
1 TATATTAT
3621530 TAT
1 TAT
3621533 TTTTATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TATATTAT
Found at i:3627007 original size:95 final size:96
Alignment explanation
Indices: 3626760--3626998 Score: 340
Period size: 97 Copynumber: 2.5 Consensus size: 96
3626750 TGAAAAACAT
* *
3626760 GGTTAGAGTATCCCCTCGGAGGAATGTGGTTAAAGTGTCCCCGATGATGACAATTTAAGTGAGAA
1 GGTTGGAGTATCCCCTCGGAGGAATG-GGTTGAAGTGTCCCCGATGATGACAATTTAAGTGAGAA
3626825 TAAAATTTAAACTTTGATGCGTTAAAACGCGG
65 TAAAATTTAAACTTTGATGCGTTAAAACGCGG
*
3626857 GGTTGGAGTATCCCCTCGGAGGAATGGGACTGAAGTGTCCCCGATGATGACAATTTAAGTGAGAA
1 GGTTGGAGTATCCCCTCGGAGGAATGGG-TTGAAGTGTCCCCGATGATGACAATTTAAGTGAGAA
* * *
3626922 TAAGATTT-AAC-TTGATGTGTTTAAAA-TCGG
65 TAAAATTTAAACTTTGATGCG-TTAAAACGCGG
* * *
3626952 GGTTGGAGTATCACCTCGGAGGAATAGGGTTGGAGTATCCCCGATGA
1 GGTTGGAGTATCCCCTCGGAGGAAT-GGGTTGAAGTGTCCCCGATGA
3626999 ATAAAATTTC
Statistics
Matches: 129, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
95 49 0.38
96 14 0.11
97 66 0.51
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (96 bp):
GGTTGGAGTATCCCCTCGGAGGAATGGGTTGAAGTGTCCCCGATGATGACAATTTAAGTGAGAAT
AAAATTTAAACTTTGATGCGTTAAAACGCGG
Found at i:3633977 original size:15 final size:15
Alignment explanation
Indices: 3633953--3633982 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3633943 AAATATATTT
3633953 AGAACAAAAGTTAAA
1 AGAACAAAAGTTAAA
*
3633968 AGAACCAAAGTTAAA
1 AGAACAAAAGTTAAA
3633983 TGAATAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.10, G:0.13, T:0.13
Consensus pattern (15 bp):
AGAACAAAAGTTAAA
Found at i:3634932 original size:38 final size:38
Alignment explanation
Indices: 3634890--3635034 Score: 184
Period size: 38 Copynumber: 3.8 Consensus size: 38
3634880 CCAGCCACCG
*
3634890 GCCACCAGCCAATTCCAAATTAAATTCTCTAGCTG-CTA
1 GCCACCAGCCAATTCCAAATTGAATTCTCTAGCTGTC-A
* * *
3634928 GCCACTAGTCAATTCCAAATTGAATTCTCTAGTTGTCA
1 GCCACCAGCCAATTCCAAATTGAATTCTCTAGCTGTCA
* * *
3634966 GCCACCAACCAATTCCAAATTGAATTCTCTAACCGTCA
1 GCCACCAGCCAATTCCAAATTGAATTCTCTAGCTGTCA
* * *
3635004 GCCGCCAGCTAATTTCAAATTGAATTCTCTA
1 GCCACCAGCCAATTCCAAATTGAATTCTCTA
3635035 ACCATCAGCC
Statistics
Matches: 92, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
38 91 0.99
39 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.11, T:0.29
Consensus pattern (38 bp):
GCCACCAGCCAATTCCAAATTGAATTCTCTAGCTGTCA
Found at i:3639625 original size:38 final size:38
Alignment explanation
Indices: 3639569--3639687 Score: 150
Period size: 38 Copynumber: 3.1 Consensus size: 38
3639559 ATGCACTTTG
* * *
3639569 AAATTCCCTAGACACCAGCCACCAGCCAATTTCAAATT
1 AAATTCTCTAGTCACCAGCCACCAGCCAATTCCAAATT
**
3639607 AAATTCTCTAGTTGCCAGCCACC-GACCAATTCCAAATT
1 AAATTCTCTAGTCACCAGCCACCAG-CCAATTCCAAATT
* * *
3639645 GAATTCTCTAGTCATCAGCCACCAACCAATTCCAAATT
1 AAATTCTCTAGTCACCAGCCACCAGCCAATTCCAAATT
3639683 AAATT
1 AAATT
3639688 TTTTAACCAT
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
37 1 0.01
38 67 0.99
ACGTcount: A:0.35, C:0.31, G:0.08, T:0.25
Consensus pattern (38 bp):
AAATTCTCTAGTCACCAGCCACCAGCCAATTCCAAATT
Found at i:3639699 original size:38 final size:38
Alignment explanation
Indices: 3639584--3639700 Score: 117
Period size: 38 Copynumber: 3.1 Consensus size: 38
3639574 CCCTAGACAC
* * *****
3639584 CAGCCACCAGCCAATTTCAAATTAAATTCTCTAGTTGC
1 CAGCCACCAACCAATTCCAAATTAAATTCTCTAACCAT
* * **
3639622 CAGCCACCGACCAATTCCAAATTGAATTCTCTAGTCAT
1 CAGCCACCAACCAATTCCAAATTAAATTCTCTAACCAT
* *
3639660 CAGCCACCAACCAATTCCAAATTAAATTTTTTAACCAT
1 CAGCCACCAACCAATTCCAAATTAAATTCTCTAACCAT
3639698 CAG
1 CAG
3639701 TTGTCAATTA
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 66 1.00
ACGTcount: A:0.34, C:0.30, G:0.09, T:0.27
Consensus pattern (38 bp):
CAGCCACCAACCAATTCCAAATTAAATTCTCTAACCAT
Found at i:3646870 original size:22 final size:22
Alignment explanation
Indices: 3646842--3646888 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
3646832 TTATAATTAT
*
3646842 TATTATA-AAATATAGATATTTA
1 TATTATACAAATATAAAT-TTTA
3646864 TATTATACAAATATAAATTTTA
1 TATTATACAAATATAAATTTTA
3646886 TAT
1 TAT
3646889 ATTTTTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
TATTATACAAATATAAATTTTA
Found at i:3654210 original size:465 final size:466
Alignment explanation
Indices: 3653338--3654269 Score: 1677
Period size: 465 Copynumber: 2.0 Consensus size: 466
3653328 ATTCAGCCTT
*
3653338 ATCTATGGCACTAAAGTTGTCATCCCTACCAAAATTGGCGTTCACAGTATTAGAATGGCATTCGC
1 ATCTATGGCACTAAAGTTGTCATCCCTACCAAAATTGGCGTTCACAGTATTAGAATGGCATTCAC
*
3653403 CTATCATCATTTGAGTGAGCATGCACTAAGAGCAAACTTGGACCTACTCGAAGAAAGTAGGCAAA
66 CTATCATCATCTGAGTGAGCATGCACTAAGAGCAAACTTGGACCTACTCGAAGAAAGTAGGCAAA
* *
3653468 ATGCGACCATGAGGATTGCTAGCGCGAGCCCAGCAAGTCTCCAAGTGCTGCACGAGCCCAACAAG
131 ATGCGACCATGAGGATTGCTAGCGCGAACCCAGCAAGTCTCCAAGTGCTGCACAAGCCCAACAAG
*
3653533 TATTGTAAAGCCAATCGCCTTTAGGGAGAAAGAAAGAAATTATCACCAAATTAGAAAGAACCTTA
196 TATTGTAAAGCCAATCGCCTTGAGGGAGAAAGAAAGAAATTATCACCAAATTAGAAAGAACCTTA
* * * * *
3653598 TCGAGTCACCAAATTCATTGGCTTCGGAGCTTATCAGCTGGAAGGCTTAGATGGTAAATCGATTC
261 TCAAGTCACCAAATTCATTAGCTTAGGAGCTTATCAGCTGGAAAGCATAGATGGTAAATCGATTC
* *
3653663 CAAATACTTAGAATGCCCATCACGTTAAGAAATACTACTTGCAAAACCTAGCCAGGTATAATGTA
326 CAAATACTTAGAATGCCCATCACCTCAAGAAATACTACTTGCAAAACCTAGCCAGGTATAATGTA
*
3653728 ATTTCTTGAAAATCTCCAGTACTTAGCATTTTCTTTCCATCTCTGTGTGCTCGCCATTTATGATT
391 ATTTCTCGAAAATCTCCAGTACTTAGCATTTTCTTTCCATCTCTGTGTGCTCGCCATTTATGATT
3653793 TTGTTATCGCC
456 TTGTTATCGCC
*
3653804 ATCTATGGCACTAAAGTTGTCATCCCTACCAAAATTGGCGTTCACAGTGTTAGAATGGCATTCAC
1 ATCTATGGCACTAAAGTTGTCATCCCTACCAAAATTGGCGTTCACAGTATTAGAATGGCATTCAC
*
3653869 CTATCATCATCTGAGTGAGCTTGCACTAAGAGCAAACTTGGACCTACTCGAAGAAAGTAGGCAAA
66 CTATCATCATCTGAGTGAGCATGCACTAAGAGCAAACTTGGACCTACTCGAAGAAAGTAGGCAAA
*
3653934 ATGCGACCATGAGGATTGCT-GTGCGAACCCAGCAAGTCTCCAAGTGCTGCACAAGCCCAACAAG
131 ATGCGACCATGAGGATTGCTAGCGCGAACCCAGCAAGTCTCCAAGTGCTGCACAAGCCCAACAAG
* *
3653998 TCTTGTAAAGCCAGTCGCCTTGAGGGAGAAAGAAAGAAATTATCACCAAATTAGAAAGAACCTTA
196 TATTGTAAAGCCAATCGCCTTGAGGGAGAAAGAAAGAAATTATCACCAAATTAGAAAGAACCTTA
3654063 TCAAGTCACCAAATTCATTAGCTTAGGAGCTTATCAGCTGGAAAGCATAGATGGTAAATCGATTC
261 TCAAGTCACCAAATTCATTAGCTTAGGAGCTTATCAGCTGGAAAGCATAGATGGTAAATCGATTC
*
3654128 CAAATACTTGGAATGCCCATCACCTCAAGAAATACTACTTGCAAAACCTAGCCAGGTATAATGTA
326 CAAATACTTAGAATGCCCATCACCTCAAGAAATACTACTTGCAAAACCTAGCCAGGTATAATGTA
*
3654193 ATTTCTCGAAAATCTCCAGTACTTAGCATTTTCTTTCCATCTTTGTGTGCTCGCCATTTATGATT
391 ATTTCTCGAAAATCTCCAGTACTTAGCATTTTCTTTCCATCTCTGTGTGCTCGCCATTTATGATT
3654258 TTGTTATCGCC
456 TTGTTATCGCC
3654269 A
1 A
3654270 CCAAGGCAAC
Statistics
Matches: 446, Mismatches: 20, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
465 300 0.67
466 146 0.33
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (466 bp):
ATCTATGGCACTAAAGTTGTCATCCCTACCAAAATTGGCGTTCACAGTATTAGAATGGCATTCAC
CTATCATCATCTGAGTGAGCATGCACTAAGAGCAAACTTGGACCTACTCGAAGAAAGTAGGCAAA
ATGCGACCATGAGGATTGCTAGCGCGAACCCAGCAAGTCTCCAAGTGCTGCACAAGCCCAACAAG
TATTGTAAAGCCAATCGCCTTGAGGGAGAAAGAAAGAAATTATCACCAAATTAGAAAGAACCTTA
TCAAGTCACCAAATTCATTAGCTTAGGAGCTTATCAGCTGGAAAGCATAGATGGTAAATCGATTC
CAAATACTTAGAATGCCCATCACCTCAAGAAATACTACTTGCAAAACCTAGCCAGGTATAATGTA
ATTTCTCGAAAATCTCCAGTACTTAGCATTTTCTTTCCATCTCTGTGTGCTCGCCATTTATGATT
TTGTTATCGCC
Found at i:3660550 original size:38 final size:37
Alignment explanation
Indices: 3660477--3660554 Score: 113
Period size: 38 Copynumber: 2.1 Consensus size: 37
3660467 CTAGTGTTTT
*
3660477 ATTTTTAAAAATAAAACATTGTAAGATCTTACCATTA
1 ATTTTTAAAAATAAAACATTGTAAAATCTTACCATTA
*
3660514 ATTTTTAAAAATAAAA-ATGTTGTAAAATCTTGCCATTA
1 ATTTTTAAAAATAAAACA--TTGTAAAATCTTACCATTA
3660552 ATT
1 ATT
3660555 GATAATTGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
36 1 0.03
37 16 0.43
38 20 0.54
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (37 bp):
ATTTTTAAAAATAAAACATTGTAAAATCTTACCATTA
Found at i:3662799 original size:29 final size:29
Alignment explanation
Indices: 3662761--3662821 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
3662751 CTCGATTTTT
*
3662761 AAATAAATTATTAAAATACTATTAATTTA
1 AAATAAATTATCAAAATACTATTAATTTA
* *
3662790 AAATAAATTATCAAAATATTATTATTTTA
1 AAATAAATTATCAAAATACTATTAATTTA
3662819 AAA
1 AAA
3662822 CGTGAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (29 bp):
AAATAAATTATCAAAATACTATTAATTTA
Found at i:3663191 original size:20 final size:19
Alignment explanation
Indices: 3663168--3663219 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
3663158 CATATTCAGA
* *
3663168 TGTATCGATACATTATGCTT
1 TGTATCGATACATGAT-CAT
* *
3663188 TGTATCGACACATGCTCAT
1 TGTATCGATACATGATCAT
3663207 TGTATCGATACAT
1 TGTATCGATACAT
3663220 ACTCAATTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGATCAT
Found at i:3663211 original size:19 final size:19
Alignment explanation
Indices: 3663187--3663224 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
3663177 ACATTATGCT
*
3663187 TTGTATCGACACATGCTCA
1 TTGTATCGACACATACTCA
*
3663206 TTGTATCGATACATACTCA
1 TTGTATCGACACATACTCA
3663225 ATTATATTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (19 bp):
TTGTATCGACACATACTCA
Found at i:3663312 original size:33 final size:33
Alignment explanation
Indices: 3663267--3663331 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
3663257 CCTTAAGTGA
**
3663267 AATGTATCGATACAT-GGGACATTGTATCGATAC
1 AATGTATCGATACATAAAGA-ATTGTATCGATAC
*
3663300 AATGTATTGATACATAAAGAATTGTATCGATA
1 AATGTATCGATACATAAAGAATTGTATCGATA
3663332 ACGGCTCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.32
Consensus pattern (33 bp):
AATGTATCGATACATAAAGAATTGTATCGATAC
Found at i:3664446 original size:38 final size:37
Alignment explanation
Indices: 3664402--3664495 Score: 100
Period size: 38 Copynumber: 2.5 Consensus size: 37
3664392 TACAATCCTT
* *
3664402 ATTTTAAAATAATTAAATGATTATAACCTTTAATCT-AA
1 ATTTTAAAATAATTAAATGATTACAA-CTTGAAT-TAAA
* *
3664440 ATTTTAAAAATAATTAGACGATTACAACTTGAATTAAA
1 ATTTT-AAAATAATTAAATGATTACAACTTGAATTAAA
* *
3664478 ATTTTAAATTAAATAAAT
1 ATTTTAAAATAATTAAAT
3664496 TAAATTAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
37 10 0.22
38 18 0.39
39 18 0.39
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.39
Consensus pattern (37 bp):
ATTTTAAAATAATTAAATGATTACAACTTGAATTAAA
Found at i:3664500 original size:14 final size:14
Alignment explanation
Indices: 3664481--3664543 Score: 58
Period size: 14 Copynumber: 4.5 Consensus size: 14
3664471 AATTAAAATT
3664481 TTAAATTAAATAAA
1 TTAAATTAAATAAA
**
3664495 TTAAATTAAATATT
1 TTAAATTAAATAAA
*
3664509 TTAAAAT-AATAGAA
1 TTAAATTAAATA-AA
*
3664523 TTACAATTTAATAAA
1 TTA-AATTAAATAAA
3664538 -TAAATT
1 TTAAATT
3664544 TATCGTCATC
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
13 8 0.20
14 23 0.57
15 5 0.12
16 4 0.10
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (14 bp):
TTAAATTAAATAAA
Found at i:3664512 original size:28 final size:29
Alignment explanation
Indices: 3664471--3664535 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
3664461 TTACAACTTG
*
3664471 AATTAAA-ATTTTAAATTAAATA-AATTA-
1 AATTAAATATTTTAAAAT-AATAGAATTAC
3664498 AATTAAATATTTTAAAATAATAGAATTAC
1 AATTAAATATTTTAAAATAATAGAATTAC
*
3664527 AATTTAATA
1 AATTAAATA
3664536 AATAAATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 11 0.33
28 14 0.42
29 8 0.24
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (29 bp):
AATTAAATATTTTAAAATAATAGAATTAC
Found at i:3664902 original size:25 final size:26
Alignment explanation
Indices: 3664853--3664907 Score: 73
Period size: 24 Copynumber: 2.2 Consensus size: 26
3664843 CAACCTATTT
3664853 TATTATTATATTATATATTAATTTTA
1 TATTATTATATTATATATTAATTTTA
3664879 TATT-TTATA-TAT-TATGTAATTTT-
1 TATTATTATATTATATAT-TAATTTTA
3664902 TATTAT
1 TATTAT
3664908 ATAAAAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 7 0.26
24 11 0.41
25 5 0.19
26 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (26 bp):
TATTATTATATTATATATTAATTTTA
Found at i:3664910 original size:23 final size:23
Alignment explanation
Indices: 3664855--3664910 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
3664845 ACCTATTTTA
3664855 TTATTATAT-TATATATTAATTT
1 TTATTATATATATATATTAATTT
*
3664877 TATATTTTATATAT-TATGTAATTT
1 T-TATTATATATATATAT-TAATTT
3664901 TTATTATATA
1 TTATTATATA
3664911 AAAATATATG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 1 0.03
23 18 0.62
24 10 0.34
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
TTATTATATATATATATTAATTT
Found at i:3665024 original size:14 final size:14
Alignment explanation
Indices: 3665007--3665051 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
3664997 TAAAGATTAA
3665007 ATTTTAAAAAATAT
1 ATTTTAAAAAATAT
*
3665021 ATTTTTAAAAAAATAA
1 A-TTTT-AAAAAATAT
*
3665037 ATTATAAAAAATAT
1 ATTTTAAAAAATAT
3665051 A
1 A
3665052 ATATGAGTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 10 0.38
15 7 0.27
16 9 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
ATTTTAAAAAATAT
Found at i:3665026 original size:15 final size:15
Alignment explanation
Indices: 3665006--3665053 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
3664996 ATAAAGATTA
3665006 AATTTTAAAAAATAT
1 AATTTTAAAAAATAT
*
3665021 ATTTTTAAAAAA-AT
1 AATTTTAAAAAATAT
*
3665035 AAATTATAAAAAATAT
1 -AATTTTAAAAAATAT
3665051 AAT
1 AAT
3665054 ATGAGTTGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AATTTTAAAAAATAT
Found at i:3673483 original size:26 final size:26
Alignment explanation
Indices: 3673428--3673476 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
3673418 TTTTAAAATT
3673428 TTTATTTAAATTTAAATTATTTTAAA
1 TTTATTTAAATTTAAATTATTTTAAA
3673454 TTTATGTTAAA-TTAAATT-TTTTA
1 TTTAT-TTAAATTTAAATTATTTTA
3673477 TTATTTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 5 0.23
26 12 0.55
27 5 0.23
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (26 bp):
TTTATTTAAATTTAAATTATTTTAAA
Found at i:3673505 original size:33 final size:34
Alignment explanation
Indices: 3673460--3673565 Score: 85
Period size: 34 Copynumber: 3.1 Consensus size: 34
3673450 TAAATTTATG
* *
3673460 TTAAATTAAATTTTTTATT-AT-TTAATATATTA
1 TTAAAATAAATTTTATATTAATATTAATATATTA
*
3673492 TTAAAATATAATTTTATATTAATATTTATATATT-
1 TTAAAATA-AATTTTATATTAATATTAATATATTA
* * * * *
3673526 TTTAATTAAA-TTTAAATTTAAATATTATTTTATTA
1 TTAAAATAAATTTTATA-TT-AATATTAATATATTA
3673561 TTAAA
1 TTAAA
3673566 TAATAATTTA
Statistics
Matches: 58, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
32 12 0.21
33 14 0.24
34 19 0.33
35 13 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (34 bp):
TTAAAATAAATTTTATATTAATATTAATATATTA
Found at i:3673528 original size:22 final size:20
Alignment explanation
Indices: 3673497--3673539 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
3673487 TATTATTAAA
3673497 ATATAATTTTATATTAATATTT
1 ATATAATTTTA-ATTAA-ATTT
*
3673519 ATATATTTTTAATTAAATTT
1 ATATAATTTTAATTAAATTT
3673539 A
1 A
3673540 AATTTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 5 0.25
22 10 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
ATATAATTTTAATTAAATTT
Found at i:3674036 original size:17 final size:17
Alignment explanation
Indices: 3674002--3674037 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
3673992 AGGATATTCC
*
3674002 ATCAATTAATTCAGTTA
1 ATCAATTAATTCAATTA
*
3674019 ATCAATTAATTTAATTA
1 ATCAATTAATTCAATTA
3674036 AT
1 AT
3674038 TTATATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.44
Consensus pattern (17 bp):
ATCAATTAATTCAATTA
Found at i:3674053 original size:123 final size:122
Alignment explanation
Indices: 3673910--3674162 Score: 310
Period size: 123 Copynumber: 2.1 Consensus size: 122
3673900 TTTGATAAAT
** * *
3673910 TTAATTTATACATAAAATTAAAATTAAATAAACAAACATTTTTAAAAA-TAGGCTTCAAATGTTT
1 TTAATTTATACATAAAATTAAAATTAAATAAACAAA-A-AATTAAAAATTAAGCTTCAAATATTT
* ** * * *
3673974 AAATTGTTAATGTTTGGTAGGATATTCCATCAATTAATTCAGTTAATCAATTAATTTAA
64 AAATTATTAATGTTTAATAAGATATTCAATCAATTAATTCAGTTAATCAATTAATTCAA
* * * *
3674033 TTAATTTATATATATAATTAAAATTAAATAAATAAAAAATTAAAAATTTAAGCTTTAAATATTTA
1 TTAATTTATACATAAAATTAAAATTAAATAAACAAAAAATTAAAAA-TTAAGCTTCAAATATTTA
* * * *
3674098 AATTATTAATGTTTAATAAGATGTTTAATCGATTAATTCAGTTAATCAATTAATTCAG
65 AATTATTAATGTTTAATAAGATATTCAATCAATTAATTCAGTTAATCAATTAATTCAA
3674156 TTAATTT
1 TTAATTT
3674163 GATAACATCA
Statistics
Matches: 110, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
121 7 0.06
122 1 0.01
123 102 0.93
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (122 bp):
TTAATTTATACATAAAATTAAAATTAAATAAACAAAAAATTAAAAATTAAGCTTCAAATATTTAA
ATTATTAATGTTTAATAAGATATTCAATCAATTAATTCAGTTAATCAATTAATTCAA
Found at i:3674144 original size:17 final size:17
Alignment explanation
Indices: 3674122--3674160 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
3674112 AATAAGATGT
*
3674122 TTAATCGATTAATTCAG
1 TTAATCAATTAATTCAG
3674139 TTAATCAATTAATTCAG
1 TTAATCAATTAATTCAG
3674156 TTAAT
1 TTAAT
3674161 TTGATAACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (17 bp):
TTAATCAATTAATTCAG
Found at i:3674243 original size:27 final size:26
Alignment explanation
Indices: 3674213--3674294 Score: 69
Period size: 28 Copynumber: 3.0 Consensus size: 26
3674203 TTAAAATATG
* *
3674213 TTATATTTATTACTATTATAAATATT-A
1 TTATATTAATTA-TAATA-AAATATTAA
3674240 TTATAATTAATTATAATAAAATATTAA
1 TTAT-ATTAATTATAATAAAATATTAA
*
3674267 TTATAATATCAATAATAA-AAAATATTAA
1 TTAT-AT-T-AATTATAATAAAATATTAA
3674295 AATTATTATA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
26 7 0.15
27 16 0.33
28 18 0.38
29 7 0.15
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (26 bp):
TTATATTAATTATAATAAAATATTAA
Found at i:3674261 original size:26 final size:27
Alignment explanation
Indices: 3674232--3674293 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
3674222 TTACTATTAT
*
3674232 AAATATTATTATAAT-T-AATTATAATA
1 AAATATTATTATAATATCAATAATAA-A
3674258 AAATATTAATTATAATATCAATAATAAA
1 AAATATT-ATTATAATATCAATAATAAA
3674286 AAATATTA
1 AAATATTA
3674294 AAATTATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
26 7 0.22
27 9 0.28
28 9 0.28
29 7 0.22
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (27 bp):
AAATATTATTATAATATCAATAATAAA
Found at i:3675566 original size:2 final size:2
Alignment explanation
Indices: 3675555--3675602 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
3675545 TTTTTAAAAT
3675555 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3675596 TA TA TA T
1 TA TA TA T
3675603 TCATGTCGTT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3676898 original size:2 final size:2
Alignment explanation
Indices: 3676891--3676931 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
3676881 GGATACATGC
3676891 AT 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 AT A
3676932 ATTATTTCGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3679336 original size:16 final size:16
Alignment explanation
Indices: 3679316--3679356 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
3679306 ATAAAAATAA
3679316 TTTAAAATTA-AATTT
1 TTTAAAATTATAATTT
*
3679331 TATT-AAATAATAATTT
1 T-TTAAAATTATAATTT
3679347 TTTAAAATTA
1 TTTAAAATTA
3679357 GTATAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTAAAATTATAATTT
Found at i:3679571 original size:14 final size:14
Alignment explanation
Indices: 3679535--3679575 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
3679525 AATTTAAAAA
3679535 TTAAAT-AAAAA-C
1 TTAAATAAAAAATC
3679547 TTAAAACTAAAAAATC
1 TT-AAA-TAAAAAATC
3679563 TTAAATAAAAAAT
1 TTAAATAAAAAAT
3679576 AAATTAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 2 0.08
13 3 0.12
14 9 0.36
15 8 0.32
16 3 0.12
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (14 bp):
TTAAATAAAAAATC
Found at i:3680079 original size:52 final size:50
Alignment explanation
Indices: 3680004--3680691 Score: 455
Period size: 52 Copynumber: 13.9 Consensus size: 50
3679994 AGACAATAAT
* * *
3680004 TTTATATT-AATTTTAAATTATTATTTAAAAATAATAAAAAATTATAAATA
1 TTTATATTAAATCTTGAATTACTATTTAAAAATAATAAAAAATTA-AAATA
* * *
3680054 CCTTATATTAAATCTCT-AATTATTATTTAAAAAT-ATAAATAATTAAAAAATA
1 -TTTATATTAAATCT-TGAATTACTATTTAAAAATAATAAAAAATT--AAAATA
* * * * * * *
3680106 TATATACTAAATATTGAATTA-AATTTAATAATAGT-AAAAA--AATAT-
1 TTTATATTAAATCTTGAATTACTATTTAAAAATAATAAAAAATTAAAATA
* *
3680151 TTTATATTAAATC-TCATATTATTATTTAAAAATTAATAAAAAATTAAAATA
1 TTTATATTAAATCTTGA-ATTACTATTTAAAAA-TAATAAAAAATTAAAATA
** *
3680202 TTTTATATTAAATAC-TGAATTACTATCAAAAAATAATAAAATATTAAAAGCATA
1 -TTTATATTAAAT-CTTGAATTACTATTTAAAAATAATAAAAAATT-AAA--ATA
* * * *
3680256 TTTTACATTAAATCTTGAAATATTA-TTAGAAATAATAAAAAATTAAAATA
1 -TTTATATTAAATCTTGAATTACTATTTAAAAATAATAAAAAATTAAAATA
* * * *
3680306 TTTTATATTAAAT-TTTAA--ATTA-TTAAAAAT-ATAAATAATTAAAAAA
1 -TTTATATTAAATCTTGAATTACTATTTAAAAATAATAAAAAATTAAAATA
* * *
3680352 TATATATTAAATCTTGAATTACAATTTAAAAATAGTAAAAAA-TAAAATA
1 TTTATATTAAATCTTGAATTACTATTTAAAAATAATAAAAAATTAAAATA
* *
3680401 TTTTATATTAAATATGGAATTACTATTTAAAAAATAAT-AAAAATTAAGAA-A
1 -TTTATATTAAATCTTGAATTACTATTT-AAAAATAATAAAAAATTAA-AATA
* * * *
3680452 --TATATT---TTTATAAATTACTATTTAAAAATACTGAAAAATTAAAAATA
1 TTTATATTAAATCT-TGAATTACTATTTAAAAATAATAAAAAATT-AAAATA
* ** *
3680499 TTATATAATAAATCTCAAATTACTATTTAAAAATAATAAAAAA-CAAAA-A
1 TT-TATATTAAATCTTGAATTACTATTTAAAAATAATAAAAAATTAAAATA
** * * * * * *
3680548 AATATATTAAGTTTTGAATTACTATTT-AAGATAATTAAAAATTAAAGTTGT
1 TTTATATTAAATCTTGAATTACTATTTAAAAATAATAAAAAATTAAA-AT-A
* * *
3680599 TTTATATAAAATCTTGAATTATTA-TTGAAAATAATAAAAAATTAAGAAATA
1 TTTATATTAAATCTTGAATTACTATTTAAAAATAATAAAAAATT-A-AAATA
* * * *
3680650 TTTTATATTAAATCCTAAAATAATATTTAAAAAT--TAAAAAAT
1 -TTTATATTAAATCTTGAATTACTATTTAAAAATAATAAAAAAT
3680692 ATTTAATATA
Statistics
Matches: 503, Mismatches: 87, Indels: 94
0.74 0.13 0.14
Matches are distributed among these distances:
44 2 0.00
45 35 0.07
46 50 0.10
47 29 0.06
48 36 0.07
49 19 0.04
50 78 0.16
51 95 0.19
52 104 0.21
53 32 0.06
54 23 0.05
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (50 bp):
TTTATATTAAATCTTGAATTACTATTTAAAAATAATAAAAAATTAAAATA
Found at i:3680346 original size:16 final size:17
Alignment explanation
Indices: 3680321--3680355 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
3680311 TATTAAATTT
*
3680321 TAAATTATT-AAAAATA
1 TAAATAATTAAAAAATA
3680337 TAAATAATTAAAAAATA
1 TAAATAATTAAAAAATA
3680354 TA
1 TA
3680356 TATTAAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAATAATTAAAAAATA
Found at i:3680368 original size:95 final size:103
Alignment explanation
Indices: 3680002--3680691 Score: 370
Period size: 96 Copynumber: 6.9 Consensus size: 103
3679992 TGAGACAATA
** * * * * *
3680002 ATTTTATATT-AATTTTAAATTATTATTTAAAAATAATAAAAAATTATAA-ATACCT-TATATTA
1 ATTTTATATTAAATACTAAATTACTA-TAAAAAATAATAAAATATTAAAACATA-TTATATATTA
* *
3680064 AATCTCT-AATTATTATTTAAAAAT-ATAAATAATTAAAAA
64 AATCT-TGAATTATTATTTAAAAATAATAAAAAATTAAAAT
* * * * *** * * *
3680103 ATATATATACTAAATATTGAATTA--A-ATTTAATAAT--AGTA--AAAAAATATTTTATATTAA
1 AT-TTTATATTAAATACTAAATTACTATAAAAAATAATAAAATATTAAAACATATTATATATTAA
*
3680161 ATC-TCATATTATTATTTAAAAATTAATAAAAAATTAAAAT
65 ATCTTGA-ATTATTATTTAAAAA-TAATAAAAAATTAAAAT
* * *
3680201 ATTTTATATTAAATACTGAATTACTATCAAAAAATAATAAAATATTAAAAGCATATTTTACATTA
1 ATTTTATATTAAATACTAAATTACTAT-AAAAAATAATAAAATATTAAAA-CATATTATATATTA
* *
3680266 AATCTTGAAATATTA-TTAGAAATAATAAAAAATTAAAAT
64 AATCTTGAATTATTATTTAAAAATAATAAAAAATTAAAAT
**
3680305 ATTTTATATTAAATTTTAAATTA-T-T-AAAAAT-AT-AAATAATTAAAA-A-A-TATATATTAA
1 ATTTTATATTAAATACTAAATTACTATAAAAAATAATAAAAT-ATTAAAACATATTATATATTAA
** *
3680362 ATCTTGAATTACAATTTAAAAATAGTAAAAAA-TAAAAT
65 ATCTTGAATTATTATTTAAAAATAATAAAAAATTAAAAT
*
3680400 ATTTTATATTAAATA-TGGAATTACTATTTAAAAAATAATAAAA-ATTAAGAA-ATA-TAT-T-T
1 ATTTTATATTAAATACT-AAATTACTA--TAAAAAATAATAAAATATTAA-AACATATTATATAT
* * * * *
3680459 T---T-ATAAATTACTATTTAAAAATACTGAAAAATTAAAAAT
62 TAAATCTTGAATTATTATTTAAAAATAATAAAAAATT-AAAAT
* * * **
3680498 ATTATATAATAAAT-CTCAAATTACTATTTAAAAATAATAAAA-AACAAAA-A-A--ATATATTA
1 ATTTTATATTAAATACT-AAATTACTA-TAAAAAATAATAAAATATTAAAACATATTATATATTA
* * * * * *
3680557 AGTTTTGAATTACTATTT-AAGATAATTAAAAATTAAAGTT
64 AATCTTGAATTATTATTTAAAAATAATAAAAAATTAAA-AT
* * * * ** * *
3680597 GTTTTATATAAAAT-CTTGAATTATTATTGAAAATAATAAAAAATTAAGAA-ATATTTTATATTA
1 ATTTTATATTAAATAC-TAAATTACTATAAAAAATAATAAAATATTAA-AACATATTATATATTA
* * * *
3680660 AATCCTAAAATAATATTTAAAAAT--TAAAAAAT
64 AATCTTGAATTATTATTTAAAAATAATAAAAAAT
3680692 ATTTAATATA
Statistics
Matches: 468, Mismatches: 74, Indels: 93
0.74 0.12 0.15
Matches are distributed among these distances:
94 4 0.01
95 51 0.11
96 75 0.16
97 42 0.09
98 62 0.13
99 53 0.11
100 35 0.07
101 17 0.04
102 21 0.04
103 33 0.07
104 41 0.09
105 10 0.02
106 22 0.05
107 2 0.00
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (103 bp):
ATTTTATATTAAATACTAAATTACTATAAAAAATAATAAAATATTAAAACATATTATATATTAAA
TCTTGAATTATTATTTAAAAATAATAAAAAATTAAAAT
Found at i:3680541 original size:98 final size:97
Alignment explanation
Indices: 3680168--3680662 Score: 318
Period size: 98 Copynumber: 5.0 Consensus size: 97
3680158 TAAATCTCAT
* * **
3680168 ATTATTATTTAAAAATTAATAAAAAATT-AAAATATTTTATATTAAATACT-GAATTACTATCAA
1 ATTACTATTTAAAAA-TAAT-AAAAATTAAAAATATTTTATAATAAAT-CTCGAATTACTATTTA
* * **
3680231 AAAATAATAAAATATTAA-AAGCATATTTTACATTAA
63 AAAATAATAAAAAATTAAGAA--ATATATTATTTTAA
* * * ** *
3680267 ATCTTGAAATATTATTAGAAATAATAAAAAATT-AAAATATTTTATATTAAAT-TTTAA--ATTA
1 A--TT--ACTA-T-TTAAAAATAAT-AAAAATTAAAAATATTTTATAATAAATCTCGAATTACTA
* * * *
3680328 -TTAAAAAT-ATAAATAATTAAAAAATATATATTAAATCTTGA
59 TTTAAAAATAATAAAAAATT-AAGAA-ATATATT--ATTTTAA
* * * * * *
3680369 ATTACAATTTAAAAATAGTAAAAAAT-AAAATATTTTATATTAAATATGGAATTACTATTTAAAA
1 ATTACTATTTAAAAATAATAAAAATTAAAAATATTTTATAATAAATCTCGAATTACTATTT-AAA
3680433 AATAAT-AAAAATTAAGAAATATATT-TTTATAA
65 AATAATAAAAAATTAAGAAATATATTATTT-TAA
* * *
3680465 ATTACTATTTAAAAATACTGAAAAATTAAAAATATTATATAATAAATCTCAAATTACTATTTAAA
1 ATTACTATTTAAAAATAAT-AAAAATTAAAAATATTTTATAATAAATCTCGAATTACTATTTAAA
** * *
3680530 AATAATAAAAAACAAAAAAATATATTAAGTTTTGA
65 AATAATAAAAAATTAAGAAATATATT-A-TTTTAA
* ** * * * *
3680565 ATTACTATTT-AAGATAATTAAAAATTAAAGTTGTTTTAT-ATAAAATCTTGAATTATTA-TTGA
1 ATTACTATTTAAAAATAA-TAAAAATTAAAAATATTTTATAAT-AAATCTCGAATTACTATTTAA
* *
3680627 AAATAATAAAAAATTAAGAAATATTTTATATTAA
64 AAATAATAAAAAATTAAGAAATATATTATTTTAA
3680661 AT
1 AT
3680663 CCTAAAATAA
Statistics
Matches: 317, Mismatches: 53, Indels: 55
0.75 0.12 0.13
Matches are distributed among these distances:
95 27 0.09
96 37 0.12
97 17 0.05
98 85 0.27
99 49 0.15
100 41 0.13
101 12 0.04
102 6 0.02
103 5 0.02
104 32 0.10
105 6 0.02
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.38
Consensus pattern (97 bp):
ATTACTATTTAAAAATAATAAAAATTAAAAATATTTTATAATAAATCTCGAATTACTATTTAAAA
ATAATAAAAAATTAAGAAATATATTATTTTAA
Found at i:3680834 original size:22 final size:22
Alignment explanation
Indices: 3680784--3680834 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
3680774 AAACTAAATT
* *
3680784 TACATATGACTATAATTGAACG
1 TACATATGAATATAATTGAACA
* * *
3680806 TATATATGAATTTAATTGAATA
1 TACATATGAATATAATTGAACA
3680828 TACATAT
1 TACATAT
3680835 AACTAAAAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.39
Consensus pattern (22 bp):
TACATATGAATATAATTGAACA
Found at i:3681096 original size:22 final size:22
Alignment explanation
Indices: 3681065--3681122 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
3681055 TTAAATATAT
3681065 ATATATATATGACTATAACTAA
1 ATATATATATGACTATAACTAA
* * *
3681087 ATATAAATATGATTATAATTAA
1 ATATATATATGACTATAACTAA
*
3681109 ATGTATATATGACT
1 ATATATATATGACT
3681123 TTAATTGAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.40
Consensus pattern (22 bp):
ATATATATATGACTATAACTAA
Found at i:3681127 original size:22 final size:22
Alignment explanation
Indices: 3681065--3681133 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
3681055 TTAAATATAT
* *
3681065 ATATATATATGACTATAACTAA
1 ATATATATATGACTTTAATTAA
*
3681087 ATATAAATATGA-TTATAATTAA
1 ATATATATATGACTT-TAATTAA
*
3681109 ATGTATATATGACTTTAATTGAA
1 ATATATATATGACTTTAATT-AA
3681132 AT
1 AT
3681134 TATCTCTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
21 1 0.03
22 32 0.82
23 6 0.15
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (22 bp):
ATATATATATGACTTTAATTAA
Found at i:3681271 original size:44 final size:44
Alignment explanation
Indices: 3681197--3681354 Score: 149
Period size: 44 Copynumber: 3.3 Consensus size: 44
3681187 TTATTTTTAA
3681197 ATTTTTTATTATTTTTAAAATAGTAATTTGAAATTTAATATAAAAT
1 ATTTTTTA-T-TTTTTAAAATAGTAATTTGAAATTTAATATAAAAT
* *
3681243 ATTTTTTATTTTTTAAGAA-AGTAGTTTGAGATTTAATATAAAAT
1 ATTTTTTATTTTTTAA-AATAGTAATTTGAAATTTAATATAAAAT
*
3681287 ATTTTTTTAATTTTTATTATTTTTAAATAGTAATTT-ATGATTTAATATAAAAT
1 A-TTTTTT-A-TTTT-TTA-----AAATAGTAATTTGA-AATTTAATATAAAAT
*
3681340 TTTTTTTATTTTTTA
1 ATTTTTTATTTTTTA
3681355 CTTTTTTTAA
Statistics
Matches: 96, Mismatches: 4, Indels: 21
0.79 0.03 0.17
Matches are distributed among these distances:
44 31 0.32
45 9 0.09
46 9 0.09
47 4 0.04
48 3 0.03
49 3 0.03
50 4 0.04
51 1 0.01
52 9 0.09
53 23 0.24
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (44 bp):
ATTTTTTATTTTTTAAAATAGTAATTTGAAATTTAATATAAAAT
Found at i:3681300 original size:53 final size:51
Alignment explanation
Indices: 3681242--3681375 Score: 164
Period size: 52 Copynumber: 2.6 Consensus size: 51
3681232 TAATATAAAA
*
3681242 TATTTTTTA-TTTTTTAAGAAAGTAGTTTGA-GATTTAATATAAAATATTTTTT
1 TATTTTTTACTTTTTTAA-AAAGTAATTT-ATGATTTAATATAAAAT-TTTTTT
* * *
3681294 TAATTTTTATTATTTTTAAATAGTAATTTATGATTTAATATAAAATTTTTTT
1 TATTTTTTACT-TTTTTAAAAAGTAATTTATGATTTAATATAAAATTTTTTT
*
3681346 TATTTTTTACTTTTTTTAAATAGTAATTTA
1 TATTTTTTAC-TTTTTTAAAAAGTAATTTA
3681376 GGATCCTTTA
Statistics
Matches: 73, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
52 41 0.56
53 25 0.34
54 7 0.10
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.59
Consensus pattern (51 bp):
TATTTTTTACTTTTTTAAAAAGTAATTTATGATTTAATATAAAATTTTTTT
Found at i:3681347 original size:52 final size:52
Alignment explanation
Indices: 3681272--3681536 Score: 233
Period size: 52 Copynumber: 5.1 Consensus size: 52
3681262 AGTAGTTTGA
* *
3681272 GATTTAATATAAAATATTTTTTTAATTTTTATTATTTTTAAATAGTAATTTAT
1 GATTTAATATAAAAT-TTTTTTAAATTTTTATTATTTTTAAATAGTAATTTAG
* *
3681325 GATTTAATATAAAATTTTTTTTATTTTTTACTT-TTTTTAAATAGTAATTTAG
1 GATTTAATATAAAATTTTTTTAAATTTTTA-TTATTTTTAAATAGTAATTTAG
* * * * *
3681377 GATCCTT--TATAAAATATTTTAAAATTGTTTCTTATTTTTTAAA-AATAATTTTG
1 GAT--TTAATATAAAATTTTTTTAAATT-TTTATTA-TTTTTAAATAGTAATTTAG
* * * * * *
3681430 TATGTAATATAAGATATTTTCAAA-TTTTATTATTATTTAAATAGTAA-TAAG
1 GATTTAATATAAAATTTTTTTAAATTTTTATTATT-TTTAAATAGTAATTTAG
* *
3681481 GATTT-A-ATAAAATATTTTTAAATTTTTATTATTTTTTTAAA-AATAATTTAG
1 GATTTAATATAAAATTTTTTTAAATTTTTATTA--TTTTTAAATAGTAATTTAG
3681532 GATTT
1 GATTT
3681537 TAAAAAAAAA
Statistics
Matches: 175, Mismatches: 23, Indels: 30
0.77 0.10 0.13
Matches are distributed among these distances:
49 14 0.08
50 15 0.09
51 32 0.18
52 59 0.34
53 45 0.26
54 10 0.06
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.55
Consensus pattern (52 bp):
GATTTAATATAAAATTTTTTTAAATTTTTATTATTTTTAAATAGTAATTTAG
Found at i:3681412 original size:105 final size:100
Alignment explanation
Indices: 3681279--3681529 Score: 265
Period size: 105 Copynumber: 2.4 Consensus size: 100
3681269 TGAGATTTAA
* * *
3681279 TATAAAATATTTTTTTAATTTTTATTATTTTTAAATAGTAATTTATG-ATTTAATATAAAAT-TT
1 TATAAAATA-TTTTTAAATTTTTATTATTTTTAAA-AATAATTT-TGTATGTAATATAAAATATT
*** * *
3681342 TTTTTATTTT-TTACTTTTTTTAAATAGTAATTTAGGATCCTT
63 TTCAAATTTTATTA--TTATTTAAATAGTAA-TAAGGAT--TT
* * *
3681384 TATAAAATATTTTAAAATTGTTTCTTATTTTTTAAAAATAATTTTGTATGTAATATAAGATATTT
1 TATAAAATATTTTTAAATT-TTTATTA-TTTTTAAAAATAATTTTGTATGTAATATAAAATATTT
3681449 TCAAATTTTATTATTATTTAAATAGTAATAAGGATTT
64 TCAAATTTTATTATTATTTAAATAGTAATAAGGATTT
*
3681486 AATAAAATATTTTTAAATTTTTATTATTTTTTTAAAAATAATTT
1 TATAAAATATTTTTAAATTTTTATTA--TTTTTAAAAATAATTT
3681530 AGGATTTTAA
Statistics
Matches: 126, Mismatches: 14, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
101 6 0.05
102 36 0.29
104 16 0.13
105 48 0.38
106 17 0.13
107 3 0.02
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (100 bp):
TATAAAATATTTTTAAATTTTTATTATTTTTAAAAATAATTTTGTATGTAATATAAAATATTTTC
AAATTTTATTATTATTTAAATAGTAATAAGGATTT
Found at i:3682112 original size:18 final size:18
Alignment explanation
Indices: 3682089--3682138 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 18
3682079 ACTTTTTTTG
3682089 ATAAAAAATAATTGATCA
1 ATAAAAAATAATTGATCA
3682107 ATAAAAAATACTTATTGATCA
1 ATAAAAAATA---ATTGATCA
*
3682128 ATGAAAAATAA
1 ATAAAAAATAA
3682139 GTAAATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 11 0.39
21 17 0.61
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (18 bp):
ATAAAAAATAATTGATCA
Found at i:3682355 original size:15 final size:15
Alignment explanation
Indices: 3682332--3682376 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
3682322 ATATAAAATT
3682332 ATTTT-ATATTATTA
1 ATTTTAATATTATTA
3682346 ATTTTAATA-TA-TA
1 ATTTTAATATTATTA
3682359 TATTTTGAATATTATTA
1 -ATTTT-AATATTATTA
3682376 A
1 A
3682377 ACATACATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
13 2 0.08
14 12 0.46
15 7 0.27
16 3 0.12
17 2 0.08
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (15 bp):
ATTTTAATATTATTA
Found at i:3682539 original size:24 final size:23
Alignment explanation
Indices: 3682495--3682539 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
3682485 TAGTAAAATA
* *
3682495 TTATTTAATATTACAATAATATT
1 TTATTTAAAATTACAAAAATATT
*
3682518 TTATTTAAAAATTATAAAAATA
1 TTATTT-AAAATTACAAAAATA
3682540 ATATTTTTGG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 6 0.33
24 12 0.67
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
TTATTTAAAATTACAAAAATATT
Found at i:3687796 original size:282 final size:272
Alignment explanation
Indices: 3687241--3687796 Score: 855
Period size: 282 Copynumber: 2.0 Consensus size: 272
3687231 TTTATGTCTC
3687241 TATGTTCCCCATCTCTTTGGAATGCATATGAGATTAAAACTTTTATCAAAACCTAGAGTTATATT
1 TATGTTCCCCATCTCTTTGGAATGCATATGAGATTAAAACTTTTATCAAAACCTAGAGTTATATT
* *
3687306 TTTATATAAAATGCAAACATTCAAGGAGATTATACTAAAATAATGATAAACTGAAATCGAATCTA
66 TTTATATAAAATGCAAACATTCAAGGAGATTATACCAAAATAATGATAAACTAAAATCGAATCTA
*
3687371 GTCAAAATATAGCTAATAAGGTACTGATTTCGAACGTCACGAGGAGGTTAGTACCTCTTTTCGTG
131 GTCAAAACATAGCTAATAAGGTACTGATTTCGAACGTCACGAGGAGGTTAGTACCTCTTTTCGTG
* *
3687436 CAACCAACTCTCGAACCCAATCGACGAATCTCTCAATTACGTAGACCACGGGATTGATATTTTCG
196 CAACAAACTCTCGAACCCAATCGACGAATCTCTCAATTACGTAGACCACAGGATTGATATTTTCG
3687501 TAACTCAAAACA
261 TAACTCAAAACA
*
3687513 TATGTTCCCCATCTCTTTGGAATGCATATGAGATTAAAACTTTTATCAAAACCTAGATTTATATT
1 TATGTTCCCCATCTCTTTGGAATGCATATGAGATTAAAACTTTTATCAAAACCTAGAGTTATATT
* *
3687578 TTTATATAAAATTCATACATTCAAGGAGATTATACCAAAATAATGATAAACTAAAATCGAAGAAA
66 TTTATATAAAATGCAAACATTCAAGGAGATTATACCAAAATAATGATAAACTAAAATC---G---
* * *
3687643 CCAATATCTAGTCAAAACATAGCTAGTAAGGTACTGATTTC-ATACGTCGCGAGGAGGTTAGTAT
125 ---A-ATCTAGTCAAAACATAGCTAATAAGGTACTGATTTCGA-ACGTCACGAGGAGGTTAGTAC
* * *
3687707 CTCTTTAT-TTGTAACAAACTCTCGAACCCAATCGACGAATCTCTGAATTACGTAGACCACAGGA
185 CTCTTT-TCGTGCAACAAACTCTCGAACCCAATCGACGAATCTCTCAATTACGTAGACCACAGGA
*
3687771 TTGATGTTTTCGTAACTCAAAACA
249 TTGATATTTTCGTAACTCAAAACA
3687795 TA
1 TA
3687797 GGTTTTAATA
Statistics
Matches: 257, Mismatches: 15, Indels: 14
0.90 0.05 0.05
Matches are distributed among these distances:
272 118 0.46
275 1 0.00
281 2 0.01
282 135 0.53
283 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (272 bp):
TATGTTCCCCATCTCTTTGGAATGCATATGAGATTAAAACTTTTATCAAAACCTAGAGTTATATT
TTTATATAAAATGCAAACATTCAAGGAGATTATACCAAAATAATGATAAACTAAAATCGAATCTA
GTCAAAACATAGCTAATAAGGTACTGATTTCGAACGTCACGAGGAGGTTAGTACCTCTTTTCGTG
CAACAAACTCTCGAACCCAATCGACGAATCTCTCAATTACGTAGACCACAGGATTGATATTTTCG
TAACTCAAAACA
Found at i:3689260 original size:78 final size:78
Alignment explanation
Indices: 3689155--3689340 Score: 203
Period size: 79 Copynumber: 2.4 Consensus size: 78
3689145 TTGGAGTGTT
* * * ** * * *
3689155 CCCTTGAAAATAACGGGGCTCGAGTATCCCCGGTTGTGAGAAATCGATGA-TTAGAAAAAAAATC
1 CCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTAGAAAAAAAACC
3689219 GGGATTGAAGTATC
65 GGGATTGAAGTATC
* * * *
3689233 CCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCC
1 CCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATA-TTTAGAAAAAAAACC
* *
3689298 GGGGTTGGAGTATC
65 GGGATTGAAGTATC
* *
3689312 CCCTCGGAAGTAACGGGGTTGGAGTATCC
1 CCCTCGAAAATAACGGGGTTGGAGTATCC
3689341 TCGATGAAAT
Statistics
Matches: 90, Mismatches: 16, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
77 1 0.01
78 41 0.46
79 48 0.53
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (78 bp):
CCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGAAAAAAAACCG
GGATTGAAGTATC
Found at i:3689369 original size:28 final size:28
Alignment explanation
Indices: 3689300--3689373 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 28
3689290 ATAAAGCCGG
* *
3689300 GGTTGGAGTATCCCCTCG--GAAGTAACGG
1 GGTTGGAGTAT--CCTCGATGAAATAACGA
3689328 GGTTGGAGTATCCTCGATGAAATAACGA
1 GGTTGGAGTATCCTCGATGAAATAACGA
3689356 GGTTGGAGTATCCTCGAT
1 GGTTGGAGTATCCTCGAT
3689374 TGTGAAAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
26 5 0.12
28 37 0.88
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (28 bp):
GGTTGGAGTATCCTCGATGAAATAACGA
Found at i:3689472 original size:52 final size:52
Alignment explanation
Indices: 3689391--3689527 Score: 161
Period size: 52 Copynumber: 2.6 Consensus size: 52
3689381 AATTGGTATT
* * *
3689391 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG-AAAATTGGCG
1 TTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATT-AAGGAAAAATTAGCG
* * ** *
3689443 TTTTGAAAACAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTG
1 TTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTAAGGAAAAATTAGCG
*
3689495 TTTT-AGCAATAAAATCGGGGTTGGAGTATCCCC
1 TTTTGA-AAATAAAATCGGGGTTGGAGTATCCCC
3689528 TCGGAAATAA
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
51 3 0.04
52 69 0.96
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (52 bp):
TTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTAAGGAAAAATTAGCG
Found at i:3689545 original size:213 final size:212
Alignment explanation
Indices: 3689246--3689696 Score: 627
Period size: 213 Copynumber: 2.1 Consensus size: 212
3689236 TCGAAAATAA
* * * * * *
3689246 CGGGGTTGGAGTATCCCCAATTAT-GAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGCAATAAAACCGGGGTTGGAGTA
* * *
3689310 TCCCCTCGGAAGTAACGGGGTTGGAGTATCCTCGATGAAATAACGAGGTTGGAGTATCCTCGATT
66 TCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-AATAACGAGGTTGGAGTATCCCCGATT
* *
3689375 GTGAA-AAATTGGTATTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATT
130 GTGAAGAAATTGGTATTTTTTGGAAATAAAATCGGAATTGGAGTATCCCCAATTAAA-GAAAATT
*
3689439 GGCGTTTTGAAAACAAAAC
194 AGCGTTTTGAAAACAAAAC
* * * *
3689458 CGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAATCGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGCAATAAAACCGGGGTTGGAGTA
* * *
3689523 TCCCCTCGGAAATAATGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATTG
66 TCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGATTG
* *
3689588 TGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAATTGGAGTATCCCCAATTATAGAAAATTAG
131 TGAAGAAATTGGTATTTTTTGGAAATAAAATCGGAATTGGAGTATCCCCAATTAAAGAAAATTAG
* * *
3689653 TGTTTTGAAAATAAAAT
196 CGTTTTGAAAACAAAAC
* * *
3689670 CAGAGTTGGAATATCCCCGATTGTGGA
1 CGGGGTTGGAGTATCCCCGATTGTGGA
3689697 GAATTGAGAA
Statistics
Matches: 210, Mismatches: 27, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
212 97 0.46
213 113 0.54
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (212 bp):
CGGGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGCAATAAAACCGGGGTTGGAGTA
TCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGATTG
TGAAGAAATTGGTATTTTTTGGAAATAAAATCGGAATTGGAGTATCCCCAATTAAAGAAAATTAG
CGTTTTGAAAACAAAAC
Found at i:3689577 original size:27 final size:28
Alignment explanation
Indices: 3689510--3689585 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 28
3689500 GCAATAAAAT
***
3689510 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
3689538 TGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
3689565 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
3689586 TGTGAAGAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 24 0.57
28 18 0.43
ACGTcount: A:0.21, C:0.20, G:0.34, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:3689589 original size:107 final size:106
Alignment explanation
Indices: 3689241--3689636 Score: 356
Period size: 107 Copynumber: 3.7 Consensus size: 106
3689231 TCCCCTCGAA
* * * * * * * ** *
3689241 AATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGG
1 AATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCGGAGTTGG
* *
3689306 AGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCTCGATG
66 AGTATCCCCTCGGAAATAAAGGGGTTGGAGTATCCTCGATG
* * * *
3689347 AAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTTGGAAATAAAATCGGAGT
1 -AATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAG--TGTTTTGGAAATAAAATCGGAGT
* ** * * **
3689412 TGGAGTAT-CCC-C-G-ATTAAAGGAAAATTGGCGT-T--TTGAAA
63 TGGAGTATCCCCTCGGAAATAAAGG--GGTTGGAGTATCCTCGATG
* * * *
3689451 ACAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAATCGGGGT
1 A-ATAA-CGGGGTTGGAGTATCCCCGATTGT-GAAAAATTAGTGTTTTGGAAATAAAATCGGAGT
* *
3689516 TGGAGTATCCCCTCGGAAATAATGGGGTTGGAGTATCCCCGATG
63 TGGAGTATCCCCTCGGAAATAAAGGGGTTGGAGTATCCTCGATG
* * *
3689560 ATTAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAAT
1 AATAACGGGGTTGGAGTATCCCCGATTGTGAA-AAATTAGTG--TTTTGGAAATAAAATCGGAGT
3689625 TGGAGTATCCCC
63 TGGAGTATCCCC
3689637 AATTATAGAA
Statistics
Matches: 227, Mismatches: 45, Indels: 32
0.75 0.15 0.11
Matches are distributed among these distances:
103 1 0.00
104 33 0.15
105 31 0.14
106 21 0.09
107 72 0.32
108 11 0.05
109 58 0.26
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (106 bp):
AATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCGGAGTTGG
AGTATCCCCTCGGAAATAAAGGGGTTGGAGTATCCTCGATG
Found at i:3692077 original size:13 final size:13
Alignment explanation
Indices: 3692059--3692084 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3692049 ACAAAGATCC
3692059 ATGTATCGATACA
1 ATGTATCGATACA
3692072 ATGTATCGATACA
1 ATGTATCGATACA
3692085 TAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3692080 original size:33 final size:33
Alignment explanation
Indices: 3692038--3692104 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3692028 AAAATTTCCA
***
3692038 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
3692071 AATGTATCGATACATAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
3692104 A
1 A
3692105 TTTTCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:3692148 original size:19 final size:18
Alignment explanation
Indices: 3692124--3692191 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
3692114 CAGTAGCTAA
3692124 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
3692143 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
3692158 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
3692175 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
3692192 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:3692164 original size:13 final size:13
Alignment explanation
Indices: 3692146--3692170 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3692136 ACAATACTTA
3692146 TGTATCGATACAT
1 TGTATCGATACAT
3692159 TGTATCGATACA
1 TGTATCGATACA
3692171 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3692168 original size:32 final size:32
Alignment explanation
Indices: 3692127--3692189 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
3692117 TAGCTAATTA
*
3692127 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
3692159 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
3692190 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:3692253 original size:21 final size:21
Alignment explanation
Indices: 3692227--3692303 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
3692217 GTTGGGACCC
* *
3692227 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACA-TTCTACAAA
*
3692248 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
3692269 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
3692290 TGTATCGATACATT
1 TGTATCGATACATT
3692304 TGGATAAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:3693087 original size:28 final size:28
Alignment explanation
Indices: 3693056--3693137 Score: 64
Period size: 28 Copynumber: 3.0 Consensus size: 28
3693046 TGAGGAGTAA
3693056 AAAGTGCCACCAACTCGTGTGGGCTTTG
1 AAAGTGCCACCAACTCGTGTGGGCTTTG
** * *
3693084 AAAG-GCGTCCTACTC-TTTGAGGAC--TG
1 AAAGTGCCACCAACTCGTGTG-GG-CTTTG
*
3693110 AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAA-GTGCCACCAACTCGTGTGGGCTTT
3693138 AAGAGGTGTC
Statistics
Matches: 38, Mismatches: 9, Indels: 13
0.63 0.15 0.22
Matches are distributed among these distances:
26 8 0.21
27 12 0.32
28 14 0.37
29 4 0.11
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (28 bp):
AAAGTGCCACCAACTCGTGTGGGCTTTG
Found at i:3693335 original size:59 final size:59
Alignment explanation
Indices: 3693056--3693628 Score: 713
Period size: 55 Copynumber: 10.0 Consensus size: 59
3693046 TGAGGAGTAA
* **
3693056 AAAGTGCCACCAACTCGTGTGGGCTTT----G-AAAGGCGTCCTACTCTTTGAGGACTG
1 AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
* *
3693110 AAAGGTGCCACCAACTTGTGTGGGCTTT--AAG---AGGTGTCCTGCTCTTTGAGGACTGG
1 AAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACT-G
* * * *
3693166 AAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTCCTGCTCTTTGAGAACTGG
1 AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACT-G
* * * *
3693221 AAAATGCCACCAACTTGTATGGGCTTT----G-AAAGGTGTCCTGCTCTTTGAGGACTG
1 AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
* *
3693275 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCCGCTCTTTGAGGACTG
1 AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
*
3693334 AAAGTGCCACCAACTTGTGTGGACTTTAAAAGAAAAGG-GTCCCGCTCTTTGAGGACTG
1 AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
* *
3693392 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTGTCCCGCTCTTTGAGGACTGG
1 AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACT-G
* *
3693452 AAAATGCCACCAACTCGTGTGGGCTTTAAAAGAAAAGG-GTCCCGCTCTTTGAGGACTG
1 AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
*
3693510 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGG
1 AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACT-G
* * * *
3693570 AAAATGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACT
1 AAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCGTCCCGCTCTTTGAGGACT
3693629 AAAAAGCGGA
Statistics
Matches: 474, Mismatches: 29, Indels: 25
0.90 0.05 0.05
Matches are distributed among these distances:
53 1 0.00
54 28 0.06
55 142 0.30
56 4 0.01
57 1 0.00
58 92 0.19
59 116 0.24
60 65 0.14
61 25 0.05
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (59 bp):
AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
Found at i:3693529 original size:118 final size:119
Alignment explanation
Indices: 3693036--3693628 Score: 766
Period size: 118 Copynumber: 5.2 Consensus size: 119
3693026 ATAAAGTGTA
* * * * * **
3693036 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTT----G-AAAGGCGTCCTA
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCG
*
3693096 CTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT--AAG---AGGTG
65 CTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTG
** * *
3693146 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTCCTG
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCG
* *
3693206 CTCTTTGAGAACTGGAAAATGCCACCAACTTGTATGGGCTTT----G-AAAGGTG
65 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTG
*
3693256 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCCGC
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGC
* *
3693321 TCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGACTTTAAAAGAAAAGG-G
66 TCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTG
* *
3693373 TCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTGTCCCGC
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGC
*
3693438 TCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTAAAAGAAAAGG-G
66 TCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTG
*
3693491 TCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGC
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGC
* **
3693556 TCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGGCA
66 TCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGTG
3693611 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
3693629 AAAAAGCGGA
Statistics
Matches: 438, Mismatches: 29, Indels: 22
0.90 0.06 0.04
Matches are distributed among these distances:
108 1 0.00
109 26 0.06
110 109 0.25
111 4 0.01
113 26 0.06
114 21 0.05
117 76 0.17
118 151 0.34
119 7 0.02
120 17 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGC
TCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTG
Found at i:3694606 original size:1 final size:1
Alignment explanation
Indices: 3694596--3694679 Score: 60
Period size: 1 Copynumber: 84.0 Consensus size: 1
3694586 CTTAAGCAGA
* * * * * * * * * *
3694596 TTTTTCTTTTTTTTTTTTTGTTTGTTTTGTTTGTTTTGTTTGTTTTGTTTTTTTTTGTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
3694661 TTTTTGTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTT
3694680 GAAAAAGAAT
Statistics
Matches: 59, Mismatches: 24, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.00, C:0.01, G:0.13, T:0.86
Consensus pattern (1 bp):
T
Found at i:3694614 original size:9 final size:9
Alignment explanation
Indices: 3694602--3694676 Score: 75
Period size: 9 Copynumber: 8.6 Consensus size: 9
3694592 CAGATTTTTC
3694602 TTTTT-TTT
1 TTTTTGTTT
3694610 TTTTTGTTT
1 TTTTTGTTT
*
3694619 GTTTTGTTT
1 TTTTTGTTT
*
3694628 GTTTTGTTT
1 TTTTTGTTT
*
3694637 GTTTTGTTT
1 TTTTTGTTT
3694646 TTTTT-TGTT
1 TTTTTGT-TT
*
3694655 GTTTT-TTT
1 TTTTTGTTT
*
3694663 TTTGTGTTT
1 TTTTTGTTT
3694672 TTTTT
1 TTTTT
3694677 TTTGAAAAAG
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
8 11 0.19
9 47 0.81
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:3694623 original size:13 final size:12
Alignment explanation
Indices: 3694604--3694680 Score: 100
Period size: 13 Copynumber: 6.0 Consensus size: 12
3694594 GATTTTTCTT
3694604 TTTTTTTTTTTG
1 TTTTTTTTTTTG
*
3694616 TTTGTTTTGTTTG
1 TTT-TTTTTTTTG
3694629 TTTTGTTTGTTTTG
1 TTTT-TTT-TTTTG
3694643 TTTTTTTTTGTTG
1 TTTTTTTTT-TTG
3694656 TTTTTTTTTTGTG
1 TTTTTTTTTT-TG
3694669 TTTTTTTTTTTG
1 TTTTTTTTTTTG
3694681 AAAAAGAATG
Statistics
Matches: 58, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
12 9 0.16
13 41 0.71
14 8 0.14
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:3707274 original size:28 final size:28
Alignment explanation
Indices: 3707234--3707305 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
3707224 GGAATAAAGC
** *
3707234 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
3707262 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
3707290 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
3707306 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:3707410 original size:52 final size:52
Alignment explanation
Indices: 3707351--3707464 Score: 142
Period size: 52 Copynumber: 2.2 Consensus size: 52
3707341 ATCGAAGTTA
*
3707351 GAGTATCCCCGATTAAAGG-AAAATTGGCGTTTT-GAAAACAAAACCGGGGTTG
1 GAGTATCCCCGATT-AAGGAAAAATTAGCGTTTTAG-AAACAAAACCGGGGTTG
** * * *
3707403 GAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGGGGTTG
1 GAGTATCCCCGATTAAGGAAAAATTAGCGTTTTAGAAACAAAACCGGGGTTG
3707455 GAGTATCCCC
1 GAGTATCCCC
3707465 TTGAAAATAA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
51 2 0.04
52 51 0.94
53 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (52 bp):
GAGTATCCCCGATTAAGGAAAAATTAGCGTTTTAGAAACAAAACCGGGGTTG
Found at i:3707478 original size:213 final size:212
Alignment explanation
Indices: 3707183--3707633 Score: 627
Period size: 213 Copynumber: 2.1 Consensus size: 212
3707173 TCGAAAATAA
* * * * * *
3707183 CGGGGTTGGAGTATCCCCAATTAT-GAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGCAATAAAACCGGGGTTGGAGTA
* * *
3707247 TCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATT
66 TCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATG-AATAACGAGGTTGGAGTATCCCCGATT
* *
3707312 GTGAA-AAATTGGTATTTTTTGGAAATAAAATCGAAGTTAGAGTATCCCCGATTAAAGGAAAATT
130 GTGAAGAAATTAGTATTTTTTGGAAATAAAATCGAAGCTAGAGTATCCCCGATTAAA-GAAAATT
*
3707376 GGCGTTTTGAAAACAAAAC
194 AGCGTTTTGAAAACAAAAC
* * *
3707395 CGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGCAATAAAACCGGGGTTGGAGTA
* * *
3707460 TCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATTG
66 TCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGATTG
* * * *
3707525 TGAAGAAATTAGTGTTTTTTGGAAATAAAATCGGAGCTGGAGTATCCCCGATTATAGAAAATTAG
131 TGAAGAAATTAGTATTTTTTGGAAATAAAATCGAAGCTAGAGTATCCCCGATTAAAGAAAATTAG
* * *
3707590 TGTTTTGAAAATAAAAT
196 CGTTTTGAAAACAAAAC
* *
3707607 CGGAGTTGGAATATCCCCGATTGTGGA
1 CGGGGTTGGAGTATCCCCGATTGTGGA
3707634 GAATTGAGAA
Statistics
Matches: 210, Mismatches: 27, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
212 98 0.47
213 112 0.53
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (212 bp):
CGGGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGCAATAAAACCGGGGTTGGAGTA
TCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGATTG
TGAAGAAATTAGTATTTTTTGGAAATAAAATCGAAGCTAGAGTATCCCCGATTAAAGAAAATTAG
CGTTTTGAAAACAAAAC
Found at i:3707510 original size:27 final size:27
Alignment explanation
Indices: 3707447--3707522 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 27
3707437 GCAATAAAAC
3707447 CGGGGTTGGAGTATCCCCTTGA-AAATAA
1 CGGGGTTGGAGTATCCCC--GATAAATAA
* *
3707475 CGGGGTTGGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCGATAAATAA
3707502 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
3707523 TGTGAAGAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
26 2 0.04
27 25 0.56
28 18 0.40
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGATAAATAA
Found at i:3707608 original size:51 final size:53
Alignment explanation
Indices: 3707508--3707628 Score: 167
Period size: 51 Copynumber: 2.3 Consensus size: 53
3707498 TTAACGGGGT
* *
3707508 TGGAGTATCCCCGATTGTGAAGAAATTAGTGTTTTTTGGAAATAAAATCGGAGC
1 TGGAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGAGC
*
3707562 TGGAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGGAGT
1 TGGAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGGAGC
*
3707613 TGGAATATCCCCGATT
1 TGGAGTATCCCCGATT
3707629 GTGGAGAATT
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
51 34 0.55
52 2 0.03
53 9 0.15
54 17 0.27
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.31
Consensus pattern (53 bp):
TGGAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGAGC
Found at i:3709449 original size:11 final size:11
Alignment explanation
Indices: 3709433--3709462 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
3709423 CAATGGAATA
3709433 GTGTTTTTTTT
1 GTGTTTTTTTT
3709444 GTGTTTTTTTT
1 GTGTTTTTTTT
3709455 G-GTTTTTT
1 GTGTTTTTT
3709463 ACTAAAGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.37
11 12 0.63
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (11 bp):
GTGTTTTTTTT
Found at i:3709999 original size:20 final size:20
Alignment explanation
Indices: 3709972--3710026 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
3709962 TAAAATTTCC
*
3709972 AAATGTATCGATACAAAGAT
1 AAATGTATCGATACAAAGAA
** *
3709992 CCATGTATCGATACACAGAA
1 AAATGTATCGATACAAAGAA
3710012 AAATGTATCGATACA
1 AAATGTATCGATACA
3710027 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (20 bp):
AAATGTATCGATACAAAGAA
Found at i:3710070 original size:19 final size:18
Alignment explanation
Indices: 3710046--3710113 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 18
3710036 CAGTAGCTAA
3710046 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
*
3710065 TTATGTATTGATAC--A-
1 TTATGTATCGATACAAAC
3710080 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
3710097 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
3710114 TTGTTGAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
13 10 0.24
14 1 0.02
16 2 0.05
18 4 0.10
19 24 0.59
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:3710090 original size:32 final size:32
Alignment explanation
Indices: 3710049--3710111 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
3710039 TAGCTAATTA
* *
3710049 TGTATCGATACAATACTTATGTATTGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
3710081 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
3710112 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:3712528 original size:76 final size:76
Alignment explanation
Indices: 3712402--3712556 Score: 292
Period size: 76 Copynumber: 2.0 Consensus size: 76
3712392 AGAGGAAATA
3712402 CATAGTTTTGAAGTACCATATCTTAATGCAATAGAGGCCTAGATGTACTTGGCATAATATATGAG
1 CATAGTTTTGAAGTACCATATCTTAATGCAATAGAGGCCTAGATGTACTTGGCATAATATATGAG
3712467 ACTCGATATTG
66 ACTCGATATTG
**
3712478 CATAGTTTTGAAGTACCATATCTTAATGCAATAGAGTTCTAGATGTACTTGGCATAATATATGAG
1 CATAGTTTTGAAGTACCATATCTTAATGCAATAGAGGCCTAGATGTACTTGGCATAATATATGAG
3712543 ACTCGATATTG
66 ACTCGATATTG
3712554 CAT
1 CAT
3712557 TTATAGTAAA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (76 bp):
CATAGTTTTGAAGTACCATATCTTAATGCAATAGAGGCCTAGATGTACTTGGCATAATATATGAG
ACTCGATATTG
Done.