Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 92 of 320
Found at i:29500436 original size:28 final size:28
Alignment explanation
Indices: 29500404--29500502 Score: 108
Period size: 28 Copynumber: 3.3 Consensus size: 28
29500394 TTCATAATCA
*
29500404 TCATTTAATTTTATATTCATTTAACATT
1 TCATTTAATTTCATATTCATTTAACATT
*
29500432 TCATTTAATTTCATATTCATTACAAATTACATT
1 TCATTTAATTTCATATTCATT-----TAACATT
*
29500465 TCATTTCATATTCATATTTCATTTAACATT
1 TCATTTAAT-TTCATA-TTCATTTAACATT
29500495 TCATTTAA
1 TCATTTAA
29500503 ATTAATTTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
28 20 0.34
30 13 0.22
33 14 0.24
34 6 0.10
35 6 0.10
ACGTcount: A:0.33, C:0.14, G:0.00, T:0.53
Consensus pattern (28 bp):
TCATTTAATTTCATATTCATTTAACATT
Found at i:29500471 original size:5 final size:5
Alignment explanation
Indices: 29500383--29500500 Score: 51
Period size: 5 Copynumber: 21.6 Consensus size: 5
29500373 TCTTTTCACC
* * * *
29500383 TTTCA TTCCA TTTCA TAATCA --TCA TTTAA TTTTA TATTCA TTTAACA
1 TTTCA TTTCA TTTCA T-TTCA TTTCA TTTCA TTTCA T-TTCA TTT--CA
* * *
29500430 TTTCA TTTAA TTTCA TATTCA TTACAAA TTACA TTTCA TTTCA TATTCATA
1 TTTCA TTTCA TTTCA T-TTCA TTTC--A TTTCA TTTCA TTTCA T-TTC--A
29500481 TTTCA TTTAACA TTTCA TTT
1 TTTCA TTT--CA TTTCA TTT
29500501 AAATTAATTT
Statistics
Matches: 89, Mismatches: 10, Indels: 28
0.70 0.08 0.22
Matches are distributed among these distances:
3 3 0.03
5 51 0.57
6 15 0.17
7 18 0.20
8 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.00, T:0.53
Consensus pattern (5 bp):
TTTCA
Found at i:29500578 original size:66 final size:66
Alignment explanation
Indices: 29500491--29500625 Score: 152
Period size: 66 Copynumber: 2.0 Consensus size: 66
29500481 TTTCATTTAA
29500491 CATTTCATTTAAATTAATTTTTTTCCTAA-T-A-TACAAATTTTTTTTTCATATTAATCACAAGT
1 CATTTCATTTAAATT-ATTTTTTT-C-AATTCATTACAAA-TTTTTTTTCATATTAATCACAAGT
29500553 AGTCT
62 AGTCT
* * * * *
29500558 CATTTCAATTTAACTT-TTTTTTTCAATTCATTTCATATTTTTTTTCATATTAATTAGAAGTAGT
1 CATTTC-ATTTAAATTATTTTTTTCAATTCATTACAAATTTTTTTTCATATTAATCACAAGTAGT
29500622 CT
65 CT
29500624 CA
1 CA
29500626 ATATTAGAGT
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
64 2 0.03
65 2 0.03
66 37 0.63
67 10 0.17
68 8 0.14
ACGTcount: A:0.30, C:0.13, G:0.04, T:0.53
Consensus pattern (66 bp):
CATTTCATTTAAATTATTTTTTTCAATTCATTACAAATTTTTTTTCATATTAATCACAAGTAGTC
T
Found at i:29501002 original size:11 final size:10
Alignment explanation
Indices: 29500982--29501055 Score: 58
Period size: 11 Copynumber: 6.8 Consensus size: 10
29500972 CTTCTTTTTT
29500982 TTTCATTTCA
1 TTTCATTTCA
29500992 TTTCTATTTCAA
1 TTTC-ATTTC-A
* *
29501004 TTCCATTTAA
1 TTTCATTTCA
*
29501014 TTTGAATTTCTA
1 TTT-CATTTC-A
29501026 TTTCATTTCA
1 TTTCATTTCA
*
29501036 TTTGAATTTCCA
1 TTT-CATTT-CA
29501048 TTTCATTT
1 TTTCATTT
29501056 AAATTATATT
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
10 11 0.22
11 26 0.52
12 13 0.26
ACGTcount: A:0.23, C:0.16, G:0.03, T:0.58
Consensus pattern (10 bp):
TTTCATTTCA
Found at i:29501024 original size:28 final size:28
Alignment explanation
Indices: 29500991--29501044 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
29500981 TTTTCATTTC
29500991 ATTTCTATTTCAATTCCATTT-AATTTGA
1 ATTTCTATTTC-ATTCCATTTGAATTTGA
*
29501019 ATTTCTATTTCATTTCATTTGAATTT
1 ATTTCTATTTCATTCCATTTGAATTT
29501045 CCATTTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.26, C:0.13, G:0.04, T:0.57
Consensus pattern (28 bp):
ATTTCTATTTCATTCCATTTGAATTTGA
Found at i:29501028 original size:6 final size:5
Alignment explanation
Indices: 29500982--29501055 Score: 58
Period size: 5 Copynumber: 13.6 Consensus size: 5
29500972 CTTCTTTTTT
* * *
29500982 TTTCA TTTCA TTTCTA TTTCAA TTCCA TTTAA TTTGAA TTTCTA TTTCA
1 TTTCA TTTCA TTTC-A TTTC-A TTTCA TTTCA TTT-CA TTTC-A TTTCA
*
29501031 TTTCA TTTGAA TTTCCA TTTCA TTT
1 TTTCA TTT-CA TTT-CA TTTCA TTT
29501056 AAATTATATT
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
5 30 0.53
6 27 0.47
ACGTcount: A:0.23, C:0.16, G:0.03, T:0.58
Consensus pattern (5 bp):
TTTCA
Found at i:29501049 original size:17 final size:16
Alignment explanation
Indices: 29501025--29501060 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
29501015 TTGAATTTCT
*
29501025 ATTTCATTTCATTTGA
1 ATTTCATTTCATTTAA
29501041 ATTTCCATTTCATTTAA
1 ATTT-CATTTCATTTAA
29501058 ATT
1 ATT
29501061 ATATTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.28, C:0.14, G:0.03, T:0.56
Consensus pattern (16 bp):
ATTTCATTTCATTTAA
Found at i:29501066 original size:22 final size:22
Alignment explanation
Indices: 29500982--29501407 Score: 109
Period size: 22 Copynumber: 18.6 Consensus size: 22
29500972 CTTCTTTTTT
* * * *
29500982 TTTCATTTCATTTCTATTTCAA
1 TTTCATTTAAATTATATTTCCA
* * *
29501004 TTCCATTTAATTTGA-ATTTCTA
1 TTTCATTTAAATT-ATATTTCCA
* *
29501026 TTTCATTTCATTTGA-ATTTCCA
1 TTTCATTTAAATT-ATATTTCCA
**
29501048 TTTCATTTAAATTATATTT-TT
1 TTTCATTTAAATTATATTTCCA
* *
29501069 TTTCCATTTAAATTTAATTTTTTTCATA
1 TTT-CATTTAAA-TT-A--TATTTC-CA
**
29501097 TTTCATTTATTTTATTTATCTTCCCA
1 TTTCATTTAAATTA--TAT-TT-CCA
*
29501123 TTTTCATTT-AATT-T-TTTTCA
1 -TTTCATTTAAATTATATTTCCA
*
29501143 TTTCATTTAAATTATCTTTATTCCCA
1 TTTCATTTAAATTA----TATTTCCA
* *
29501169 TTTTAATTT-AATT-TTTTTCTCA
1 -TTTCATTTAAATTATATTTC-CA
* *
29501191 TTTCATTTAAATTTATTTTTTTCA
1 TTTCATTTAAA-TTA-TATTTCCA
29501215 TTTCATTTAAATTATCTATCTTCCCA
1 TTTCATTTAAATTA--TAT-TT-CCA
29501241 TTTTCATTT-AATT-T-TTTCTCA
1 -TTTCATTTAAATTATATTTC-CA
29501262 TTTCATTTAAATTAT-TTT---
1 TTTCATTTAAATTATATTTCCA
* * * *
29501280 TTTCAATATAAATTTTTTTTTCTTA
1 TTTC-ATTTAAA-TTATATTTC-CA
*
29501305 TTTCATTTAAATTATATTT--T
1 TTTCATTTAAATTATATTTCCA
*
29501325 TTTCATTTAAATTTAATTTTTTTCTCA
1 TTTCATTTAAA-TT-A--TATTTC-CA
*
29501352 TTTCATTTAAATTATCTTT-C-
1 TTTCATTTAAATTATATTTCCA
* *
29501372 TTTCCATTTTAATT-TTTTTCTCA
1 TTT-CATTTAAATTATATTTC-CA
29501395 TTTCATTTAAATT
1 TTTCATTTAAATT
29501408 TAATTTTTTT
Statistics
Matches: 312, Mismatches: 42, Indels: 100
0.69 0.09 0.22
Matches are distributed among these distances:
18 4 0.01
19 14 0.04
20 36 0.12
21 40 0.13
22 80 0.26
23 22 0.07
24 26 0.08
25 18 0.06
26 27 0.09
27 41 0.13
28 4 0.01
ACGTcount: A:0.25, C:0.13, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTCATTTAAATTATATTTCCA
Found at i:29501072 original size:27 final size:26
Alignment explanation
Indices: 29501042--29501380 Score: 129
Period size: 23 Copynumber: 14.3 Consensus size: 26
29501032 TTCATTTGAA
29501042 TTTCCATTTCATTTAAA-TT-ATATTT
1 TTTCCATTTCATTTAAATTTAAT-TTT
*
29501067 TTT---TTCCATTTAAATTTAATTTT
1 TTTCCATTTCATTTAAATTTAATTTT
* *
29501090 TTTCATATTTCATTT--ATTTTATTTAT
1 TTTC-CATTTCATTTAAATTTAATTT-T
* **
29501116 CTTCC----CATTTTCATTTAATTTT
1 TTTCCATTTCATTTAAATTTAATTTT
29501138 TTT-CATTTCATTTAAA-TT-ATCTTT
1 TTTCCATTTCATTTAAATTTAAT-TTT
* *
29501162 ATTCC----CATTTTAATTTAATTTT
1 TTTCCATTTCATTTAAATTTAATTTT
29501184 TTTCTCATTTCATTTAAATTT-ATTTT
1 TTTC-CATTTCATTTAAATTTAATTTT
*
29501210 TTT-CATTTCATTTAAA-TT-ATCTAT
1 TTTCCATTTCATTTAAATTTAAT-TTT
* **
29501234 CTTCC----CATTTTCATTTAA-TTT
1 TTTCCATTTCATTTAAATTTAATTTT
29501255 TTTCTCATTTCATTTAAA-TT-ATTTT
1 TTTC-CATTTCATTTAAATTTAATTTT
*
29501280 TTT-CA----ATATAAATTT--TTTT
1 TTTCCATTTCATTTAAATTTAATTTT
* *
29501299 TTCT-TATTTCATTTAAA-TT-A-TAT
1 TT-TCCATTTCATTTAAATTTAATTTT
29501322 TTT---TTTCATTTAAATTTAATTTT
1 TTTCCATTTCATTTAAATTTAATTTT
29501345 TTTCTCATTTCATTTAAA-TT-ATCTTT
1 TTTC-CATTTCATTTAAATTTAAT-TTT
29501371 CTTTCCATTT
1 -TTTCCATTT
29501381 TAATTTTTTT
Statistics
Matches: 240, Mismatches: 26, Indels: 95
0.66 0.07 0.26
Matches are distributed among these distances:
19 12 0.05
20 15 0.06
21 26 0.11
22 26 0.11
23 39 0.16
24 33 0.14
25 29 0.12
26 28 0.12
27 32 0.13
ACGTcount: A:0.25, C:0.13, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTCCATTTCATTTAAATTTAATTTT
Found at i:29501132 original size:48 final size:46
Alignment explanation
Indices: 29501042--29501209 Score: 194
Period size: 48 Copynumber: 3.5 Consensus size: 46
29501032 TTCATTTGAA
* * * *
29501042 TTTCCATTTCATTTAAATTATATTTTTTTTCCATTTAAATTTAATTTT
1 TTTCTATTTCATTT-AATT-TATTTTATTCCCATTTTAATTTAATTTT
* * *
29501090 TTTCATATTTCATTTATTTTATTTATCTTCCCATTTTCATTTAATTTT
1 TTTC-TATTTCATTTAATTTATTT-TATTCCCATTTTAATTTAATTTT
*
29501138 TTTC-ATTTCATTTAAATTATCTTTATTCCCATTTTAATTTAATTTT
1 TTTCTATTTCATTTAATTTAT-TTTATTCCCATTTTAATTTAATTTT
29501184 TTTCTCATTTCATTTAAATTTATTTT
1 TTTCT-ATTTCATTT-AATTTATTTT
29501210 TTTCATTTCA
Statistics
Matches: 103, Mismatches: 11, Indels: 12
0.82 0.09 0.10
Matches are distributed among these distances:
46 39 0.38
47 7 0.07
48 42 0.41
49 15 0.15
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.63
Consensus pattern (46 bp):
TTTCTATTTCATTTAATTTATTTTATTCCCATTTTAATTTAATTTT
Found at i:29501270 original size:47 final size:46
Alignment explanation
Indices: 29501194--29501407 Score: 239
Period size: 43 Copynumber: 4.8 Consensus size: 46
29501184 TTTCTCATTT
*
29501194 CATTTAAATTT-ATTTTTT-TCATTTCATTTAAATTATCTATCTTCC
1 CATTTAAATTTAATTTTTTCTCATTTCATTTAAATTATCT-TCTTTC
** *
29501239 CATTTTCATTTAATTTTTTCTCATTTCATTTAAATTAT-TTTTTTC
1 CATTTAAATTTAATTTTTTCTCATTTCATTTAAATTATCTTCTTTC
* * * * * *
29501284 AATATAAATTT--TTTTTTCTTATTTCATTTAAATTATATTTTTTT
1 CATTTAAATTTAATTTTTTCTCATTTCATTTAAATTATCTTCTTTC
29501328 CATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATCTTTCTTTC
1 CATTTAAATTTAA-TTTTTTCTCATTTCATTTAAATTATC-TTCTTTC
*
29501376 CATTTTAA--T--TTTTTTCTCATTTCATTTAAATT
1 CATTTAAATTTAATTTTTTCTCATTTCATTTAAATT
29501408 TAATTTTTTT
Statistics
Matches: 145, Mismatches: 17, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
43 47 0.32
44 15 0.10
45 20 0.14
46 9 0.06
47 42 0.29
48 12 0.08
ACGTcount: A:0.26, C:0.12, G:0.00, T:0.62
Consensus pattern (46 bp):
CATTTAAATTTAATTTTTTCTCATTTCATTTAAATTATCTTCTTTC
Found at i:29501386 original size:27 final size:24
Alignment explanation
Indices: 29501167--29501468 Score: 114
Period size: 24 Copynumber: 13.0 Consensus size: 24
29501157 TCTTTATTCC
*
29501167 CATTTTAATTT-AATTTTTT-TCT
1 CATTTTAATTTAAATTTTTTCTTT
* *
29501189 CA-TTTCATTTAAATTTATTTTTTT
1 CATTTTAATTTAAATTT-TTTCTTT
* * *
29501213 CA-TTTCATTTAAATTATCTATCTTCC
1 CATTTTAATTTAAATT-T-TTTCTT-T
*
29501239 CATTTTCATTT-AATTTTTTC--T
1 CATTTTAATTTAAATTTTTTCTTT
*
29501260 CA-TTTCATTTAAATTATTTT-TTT
1 CATTTTAATTTAAATT-TTTTCTTT
*
29501283 CA-----ATATAAATTTTTT-TTT
1 CATTTTAATTTAAATTTTTTCTTT
* * *
29501301 CTTATTTCATTTAAATTATATTTTTTT
1 CAT-TTTAATTTAAATT-T-TTTCTTT
* *
29501328 CATTTAAATTT-AATTTTTT-TCT
1 CATTTTAATTTAAATTTTTTCTTT
*
29501350 CA-TTTCATTTAAATTATCTTTCTTT
1 CATTTTAATTTAAATT-T-TTTCTTT
*
29501375 CCATTTTAATTT---TTTTCTCATTT
1 -CATTTTAATTTAAATTTTTTC-TTT
*
29501398 CATTTAAATTT-AA-TTTTT-TTT
1 CATTTTAATTTAAATTTTTTCTTT
*
29501419 C-TTTTCATTTAAATTATCTTTCTTT
1 CATTTTAATTTAAATT-T-TTTCTTT
*
29501444 CCATTTTAATTTACATTTTTCTCTT
1 -CATTTTAATTTAAATTTTT-TCTT
29501469 ATTATTTTTC
Statistics
Matches: 218, Mismatches: 26, Indels: 68
0.70 0.08 0.22
Matches are distributed among these distances:
18 8 0.04
19 8 0.04
20 15 0.07
21 25 0.11
22 33 0.15
23 19 0.09
24 37 0.17
25 18 0.08
26 23 0.11
27 32 0.15
ACGTcount: A:0.24, C:0.13, G:0.00, T:0.63
Consensus pattern (24 bp):
CATTTTAATTTAAATTTTTTCTTT
Found at i:29501424 original size:26 final size:27
Alignment explanation
Indices: 29501379--29501433 Score: 94
Period size: 26 Copynumber: 2.1 Consensus size: 27
29501369 TTCTTTCCAT
29501379 TTTAATTTTTTTCTCATTTCATTTAAA
1 TTTAATTTTTTTCTCATTTCATTTAAA
*
29501406 TTTAATTTTTTT-TCTTTTCATTTAAA
1 TTTAATTTTTTTCTCATTTCATTTAAA
29501432 TT
1 TT
29501434 ATCTTTCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 15 0.56
27 12 0.44
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTAATTTTTTTCTCATTTCATTTAAA
Found at i:29501429 original size:90 final size:88
Alignment explanation
Indices: 29501198--29501430 Score: 274
Period size: 90 Copynumber: 2.6 Consensus size: 88
29501188 TCATTTCATT
* * * **
29501198 TAAATTTATTTTTTTCATTTCATTTAAATTATCTATCTTCCCATTTTCATTTAATTTTTTCTCAT
1 TAAATTT-TTTTTCTCATTTCATTTAAATTATAT-TTTTTTCATTTTCATTTAATTTTTTCTCAT
29501263 TTCATTTAAATTATTTTTTTCAATA
64 TTCATTTAAATTATTTTTTTCAATA
* **
29501288 TAAATTTTTTTTTCTTATTTCATTTAAATTATATTTTTTTCATTTAAATTTAATTTTTTTCTCAT
1 TAAA-TTTTTTTTCTCATTTCATTTAAATTATATTTTTTTCATTTTCATTTAA-TTTTTTCTCAT
* *
29501353 TTCATTTAAATTATCTTTCTTTCCATT
64 TTCATTTAAATTAT-TTT-TTTCAATA
*
29501380 TTAA-TTTTTTTCTCATTTCATTTAAATT-TAATTTTTTTTC-TTTTCATTTAA
1 TAAATTTTTTTTCTCATTTCATTTAAATTAT-A-TTTTTTTCATTTTCATTTAA
29501431 ATTATCTTTC
Statistics
Matches: 123, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
89 15 0.12
90 85 0.69
91 14 0.11
92 9 0.07
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.63
Consensus pattern (88 bp):
TAAATTTTTTTTCTCATTTCATTTAAATTATATTTTTTTCATTTTCATTTAATTTTTTCTCATTT
CATTTAAATTATTTTTTTCAATA
Found at i:29501449 original size:90 final size:89
Alignment explanation
Indices: 29501194--29501454 Score: 255
Period size: 90 Copynumber: 2.9 Consensus size: 89
29501184 TTTCTCATTT
* * * **
29501194 CATTTAAATTTATTTTTTTCATTTCATTTAAATTATCTATCTTCCCATTTTCATTTAATTT-TTT
1 CATTTAAATTT-TTTTTCTCATTTCATTTAAATTATAT-TTTTTTCATTTTCATTTAATTTCTTT
*
29501258 CTCATTTCATTTAAATTATTTT-TTTC
64 CT-ATTCCATTTAAATTATTTTCTTTC
* * * ** *
29501284 AATATAAATTTTTTTTTCTTATTTCATTTAAATTATATTTTTTTCATTTAAATTTAATTTTTTTC
1 CATTTAAA-TTTTTTTTCTCATTTCATTTAAATTATATTTTTTTCATTTTCATTTAATTTCTTTC
*
29501349 TCATTTCATTTAAATTATCTTTCTTTC
65 T-ATTCCATTTAAATTAT-TTTCTTTC
*
29501376 CATTTTAA-TTTTTTTCTCATTTCATTTAAATT-TAATTTTTTTTC-TTTTCATTTAAATTATCT
1 CATTTAAATTTTTTTTCTCATTTCATTTAAATTAT-A-TTTTTTTCATTTTCATTT-AATT-TCT
*
29501438 TTCT-TTCCATTTTAATT
62 TTCTATTCCATTTAAATT
29501455 TACATTTTTC
Statistics
Matches: 144, Mismatches: 19, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
89 18 0.12
90 93 0.65
91 18 0.12
92 15 0.10
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.63
Consensus pattern (89 bp):
CATTTAAATTTTTTTTCTCATTTCATTTAAATTATATTTTTTTCATTTTCATTTAATTTCTTTCT
ATTCCATTTAAATTATTTTCTTTC
Found at i:29506168 original size:29 final size:30
Alignment explanation
Indices: 29506136--29506200 Score: 105
Period size: 29 Copynumber: 2.2 Consensus size: 30
29506126 AATAATTAAT
*
29506136 ATTTTATAATTTTTTAAAGATT-AAATATA
1 ATTTTATAATTTTTTAAAAATTAAAATATA
*
29506165 ATTTTATTATTTTTTAAAAATTAAAATATA
1 ATTTTATAATTTTTTAAAAATTAAAATATA
29506195 ATTTTA
1 ATTTTA
29506201 CTATTATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
29 20 0.61
30 13 0.39
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (30 bp):
ATTTTATAATTTTTTAAAAATTAAAATATA
Found at i:29506210 original size:29 final size:29
Alignment explanation
Indices: 29506136--29506210 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
29506126 AATAATTAAT
* *
29506136 ATTTTA-TAATTTTTTAAAGATTAAATATA
1 ATTTTACT-ATTTATTAAAAATTAAATATA
* *
29506165 ATTTTATTATTTTTTAAAAATTAAAATATA
1 ATTTTACTATTTATTAAAAATT-AAATATA
29506195 ATTTTACTA-TTATTAA
1 ATTTTACTATTTATTAA
29506211 TTTAAAATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
29 25 0.61
30 16 0.39
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (29 bp):
ATTTTACTATTTATTAAAAATTAAATATA
Found at i:29510721 original size:66 final size:66
Alignment explanation
Indices: 29510615--29510740 Score: 225
Period size: 66 Copynumber: 1.9 Consensus size: 66
29510605 AAGAAAGAAA
*
29510615 GACTTGTAGATACTTGATTTTCTTACTAGGAATTTTCAAGTAATCCTAAAAACAGATAGACCAAA
1 GACTTGCAGATACTTGATTTTCTTACTAGGAATTTTCAAGTAATCCTAAAAACAGATAGACCAAA
29510680 T
66 T
* *
29510681 GACTTGCAGATACTTGATTTTCTTACTAGGAATTTTCAAGTAATCCTAGAAATAGATAGA
1 GACTTGCAGATACTTGATTTTCTTACTAGGAATTTTCAAGTAATCCTAAAAACAGATAGA
29510741 GCTAAAAATT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 57 1.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (66 bp):
GACTTGCAGATACTTGATTTTCTTACTAGGAATTTTCAAGTAATCCTAAAAACAGATAGACCAAA
T
Found at i:29511610 original size:30 final size:30
Alignment explanation
Indices: 29511557--29511624 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
29511547 TTCCTATAAC
* *
29511557 ATAATTAATGTTAAAATGTTTTCTCA-TACT
1 ATAATTAATGATAAAATGCTTTCTCATTA-T
*
29511587 ATAATTAAT-ATAAACATGCTTTCTTATTAT
1 ATAATTAATGATAAA-ATGCTTTCTCATTAT
29511617 ATAATTAA
1 ATAATTAA
29511625 AGAAGTTGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 4 0.12
30 27 0.82
31 2 0.06
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (30 bp):
ATAATTAATGATAAAATGCTTTCTCATTAT
Found at i:29520886 original size:46 final size:46
Alignment explanation
Indices: 29520833--29520928 Score: 185
Period size: 46 Copynumber: 2.1 Consensus size: 46
29520823 TTTAATGAAC
29520833 TAAGTTTTCTTAATTACTCCATTTAATGATCTCCTGATTATAAATG
1 TAAGTTTTCTTAATTACTCCATTTAATGATCTCCTGATTATAAATG
29520879 TAAGTTTTCTTAATTACTCCATTTAATGATCTCCTGATTATAAATG
1 TAAGTTTTCTTAATTACTCCATTTAATGATCTCCTGATTATAAATG
29520925 -AAGT
1 TAAGT
29520929 AAAGAGTTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 4 0.08
46 46 0.92
ACGTcount: A:0.31, C:0.15, G:0.09, T:0.45
Consensus pattern (46 bp):
TAAGTTTTCTTAATTACTCCATTTAATGATCTCCTGATTATAAATG
Found at i:29522009 original size:12 final size:12
Alignment explanation
Indices: 29521992--29522036 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
29521982 ACGGTTTAAA
29521992 AATAATAAT-ATT
1 AATAATAATGA-T
29522004 AATAATAATGAT
1 AATAATAATGAT
*
29522016 AATAATATTGAT
1 AATAATAATGAT
*
29522028 AATGATAAT
1 AATAATAAT
29522037 ACAAATAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 28 0.97
13 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.38
Consensus pattern (12 bp):
AATAATAATGAT
Found at i:29522019 original size:18 final size:18
Alignment explanation
Indices: 29521996--29522037 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
29521986 TTTAAAAATA
*
29521996 ATAATATTAATAATAATG
1 ATAATAATAATAATAATG
* *
29522014 ATAATAATATTGATAATG
1 ATAATAATAATAATAATG
29522032 ATAATA
1 ATAATA
29522038 CAAATAACTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (18 bp):
ATAATAATAATAATAATG
Found at i:29522954 original size:22 final size:23
Alignment explanation
Indices: 29522929--29522972 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
29522919 TTTCTTTCCC
29522929 TTTTTG-ATTCAAT-TCTCTGTG
1 TTTTTGTATTCAATCTCTCTGTG
29522950 TTTTTGTATTCAATCGTCTCTGT
1 TTTTTGTATTCAATC-TCTCTGT
29522973 TTGCATTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
22 7 0.35
24 7 0.35
ACGTcount: A:0.14, C:0.16, G:0.14, T:0.57
Consensus pattern (23 bp):
TTTTTGTATTCAATCTCTCTGTG
Found at i:29523784 original size:45 final size:45
Alignment explanation
Indices: 29523713--29524240 Score: 229
Period size: 45 Copynumber: 11.7 Consensus size: 45
29523703 TCATTTCAAT
* *
29523713 CTGCTCCACAGCT-ACTTCAGGAAGATAAGATTTGCTATCTTCTAC
1 CTGCTCCACTG-TAACTTCAGGGAGATAAGATTTGCTATCTTCTAC
* * * * * * *
29523758 CTGCTCCCCTGTAACTTTAGGTAGATAAGGTTAGCCATCTT-TAGT
1 CTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCTATCTTCTA-C
* * * * *
29523803 CTACTCCACTGCAGCTTCAGGGAGATAAGATTTG-TAACTTCAAC
1 CTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCTATCTTCTAC
* * * * * * *
29523847 TTGTTCCACTGTAACTTCAGGGAGATAAGGTTAG-TAGCTGT-AAT
1 CTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCTATCT-TCTAC
* * * * * *
29523891 CTGCTCCACTGTAACTTTAGAGAGACAAGATTCGCCATCTTC-AGT
1 CTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCTATCTTCTA-C
* * * * * * *
29523936 CTGCTCCATTGCAACTTCAGGGAGATAAAACTTG-AAACTTCAAC
1 CTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCTATCTTCTAC
* * * ** * * *
29523980 CTGTTCCACTGCAACATCAGGGAGATAAG-TTTTATAACTTCAAT
1 CTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCTATCTTCTAC
* * * * * *
29524024 CTACTCCATTGCAACTTTAGGGAGATACA-ATTTGTAACTTGATAGCCTT-AAT
1 CTGCTCCACTGTAACTTCAGGGAGATA-AGATTTG---C-T-AT---CTTCTAC
* * * * * *
29524076 CTGTTCCACTATAGCCTCAGGGAAATAAGATTTGCTATCTTCAAC
1 CTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCTATCTTCTAC
* * * *
29524121 CTGCTCCACTGCAACTTCA-GGAGATAAG-TTT-ATAGCTT-TAAT
1 CTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCTATCTTCT-AC
* * * * * *
29524163 CTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCGAT
1 CTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCTATCTTCTAC
* * *
29524208 CTACTCCATTGTAACTTCAAGGAGATAAGATTT
1 CTGCTCCACTGTAACTTCAGGGAGATAAGATTT
29524241 ATGGCTTTAA
Statistics
Matches: 361, Mismatches: 96, Indels: 52
0.71 0.19 0.10
Matches are distributed among these distances:
42 23 0.06
43 13 0.04
44 143 0.40
45 146 0.40
47 2 0.01
48 1 0.00
49 2 0.01
50 1 0.00
51 1 0.00
52 26 0.07
53 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (45 bp):
CTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCTATCTTCTAC
Found at i:29523857 original size:44 final size:45
Alignment explanation
Indices: 29523707--29524281 Score: 300
Period size: 44 Copynumber: 12.8 Consensus size: 45
29523697 GATTAGTCAT
* * * *
29523707 TTCAA-TCTGCTCCACAGCTACTTCAGGAAGATAAGATTTGCTATC
1 TTCAACTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAAC
* * * * * * * * *
29523752 TTCTAC-CTGCTCCCCTGTAACTTTAGGTAGATAAGGTTAGCCATC
1 TTCAACTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAAC
* * * *
29523797 TT-TAGTCTACTCCACTGCAGCTTCAGGGAGATAAGATTTGTAAC
1 TTCAACTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAAC
* * * * *
29523841 TTCAACT-TGTTCCACTGTAACTTCAGGGAGATAAGGTTAGTAGC
1 TTCAACTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAAC
* * * * * * *
29523885 TGT-AA-TCTGCTCCACTGTAACTTTAGAGAGACAAGATTCGCCATC
1 T-TCAACTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAAC
* * * * *
29523930 TTC-AGTCTGCTCCATTGCAACTTCAGGGAGATAAAACTTGAAAC
1 TTCAACTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAAC
* * * *
29523974 TTCAAC-CTGTTCCACTGCAACATCAGGGAGATAAGTTTTATAAC
1 TTCAACTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAAC
* * *
29524018 TTCAA-TCTACTCCATTGCAACTTTAGGGAGATACA-ATTTGTAAC
1 TTCAACTCTGCTCCACTGCAACTTCAGGGAGATA-AGATTTGTAAC
* * ** * * * *
29524062 TTGATAGCCTTAATCTGTTCCACTATAGCCTCAGGGAAATAAGATTTGCTATC
1 TTCA-A--C----TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAAC
* *
29524115 TTCAAC-CTGCTCCACTGCAACTTCA-GGAGATAAG-TTTATAGC
1 TTCAACTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAAC
* * * * *
29524157 TTTAA-TCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTATC
1 TTCAACTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAAC
* * * * * * **
29524202 TTCGA-TCTACTCCATTGTAACTTCAAGGAGATAAGATTTATGGC
1 TTCAACTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAAC
* ** *
29524246 TTTAA-TCTGCTCTGCTGCAACTTTAGGGAGATAAGA
1 TTCAACTCTGCTCCACTGCAACTTCAGGGAGATAAGA
29524282 CTTGCCACAA
Statistics
Matches: 396, Mismatches: 109, Indels: 51
0.71 0.20 0.09
Matches are distributed among these distances:
42 24 0.06
43 12 0.03
44 180 0.45
45 147 0.37
50 1 0.00
51 1 0.00
52 25 0.06
53 6 0.02
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (45 bp):
TTCAACTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAAC
Found at i:29523937 original size:133 final size:130
Alignment explanation
Indices: 29523791--29524240 Score: 393
Period size: 133 Copynumber: 3.3 Consensus size: 130
29523781 GATAAGGTTA
* * *
29523791 GCCATCTTTAGTCTACTCCACTGCAGCTTCAGGGAGATAAGATTTGTAACTTCAACTTGTTCCAC
1 GCCATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAACCTGTTCCAC
* * * *
29523856 TGTAACTTCAGGGAGATAAGGTTAGTAGCTGTAATCTGCTCCACTGTAACTTTAGAGAGACAAGA
66 TGCAACTTCAGGGAGATAAGTTTA-TAGCT-TAATCTACTCCACTGCAACTTTAGAGAGACAAGA
29523921 TT
129 TT
* * * * *
29523923 CGCCATCTTCAGTCTGCTCCATTGCAACTTCAGGGAGATAAAACTTGAAACTTCAACCTGTTCCA
1 -GCCATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAACCTGTTCCA
* * * *
29523988 CTGCAACATCAGGGAGATAAGTTTTATAACTTCAATCTACTCCATTGCAACTTTAGGGAGATACA
65 CTGCAACTTCAGGGAGATAAG-TTTATAGCTT-AATCTACTCCACTGCAACTTTA--GAGAGACA
29524053 ATTTGTAACTT
126 A---G--A-TT
** * * ** ** * * * * *
29524064 GATAGCCTT-AATCTGTTCCACTATAGCCTCAGGGAAATAAGATTTGCTATCTTCAACCTGCTCC
1 GCCA-TCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TAACTTCAACCTGTTCC
* * *
29524128 ACTGCAACTTCA-GGAGATAAGTTTATAGCTTTAATCTACTCTACTGCAACTTCAGAGAGATAAG
64 ACTGCAACTTCAGGGAGATAAGTTTATAGC-TTAATCTACTCCACTGCAACTTTAGAGAGACAAG
29524192 ATTT
128 A-TT
* * * *
29524196 GCTATCTTC-GATCTACTCCATTGTAACTTCAAGGAGATAAGATTT
1 GCCATCTTCAG-TCTACTCCACTGCAACTTCAGGGAGATAAGATTT
29524241 ATGGCTTTAA
Statistics
Matches: 251, Mismatches: 51, Indels: 31
0.75 0.15 0.09
Matches are distributed among these distances:
131 3 0.01
132 33 0.13
133 98 0.39
134 4 0.02
135 8 0.03
137 7 0.03
138 1 0.00
139 26 0.10
140 41 0.16
141 30 0.12
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (130 bp):
GCCATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAACCTGTTCCAC
TGCAACTTCAGGGAGATAAGTTTATAGCTTAATCTACTCCACTGCAACTTTAGAGAGACAAGATT
Found at i:29524278 original size:89 final size:87
Alignment explanation
Indices: 29524092--29524286 Score: 264
Period size: 89 Copynumber: 2.2 Consensus size: 87
29524082 CACTATAGCC
* *
29524092 TCAGGGAAATAAGATTTGCTATCTTCAACCTGCTCCACTGCAACTTCAGGAGATAAGTTTATAGC
1 TCAGGGAGATAAGATTTGCTATCTTCAACCTACTCCACTGCAACTTCAGGAGATAAGTTTATAGC
29524157 TTTAATCTACTCTACTGCAACT
66 TTTAATCTACTCTACTGCAACT
* * * * * *
29524179 TCAGAGAGATAAGATTTGCTATCTTCGATCTACTCCATTGTAACTTCAAGGAGATAAGATTTATG
1 TCAGGGAGATAAGATTTGCTATCTTCAACCTACTCCACTGCAACTTC-AGGAGATAAG-TTTATA
* *
29524244 GCTTTAATCTGCTCTGCTGCAACT
64 GCTTTAATCTACTCTACTGCAACT
* *
29524268 TTAGGGAGATAAGACTTGC
1 TCAGGGAGATAAGATTTGC
29524287 CACAATGACT
Statistics
Matches: 93, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
87 40 0.43
88 10 0.11
89 43 0.46
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (87 bp):
TCAGGGAGATAAGATTTGCTATCTTCAACCTACTCCACTGCAACTTCAGGAGATAAGTTTATAGC
TTTAATCTACTCTACTGCAACT
Found at i:29526050 original size:42 final size:43
Alignment explanation
Indices: 29525963--29526118 Score: 131
Period size: 42 Copynumber: 3.7 Consensus size: 43
29525953 AACTCATACA
* * * *
29525963 ATGCCAACATCCTAG-CAAGGTCTTACATGTAATCAAATATCG
1 ATGCCAATATCCCAGACATGGTCTTACATGAAATCAAATATCG
* *
29526005 ATGCCACTATCCCAGACA-GGTTCTTACATGAAATCATATAT-G
1 ATGCCAATATCCCAGACATGG-TCTTACATGAAATCAAATATCG
* * * * *
29526047 ATGCCAATGTCCTAGACATGGTCTTACACGTAAATCTCAA-ATCA
1 ATGCCAATATCCCAGACATGGTCTTACATG-AAATC-AAATATCG
* * *
29526091 ATGCCAATGTCCTAGACGTGGTCTTACA
1 ATGCCAATATCCCAGACATGGTCTTACA
29526119 CGGAATCGCA
Statistics
Matches: 95, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
42 38 0.40
43 29 0.31
44 28 0.29
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (43 bp):
ATGCCAATATCCCAGACATGGTCTTACATGAAATCAAATATCG
Found at i:29526145 original size:44 final size:44
Alignment explanation
Indices: 29526047--29526133 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
29526037 ATCATATATG
*
29526047 ATGCCAATGTCCTAGACATGGTCTTACACGTAAATCTCAAATCA
1 ATGCCAATGTCCTAGACATGGTCTTACACGTAAATCGCAAATCA
* * *
29526091 ATGCCAATGTCCTAGACGTGGTCTTACACG-GAATCGCATATCA
1 ATGCCAATGTCCTAGACATGGTCTTACACGTAAATCGCAAATCA
29526134 GAATCCTATG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 10 0.26
44 29 0.74
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (44 bp):
ATGCCAATGTCCTAGACATGGTCTTACACGTAAATCGCAAATCA
Found at i:29531639 original size:24 final size:24
Alignment explanation
Indices: 29531580--29531697 Score: 102
Period size: 24 Copynumber: 5.0 Consensus size: 24
29531570 GAGTCATGGT
*
29531580 TGGTAAGCTCCTACTGAGCTGATAAA
1 TGGTAAGCT-CTATTGAGCTGA-AAA
** *
29531606 CAGTAAGCTCTATTGAACTGAAAA
1 TGGTAAGCTCTATTGAGCTGAAAA
*
29531630 TGGTAAGCTCTATTGAGCTGAACA
1 TGGTAAGCTCTATTGAGCTGAAAA
*
29531654 --GTAAGCTCT-TTCGAGTTG--AA
1 TGGTAAGCTCTATT-GAGCTGAAAA
*
29531674 TCGGTAAGCTCTAATGAGCTGAAA
1 T-GGTAAGCTCTATTGAGCTGAAA
29531698 CAGTAAGCTC
Statistics
Matches: 73, Mismatches: 12, Indels: 15
0.73 0.12 0.15
Matches are distributed among these distances:
20 1 0.01
21 2 0.03
22 14 0.19
23 14 0.19
24 24 0.33
25 11 0.15
26 7 0.10
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (24 bp):
TGGTAAGCTCTATTGAGCTGAAAA
Found at i:29531684 original size:23 final size:22
Alignment explanation
Indices: 29531581--29531708 Score: 96
Period size: 23 Copynumber: 5.5 Consensus size: 22
29531571 AGTCATGGTT
*
29531581 GGTAAGCTCCTACTGAGCTGATAAAC
1 GGTAAGCT-CTATTGAGCTG---AAC
* * *
29531607 AGTAAGCTCTATTGAACTGAAAAT
1 GGTAAGCTCTATTGAGCTG--AAC
29531631 GGTAAGCTCTATTGAGCTGAAC
1 GGTAAGCTCTATTGAGCTGAAC
* *
29531653 AGTAAGCTCT-TTCGAGTTGAATC
1 GGTAAGCTCTATT-GAGCTGAA-C
*
29531676 GGTAAGCTCTAATGAGCTGAAAC
1 GGTAAGCTCTATTGAGCTG-AAC
*
29531699 AGTAAGCTCT
1 GGTAAGCTCT
29531709 TACGAGCTAT
Statistics
Matches: 84, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
21 2 0.02
22 18 0.21
23 25 0.30
24 23 0.27
25 9 0.11
26 7 0.08
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (22 bp):
GGTAAGCTCTATTGAGCTGAAC
Found at i:29531700 original size:46 final size:46
Alignment explanation
Indices: 29531580--29531716 Score: 154
Period size: 46 Copynumber: 2.9 Consensus size: 46
29531570 GAGTCATGGT
* *
29531580 TGGTAAGCTCCTACTGAGCTGATAAACAGTAAGCTCTATT-GAACTGAAAA
1 TGGTAAGCT-CTAATGAGCTG--AAACAGTAAGCTCT-TTCGAGCTG-AAA
* *
29531630 TGGTAAGCTCTATTGAGCTG-AACAGTAAGCTCTTTCGAGTTG-AA
1 TGGTAAGCTCTAATGAGCTGAAACAGTAAGCTCTTTCGAGCTGAAA
*
29531674 TCGGTAAGCTCTAATGAGCTGAAACAGTAAGCTCTTACGAGCT
1 T-GGTAAGCTCTAATGAGCTGAAACAGTAAGCTCTTTCGAGCT
29531717 ATGGTGAGTC
Statistics
Matches: 78, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
44 3 0.04
45 20 0.26
46 36 0.46
49 10 0.13
50 9 0.12
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (46 bp):
TGGTAAGCTCTAATGAGCTGAAACAGTAAGCTCTTTCGAGCTGAAA
Found at i:29531863 original size:38 final size:38
Alignment explanation
Indices: 29531812--29531890 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
29531802 TCAAACACGG
29531812 CTTGGTAACACATACAATATAACAATAAGACATTTATA
1 CTTGGTAACACATACAATATAACAATAAGACATTTATA
*
29531850 CTTGGTAACACATACAATATAACAATAAGACGTTTATA
1 CTTGGTAACACATACAATATAACAATAAGACATTTATA
29531888 CTT
1 CTT
29531891 TAAATATCTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.30
Consensus pattern (38 bp):
CTTGGTAACACATACAATATAACAATAAGACATTTATA
Found at i:29531906 original size:20 final size:20
Alignment explanation
Indices: 29531883--29531947 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
29531873 AATAAGACGT
29531883 TTATACTTTAAATATCTCAA
1 TTATACTTTAAATATCTCAA
* *** *
29531903 TTATAAAC-AT-AATAAGACAT
1 TTAT--ACTTTAAATATCTCAA
29531923 TTATACTTTAAATATCTCAA
1 TTATACTTTAAATATCTCAA
29531943 TTATA
1 TTATA
29531948 AACATTCTTT
Statistics
Matches: 31, Mismatches: 10, Indels: 8
0.63 0.20 0.16
Matches are distributed among these distances:
18 2 0.06
19 1 0.03
20 25 0.81
21 1 0.03
22 2 0.06
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.42
Consensus pattern (20 bp):
TTATACTTTAAATATCTCAA
Found at i:29531926 original size:40 final size:40
Alignment explanation
Indices: 29531873--29531952 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
29531863 ACAATATAAC
*
29531873 AATAAGACGTTTATACTTTAAATATCTCAATTATAAACAT
1 AATAAGACATTTATACTTTAAATATCTCAATTATAAACAT
29531913 AATAAGACATTTATACTTTAAATATCTCAATTATAAACAT
1 AATAAGACATTTATACTTTAAATATCTCAATTATAAACAT
29531953 TCTTTTCAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (40 bp):
AATAAGACATTTATACTTTAAATATCTCAATTATAAACAT
Found at i:29535708 original size:47 final size:47
Alignment explanation
Indices: 29535657--29536071 Score: 652
Period size: 47 Copynumber: 8.7 Consensus size: 47
29535647 TTAGGATTCT
* * *
29535657 ATGTGATGGATGTGAACA-TGCATATATGTGATAAGGCCTAATGACCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
*
29535704 ATGTGATGAATGTGAAAGTGTATATATGTGGTAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
29535751 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
29535798 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
29535847 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
29535894 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
**
29535943 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCAA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
29535990 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
29536037 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
29536072 TGCCGAAGGG
Statistics
Matches: 346, Mismatches: 17, Indels: 10
0.93 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 251 0.73
49 94 0.27
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:29535833 original size:143 final size:141
Alignment explanation
Indices: 29535657--29536071 Score: 652
Period size: 143 Copynumber: 2.9 Consensus size: 141
29535647 TTAGGATTCT
* * *
29535657 ATGTGATGGATGTGAACA-TGCATATATGTGATAAGGCCTAATGACCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
29535721 GTGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
65 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
29535786 GCCTAATGGCCG
130 GCCTAATGGCCG
29535798 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
29535863 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
64 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGAT
29535928 AAGGCCTAATGGCCG
127 AAGGCCTAATGGCCG
**
29535943 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCAAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * * * * * * *
29536008 TGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
29536072 TGCCGAAGGG
Statistics
Matches: 255, Mismatches: 14, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
140 1 0.00
141 31 0.12
143 176 0.69
145 47 0.18
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (141 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
CCTAATGGCCG
Found at i:29535877 original size:96 final size:94
Alignment explanation
Indices: 29535657--29536071 Score: 652
Period size: 96 Copynumber: 4.4 Consensus size: 94
29535647 TTAGGATTCT
* * *
29535657 ATGTGATGGATGTGAACA-TGCATATATGTGATAAGGCCTAATGACCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
29535721 GTGTATATATGTGGTAAGGCCTAATGGCCG
65 GTGTATATATGTGATAAGGCCTAATGGCCG
29535751 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
29535816 TGTATATATATGTGATAAGGCCTAATGGCCG
66 TG--TATATATGTGATAAGGCCTAATGGCCG
29535847 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
29535912 TGTATATATATGTGATAAGGCCTAATGGCCG
66 TG--TATATATGTGATAAGGCCTAATGGCCG
**
29535943 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCAAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * * * *
29536008 TGTATATATGTGACAGGGCCGAGTGGCCA
66 TGTATATATGTGATAAGGCCTAATGGCCG
* * *
29536037 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
29536072 TGCCGAAGGG
Statistics
Matches: 304, Mismatches: 14, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
93 1 0.00
94 116 0.38
96 187 0.62
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (94 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCG
Found at i:29536246 original size:37 final size:37
Alignment explanation
Indices: 29536190--29536268 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
29536180 CCGAGCTCTC
* *
29536190 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
29536227 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
29536264 AAGAC
1 AAGAC
29536269 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:29546113 original size:15 final size:15
Alignment explanation
Indices: 29546073--29546118 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
29546063 ACGGTTTAAA
29546073 AATAATAAT-ATTAAT
1 AATAATAATGA-TAAT
*
29546088 AATAATGATGATAAT
1 AATAATAATGATAAT
*
29546103 ATTAATAATGATAAT
1 AATAATAATGATAAT
29546118 A
1 A
29546119 CAAATAATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (15 bp):
AATAATAATGATAAT
Found at i:29546941 original size:7 final size:7
Alignment explanation
Indices: 29546931--29546968 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
29546921 GAGAAAAGAG
29546931 AAAAATA
1 AAAAATA
29546938 AAAAATA
1 AAAAATA
29546945 AAAAATA
1 AAAAATA
29546952 AAAAATA
1 AAAAATA
29546959 AAAAATA
1 AAAAATA
29546966 AAA
1 AAA
29546969 TGAACACCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAAATA
Found at i:29550880 original size:28 final size:28
Alignment explanation
Indices: 29550833--29550897 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
29550823 AAATTAACCC
*
29550833 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
* *
29550861 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
29550889 TAGGGGTAT
1 TAGGGGTAT
29550898 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATACA
Found at i:29568387 original size:40 final size:40
Alignment explanation
Indices: 29568184--29568375 Score: 305
Period size: 40 Copynumber: 4.8 Consensus size: 40
29568174 CGGATGATAA
* * * *
29568184 CCGGACTAAGTCCCGAAGGCATTTGCGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
*
29568224 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
29568264 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
29568304 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
* *
29568344 CCGGGCTAAGTCCCAAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
29568376 GGCTATATCC
Statistics
Matches: 143, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
39 2 0.01
40 141 0.99
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:29574853 original size:24 final size:24
Alignment explanation
Indices: 29574776--29574856 Score: 99
Period size: 24 Copynumber: 3.4 Consensus size: 24
29574766 GTAAGCTTTG
* *
29574776 ACGAGATGAAAAGAATAAGCTCCA
1 ACGAGTTGAAAACAATAAGCTCCA
* *
29574800 ACGAGCTAAAAACAATAAGCTCCA
1 ACGAGTTGAAAACAATAAGCTCCA
* **
29574824 ATGAGTTGAAAACAATAAGCTCTT
1 ACGAGTTGAAAACAATAAGCTCCA
29574848 ACGAGTTGA
1 ACGAGTTGA
29574857 TATATCTATA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.19
Consensus pattern (24 bp):
ACGAGTTGAAAACAATAAGCTCCA
Found at i:29576602 original size:40 final size:39
Alignment explanation
Indices: 29576558--29576688 Score: 113
Period size: 40 Copynumber: 3.3 Consensus size: 39
29576548 GTACTTGTGG
* * *
29576558 CTTGTCCATAATACTG-ACAACTTTTCTGCAATTCTGGTGA
1 CTTGTCCACAATACTGTAC--CTTGTCTGCAATTATGGTGA
* *
29576598 CTTGTCCACAATACTAGTGCCTTGTCTGCAATTATGGTGG
1 CTTGTCCACAATACT-GTACCTTGTCTGCAATTATGGTGA
*** * *
29576638 CTTGTCCACAATACTGGTGGTTTATCTGCAA-TATTGGTGG
1 CTTGTCCACAATACT-GTACCTTGTCTGCAATTA-TGGTGA
29576678 CTTGTCCACAA
1 CTTGTCCACAA
29576689 ATTGGTGTGT
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
39 2 0.03
40 75 0.95
41 1 0.01
42 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (39 bp):
CTTGTCCACAATACTGTACCTTGTCTGCAATTATGGTGA
Found at i:29576609 original size:20 final size:20
Alignment explanation
Indices: 29576586--29576688 Score: 73
Period size: 20 Copynumber: 5.2 Consensus size: 20
29576576 AACTTTTCTG
*
29576586 CAATTCTGGTGACTTGTCCA
1 CAATACTGGTGACTTGTCCA
* * **
29576606 CAATACTAGTGCCTTGTCTG
1 CAATACTGGTGACTTGTCCA
*
29576626 CAATTA-TGGTGGCTTGTCCA
1 CAA-TACTGGTGACTTGTCCA
** * **
29576646 CAATACTGGTGGTTTATCTG
1 CAATACTGGTGACTTGTCCA
* *
29576666 CAATATTGGTGGCTTGTCCA
1 CAATACTGGTGACTTGTCCA
29576686 CAA
1 CAA
29576689 ATTGGTGTGT
Statistics
Matches: 63, Mismatches: 18, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
19 2 0.03
20 59 0.94
21 2 0.03
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.35
Consensus pattern (20 bp):
CAATACTGGTGACTTGTCCA
Found at i:29577656 original size:37 final size:37
Alignment explanation
Indices: 29577592--29577667 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
29577582 TTACAAGCCA
29577592 AAATCATTATAAGCCACATCTCATGGCTACAT-ACAAC
1 AAATCATTATAAGCCACATCTCATGGCTA-ATCACAAC
*
29577629 AAATCATTATAAGCCA-ATACAT-TTGGCTAATCACAAC
1 AAATCATTATAAGCCACAT-C-TCATGGCTAATCACAAC
29577666 AA
1 AA
29577668 CATCGATCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
36 4 0.11
37 30 0.86
38 1 0.03
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.25
Consensus pattern (37 bp):
AAATCATTATAAGCCACATCTCATGGCTAATCACAAC
Found at i:29583647 original size:79 final size:81
Alignment explanation
Indices: 29583511--29583693 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
29583501 TCGAATGATG
* *
29583511 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
29583575 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
29583590 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
29583652 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* * *
29583670 ACCGGACTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
29583694 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:29583702 original size:40 final size:39
Alignment explanation
Indices: 29583512--29583695 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
29583502 CGAATGATGT
* * * *
29583512 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
29583552 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
29583592 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
29583630 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
29583671 CCGGACTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
29583696 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
39 35 0.28
40 80 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:29583717 original size:79 final size:79
Alignment explanation
Indices: 29583564--29583728 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
29583554 GGACTAAGAT
* * **
29583564 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGACTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
29583629 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
29583643 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGACTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGACTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
29583706 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
29583722 CCGAAGG
1 CCGAAGG
29583729 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGACTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:29590747 original size:10 final size:10
Alignment explanation
Indices: 29590732--29590761 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
29590722 AAGCGAATAA
29590732 ATATATATAC
1 ATATATATAC
29590742 ATATATATAC
1 ATATATATAC
*
29590752 ATATAAATAC
1 ATATATATAC
29590762 TTGTAAGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (10 bp):
ATATATATAC
Found at i:29606219 original size:47 final size:47
Alignment explanation
Indices: 29606150--29606783 Score: 1025
Period size: 47 Copynumber: 13.3 Consensus size: 47
29606140 CCCTTCGGGA
* * * * * *
29606150 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
29606197 CTTATCACATATATACAGTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29606244 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29606291 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29606338 CTTATCACATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29606385 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29606434 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29606481 CTTATCACATATATATACACTTTCACATTCACCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29606530 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29606577 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29606626 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29606673 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29606720 CTTATCACATATATATATACACATTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29606771 CTTATCACATATA
1 CTTATCACATATA
29606784 CTATCATGTA
Statistics
Matches: 556, Mismatches: 21, Indels: 20
0.93 0.04 0.03
Matches are distributed among these distances:
47 373 0.67
49 137 0.25
51 46 0.08
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29606427 original size:96 final size:96
Alignment explanation
Indices: 29606150--29606783 Score: 1037
Period size: 96 Copynumber: 6.6 Consensus size: 96
29606140 CCCTTCGGGA
* * * * * *
29606150 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCTTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* * * *
29606213 AGTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCACCACATCGGCCATTAGGC
29606244 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
29606307 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCACCACATCGGCCATTAGGC
*
29606338 CTTATCACATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
29606403 ACTTTCACATTCACCACATCGGCCATTAGGC
66 ACTTTCACATTCACCACATCGGCCATTAGGC
*
29606434 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
29606499 ACTTTCACATTCACCACATTGGCCATTAGGC
66 ACTTTCACATTCACCACATCGGCCATTAGGC
29606530 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
29606595 ACTTTCACATTCACCACATCGGCCATTAGGC
66 ACTTTCACATTCACCACATCGGCCATTAGGC
*
29606626 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
29606689 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCACCACATCGGCCATTAGGC
*
29606720 CTTATCACATATATATATACACATTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
29606784 CTATCATGTA
Statistics
Matches: 512, Mismatches: 20, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
94 185 0.36
96 279 0.54
98 45 0.09
100 3 0.01
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCACCACATCGGCCATTAGGC
Found at i:29606463 original size:143 final size:141
Alignment explanation
Indices: 29606150--29606783 Score: 1025
Period size: 143 Copynumber: 4.4 Consensus size: 141
29606140 CCCTTCGGGA
* * * * * * *
29606150 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCTTATCACATATATACAG
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* * *
29606215 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
29606280 GGCCATTAGGC
131 GGCCATTAGGC
29606291 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
29606356 TTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACA
66 TTTCACATTCACCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
29606421 TCGGCCATTAGGC
129 TCGGCCATTAGGC
*
29606434 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
29606499 ACTTTCACATTCACCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
29606564 TCGGCCATTAGGC
129 TCGGCCATTAGGC
*
29606577 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
29606642 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
29606707 TCGGCCATTAGGC
129 TCGGCCATTAGGC
*
29606720 CTTATCACATATATATATACACATTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
29606784 CTATCATGTA
Statistics
Matches: 464, Mismatches: 21, Indels: 12
0.93 0.04 0.02
Matches are distributed among these distances:
141 92 0.20
143 229 0.49
145 143 0.31
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:29612998 original size:20 final size:19
Alignment explanation
Indices: 29612958--29613000 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
29612948 AAACGTGATA
*
29612958 TTTTGAAAAAAAATTATTG
1 TTTTGAAAAAAAATTAGTG
29612977 TTTTGGAAAAGAAAATT-GTG
1 TTTT-GAAAA-AAAATTAGTG
29612997 TTTT
1 TTTT
29613001 ACTCCAGCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 4 0.19
20 11 0.52
21 6 0.29
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (19 bp):
TTTTGAAAAAAAATTAGTG
Found at i:29613630 original size:44 final size:44
Alignment explanation
Indices: 29613559--29613649 Score: 121
Period size: 44 Copynumber: 2.1 Consensus size: 44
29613549 CAATAGGACA
* **
29613559 GCTCAACGCCATAGAAAGGACGGCTCAATGTTGTACACAGGATG
1 GCTCAACGCCATAGAAAGGACGACTCAATGTCATACACAGGATG
* *
29613603 GCTCAATGCCATAGACAA-GACGACTCAATGTCATAGACAGGATG
1 GCTCAACGCCATAGA-AAGGACGACTCAATGTCATACACAGGATG
29613647 GCT
1 GCT
29613650 AAAGGCCGTA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
44 39 0.95
45 2 0.05
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (44 bp):
GCTCAACGCCATAGAAAGGACGACTCAATGTCATACACAGGATG
Found at i:29617767 original size:149 final size:150
Alignment explanation
Indices: 29617612--29617912 Score: 516
Period size: 149 Copynumber: 2.0 Consensus size: 150
29617602 TTACTTGCAA
* *
29617612 CCTTAATGACGCCACAACCACTAGACCACATGTTTCCTTGTATTATTTATTTACCACAATAATTT
1 CCTTAATGACGCCACAACCACTAGACCACATGCTTCATTGTATTATTTATTTACCACAATAATTT
29617677 AAAAGGCCTTCATCCAAGCACCTAG-GATTTTATT-ACTTAAAACCAAAATTTTTACTAAAGCCC
66 AAAAGGCCTTCATCCAAGCACCTAGCG-TTTTATTCACTTAAAACCAAAATTTTTACTAAAGCCC
*
29617740 AGGTTTGAACCCAATATTTCT
130 AGGTTTGAACCCAAGATTTCT
* *
29617761 CCTTAATGACGCCACAACCACTAGATCACATGCTTCATTGTGTTATTTATTTACCACAATAATTT
1 CCTTAATGACGCCACAACCACTAGACCACATGCTTCATTGTATTATTTATTTACCACAATAATTT
29617826 AAAAGGCCTTCATCCAAGCACCTAGCGTTTTATTCACTTAAAACCAAAATTTTTACTAAAGCCCA
66 AAAAGGCCTTCATCCAAGCACCTAGCGTTTTATTCACTTAAAACCAAAATTTTTACTAAAGCCCA
* *
29617891 TGTTTGAACTCAAGATTTCT
131 GGTTTGAACCCAAGATTTCT
29617911 CC
1 CC
29617913 AACACTTCCT
Statistics
Matches: 143, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
149 93 0.65
150 50 0.35
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.33
Consensus pattern (150 bp):
CCTTAATGACGCCACAACCACTAGACCACATGCTTCATTGTATTATTTATTTACCACAATAATTT
AAAAGGCCTTCATCCAAGCACCTAGCGTTTTATTCACTTAAAACCAAAATTTTTACTAAAGCCCA
GGTTTGAACCCAAGATTTCT
Found at i:29619843 original size:22 final size:22
Alignment explanation
Indices: 29619811--29619890 Score: 70
Period size: 22 Copynumber: 3.6 Consensus size: 22
29619801 CCAAGTCAAT
29619811 AGGACGACTCAACGCCGTAGAC
1 AGGACGACTCAACGCCGTAGAC
* * *
29619833 AGGACGGCTCAATGCTGTAGAC
1 AGGACGACTCAACGCCGTAGAC
* * * * * *
29619855 ATGAGGGCTCAATGTCGTATAC
1 AGGACGACTCAACGCCGTAGAC
*
29619877 AGGATGACTCAACG
1 AGGACGACTCAACG
29619891 TTGTAGGTAA
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.30, C:0.24, G:0.29, T:0.17
Consensus pattern (22 bp):
AGGACGACTCAACGCCGTAGAC
Found at i:29625663 original size:17 final size:16
Alignment explanation
Indices: 29625641--29625673 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
29625631 TATTTATTTA
29625641 TTATTTTATGTTTTATT
1 TTATTTTAT-TTTTATT
29625658 TTATTTTATTTTTATT
1 TTATTTTATTTTTATT
29625674 AAAACTACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (16 bp):
TTATTTTATTTTTATT
Found at i:29627084 original size:24 final size:24
Alignment explanation
Indices: 29626986--29627085 Score: 146
Period size: 24 Copynumber: 4.2 Consensus size: 24
29626976 AGTCTGTCAT
*
29626986 GAGAGGATTTAGGAGTTGATAGGG
1 GAGAGGATTTAGGAGTTGATAAGG
* *
29627010 GATAGGATTTAGGAGTTGAGAAGG
1 GAGAGGATTTAGGAGTTGATAAGG
* *
29627034 GATAGGATTTAGGAGCTGATAAGG
1 GAGAGGATTTAGGAGTTGATAAGG
*
29627058 GAGAGGATTTAGGAGTTGATTAGG
1 GAGAGGATTTAGGAGTTGATAAGG
29627082 GAGA
1 GAGA
29627086 ATAGTGTTGG
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 68 1.00
ACGTcount: A:0.32, C:0.01, G:0.42, T:0.25
Consensus pattern (24 bp):
GAGAGGATTTAGGAGTTGATAAGG
Found at i:29628488 original size:27 final size:26
Alignment explanation
Indices: 29628450--29628558 Score: 110
Period size: 27 Copynumber: 4.0 Consensus size: 26
29628440 AAGCGTCTTG
*
29628450 GTGGCTATGCCACAATTATCTGATCTA
1 GTGGCTCTGCCAC-ATTATCTGATCTA
* *
29628477 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGATCTA
* *
29628504 GTGGCTCTGCCACGATTATCTGTATTTG
1 GTGGCTCTGCCAC-ATTATCTG-ATCTA
* * *
29628532 GTGACTCTGTCACATTATCTGTTCTA
1 GTGGCTCTGCCACATTATCTGATCTA
29628558 G
1 G
29628559 CAGCCATGCT
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 5 0.07
27 48 0.70
28 16 0.23
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGATCTA
Found at i:29628551 original size:54 final size:54
Alignment explanation
Indices: 29628448--29628556 Score: 148
Period size: 54 Copynumber: 2.0 Consensus size: 54
29628438 GGAAGCGTCT
*
29628448 TGGTGGCTATGCCACAATTATCTGATCTAGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTGCCACATATATCTGTTC
* * * * *
29628502 TGGTGGCTCTGCCACGATTATCTGTATTTGGTGACTCTGTCACAT-TATCTGTTC
1 TGGTGGCTATGCCACAATTATCTG-ATCTAGTGACTCTGCCACATATATCTGTTC
29628556 T
1 T
29628557 AGCAGCCATG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
54 32 0.67
55 16 0.33
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.39
Consensus pattern (54 bp):
TGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTGCCACATATATCTGTTC
Found at i:29637052 original size:47 final size:47
Alignment explanation
Indices: 29636980--29637432 Score: 717
Period size: 47 Copynumber: 9.6 Consensus size: 47
29636970 GATAATTGTG
* *
29636980 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
29637027 ATGTAAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
29637074 ATGTGAAAGTGTATATATGTGATAAGGCCAAATGACCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
29637121 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
29637170 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
29637217 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
29637264 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
29637313 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
29637360 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
29637407 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
29637433 TCCCGAAGGG
Statistics
Matches: 376, Mismatches: 26, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
47 286 0.76
49 90 0.24
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:29637087 original size:96 final size:94
Alignment explanation
Indices: 29636980--29637432 Score: 717
Period size: 96 Copynumber: 4.8 Consensus size: 94
29636970 GATAATTGTG
* * *
29636980 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
29637045 GTGATAAGGCCTAATGGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
* * *
29637074 ATGTGAAAGTGTATATATGTGATAAGGCCAAATGACCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
29637139 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
29637170 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
29637235 GTGATGAGGCCTAATGGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
29637264 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
29637329 ATGTGATAAGGCCTAATAGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
29637360 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
29637425 GTGATAAG
66 GTGATAAG
29637433 TCCCGAAGGG
Statistics
Matches: 333, Mismatches: 22, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
94 152 0.46
96 181 0.54
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (94 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:29637143 original size:143 final size:143
Alignment explanation
Indices: 29636980--29637432 Score: 770
Period size: 143 Copynumber: 3.2 Consensus size: 143
29636970 GATAATTGTG
*
29636980 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
29637043 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCAAATG
66 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCAAATG
*
29637108 ACCAATGTGATGA
131 GCCAATGTGATGA
29637121 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
29637186 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATG
66 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCAAATG
*
29637251 GCCGATGTGATGA
131 GCCAATGTGATGA
29637264 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * *
29637329 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTG
66 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCAAATG
* *
29637394 GCCAACGTGATGG
131 GCCAATGTGATGA
29637407 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
29637433 TCCCGAAGGG
Statistics
Matches: 296, Mismatches: 14, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
141 15 0.05
142 3 0.01
143 278 0.94
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (143 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCAAATG
GCCAATGTGATGA
Found at i:29639393 original size:24 final size:24
Alignment explanation
Indices: 29639295--29639394 Score: 146
Period size: 24 Copynumber: 4.2 Consensus size: 24
29639285 AGTCTGTCAT
*
29639295 GAGAGGATTTAGGAGTTGATAAGG
1 GAGAGGATTTAGGAGCTGATAAGG
* *
29639319 GATAGGATTTAGGAGTTGATAAGG
1 GAGAGGATTTAGGAGCTGATAAGG
* *
29639343 GATAGGATTTAGGAGCTAATAAGG
1 GAGAGGATTTAGGAGCTGATAAGG
*
29639367 GAGAGGATTTAGGAGCTGATTAGG
1 GAGAGGATTTAGGAGCTGATAAGG
29639391 GAGA
1 GAGA
29639395 ACAGTGTTGG
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 70 1.00
ACGTcount: A:0.34, C:0.02, G:0.39, T:0.25
Consensus pattern (24 bp):
GAGAGGATTTAGGAGCTGATAAGG
Found at i:29640371 original size:8 final size:8
Alignment explanation
Indices: 29640358--29640388 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
29640348 TTAGATCGGC
29640358 AAAAGCCG
1 AAAAGCCG
29640366 AAAAGCCG
1 AAAAGCCG
*
29640374 AAATGCCG
1 AAAAGCCG
29640382 AAAAGCC
1 AAAAGCC
29640389 TATTTTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.48, C:0.26, G:0.23, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:29640849 original size:27 final size:26
Alignment explanation
Indices: 29640807--29640918 Score: 107
Period size: 27 Copynumber: 4.2 Consensus size: 26
29640797 AGGAAGCGTC
* *
29640807 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTACCAC-ATTATCTGAT
* *
29640834 CTGGTGGCTCTACCACATATATTTGTT
1 CTGGTGGCTCTACCACAT-TATCTGAT
*
29640861 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTACCAC-ATTATCTG-AT
* * * *
29640889 CTGGTGACTCTATCACGTTATCTGTT
1 CTGGTGGCTCTACCACATTATCTGAT
29640915 CTGG
1 CTGG
29640919 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
26 7 0.10
27 47 0.67
28 16 0.23
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTACCACATTATCTGAT
Found at i:29640915 original size:54 final size:54
Alignment explanation
Indices: 29640807--29640918 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
29640797 AGGAAGCGTC
* *
29640807 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATTTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTT
* * * *
29640861 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTATCACGT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTACCACATATATCTGTT
29640915 CTGG
1 CTGG
29640919 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTT
Found at i:29648046 original size:93 final size:93
Alignment explanation
Indices: 29647887--29648057 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
29647877 GCCCCTAAGT
* * * *
29647887 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACACAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTAGGACTCAACTCAA
29647952 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
29647980 GAACTCGGACACAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTAGGACTCAACTCAA
1 GAACTCGGACACAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTAGGACTCAACTCAA
29648045 CGAGTTCGGATGC
66 CGAGTTCGGATGC
29648058 GCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACACAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTAGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:29648054 original size:46 final size:46
Alignment explanation
Indices: 29647882--29648054 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
29647872 AACCCGCCCC
* * *
29647882 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
29647928 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * *
29647976 TCA-CGAACTCGGACACAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
29648021 TAAGTGAACTAGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
29648055 TGCGCAACCA
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 59 0.57
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:29651048 original size:93 final size:93
Alignment explanation
Indices: 29650941--29651111 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
29650931 GCCCCTAAGT
* * *
29650941 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
29651006 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
29651034 GAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
29651099 CGAGTTCGGATGC
66 CGAGTTCGGATGC
29651112 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:29651108 original size:46 final size:46
Alignment explanation
Indices: 29650936--29651108 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
29650926 AACCCGCCCC
* * *
29650936 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
29650982 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * *
29651030 TCA-CGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
29651075 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
29651109 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 60 0.57
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:29651560 original size:29 final size:30
Alignment explanation
Indices: 29651528--29651586 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
29651518 ATTTAATACG
29651528 AACTTTGGAAAAATTACACTTTT-CCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
29651557 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
29651587 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:29656926 original size:40 final size:40
Alignment explanation
Indices: 29656746--29656966 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
29656736 CTCGTTCAAG
* * * * *
29656746 TGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
* *
29656785 TGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
29656825 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
* * *
29656865 TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
* ** * * * *
29656905 GGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-AA
1 TGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACGAA
* *
29656945 AGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAACCCGGA
29656967 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 35 0.22
40 115 0.73
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
Found at i:29656975 original size:41 final size:41
Alignment explanation
Indices: 29656898--29656975 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
29656888 TTAGTATCTC
* * *
29656898 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
29656939 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
29656976 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:29664706 original size:40 final size:40
Alignment explanation
Indices: 29664594--29664761 Score: 216
Period size: 39 Copynumber: 4.3 Consensus size: 40
29664584 CTCCTCGTTC
* * * * *
29664594 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
29664633 AATGCCTTCGGGAC-TAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
29664672 AATGCCTTCGGGACTTAACCCGGATTTAATAACTC-CACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
29664711 AATGCCTTCGGGACTTAACCCAGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
29664751 AAGGCCTTCGG
1 AATGCCTTCGG
29664762 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
38 19 0.17
39 64 0.56
40 32 0.28
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:29669644 original size:21 final size:17
Alignment explanation
Indices: 29669604--29669640 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
29669594 CATGATACTG
29669604 ATTCAAGATAAGCTTTT
1 ATTCAAGATAAGCTTTT
*
29669621 ATTCAAGATAAGCTATT
1 ATTCAAGATAAGCTTTT
29669638 ATT
1 ATT
29669641 TATTAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (17 bp):
ATTCAAGATAAGCTTTT
Found at i:29673844 original size:19 final size:19
Alignment explanation
Indices: 29673820--29673857 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
29673810 GTCGAGATTT
29673820 GAATTGAAATAGTTGCTTA
1 GAATTGAAATAGTTGCTTA
29673839 GAATTGAAATAGTTGCTTA
1 GAATTGAAATAGTTGCTTA
29673858 ACTATGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (19 bp):
GAATTGAAATAGTTGCTTA
Found at i:29682181 original size:48 final size:48
Alignment explanation
Indices: 29681946--29682168 Score: 320
Period size: 48 Copynumber: 4.6 Consensus size: 48
29681936 TAAGTTTGCC
* * *
29681946 AGTGTAAGACCATGTCTGGGACATGGCATCAACAATAATATATGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCT
* * *
29681994 AGTGTAAGACCATGTATGGGACATGGCATCGACGATGATATACGTGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCT
* * * *
29682042 AATGTAAGACCATGTCTGGGACATGGCATCGGCGATTATATTTGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCT
* * *
29682090 AGTGTAAGACCATGTCTGGGACATGGCATCGACAATGATATGTGTGAT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCT
*
29682138 AGTGTAAGACCATGTATGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
29682169 GTGATGAGAT
Statistics
Matches: 155, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 155 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCT
Found at i:29688807 original size:50 final size:50
Alignment explanation
Indices: 29688720--29688918 Score: 238
Period size: 50 Copynumber: 4.0 Consensus size: 50
29688710 TAAAATTGTT
* * *
29688720 TTAGGTCACATGTGTAGTGCTAAGTGCAAGCTACTACGTGTACTAGATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * * * * *
29688770 TTAGGTCGCATATGTAGTACTAAATGCAGGCTGCTACGTGTATCAGATGG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
** * * *
29688820 TTAGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATTG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
** *
29688870 TT-GGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
29688919 CTTCGGTTAC
Statistics
Matches: 122, Mismatches: 27, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
49 39 0.32
50 83 0.68
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.31
Consensus pattern (50 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
Found at i:29693321 original size:27 final size:27
Alignment explanation
Indices: 29693237--29693413 Score: 131
Period size: 27 Copynumber: 6.5 Consensus size: 27
29693227 AAATTGTACA
* * * *
29693237 GCACTAAGGGTACGATTTGACTATGTT
1 GCACTAAGTGTGCGAATTGACTATGTG
* * * *
29693264 GCACTCAGTGTGCAAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
29693291 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
** *
29693318 GCACTAAGTGTGCGAGCCTGACTATGTA
1 GCACTAAGTGTGCGA-ATTGACTATGTG
* * *
29693346 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * * * *
29693373 GAACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAATTGACTATGTG
*
29693400 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
29693414 GGCTCAATGT
Statistics
Matches: 117, Mismatches: 30, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
27 94 0.80
28 23 0.20
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:29693379 original size:55 final size:54
Alignment explanation
Indices: 29693291--29693413 Score: 147
Period size: 55 Copynumber: 2.3 Consensus size: 54
29693281 TGAATATGAT
* * *
29693291 GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGCCTGACTATGTA
1 GCACTAAGTGTGCGAATTGACCACGCGGAACTAAGTGTGCGAG-CTGACTATATA
* ** * * *
29693346 GCACTAAGTGTGCGATTTGATTACGTGGAACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAATTGACCACGCGGAACTAAGTGTGCGAGCTGACTATATA
*
29693400 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
29693414 GGCTCAATGT
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
54 21 0.36
55 37 0.64
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (54 bp):
GCACTAAGTGTGCGAATTGACCACGCGGAACTAAGTGTGCGAGCTGACTATATA
Found at i:29701260 original size:27 final size:27
Alignment explanation
Indices: 29701230--29701406 Score: 158
Period size: 27 Copynumber: 6.5 Consensus size: 27
29701220 AAATTGTACA
* * *
29701230 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
29701257 GCACTCAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
29701284 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
** *
29701311 GCACTAAGTGTGCGAGCCTGACTATGTA
1 GCACTAAGTGTGCGA-ATTGACTATGTG
* * *
29701339 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * * *
29701366 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAATTGACTATGTG
*
29701393 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
29701407 GGCTCAATGT
Statistics
Matches: 122, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 99 0.81
28 23 0.19
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:29701343 original size:82 final size:81
Alignment explanation
Indices: 29701230--29701385 Score: 197
Period size: 82 Copynumber: 1.9 Consensus size: 81
29701220 AAATTGTACA
** * * *
29701230 GCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGGGTGCGACCTGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
29701294 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
29701311 GCACTAAGTGTGCGAGCCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGGGTGCGA-CCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
29701376 TGCGAGTTGA
65 TGCGAATTGA
29701386 TTATATAGCA
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGACCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:29701397 original size:82 final size:81
Alignment explanation
Indices: 29701226--29701406 Score: 193
Period size: 82 Copynumber: 2.2 Consensus size: 81
29701216 GATTAAATTG
* ** * * *
29701226 TACAGCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGACCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
29701291 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
29701307 TGCGGCACTAAGTGTGCGAGCCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGA-CCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
29701371 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
29701389 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
29701407 GGCTCAATGT
Statistics
Matches: 80, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
81 17 0.21
82 63 0.79
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGACCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:29704110 original size:48 final size:47
Alignment explanation
Indices: 29704045--29704223 Score: 207
Period size: 48 Copynumber: 3.7 Consensus size: 47
29704035 CTGTGCTAAG
* * *
29704045 TGTGCCAGTGTAAGACCATGTCTGGGACATGACATCGGCGATGATATA
1 TGTGCCAGTG-CAGACCATGTCTGGGACATGGCATCGACGATGATATA
* * *
29704093 TGTGCCAATGCATGACCATGTCTGGGACATGGCATCAACGATCG-CATA
1 TGTGCCAGTGCA-GACCATGTCTGGGACATGGCATCGACGAT-GATATA
* * *
29704141 TGTGCCAGTGTAAGACCATGTCTCGGACATGGCATCGACGATGATATT
1 TGTGCCAGTG-CAGACCATGTCTGGGACATGGCATCGACGATGATATA
* *
29704189 TGTGCCAGTGTGAGACAATGTCTGGGACATGGCAT
1 TGTGCCAGTG-CAGACCATGTCTGGGACATGGCAT
29704224 GCAACATCCC
Statistics
Matches: 112, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
47 2 0.02
48 108 0.96
49 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (47 bp):
TGTGCCAGTGCAGACCATGTCTGGGACATGGCATCGACGATGATATA
Found at i:29704210 original size:96 final size:97
Alignment explanation
Indices: 29704045--29704228 Score: 282
Period size: 96 Copynumber: 1.9 Consensus size: 97
29704035 CTGTGCTAAG
* * *
29704045 TGTGCCAGTGTAAGACCATGTCTGGGACATGACATCGGCGATGATATATGTGCCAATGCATGACC
1 TGTGCCAGTGTAAGACCATGTCTCGGACATGACATCGACGATGATATATGTGCCAATGCATGACA
29704110 ATGTCTGGGACATGGCAT-CAACGATCGCATA
66 ATGTCTGGGACATGGCATGCAACGATCGCATA
* * * *
29704141 TGTGCCAGTGTAAGACCATGTCTCGGACATGGCATCGACGATGATATTTGTGCCAGTGTGA-GAC
1 TGTGCCAGTGTAAGACCATGTCTCGGACATGACATCGACGATGATATATGTGCCAATG-CATGAC
29704205 AATGTCTGGGACATGGCATGCAAC
65 AATGTCTGGGACATGGCATGCAAC
29704229 ATCCCGATTT
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
96 74 0.94
97 5 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (97 bp):
TGTGCCAGTGTAAGACCATGTCTCGGACATGACATCGACGATGATATATGTGCCAATGCATGACA
ATGTCTGGGACATGGCATGCAACGATCGCATA
Found at i:29705210 original size:47 final size:46
Alignment explanation
Indices: 29705159--29705314 Score: 141
Period size: 47 Copynumber: 3.5 Consensus size: 46
29705149 AAAAATGTGC
* *
29705159 TGCTAAGTGGATATGCCACGGTTACATATATTTATTCATTAACATGG
1 TGCTAAGTGGATATACCACGGTTACATATA-TTATTCATTAACGTGG
*
29705206 TGCTAAGTGGATATACCACAG-T---TA-A--A--CATGTAACGTGG
1 TGCTAAGTGGATATACCACGGTTACATATATTATTCAT-TAACGTGG
* * ** *
29705244 TTCTAAGTAGATATGTCACGTTTACATATATTGATTCATTAACGTGG
1 TGCTAAGTGGATATACCACGGTTACATATATT-ATTCATTAACGTGG
*
29705291 TGCTAAGTGGATATACCATGGTTA
1 TGCTAAGTGGATATACCACGGTTA
29705315 AACATGTAAC
Statistics
Matches: 83, Mismatches: 15, Indels: 22
0.69 0.12 0.18
Matches are distributed among these distances:
37 3 0.04
38 22 0.27
39 2 0.02
42 3 0.04
43 3 0.04
46 2 0.02
47 45 0.54
48 3 0.04
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.35
Consensus pattern (46 bp):
TGCTAAGTGGATATACCACGGTTACATATATTATTCATTAACGTGG
Found at i:29705304 original size:85 final size:85
Alignment explanation
Indices: 29705159--29705357 Score: 308
Period size: 85 Copynumber: 2.3 Consensus size: 85
29705149 AAAAATGTGC
* *
29705159 TGCTAAGTGGATATGCCACGGTTACATATATTTATTCATTAACATGGTGCTAAGTGGATATACCA
1 TGCTAAGTGGATATGCCACGTTTACATATATTGATTCATTAACATGGTGCTAAGTGGATATACCA
29705224 CAGTTAAACATGTAACGTGG
66 CAGTTAAACATGTAACGTGG
* * * *
29705244 TTCTAAGTAGATATGTCACGTTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATATACCA
1 TGCTAAGTGGATATGCCACGTTTACATATATTGATTCATTAACATGGTGCTAAGTGGATATACCA
**
29705309 TGGTTAAACATGTAACGTGG
66 CAGTTAAACATGTAACGTGG
29705329 TGCTAAGTGGATATGCCACGGTTATACAT
1 TGCTAAGTGGATATGCCAC-GTT-TACAT
29705358 GTTAATTTGA
Statistics
Matches: 101, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
85 93 0.92
86 3 0.03
87 5 0.05
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.33
Consensus pattern (85 bp):
TGCTAAGTGGATATGCCACGTTTACATATATTGATTCATTAACATGGTGCTAAGTGGATATACCA
CAGTTAAACATGTAACGTGG
Found at i:29705334 original size:38 final size:38
Alignment explanation
Indices: 29705283--29705359 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
29705273 ATTGATTCAT
*
29705283 TAACGTGGTGCTAAGTGGATATACCATGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* *
29705321 TAACGTGGTGCTAAGTGGATATGCCACGGTTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
29705359 T
1 T
29705360 TAATTTGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:29708072 original size:40 final size:40
Alignment explanation
Indices: 29708019--29708214 Score: 250
Period size: 40 Copynumber: 4.9 Consensus size: 40
29708009 GGATATAGCT
* * * *
29708019 ACTCGCTCGAATGCCTTCGGGACATAGCCCGGTTATGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * *
29708059 ACTCGCACAAATGCCTTCGGGGCTTAGCCTGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * *
29708099 ACTCGCACGAATGCCTTCGGGACATAGCCCGATTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * *
29708139 ACTCGCACAAATGCCTTCGGGGCTTAGCCCGG-AATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
*
29708179 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
29708215 CATCCGAATA
Statistics
Matches: 132, Mismatches: 22, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 130 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:29708142 original size:80 final size:79
Alignment explanation
Indices: 29708007--29708214 Score: 310
Period size: 80 Copynumber: 2.6 Consensus size: 79
29707997 CGGAATTTAA
* *
29708007 CCGGATATAGCTACTCGCTCGAATGCCTTCGGGACATAGCCCGGTTATGGTAACTCGCACAAATG
1 CCGGATATAG-TACTCGCACGAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATG
29708072 CCTTCGGGGCTTAGC
65 CCTTCGGGGCTTAGC
* *
29708087 CTGGATATAGTAACTCGCACGAATGCCTTCGGGACATAGCCCGATTATAGTAACTCGCACAAATG
1 CCGGATATAGT-ACTCGCACGAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATG
29708152 CCTTCGGGGCTTAGC
65 CCTTCGGGGCTTAGC
* * *
29708167 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CCGGATA-TAGT-ACTCGCACGAATGCCTTCGGGACATAGCCCGGTTAT
29708215 CATCCGAATA
Statistics
Matches: 116, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
79 2 0.02
80 114 0.98
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (79 bp):
CCGGATATAGTACTCGCACGAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGC
CTTCGGGGCTTAGC
Found at i:29711899 original size:15 final size:15
Alignment explanation
Indices: 29711879--29711920 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
29711869 GCTGTAAATG
29711879 GGATTTCCTTATCAT
1 GGATTTCCTTATCAT
* *
29711894 GGATTTCTTTATCTT
1 GGATTTCCTTATCAT
29711909 GGATTTCCTTAT
1 GGATTTCCTTAT
29711921 TCTGGGCTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.52
Consensus pattern (15 bp):
GGATTTCCTTATCAT
Found at i:29714218 original size:38 final size:38
Alignment explanation
Indices: 29714166--29714374 Score: 157
Period size: 38 Copynumber: 5.0 Consensus size: 38
29714156 GGAATGAAAA
* *
29714166 AACGTGGTGTTAAGTGGATATACCACGGTTATACGTGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
** *
29714204 AACGTGGTGCTAAGTGGATATACCACAATTACACATATTGATACATGC
1 AACGTGGTGCTAAGTGGATAT---AC-----CAC-GGTT-ATACATGT
* * *
29714252 AACGTGGTGTTAAGTGGATATGCCACGGTTACATATATTGATT
1 AACGTGGTGCTAAGTGGATATACCACGGTT--ATACA-TG--T
*
29714295 CATTTACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
1 -A---ACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
*
29714337 AACGTGGTGCTAAGTGGATATGCCACGGTTATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
29714375 TAATTTGAAA
Statistics
Matches: 135, Mismatches: 18, Indels: 36
0.71 0.10 0.19
Matches are distributed among these distances:
38 55 0.41
39 2 0.01
40 7 0.05
41 5 0.04
42 1 0.01
44 3 0.02
45 4 0.03
46 3 0.02
47 29 0.21
48 26 0.19
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
Found at i:29714325 original size:47 final size:48
Alignment explanation
Indices: 29714204--29714334 Score: 174
Period size: 48 Copynumber: 2.8 Consensus size: 48
29714194 TTATACGTGT
**
29714204 AACGTGGTGCTAAGTGGATATACCACAATTACACATATTGATACATGC
1 AACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATACATGC
* * * * *
29714252 AACGTGGTGTTAAGTGGATATGCCACGGTTACATATATTGATTCAT-T
1 AACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATACATGC
* *
29714299 TACGTGGTGCTAAGTGGATATACCACGGTTAAACAT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACACAT
29714335 GTAACGTGGT
Statistics
Matches: 71, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
47 31 0.44
48 40 0.56
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (48 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATACATGC
Found at i:29729630 original size:43 final size:43
Alignment explanation
Indices: 29729582--29729742 Score: 141
Period size: 43 Copynumber: 3.8 Consensus size: 43
29729572 TATGATTACA
* *
29729582 TGTAAGACCATGTCTGGGAAATTGGCATTGTATTGTGAATACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTGTGAATACG
* * **
29729625 TGTAAGACCATGTCAGGGACATTGGCATCGTTATT-TGATTTTG
1 TGTAAGACCATGTCTGGGACATTGGCATCG-TATTGTGAATACG
* ** *
29729668 TGTAAGACCCTGTCTGGGACAGAGGCATCG-ATATGTG-ATAACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTAT-TGTGAAT-ACG
** * *
29729711 TGTAAGACCACATCTGGGATA-TGGCATTGTAT
1 TGTAAGACCATGTCTGGGACATTGGCATCGTAT
29729743 GAGCATTATG
Statistics
Matches: 93, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
41 2 0.02
42 8 0.09
43 79 0.85
44 4 0.04
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATTGTGAATACG
Found at i:29731689 original size:95 final size:95
Alignment explanation
Indices: 29731565--29731787 Score: 249
Period size: 95 Copynumber: 2.3 Consensus size: 95
29731555 GGTGAATTGT
* *
29731565 CGATGCCATGGT-CCAAACATGGTCTTACACT-ACCTCACATGTCGA-GGCCGATGCCATGTCCA
1 CGATGCCAT-GTCCCAAACATGGTCTTACACTGACCTCACA--AC-ATGACCGATGCCATGTCCA
* * * *
29731627 AGACATGGTCTTACACTAGCTCTCGTCTCAAT-GC
62 AAACATGGTCTTAAACTAGCTCTCATATC-ATGGC
* * * *
29731661 CGATGCCATGTCCCAGACA-GGTCTTACACTGGCCCTCACAACATTACCGATGCCATGTTCAAAA
1 CGATGCCATGTCCCAAACATGGTCTTACACT-GACCTCACAACATGACCGATGCCATGTCCAAAA
* *
29731725 CATGGTCTTAAACTGGCTCTCATATCGTGGC
65 CATGGTCTTAAACTAGCTCTCATATCATGGC
29731756 CGATGCCATGTCCCAAACATGGTCTTACACTG
1 CGATGCCATGTCCCAAACATGGTCTTACACTG
29731788 GCACACATAT
Statistics
Matches: 108, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
94 2 0.02
95 73 0.68
96 26 0.24
97 7 0.06
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (95 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGACCTCACAACATGACCGATGCCATGTCCAAAAC
ATGGTCTTAAACTAGCTCTCATATCATGGC
Found at i:29731788 original size:48 final size:47
Alignment explanation
Indices: 29731565--29731799 Score: 224
Period size: 48 Copynumber: 4.9 Consensus size: 47
29731555 GGTGAATTGT
** * *
29731565 CGATGCCATGGTCCAAACATGGTCTTACACTACCTCACATGTCGA-GGC
1 CGATGCCAT-GTCCAAACATGGTCTTACACTGGCTCTCATATC-ATGGC
* * *
29731613 CGATGCCATGTCCAAGACATGGTCTTACACTAGCTCTCGTCTCAAT-GC
1 CGATGCCATGTCCAA-ACATGGTCTTACACTGGCTCTCATATC-ATGGC
* * * * **
29731661 CGATGCCATGTCCCAGACA-GGTCTTACACTGGCCCTCACAACATTAC
1 CGATGCCATGT-CCAAACATGGTCTTACACTGGCTCTCATATCATGGC
* * *
29731708 CGATGCCATGTTCAAAACATGGTCTTAAACTGGCTCTCATATCGTGGC
1 CGATGCCATG-TCCAAACATGGTCTTACACTGGCTCTCATATCATGGC
* *
29731756 CGATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCA
1 CGATGCCATGT-CCAAACATGGTCTTACACTGGCTCTCATATCA
29731800 CCAAAATATC
Statistics
Matches: 153, Mismatches: 27, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
46 2 0.01
47 40 0.26
48 108 0.71
49 3 0.02
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.25
Consensus pattern (47 bp):
CGATGCCATGTCCAAACATGGTCTTACACTGGCTCTCATATCATGGC
Found at i:29738036 original size:23 final size:21
Alignment explanation
Indices: 29738010--29738055 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
29738000 AAATTTTAAG
29738010 GTAAACAGGGCACACACCCGTGT
1 GTAAA-AGGG-ACACACCCGTGT
* *
29738033 GTAAAAGTGACACGCCCGTGT
1 GTAAAAGGGACACACCCGTGT
29738054 GT
1 GT
29738056 CGTCTTAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 13 0.62
22 3 0.14
23 5 0.24
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.17
Consensus pattern (21 bp):
GTAAAAGGGACACACCCGTGT
Found at i:29744983 original size:42 final size:43
Alignment explanation
Indices: 29744932--29745053 Score: 149
Period size: 42 Copynumber: 2.8 Consensus size: 43
29744922 TGTAATTCAG
* *
29744932 TATCGATGCCTCTGTCCTAGACA-GGATCTTACACGAAATCAGA
1 TATCGATGCCTATGTCCTAGACACGG-TCTTACACGAAATCACA
* *
29744975 TA-CGATGCCTATGTCCTAGACATGGTCTTACACGTAAATCTCA
1 TATCGATGCCTATGTCCTAGACACGGTCTTACACG-AAATCACA
* * *
29745018 TATCGAGGCCTGTGTCCCAGACACGGTCTTACACGA
1 TATCGATGCCTATGTCCTAGACACGGTCTTACACGA
29745054 TATCTCAGAT
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
42 28 0.41
43 13 0.19
44 28 0.41
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (43 bp):
TATCGATGCCTATGTCCTAGACACGGTCTTACACGAAATCACA
Found at i:29753048 original size:48 final size:46
Alignment explanation
Indices: 29752993--29753218 Score: 186
Period size: 48 Copynumber: 4.7 Consensus size: 46
29752983 TGAATTGTCA
* * *
29752993 ATGCCATGTTCCAAACATGGTGTTACACTGCCTCACATGCTGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTG-CTCACAT-CTGAGGCCG
* * *
29753041 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCCCGTATC-AATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACT-GCTCAC--ATCTGAGGCCG
* * * *
29753089 ATGCCATGTCCCAGACATGGTTTTACACTGGCTCTCATAATGTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACT-GCTCACAT-CTGAGGCCG
* * * * * *
29753137 ATGCCATGTCCTAGACAT-GTGCTTACACTAGCGCACATATCAATGCCA
1 ATGCCATGTCCCAGACATGGT-CTTACACT-GCTCACATCT-GAGGCCG
*
29753185 ATGCCATGTCCCAGACATGTTCTTACACTAGCTC
1 ATGCCATGTCCCAGACATGGTCTTACACT-GCTC
29753219 TCACAACATC
Statistics
Matches: 145, Mismatches: 25, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
46 2 0.01
47 4 0.03
48 134 0.92
49 3 0.02
50 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGCTCACATCTGAGGCCG
Found at i:29753162 original size:96 final size:96
Alignment explanation
Indices: 29752991--29753240 Score: 306
Period size: 96 Copynumber: 2.6 Consensus size: 96
29752981 GGTGAATTGT
* * * * * ** *
29752991 CAATGCCATGTTCCAAACATGGTGTTACACTGCCTCACATGCTGAGGCCGATGCCATGTCCCAGA
1 CAATGCCATGTCCCAGACATGGTTTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCAGA
* * *
29753056 CATGGTCTTACACTAGCTCCCGTATCAATGC
66 CATGGTCTTACACTAGCGCACATATCAATGC
* *
29753087 CGATGCCATGTCCCAGACATGGTTTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCTAGA
1 CAATGCCATGTCCCAGACATGGTTTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCAGA
29753152 CAT-GTGCTTACACTAGCGCACATATCAATGC
66 CATGGT-CTTACACTAGCGCACATATCAATGC
* * ** *
29753183 CAATGCCATGTCCCAGACAT-GTTCTTACACTAGCTCTCACAACATCGCCGATGCCATG
1 CAATGCCATGTCCCAGACATGGTT-TTACACTGGCTCTCATAATGTGGCCGATGCCATG
29753241 CATGGTCTTA
Statistics
Matches: 133, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
95 5 0.04
96 128 0.96
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (96 bp):
CAATGCCATGTCCCAGACATGGTTTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCAGA
CATGGTCTTACACTAGCGCACATATCAATGC
Found at i:29753237 original size:48 final size:48
Alignment explanation
Indices: 29753037--29753240 Score: 234
Period size: 48 Copynumber: 4.2 Consensus size: 48
29753027 ACATGCTGAG
* * * *
29753037 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCCCGTATCAAT
1 GCCGATGCCATGTCCCAGACATGTTCTTACACTAGCTCTCATAACAAT
* **
29753085 GCCGATGCCATGTCCCAGACATGGTT-TTACACTGGCTCTCATAA-TGT
1 GCCGATGCCATGTCCCAGACAT-GTTCTTACACTAGCTCTCATAACAAT
* * * * *
29753132 GGCCGATGCCATGTCCTAGACATGTGCTTACACTAGCGCACATATCAAT
1 -GCCGATGCCATGTCCCAGACATGTTCTTACACTAGCTCTCATAACAAT
* *
29753181 GCCAATGCCATGTCCCAGACATGTTCTTACACTAGCTCTCACAAC-AT
1 GCCGATGCCATGTCCCAGACATGTTCTTACACTAGCTCTCATAACAAT
29753228 CGCCGATGCCATG
1 -GCCGATGCCATG
29753241 CATGGTCTTA
Statistics
Matches: 128, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
47 5 0.04
48 120 0.94
49 3 0.02
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.25
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGTTCTTACACTAGCTCTCATAACAAT
Found at i:29753312 original size:137 final size:140
Alignment explanation
Indices: 29753041--29753315 Score: 330
Period size: 137 Copynumber: 2.0 Consensus size: 140
29753031 GCTGAGGCCG
** *
29753041 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCCCGTATCAATGCCGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCCCACAACAATGCCGATGCCA-GT--C-GACA
* *
29753106 TGGTTTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCTAGACATGTGCTTACACTAGCGC
62 TGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCTAGACATGTGCTTACACTAGCAC
29753171 ACATATCAATGCCA
127 ACATATCAATGCCA
* *
29753185 ATGCCATGTCCCAGACATGTTCTTACACTAGCTCTCACAAC-ATCGCCGATGCCA-T-G-CATGG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCCCACAACAAT-GCCGATGCCAGTCGACATGG
* * * *
29753246 TCTTACACTGGCTTTCAT-ATCGTGGCCGATGCCATTTTCC-AGACTTG-GTCTTACACTGGCAC
65 TCTTACACTGGCTCTCATAAT-GTGGCCGATGCCA-TGTCCTAGACATGTG-CTTACACTAGCAC
29753308 ACATATCA
127 ACATATCA
29753316 CCCAAATATC
Statistics
Matches: 116, Mismatches: 11, Indels: 15
0.82 0.08 0.11
Matches are distributed among these distances:
136 3 0.03
137 59 0.51
138 5 0.04
142 1 0.01
143 2 0.02
144 46 0.40
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (140 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCCCACAACAATGCCGATGCCAGTCGACATGGT
CTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCTAGACATGTGCTTACACTAGCACACAT
ATCAATGCCA
Found at i:29755285 original size:460 final size:460
Alignment explanation
Indices: 29754425--29755345 Score: 1779
Period size: 460 Copynumber: 2.0 Consensus size: 460
29754415 ATGTAACATT
* *
29754425 GCCTTGTGTTGCACATGGTTGAGACACATTTGAATAGCCAACTTGCCACCCTAATTGGGTCAAGC
1 GCCTTGTGTTGCACATGGCTGAGACACATTTGAATAGCCAACTTGCCACCCTAATTGGGTCAAAC
29754490 CTATAAGCACCAAACCAAGCATATTTACACAACAATTTTAGCCAATTTCTAAACCAAACCATATA
66 CTATAAGCACCAAACCAAGCATATTTACACAACAATTTTAGCCAATTTCTAAACCAAACCATATA
29754555 ACATTCATGCGATAACATTGTCAACCATTTACATGCTTATAAACTCAACTCAATTGTGCCAAAAC
131 ACATTCATGCGATAACATTGTCAACCATTTACATGCTTATAAACTCAACTCAATTGTGCCAAAAC
*
29754620 ATAAGATCAAATCATATCAAAACATATGGTTTCATAATCTTTAAACTCATGACCAAATCTCATAC
196 ATAAGATCAAATCATATCAAAACATATGGTTTCATAATCGTTAAACTCATGACCAAATCTCATAC
29754685 CAAAACTTATTCATGAACACATCAAATAGATCATTTTACATCACATTTCATATACCGAAATGAAA
261 CAAAACTTATTCATGAACACATCAAATAGATCATTTTACATCACATTTCATATACCGAAATGAAA
*
29754750 ACATAAACACAACCCTATCAAGCCATATCACATATCTAAATATAAACATTACAAATCATATCTAA
326 ACATAAACACAACCCTATCAAGCCATATCACATATCTAAATATAAACATTACAAATCATATCCAA
29754815 AGTACTTCTAGCCTATACATGCCATACTTTACTATATACATTTCAAAAGGTACCAAAATGAGATT
391 AGTACTTCTAGCCTATACATGCCATACTTTACTATATACATTTCAAAAGGTACCAAAATGAGATT
29754880 TGATA
456 TGATA
29754885 GCCTTGTGTTGCACATGGCTGAGACACATTTGAATAGCCAACTTGCCACCCTAATTGGGTCAAAC
1 GCCTTGTGTTGCACATGGCTGAGACACATTTGAATAGCCAACTTGCCACCCTAATTGGGTCAAAC
29754950 CTATAAGCACCAAACCAAGCATATTTACACAACAATTTTAGCCAATTTCTAAACCAAACCATATA
66 CTATAAGCACCAAACCAAGCATATTTACACAACAATTTTAGCCAATTTCTAAACCAAACCATATA
*
29755015 ACATTCATGCGATAACATTGTCAACCATTTACATGCTTATAAATTCAACTCAATTGTGCCAAAAC
131 ACATTCATGCGATAACATTGTCAACCATTTACATGCTTATAAACTCAACTCAATTGTGCCAAAAC
29755080 ATAAGATCAAATCATATCAAAACATATGGTTTCATAATCGTTAAACTCATGACCAAATCTCATAC
196 ATAAGATCAAATCATATCAAAACATATGGTTTCATAATCGTTAAACTCATGACCAAATCTCATAC
* *
29755145 CAAAACTTATTGATGAACACATCAAATAGGTCATTTTACATCACATTTCATATACCGAAATGAAA
261 CAAAACTTATTCATGAACACATCAAATAGATCATTTTACATCACATTTCATATACCGAAATGAAA
29755210 ACATAAACACAACCCTATCAAGCCATATCACATATCTAAATATAAACATTACAAATCATATCCAA
326 ACATAAACACAACCCTATCAAGCCATATCACATATCTAAATATAAACATTACAAATCATATCCAA
29755275 AGTACTTCTAGCCTATACATGCCATACTTTACTATATACATTTCAAAAGGTACCAAAATGAGATT
391 AGTACTTCTAGCCTATACATGCCATACTTTACTATATACATTTCAAAAGGTACCAAAATGAGATT
29755340 TGATA
456 TGATA
29755345 G
1 G
29755346 TGTGGTGACG
Statistics
Matches: 454, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
460 454 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (460 bp):
GCCTTGTGTTGCACATGGCTGAGACACATTTGAATAGCCAACTTGCCACCCTAATTGGGTCAAAC
CTATAAGCACCAAACCAAGCATATTTACACAACAATTTTAGCCAATTTCTAAACCAAACCATATA
ACATTCATGCGATAACATTGTCAACCATTTACATGCTTATAAACTCAACTCAATTGTGCCAAAAC
ATAAGATCAAATCATATCAAAACATATGGTTTCATAATCGTTAAACTCATGACCAAATCTCATAC
CAAAACTTATTCATGAACACATCAAATAGATCATTTTACATCACATTTCATATACCGAAATGAAA
ACATAAACACAACCCTATCAAGCCATATCACATATCTAAATATAAACATTACAAATCATATCCAA
AGTACTTCTAGCCTATACATGCCATACTTTACTATATACATTTCAAAAGGTACCAAAATGAGATT
TGATA
Found at i:29763314 original size:86 final size:85
Alignment explanation
Indices: 29763145--29763314 Score: 186
Period size: 85 Copynumber: 2.0 Consensus size: 85
29763135 TAGAGAACAT
* * * * *
29763145 ATACAATGCCAATGTCCCAGACCTGGTCTTACATGTAATAAAACATCGATGCCACTTTCCGAGAC
1 ATACAATGCCAATGTCCCAAACATGGTCTTACACGTAATAAAACATCGATGCCACTATCCCAGAC
29763210 AGGGTCTTAAACAAAATCAG
66 AGGGTCTTAAACAAAATCAG
* *
29763230 ATACGATGCCAATGTCCTAAACATGGTCTTACACGTAA-AACAGA-AGTCGATGCCAAC-ATCCC
1 ATACAATGCCAATGTCCCAAACATGGTCTTACACGTAATAA-A-ACA-TCGATGCC-ACTATCCC
* *
29763292 AGAC-GTGGTCTTACACGAAATCA
62 AGACAG-GGTCTTAAACAAAATCA
29763315 CATAACAGAA
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
84 2 0.03
85 36 0.51
86 31 0.44
87 2 0.03
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.22
Consensus pattern (85 bp):
ATACAATGCCAATGTCCCAAACATGGTCTTACACGTAATAAAACATCGATGCCACTATCCCAGAC
AGGGTCTTAAACAAAATCAG
Found at i:29764633 original size:27 final size:27
Alignment explanation
Indices: 29764587--29764649 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
29764577 GCAAAACAGG
*
29764587 CATTTTACCCTACAGTGGTAAGTCGGT
1 CATTTTACACTACAGTGGTAAGTCGGT
**
29764614 CATTTTACACTACAAG-GGTATTTCGGT
1 CATTTTACACTAC-AGTGGTAAGTCGGT
*
29764641 AATTTTACA
1 CATTTTACA
29764650 AATCGACGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 29 0.94
28 2 0.06
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (27 bp):
CATTTTACACTACAGTGGTAAGTCGGT
Found at i:29764689 original size:53 final size:53
Alignment explanation
Indices: 29764628--29764937 Score: 224
Period size: 53 Copynumber: 5.8 Consensus size: 53
29764618 TTACACTACA
* *
29764628 AGGGTATTTCGGTAATTTTACAAATCGACGGTATTTTAGTAATTTCACAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAATCG
* * *
29764681 AGGGTATTTTGGTAATTTTACAAATCG-GGGTATTTT-GATAATTTTAAAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAG-TAATTTT-ACAATCG
** * * * * *
29764734 AGGGTATTTCAATAATTTCAC-AATTGAGGATA-TTTCGATAATTTTACAAAT-T
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAG-TAATTTTAC-AATCG
* * * * * *
29764786 AGGGGTATTTCAGTAATTTCAC-AATCGAGGG-ATTTCAGAAATTTTATAAATTG
1 A-GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTA-CAATCG
* * * * *
29764839 AGGGTATTTCGTTAAATTTA-ACAATCAAGGGTATTTTGGTAATTTTACAAACCG
1 AGGGTATTTCGGTAATTTTACA-AATCGAGGGTATTTTAGTAATTTTAC-AATCG
* * * * *
29764893 GGGGTACTTT-GATAATTTTACAAATCGGGGGTATTTCAATAATTT
1 AGGGTA-TTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTT
29764938 CTCTTTATTA
Statistics
Matches: 202, Mismatches: 40, Indels: 29
0.75 0.15 0.11
Matches are distributed among these distances:
51 1 0.00
52 49 0.24
53 102 0.50
54 46 0.23
55 4 0.02
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (53 bp):
AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAATCG
Found at i:29764723 original size:79 final size:78
Alignment explanation
Indices: 29764629--29764889 Score: 249
Period size: 79 Copynumber: 3.3 Consensus size: 78
29764619 TACACTACAA
* * * * * *
29764629 GGGTATTTCGGTAATTTTACAAATCGACGGTATTTTAGTAATTTCACAATCGAGGGTATTTTGGT
1 GGGTATTTTGATAATTTTACAAATCGA-GGTATTTCAGTAATTTCACAATTGAGGGTATTTCGAT
29764694 AATTTTACAAATCG
65 AATTTTACAAATCG
* * * *
29764708 GGGTATTTTGATAATTTTAAAAATTGAGGGTATTTCAATAATTTCACAATTGAGGATATTTCGAT
1 GGGTATTTTGATAATTTTACAAATCGA-GGTATTTCAGTAATTTCACAATTGAGGGTATTTCGAT
*
29764773 AATTTTACAAATTAG
65 AATTTTACAAA-TCG
* * * * * * *
29764788 GGGTA-TTTCAGTAATTTCAC-AATCGAGGGATTTCAGAAATTTTATAAATTGAGGGTATTTCGT
1 GGGTATTTTGA-TAATTTTACAAATCGAGGTATTTCAGTAATTTCA-CAATTGAGGGTATTTCGA
* *
29764851 TAAATTTA-ACAATCAA
64 TAATTTTACA-AATC-G
*
29764867 GGGTATTTTGGTAATTTTACAAA
1 GGGTATTTTGATAATTTTACAAA
29764890 CCGGGGGTAC
Statistics
Matches: 146, Mismatches: 29, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
78 16 0.11
79 111 0.76
80 19 0.13
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.39
Consensus pattern (78 bp):
GGGTATTTTGATAATTTTACAAATCGAGGTATTTCAGTAATTTCACAATTGAGGGTATTTCGATA
ATTTTACAAATCG
Found at i:29764934 original size:27 final size:27
Alignment explanation
Indices: 29764628--29764937 Score: 255
Period size: 27 Copynumber: 11.7 Consensus size: 27
29764618 TTACACTACA
*
29764628 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
29764655 ACGGTATTT-TAGTAATTTCAC-AATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* *
29764681 AGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
29764708 -GGGTATTTTGATAATTTTAAAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
29764734 AGGGTATTTCAATAATTTCAC-AATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
29764760 AGGATATTTCGATAATTTTACAAAT-T
1 AGGGTATTTCGATAATTTTACAAATCG
*
29764786 AGGGGTATTTC-AGTAATTTCAC-AATCG
1 A-GGGTATTTCGA-TAATTTTACAAATCG
* *
29764813 AGGG-ATTTCAGA-AATTTTATAAATTG
1 AGGGTATTTC-GATAATTTTACAAATCG
* * *
29764839 AGGGTATTTCGTTAAATTTA-ACAATCA
1 AGGGTATTTCGATAATTTTACA-AATCG
* * *
29764866 AGGGTATTTTGGTAATTTTACAAACCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
29764893 GGGGTACTTT-GATAATTTTACAAATCG
1 AGGGTA-TTTCGATAATTTTACAAATCG
* *
29764920 GGGGTATTTCAATAATTT
1 AGGGTATTTCGATAATTT
29764938 CTCTTTATTA
Statistics
Matches: 228, Mismatches: 38, Indels: 34
0.76 0.13 0.11
Matches are distributed among these distances:
25 11 0.05
26 88 0.39
27 125 0.55
28 4 0.02
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:29765286 original size:28 final size:28
Alignment explanation
Indices: 29765254--29765317 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
29765244 TGGCCCCTTT
* * *
29765254 AGGCCCAATCTCGTCCACATGGCCTATC
1 AGGCCCAATCACATCCACATGGCCCATC
* *
29765282 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATCCACATGGCCCATC
29765310 AGGCCCAA
1 AGGCCCAA
29765318 CTATTTTCCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.27, C:0.38, G:0.17, T:0.19
Consensus pattern (28 bp):
AGGCCCAATCACATCCACATGGCCCATC
Found at i:29792061 original size:27 final size:27
Alignment explanation
Indices: 29792030--29792207 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
29792020 TAAATTGTAC
29792030 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
29792057 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
29792083 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
29792111 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
29792139 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
29792166 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
29792193 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
29792208 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:29792144 original size:82 final size:81
Alignment explanation
Indices: 29792031--29792186 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
29792021 AAATTGTACA
* *
29792031 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
29792095 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
29792112 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
29792177 TGCGAGTTGA
65 TGCGAATTGA
29792187 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:29792198 original size:82 final size:81
Alignment explanation
Indices: 29792027--29792207 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
29792017 GATTAAATTG
* *
29792027 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
29792092 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
29792108 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
29792172 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
29792190 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
29792208 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:29801187 original size:27 final size:27
Alignment explanation
Indices: 29801148--29801325 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
29801138 GTATTGAGCC
* * *
29801148 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * * *
29801175 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
29801202 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAGTCA-ACT
** * *
29801230 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
29801257 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
*
29801284 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAGTC-AACT
29801311 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29801326 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:29801287 original size:82 final size:81
Alignment explanation
Indices: 29801169--29801324 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
29801159 TGCTATATAA
* * *
29801169 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
29801234 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
29801251 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
29801315 CACTTAGTGC
65 CACTTAGTGC
29801325 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:29809179 original size:27 final size:27
Alignment explanation
Indices: 29809148--29809325 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
29809138 TATATTGAGC
* *
29809148 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
29809175 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
29809202 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
29809230 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
29809257 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
29809284 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
29809311 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29809326 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:29809287 original size:82 final size:81
Alignment explanation
Indices: 29809169--29809324 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
29809159 TGCTATATAA
* * *
29809169 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
29809234 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
29809251 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
29809315 CACTTAGTGC
65 CACTTAGTGC
29809325 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:29811290 original size:27 final size:27
Alignment explanation
Indices: 29811259--29811435 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
29811249 TAAATTGTAC
29811259 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
29811286 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
29811312 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
29811340 GGCACT-AGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
29811367 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
29811394 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
29811421 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
29811436 GACTCAATAT
Statistics
Matches: 127, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
26 9 0.07
27 109 0.86
28 9 0.07
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Done.