Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 76 of 126
Found at i:22742167 original size:22 final size:22
Alignment explanation
Indices: 22742140--22742203 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
22742130 TTTTCATATT
22742140 TCACATCATTCACATTTTCAAA
1 TCACATCATTCACATTTTCAAA
22742162 TCACAT-ATTCAC--TTT----
1 TCACATCATTCACATTTTCAAA
22742177 TCACATCATTCACATTTTCAAA
1 TCACATCATTCACATTTTCAAA
22742199 TCACA
1 TCACA
22742204 ATATCAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 14
0.71 0.00 0.29
Matches are distributed among these distances:
15 6 0.17
16 6 0.17
18 3 0.09
19 3 0.09
21 6 0.17
22 11 0.31
ACGTcount: A:0.34, C:0.28, G:0.00, T:0.38
Consensus pattern (22 bp):
TCACATCATTCACATTTTCAAA
Found at i:22742182 original size:15 final size:17
Alignment explanation
Indices: 22742138--22742201 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
22742128 GCTTTTCATA
22742138 TTTCACATCATTCACAT
1 TTTCACATCATTCACAT
*
22742155 TTTCAAATCACATATTCAC-T
1 TTTCACAT--C--ATTCACAT
22742175 TTTCACATCATTCACAT
1 TTTCACATCATTCACAT
*
22742192 TTTCAAATCA
1 TTTCACATCA
22742202 CAATATCAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
16 6 0.15
17 17 0.44
18 1 0.03
19 1 0.03
20 8 0.21
21 6 0.15
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.41
Consensus pattern (17 bp):
TTTCACATCATTCACAT
Found at i:22758600 original size:36 final size:36
Alignment explanation
Indices: 22758553--22758633 Score: 153
Period size: 36 Copynumber: 2.2 Consensus size: 36
22758543 GGGCATCAGT
*
22758553 TTCCTTCTCCACCTGTACCTCGGTAGGTTCTATTTC
1 TTCCTTCTCCACCTGTACCTCGATAGGTTCTATTTC
22758589 TTCCTTCTCCACCTGTACCTCGATAGGTTCTATTTC
1 TTCCTTCTCCACCTGTACCTCGATAGGTTCTATTTC
22758625 TTCCTTCTC
1 TTCCTTCTC
22758634 TTCTTCCTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.11, C:0.35, G:0.11, T:0.43
Consensus pattern (36 bp):
TTCCTTCTCCACCTGTACCTCGATAGGTTCTATTTC
Found at i:22772943 original size:20 final size:22
Alignment explanation
Indices: 22772907--22772958 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 22
22772897 AATGGTATGG
*
22772907 TTTATATTAA-GTGTAAATAT-A
1 TTTA-ATTAAGGTGTAAAAATGA
22772928 TTTAATTAAGGT-TAAAAATGA
1 TTTAATTAAGGTGTAAAAATGA
22772949 -TTAATTAAGG
1 TTTAATTAAGG
22772959 CTCAATGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 21 0.75
21 7 0.25
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.42
Consensus pattern (22 bp):
TTTAATTAAGGTGTAAAAATGA
Found at i:22781363 original size:94 final size:94
Alignment explanation
Indices: 22781202--22781415 Score: 293
Period size: 94 Copynumber: 2.3 Consensus size: 94
22781192 TATGCATACT
* * *
22781202 CCCGACAGCTCGTGTGAGTAGCAACGTTAGGAAACAGTTCACAGTACAGATAGACACTATACCGA
1 CCCGACAGCTCGTGTGAGCAGCATCGTTAGGAAACAGTTCACAGTACAGATAGACACCATACCGA
**
22781267 TGGCTGGGGTACCGCATAAATTGCGAGTC
66 TGGCTAAGGTACCGCATAAATTGCGAGTC
* * *
22781296 CCCGACAGCTCGTGTGAGCAGCATCTTTAGGAAACAGTTCACAGTACAGATAGACACCGTATCGA
1 CCCGACAGCTCGTGTGAGCAGCATCGTTAGGAAACAGTTCACAGTACAGATAGACACCATACCGA
* * * * *
22781361 TGGTTAAGGTATCGTATAAGTTGCTAGTC
66 TGGCTAAGGTACCGCATAAATTGCGAGTC
* *
22781390 CTCGACAGCTCGTATGAGCAGCATCG
1 CCCGACAGCTCGTGTGAGCAGCATCG
22781416 AGTACTGGTA
Statistics
Matches: 104, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
94 104 1.00
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (94 bp):
CCCGACAGCTCGTGTGAGCAGCATCGTTAGGAAACAGTTCACAGTACAGATAGACACCATACCGA
TGGCTAAGGTACCGCATAAATTGCGAGTC
Found at i:22786105 original size:4 final size:4
Alignment explanation
Indices: 22786096--22786126 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
22786086 AATATATAAA
22786096 TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
22786127 ATTAAAGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:22800352 original size:11 final size:11
Alignment explanation
Indices: 22800336--22800405 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
22800326 TCTTTTGAAA
22800336 TATTTATATTT
1 TATTTATATTT
*
22800347 TATTTA-GTTT
1 TATTTATATTT
*
22800357 TATGTTTTA-TT
1 TAT-TTATATTT
22800368 TATTTAT-TTT
1 TATTTATATTT
*
22800378 TATTTGTACTTT
1 TATTTATA-TTT
22800390 TATTT-TATTGT
1 TATTTATATT-T
22800401 TATTT
1 TATTT
22800406 GTTTGTTTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
10 19 0.40
11 21 0.44
12 8 0.17
ACGTcount: A:0.20, C:0.01, G:0.06, T:0.73
Consensus pattern (11 bp):
TATTTATATTT
Found at i:22800364 original size:17 final size:14
Alignment explanation
Indices: 22800336--22800382 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 14
22800326 TCTTTTGAAA
22800336 TATTTATATTTTATT
1 TATTTAT-TTTTATT
22800351 TAGTTTTATGTTTTATT
1 TA--TTTAT-TTTTATT
22800368 TATTTATTTTTATT
1 TATTTATTTTTATT
22800382 T
1 T
22800383 GTACTTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 8 0.28
15 7 0.24
17 14 0.48
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.74
Consensus pattern (14 bp):
TATTTATTTTTATT
Found at i:22800368 original size:22 final size:21
Alignment explanation
Indices: 22800336--22800407 Score: 67
Period size: 21 Copynumber: 3.3 Consensus size: 21
22800326 TCTTTTGAAA
*
22800336 TATTTATATTTTATTTAGTTT
1 TATTTGTATTTTATTTAGTTT
* *
22800357 TATGTTTTA-TTTATTTATTTT
1 TAT-TTGTATTTTATTTAGTTT
22800378 TATTTGTACTTTTATTTTA-TTGT
1 TATTTGTA-TTTTA-TTTAGTT-T
22800401 TATTTGT
1 TATTTGT
22800408 TTGTTTTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
20 4 0.09
21 17 0.40
22 10 0.23
23 12 0.28
ACGTcount: A:0.19, C:0.01, G:0.07, T:0.72
Consensus pattern (21 bp):
TATTTGTATTTTATTTAGTTT
Found at i:22800396 original size:31 final size:32
Alignment explanation
Indices: 22800336--22800398 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 32
22800326 TCTTTTGAAA
*
22800336 TATTTATATTTTATTTAGTTTTATGTTTTATT
1 TATTTATATTTTATTTAGTTTTATATTTTATT
22800368 TATTTAT-TTTTATTT-GTACTTT-TATTTTATT
1 TATTTATATTTTATTTAGT--TTTATATTTTATT
22800399 GTTATTTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
30 2 0.07
31 16 0.57
32 10 0.36
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.73
Consensus pattern (32 bp):
TATTTATATTTTATTTAGTTTTATATTTTATT
Found at i:22816670 original size:106 final size:106
Alignment explanation
Indices: 22816511--22816716 Score: 288
Period size: 106 Copynumber: 1.9 Consensus size: 106
22816501 TATACTATGC
** *
22816511 AATACATACATCAAGAGATTAATGATTTGTAAAGATGACAAAAACTTTTGTTGTCTAAACATACC
1 AATACATACATCAAGAGATTAATGATAGGTAAAGATGACAAAAACATTTGTTGTCTAAACATACC
* *
22816576 CTTTGAGGTTTCTCTTAAAAAG-TGAGAGTGAACATCCATGT
66 ATTTGAAGTTTCTCTTAAAAAGAT-AGAGTGAACATCCATGT
* * * * *
22816617 AATATATACATCTAGAGATTACTGATAGGTAAAGATTACAGAAACATTTGTTGTCTAAACATACC
1 AATACATACATCAAGAGATTAATGATAGGTAAAGATGACAAAAACATTTGTTGTCTAAACATACC
**
22816682 ATTTGAAGTTTCTCTTGTAAAGATAGAGTGAACAT
66 ATTTGAAGTTTCTCTTAAAAAGATAGAGTGAACAT
22816717 TGATGGAACA
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
106 86 0.99
107 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (106 bp):
AATACATACATCAAGAGATTAATGATAGGTAAAGATGACAAAAACATTTGTTGTCTAAACATACC
ATTTGAAGTTTCTCTTAAAAAGATAGAGTGAACATCCATGT
Found at i:22818466 original size:16 final size:16
Alignment explanation
Indices: 22818447--22818481 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
22818437 TTTTTTACAA
22818447 AATTAATAAAAAAAAT
1 AATTAATAAAAAAAAT
**
22818463 AATTAATAACCAAAAT
1 AATTAATAAAAAAAAT
22818479 AAT
1 AAT
22818482 ACACTCTCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (16 bp):
AATTAATAAAAAAAAT
Found at i:22818597 original size:7 final size:7
Alignment explanation
Indices: 22818596--22818622 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
22818586 AAAAATTTAA
22818596 AAAATAT
1 AAAATAT
22818603 AAAATAT
1 AAAATAT
22818610 AAAATAT
1 AAAATAT
22818617 AAAATA
1 AAAATA
22818623 CGGGAATGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAATAT
Found at i:22821164 original size:18 final size:18
Alignment explanation
Indices: 22821137--22821201 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
22821127 CGCCTAAGCC
* *
22821137 CGAGCACGAGCCCAATCT
1 CGAGCCCGAGCACAATCT
*
22821155 CGAGCCCGAGCACGATCT
1 CGAGCCCGAGCACAATCT
* * *
22821173 CAAGCCCGATCACGAT-T
1 CGAGCCCGAGCACAATCT
22821190 CAGAGCCCGAGC
1 C-GAGCCCGAGC
22821202 GTGAGCCAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
17 2 0.05
18 37 0.95
ACGTcount: A:0.26, C:0.38, G:0.25, T:0.11
Consensus pattern (18 bp):
CGAGCCCGAGCACAATCT
Found at i:22821290 original size:27 final size:27
Alignment explanation
Indices: 22821260--22821320 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
22821250 CAAGCGATAG
*
22821260 ATATCATACGAGTTGGTCAGGCCATGA
1 ATATCATACGAGTTGGTCAGGCCACGA
* * *
22821287 ATATAATATGGGTTGGTCAGGCCACGA
1 ATATCATACGAGTTGGTCAGGCCACGA
*
22821314 GTATCAT
1 ATATCAT
22821321 TCGAAGTTTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (27 bp):
ATATCATACGAGTTGGTCAGGCCACGA
Found at i:22821772 original size:21 final size:21
Alignment explanation
Indices: 22821748--22821805 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
22821738 TATGTTTATG
*
22821748 TTTGTATTTAGGGTTTTGGAT
1 TTTGTCTTTAGGGTTTTGGAT
*
22821769 TTTGATCTTTA-GGTTTTGGGT
1 TTTG-TCTTTAGGGTTTTGGAT
22821790 TTTAG-CTTTAGGGTTT
1 TTT-GTCTTTAGGGTTT
22821806 AAAGTATGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 5 0.16
21 21 0.66
22 6 0.19
ACGTcount: A:0.12, C:0.03, G:0.28, T:0.57
Consensus pattern (21 bp):
TTTGTCTTTAGGGTTTTGGAT
Found at i:22821890 original size:8 final size:8
Alignment explanation
Indices: 22821877--22821921 Score: 56
Period size: 9 Copynumber: 5.5 Consensus size: 8
22821867 TTAATAGAGG
22821877 TAAAACCC
1 TAAAACCC
22821885 TAAAACCCC
1 TAAAA-CCC
22821894 TAAAACCCC
1 TAAAA-CCC
*
22821903 TAAAACCT
1 TAAAACCC
22821911 TAAAA-CC
1 TAAAACCC
22821918 TAAA
1 TAAA
22821922 TCCTAAAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
7 5 0.15
8 12 0.35
9 17 0.50
ACGTcount: A:0.51, C:0.33, G:0.00, T:0.16
Consensus pattern (8 bp):
TAAAACCC
Found at i:22821896 original size:9 final size:9
Alignment explanation
Indices: 22821877--22821909 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
22821867 TTAATAGAGG
22821877 TAAAA-CCC
1 TAAAACCCC
22821885 TAAAACCCC
1 TAAAACCCC
22821894 TAAAACCCC
1 TAAAACCCC
22821903 TAAAACC
1 TAAAACC
22821910 TTAAAACCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.21
9 19 0.79
ACGTcount: A:0.48, C:0.39, G:0.00, T:0.12
Consensus pattern (9 bp):
TAAAACCCC
Found at i:22821899 original size:17 final size:16
Alignment explanation
Indices: 22821877--22821921 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
22821867 TTAATAGAGG
22821877 TAAAACCCTAAAACCCC
1 TAAAACCCTAAAA-CCC
*
22821894 TAAAACCCCTAAAACCT
1 TAAAA-CCCTAAAACCC
22821911 TAAAA-CCTAAA
1 TAAAACCCTAAA
22821922 TCCTAAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 6 0.23
17 12 0.46
18 8 0.31
ACGTcount: A:0.51, C:0.33, G:0.00, T:0.16
Consensus pattern (16 bp):
TAAAACCCTAAAACCC
Found at i:22822770 original size:26 final size:26
Alignment explanation
Indices: 22822741--22822873 Score: 167
Period size: 26 Copynumber: 5.0 Consensus size: 26
22822731 CCCTAAACCC
*
22822741 TAAATACAAACATCAACATAATTAAT
1 TAAATACAAACATAAACATAATTAAT
22822767 TAAATACAAACATAAACATAATTAAT
1 TAAATACAAACATAAACATAATTAAT
* * *
22822793 TAAATACAAGCATAAAAATTATTAAT
1 TAAATACAAACATAAACATAATTAAT
*
22822819 TAAATACAAATATAAACATAATTAAT
1 TAAATACAAACATAAACATAATTAAT
* ** *
22822845 TCCAAATTCATTCATAAACTTAATTAAT
1 T--AAATACAAACATAAACATAATTAAT
22822873 T
1 T
22822874 CCAAATAAAA
Statistics
Matches: 92, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 71 0.77
28 21 0.23
ACGTcount: A:0.56, C:0.12, G:0.01, T:0.32
Consensus pattern (26 bp):
TAAATACAAACATAAACATAATTAAT
Found at i:22825421 original size:21 final size:21
Alignment explanation
Indices: 22825395--22825453 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
22825385 GATAGTGTAG
*
22825395 ACTTCTACCGATACAAGTGAC
1 ACTTCTACCGAAACAAGTGAC
* *
22825416 AGTTCTACCGAAATAAGTGAC
1 ACTTCTACCGAAACAAGTGAC
*
22825437 TCTTCTACCGAAACAAG
1 ACTTCTACCGAAACAAG
22825454 CCTTACTTCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (21 bp):
ACTTCTACCGAAACAAGTGAC
Found at i:22826263 original size:52 final size:52
Alignment explanation
Indices: 22826193--22826381 Score: 306
Period size: 52 Copynumber: 3.6 Consensus size: 52
22826183 TAGAAATTAT
* *
22826193 ATATACTCACGATGACACATAATCATCGGACCTCATAATCCATAAGGGATTC
1 ATATACTCACGATGACACATAATCATCGGACCTCATAATCCGTAAAGGATTC
* *
22826245 ATATACTCACGATGACACATAGTCATCGGACCTTATAATCCGTAAAGGATTC
1 ATATACTCACGATGACACATAATCATCGGACCTCATAATCCGTAAAGGATTC
* * *
22826297 ATACACTCACGATGACACATAGTCATCGGACCTCATAACCCGTAAAGGATTC
1 ATATACTCACGATGACACATAATCATCGGACCTCATAATCCGTAAAGGATTC
*
22826349 ATATACTCACGACGACACATAATCATCGGACCT
1 ATATACTCACGATGACACATAATCATCGGACCT
22826382 TTTTCATTTA
Statistics
Matches: 127, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 127 1.00
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.24
Consensus pattern (52 bp):
ATATACTCACGATGACACATAATCATCGGACCTCATAATCCGTAAAGGATTC
Found at i:22826329 original size:104 final size:106
Alignment explanation
Indices: 22826141--22826383 Score: 330
Period size: 104 Copynumber: 2.3 Consensus size: 106
22826131 TGCATTTTTG
* * * * * *
22826141 ATACTCACGATGACATAGAGTCATCGAACCTTTAATCCATATTAGAAATTATATATACTCACGAT
1 ATACTCACGATGACACATAGTCATCGGACCTTTAATCCATATAAGAAATTACATACACTCACGAT
* *
22826206 GACACATAATCATCGGACCTCATAATCCATAAGGGATTCAT
66 GACACATAATCATCGGACCTCATAACCCATAAAGGATTCAT
* *
22826247 ATACTCACGATGACACATAGTCATCGGACCTTATAATCCGTA-AAG-GATT-CATACACTCACGA
1 ATACTCACGATGACACATAGTCATCGGACCTT-TAATCCATATAAGAAATTACATACACTCACGA
* *
22826309 TGACACATAGTCATCGGACCTCATAACCCGTAAAGGATTCAT
65 TGACACATAATCATCGGACCTCATAACCCATAAAGGATTCAT
* *
22826351 ATACTCACGACGACACATAATCATCGGACCTTT
1 ATACTCACGATGACACATAGTCATCGGACCTTT
22826384 TTCATTTATG
Statistics
Matches: 122, Mismatches: 14, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
103 1 0.01
104 79 0.65
105 3 0.02
106 31 0.25
107 8 0.07
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.26
Consensus pattern (106 bp):
ATACTCACGATGACACATAGTCATCGGACCTTTAATCCATATAAGAAATTACATACACTCACGAT
GACACATAATCATCGGACCTCATAACCCATAAAGGATTCAT
Found at i:22832276 original size:71 final size:71
Alignment explanation
Indices: 22832155--22832295 Score: 219
Period size: 71 Copynumber: 2.0 Consensus size: 71
22832145 GTTTCAGTAG
* * * **
22832155 AAGTTCCAAGCCATAACTTCTTTGCTCTCTGGAGTTTGTTCTACCGATAGAACTCTTGGTTGTAT
1 AAGTCCCAAGCCACAACTTCTTTGCTCTCTGGAGTTTGTTCTAACGATAGAACTCTTAATTGTAT
22832220 CGGTAA
66 CGGTAA
* *
22832226 AAGTCCCAAGCCACAACTTCTTTGCTCTCTGGAGTTTTTTCTAACGATAGAAGTCTTAATTGTAT
1 AAGTCCCAAGCCACAACTTCTTTGCTCTCTGGAGTTTGTTCTAACGATAGAACTCTTAATTGTAT
22832291 CGGTA
66 CGGTA
22832296 GTTTGTCCTG
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 63 1.00
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.36
Consensus pattern (71 bp):
AAGTCCCAAGCCACAACTTCTTTGCTCTCTGGAGTTTGTTCTAACGATAGAACTCTTAATTGTAT
CGGTAA
Found at i:22840946 original size:71 final size:70
Alignment explanation
Indices: 22840830--22840977 Score: 208
Period size: 71 Copynumber: 2.1 Consensus size: 70
22840820 TGACTTGTTT
* **
22840830 GGTAGAAGTTCCAAGCCACAACTTCTTTGCTCTCTGGAGTTTGTTCTACCGATAGAACTCTTGGT
1 GGTAGAAGTTCCAAGCCACAACTTCTTTGCTCTCTGGAGTTTGTTCTAACGAT-GAACTCTTAAT
22840895 TGTATC
65 TGTATC
* * * *
22840901 GGTAGAAG-TCCTAGGCCACAACTTCTTTGCTCTTTGGAGTTTGTTCTAATGATGAAGTCTTAAT
1 GGTAGAAGTTCC-AAGCCACAACTTCTTTGCTCTCTGGAGTTTGTTCTAACGATGAACTCTTAAT
22840965 TGTATC
65 TGTATC
22840971 GGTAGAA
1 GGTAGAA
22840978 CCAAGAGATG
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
70 24 0.35
71 45 0.65
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (70 bp):
GGTAGAAGTTCCAAGCCACAACTTCTTTGCTCTCTGGAGTTTGTTCTAACGATGAACTCTTAATT
GTATC
Found at i:22843707 original size:10 final size:10
Alignment explanation
Indices: 22843679--22843715 Score: 56
Period size: 10 Copynumber: 3.5 Consensus size: 10
22843669 CAATATATTT
22843679 TTTTTCTTTTC
1 TTTTTC-TTTC
22843690 TCTTTTCTTTC
1 T-TTTTCTTTC
22843701 TTTTTCTTTC
1 TTTTTCTTTC
22843711 TTTTT
1 TTTTT
22843716 GTGATTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 14 0.56
11 6 0.24
12 5 0.20
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:22843707 original size:17 final size:16
Alignment explanation
Indices: 22843676--22843713 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
22843666 TGGCAATATA
*
22843676 TTTTTTTTCTTTTCTC
1 TTTTCTTTCTTTTCTC
22843692 TTTTCTTTCTTTT-TC
1 TTTTCTTTCTTTTCTC
22843707 -TTTCTTT
1 TTTTCTTT
22843714 TTGTGATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 7 0.33
15 2 0.10
16 12 0.57
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTCTTTCTTTTCTC
Found at i:22844474 original size:20 final size:21
Alignment explanation
Indices: 22844434--22844481 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
22844424 TTCTTATTCT
22844434 TCTTTGCGCTTCTTCTTCTTA
1 TCTTTGCGCTTCTTCTTCTTA
22844455 TCTTTGCGC-T-TTCTTTCTTA
1 TCTTTGCGCTTCTTC-TTCTTA
22844475 TCATTTG
1 TC-TTTG
22844482 AATCAACCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.12
20 9 0.36
21 13 0.52
ACGTcount: A:0.06, C:0.25, G:0.10, T:0.58
Consensus pattern (21 bp):
TCTTTGCGCTTCTTCTTCTTA
Found at i:22860078 original size:18 final size:18
Alignment explanation
Indices: 22860055--22860091 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
22860045 AGGTAGACGA
*
22860055 AAATGTGCCATAAAGCAG
1 AAATGTGCCACAAAGCAG
22860073 AAATGTGCCACAAAGCAG
1 AAATGTGCCACAAAGCAG
22860091 A
1 A
22860092 GGAAAAACGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.14
Consensus pattern (18 bp):
AAATGTGCCACAAAGCAG
Found at i:22861490 original size:39 final size:39
Alignment explanation
Indices: 22861437--22861523 Score: 106
Period size: 39 Copynumber: 2.2 Consensus size: 39
22861427 GATGAAGCGA
* * *
22861437 TGGGTGTTGGGCAATGATGA-GGATTGGTTGTTCTTA-TGG
1 TGGGTGTTGAGCAATGAT-ATAGATTGGTGGTTCTTACT-G
*
22861476 TGGGTGTTGAGCAATGATATAGATTGGTGGTTTTTACTG
1 TGGGTGTTGAGCAATGATATAGATTGGTGGTTCTTACTG
22861515 TGGGTGTTG
1 TGGGTGTTG
22861524 GGCGGTGACG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
38 1 0.02
39 40 0.95
40 1 0.02
ACGTcount: A:0.16, C:0.05, G:0.39, T:0.40
Consensus pattern (39 bp):
TGGGTGTTGAGCAATGATATAGATTGGTGGTTCTTACTG
Found at i:22864146 original size:16 final size:17
Alignment explanation
Indices: 22864121--22864176 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 17
22864111 TTTTTATAGT
*
22864121 TTTAAAATTTAT-TTAA
1 TTTAATATTTATATTAA
*
22864137 TTTAATATTTATCTTAA
1 TTTAATATTTATATTAA
*
22864154 --TAGTATTT-TATTAA
1 TTTAATATTTATATTAA
22864168 TTTAATATT
1 TTTAATATT
22864177 AAAGTGCTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
14 5 0.15
15 7 0.21
16 17 0.52
17 4 0.12
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (17 bp):
TTTAATATTTATATTAA
Found at i:22865884 original size:23 final size:22
Alignment explanation
Indices: 22865806--22865927 Score: 90
Period size: 23 Copynumber: 5.5 Consensus size: 22
22865796 TAAAAGAAAT
22865806 AAAAATAAAAGGATTAAATTTTA
1 AAAAATAAAAGGATT-AATTTTA
* * * **
22865829 AAACA-AAATGGTTTAATTAAA
1 AAAAATAAAAGGATTAATTTTA
22865850 GAAACGAATAAAAGGATTAATTTTAA
1 -AAA--AATAAAAGGATTAATTTT-A
*
22865876 AAAAATAAAAGGATTTAATTTTT
1 AAAAATAAAAGGA-TTAATTTTA
* *
22865899 TAGAATAAAAGGATTAA---TA
1 AAAAATAAAAGGATTAATTTTA
22865918 AAAAATAAAA
1 AAAAATAAAA
22865928 AAGATTTAAT
Statistics
Matches: 77, Mismatches: 16, Indels: 16
0.71 0.15 0.15
Matches are distributed among these distances:
19 9 0.12
21 5 0.06
22 14 0.18
23 25 0.32
24 9 0.12
25 14 0.18
26 1 0.01
ACGTcount: A:0.59, C:0.02, G:0.11, T:0.29
Consensus pattern (22 bp):
AAAAATAAAAGGATTAATTTTA
Found at i:22865905 original size:46 final size:43
Alignment explanation
Indices: 22865855--22865939 Score: 118
Period size: 43 Copynumber: 1.9 Consensus size: 43
22865845 TTAAAGAAAC
*
22865855 GAATAAAAGGATTAATTTTAAAAAA-ATAAAAGGATTTAATTTTTTA
1 GAATAAAAGGATTAA---TAAAAAATA-AAAAAGATTTAATTTTTTA
22865901 GAATAAAAGGATTAATAAAAAATAAAAAAGATTTAATTT
1 GAATAAAAGGATTAATAAAAAATAAAAAAGATTTAATTT
22865940 AAAACAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
43 21 0.57
44 1 0.03
46 15 0.41
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (43 bp):
GAATAAAAGGATTAATAAAAAATAAAAAAGATTTAATTTTTTA
Found at i:22867854 original size:42 final size:42
Alignment explanation
Indices: 22867795--22868018 Score: 270
Period size: 42 Copynumber: 5.3 Consensus size: 42
22867785 AGAGTTGTTT
*
22867795 ATGGCTTCAATCTGCCCCTCTAGATTAGGGGTAAAACACTAG
1 ATGGCTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGACTAG
* * * * * *
22867837 ATGGCTTTAATTTGCCCCTCTGGATTAAGGGTAAAAAGATTGG
1 ATGGCTTCAATCTGCCCCTCTAGATTAGGGGT-AAAAGACTAG
*
22867880 ATGGCTTCAATCTGCTCCTCTAGATTAGGGGTAAAAGACTAG
1 ATGGCTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGACTAG
* * *
22867922 ATGGCTTTAATCTACCCCTCTAGATTAGGGGTAAAAGACTGG
1 ATGGCTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGACTAG
* * * **
22867964 ATAGCTTCAATCTGCCCCTTTGGATTAAAGGTAAAAGA-TCAG
1 ATGGCTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGACT-AG
*
22868006 ATGACTTCAATCT
1 ATGGCTTCAATCT
22868019 ACCACTCTGG
Statistics
Matches: 152, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
41 1 0.01
42 117 0.77
43 34 0.22
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (42 bp):
ATGGCTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGACTAG
Found at i:22867900 original size:85 final size:84
Alignment explanation
Indices: 22867795--22868031 Score: 296
Period size: 85 Copynumber: 2.8 Consensus size: 84
22867785 AGAGTTGTTT
* * *
22867795 ATGGCTTCAATCTGCCCCTCTAGATTAGGGGTAAAACACTAGATGGCTTTAATTTGCCCCTCTGG
1 ATGGCTTCAATCTGCCCCTCTAGATTAGGGGTAAAACACTAGATGGCTTTAATCTACCCCTCTAG
*
22867860 ATTAAGGGTAAAAAGATTGG
66 ATTAAGGGT-AAAAGACTGG
* *
22867880 ATGGCTTCAATCTGCTCCTCTAGATTAGGGGTAAAAGACTAGATGGCTTTAATCTACCCCTCTAG
1 ATGGCTTCAATCTGCCCCTCTAGATTAGGGGTAAAACACTAGATGGCTTTAATCTACCCCTCTAG
*
22867945 ATTAGGGGTAAAAGACTGG
66 ATTAAGGGTAAAAGACTGG
* * * ** * * * * *
22867964 ATAGCTTCAATCTGCCCCTTTGGATTAAAGGTAAAAGA-TCAGATGACTTCAATCTACCACTCTG
1 ATGGCTTCAATCTGCCCCTCTAGATTAGGGGTAAAACACT-AGATGGCTTTAATCTACCCCTCTA
22868028 GATT
65 GATT
22868032 TGTAACACCC
Statistics
Matches: 134, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
83 1 0.01
84 65 0.49
85 68 0.51
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.30
Consensus pattern (84 bp):
ATGGCTTCAATCTGCCCCTCTAGATTAGGGGTAAAACACTAGATGGCTTTAATCTACCCCTCTAG
ATTAAGGGTAAAAGACTGG
Found at i:22868000 original size:84 final size:85
Alignment explanation
Indices: 22867798--22868031 Score: 310
Period size: 84 Copynumber: 2.8 Consensus size: 85
22867788 GTTGTTTATG
* * *
22867798 GCTTCAATCTGCCCCTCTAGATTAGGGGTAAAACACTAGATGGCTTTAATTTGCCCCTCTGGATT
1 GCTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGACTAGATGGCTTTAATCTACCCCTCTGGATT
* *
22867863 AAGGGTAAAAAGATTGGATG
66 AAGGGTAAAAAGACTGGATA
* *
22867883 GCTTCAATCTGCTCCTCTAGATTAGGGGTAAAAGACTAGATGGCTTTAATCTACCCCTCTAGATT
1 GCTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGACTAGATGGCTTTAATCTACCCCTCTGGATT
*
22867948 AGGGGT-AAAAGACTGGATA
66 AAGGGTAAAAAGACTGGATA
* * ** * * *
22867967 GCTTCAATCTGCCCCTTTGGATTAAAGGTAAAAGA-TCAGATGACTTCAATCTACCACTCTGGAT
1 GCTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGACT-AGATGGCTTTAATCTACCCCTCTGGAT
22868031 T
65 T
22868032 TGTAACACCC
Statistics
Matches: 131, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
83 1 0.01
84 65 0.50
85 65 0.50
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.29
Consensus pattern (85 bp):
GCTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGACTAGATGGCTTTAATCTACCCCTCTGGATT
AAGGGTAAAAAGACTGGATA
Found at i:22870651 original size:16 final size:16
Alignment explanation
Indices: 22870626--22870656 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22870616 GCAATTAACT
22870626 TTTAACCCTTTTTCAA
1 TTTAACCCTTTTTCAA
*
22870642 TTTAATCCTTTTTCA
1 TTTAACCCTTTTTCA
22870657 TTAATTAAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTAACCCTTTTTCAA
Found at i:22871055 original size:42 final size:42
Alignment explanation
Indices: 22870987--22871176 Score: 193
Period size: 42 Copynumber: 4.4 Consensus size: 42
22870977 ACAGGACTAA
* * *
22870987 GGGTAAAAGACTGGATGACTTTAATCTGCCCCTCTGGATTAG
1 GGGTAAAAGATTGGATGGCTTCAATCTGCCCCTCTGGATTAG
* * *
22871029 GGGTAAAAGATTGGATGGCTTCAATCTACCCCTCTAGATTAA
1 GGGTAAAAGATTGGATGGCTTCAATCTGCCCCTCTGGATTAG
* * **
22871071 GGGTAAAAGATTGGGTGGTGGTTTCAAT-TGCCCCTCTTAATTAG
1 GGGTAAAAGATT--G-GATGGCTTCAATCTGCCCCTCTGGATTAG
* * *
22871115 GGGTAAAATATTGGGTGTTGGCTTCAATCCGCCCCTCTGGATTAG
1 GGGTAAAAGATT--G-GATGGCTTCAATCTGCCCCTCTGGATTAG
*
22871160 GGGTAAAAGATTAGATG
1 GGGTAAAAGATTGGATG
22871177 CGGTGATGTA
Statistics
Matches: 123, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
42 51 0.41
44 38 0.31
45 34 0.28
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.30
Consensus pattern (42 bp):
GGGTAAAAGATTGGATGGCTTCAATCTGCCCCTCTGGATTAG
Found at i:22871164 original size:45 final size:45
Alignment explanation
Indices: 22871000--22871171 Score: 208
Period size: 44 Copynumber: 3.9 Consensus size: 45
22870990 TAAAAGACTG
* *
22871000 GATGACTTTAATCTGCCCCTCTGGATTAGGGGTAAAAGATT--G-
1 GATGGCTTCAATCTGCCCCTCTGGATTAGGGGTAAAAGATTGGGT
* * *
22871042 GATGGCTTCAATCTACCCCTCTAGATTAAGGGTAAAAGATTGGGT
1 GATGGCTTCAATCTGCCCCTCTGGATTAGGGGTAAAAGATTGGGT
* * ** *
22871087 GGTGGTTTCAAT-TGCCCCTCTTAATTAGGGGTAAAATATTGGGT
1 GATGGCTTCAATCTGCCCCTCTGGATTAGGGGTAAAAGATTGGGT
* *
22871131 GTTGGCTTCAATCCGCCCCTCTGGATTAGGGGTAAAAGATT
1 GATGGCTTCAATCTGCCCCTCTGGATTAGGGGTAAAAGATT
22871172 AGATGCGGTG
Statistics
Matches: 108, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
42 36 0.33
44 38 0.35
45 34 0.31
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (45 bp):
GATGGCTTCAATCTGCCCCTCTGGATTAGGGGTAAAAGATTGGGT
Found at i:22872463 original size:53 final size:53
Alignment explanation
Indices: 22872388--22872740 Score: 490
Period size: 53 Copynumber: 6.6 Consensus size: 53
22872378 GTAAATGCAA
* * *
22872388 AAAGGTCCGATGACTCTATGTCATCGTGAGTTATATGAATCCTATTATGGATT
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGAATT
* * * * *
22872441 AAAGGTTCGACGACTTTGTGTCATCGTGAGTTATATGAATCTTATTACGGATT
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGAATT
* * *
22872494 AAAGCTCTGATGACTTTGTGTCATCGTGAGTTATATGAATCCTATTACGAATT
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGAATT
* * *
22872547 AAAGATCCAATGACTATGTGTCATCGTGAGTTATATGAATCCTATTACGAATT
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGAATT
* *
22872600 AAAGATCCAATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGAATT
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGAATT
* * *
22872653 AAAGGTCTGATCACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGGATT
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGAATT
* * * *
22872706 AAAAAGTCCGATGACTCAGTTTCATCGTAAGTTAT
1 -AAAGGTCCGATGACTCTGTGTCATCGTGAGTTAT
22872741 CAAATGTGAA
Statistics
Matches: 271, Mismatches: 28, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
53 243 0.90
54 28 0.10
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (53 bp):
AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGAATT
Found at i:22873868 original size:49 final size:47
Alignment explanation
Indices: 22873795--22873957 Score: 150
Period size: 49 Copynumber: 3.3 Consensus size: 47
22873785 TTGCCTTTGT
* *
22873795 GGCTTCAAT-TTTCTTCTCCTCATCT-TCAAGGTATAAGATTTACCGTTGC
1 GGCTTCAATCTTTC-CCTCCACATCTCT-AAGGTATAAG-TTT-CCGTTGC
* * * *
22873844 GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGGTTCGCCATTGC
1 GGCTTCAATCTTTCCCTCCACATCTCTAAGGTATAA-GTT-TCCGTTGC
* * *
22873893 GGCTTCAACCTTTCCCTCCACATCTCTATGGTATAAGTTTCGTCGTTAC
1 GGCTTCAATCTTTCCCTCCACATCTCTAAGGTATAAGTTTC--CGTTGC
*
22873942 AGCTTCAATCTTTCCC
1 GGCTTCAATCTTTCCC
22873958 ATAACATAAA
Statistics
Matches: 94, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
47 1 0.01
48 3 0.03
49 84 0.89
50 6 0.06
ACGTcount: A:0.19, C:0.29, G:0.15, T:0.37
Consensus pattern (47 bp):
GGCTTCAATCTTTCCCTCCACATCTCTAAGGTATAAGTTTCCGTTGC
Found at i:22874827 original size:70 final size:72
Alignment explanation
Indices: 22874734--22874938 Score: 188
Period size: 74 Copynumber: 2.8 Consensus size: 72
22874724 ATTTGAGCTG
** *
22874734 CCCTTTCGGGTTTTCACCTCGACCTCTCCTTTTTCTTTTTTTCTTT-T-TT-TTTCTTTGGGTTT
1 CCCTTTCGGGTTTTCATTTCGACCTCTCCTTTTTCTTTTTTTCTTTCTATTCTCTCTTTGGGTTT
*
22874796 CAAGATC
66 CAAAATC
* * *
22874803 CCCTTTCCGGGTTTCCATTTCGACCCTTTTCTTTTTC-TTTTTTCTTTCCTATTCTCTCTTTGGG
1 CCCTTT-CGGGTTTTCATTTCGA-CCTCTCCTTTTTCTTTTTTTCTTT-CTATTCTCTCTTTGGG
*
22874867 TTTCAAAATG
63 TTTCAAAATC
** * * *
22874877 CCCTTTGCAAGTTTTCATCTT-GACCTCTCCTATTTTTTTCTTTTTCCTTCTCTT-TCTCTTTG
1 CCCTTT-CGGGTTTTCAT-TTCGACCTCTCCT-TTTTCTT-TTTTTCTTTCTATTCTCTCTTTG
22874939 TTTTTCTTTT
Statistics
Matches: 109, Mismatches: 17, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
69 6 0.06
70 23 0.21
71 11 0.10
72 1 0.01
73 8 0.07
74 45 0.41
75 7 0.06
76 8 0.07
ACGTcount: A:0.08, C:0.27, G:0.10, T:0.55
Consensus pattern (72 bp):
CCCTTTCGGGTTTTCATTTCGACCTCTCCTTTTTCTTTTTTTCTTTCTATTCTCTCTTTGGGTTT
CAAAATC
Found at i:22874970 original size:22 final size:22
Alignment explanation
Indices: 22874909--22874970 Score: 54
Period size: 27 Copynumber: 2.6 Consensus size: 22
22874899 ACCTCTCCTA
*
22874909 TTTTTTTCTTTTTCCTTCTCTTT
1 TTTTTTTTTTTTTCCTTCTC-TT
22874932 CTCTTTGTTTTTCTTTTCCTT-TCTT
1 -T-TTT-TTTTT-TTTTCCTTCTCTT
22874957 TTTTTTTATTTTTT
1 TTTTTTT-TTTTTT
22874971 TGAAGATAGC
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
22 7 0.21
23 5 0.15
24 2 0.06
25 5 0.15
26 6 0.18
27 8 0.24
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.79
Consensus pattern (22 bp):
TTTTTTTTTTTTTCCTTCTCTT
Found at i:22878569 original size:21 final size:21
Alignment explanation
Indices: 22878530--22878636 Score: 63
Period size: 21 Copynumber: 4.8 Consensus size: 21
22878520 AAAAGAAATA
*
22878530 AAAATAAAATGATTAAATTTT
1 AAAATAAAAGGATTAAATTTT
* * **
22878551 AAAATAAAAGGGTTTAATTAAAA
1 AAAATAAAAGGATTAAATT--TT
22878574 AACGAATAAAAGGATT-AATTTT
1 AA--AATAAAAGGATTAAATTTT
* *
22878596 AAAAAATAAAAGTATTTAATTTTT
1 --AAAATAAAAGGA-TTAAATTTT
*
22878620 CAGAATAAAAGGATTAA
1 -AAAATAAAAGGATTAA
22878637 TAAAAAATAA
Statistics
Matches: 65, Mismatches: 13, Indels: 15
0.70 0.14 0.16
Matches are distributed among these distances:
21 16 0.25
22 13 0.20
23 14 0.22
24 11 0.17
25 11 0.17
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (21 bp):
AAAATAAAAGGATTAAATTTT
Found at i:22878669 original size:68 final size:68
Alignment explanation
Indices: 22878529--22878667 Score: 164
Period size: 68 Copynumber: 2.1 Consensus size: 68
22878519 TAAAAGAAAT
*
22878529 AAAAATAAAATGATTAAATTTTAAAATAAAAGGGTTTAATTAAAAAACGAATAAAAGGATTAATT
1 AAAAATAAAATGATTAAATTTTAAAATAAAAGGGATTAATTAAAAAACGAATAAAAGGATTAATT
22878594 TTA
66 TTA
* * *
22878597 AAAAATAAAA-GTATTTAATTTTTCAGAATAAAA-GGATTAA-TAAAAAA-TAA-AAAA-GATAT
1 AAAAATAAAATG-A-TTAAATTTT-AAAATAAAAGGGATTAATTAAAAAACGAATAAAAGGAT-T
22878656 AATTTTA
62 AATTTTA
22878663 AAAAA
1 AAAAA
22878668 AAAGATAAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
65 3 0.05
66 17 0.27
67 3 0.05
68 18 0.29
69 14 0.22
70 8 0.13
ACGTcount: A:0.60, C:0.01, G:0.09, T:0.30
Consensus pattern (68 bp):
AAAAATAAAATGATTAAATTTTAAAATAAAAGGGATTAATTAAAAAACGAATAAAAGGATTAATT
TTA
Found at i:22885373 original size:58 final size:58
Alignment explanation
Indices: 22885309--22885564 Score: 274
Period size: 58 Copynumber: 4.4 Consensus size: 58
22885299 TTATGGATAC
* ** *
22885309 TCGGGGGAAAAATGGTAATTT-GGTGAAAATTAGGGTTAGAAATGGAATTTTAAAAGAT
1 TCGGGGGTAAAATGGTAATTTCGGTG-AAATCGGGGTTAAAAATGGAATTTTAAAAGAT
22885367 TCGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTTAAAAATGGAATTTT-AAAGAT
1 TCGGGGGTAAAATGGTAA-TTTCGGTGAAATCGGGG-TTAAAAATGGAATTTTAAAAGAT
* * * *
22885426 TC-GGGGTAAAATGGTAATTTTTGATAAAATCGAGG-TAAAAATGGAATTTTAAAAGAT
1 TCGGGGGTAAAATGGTAA-TTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGAT
*
22885483 TCGGGGGTGTAAAATGGTAAATTTTCGGTGAAATCGGGGTT-AAAATGTAATTTTGAAAAG-T
1 TC-GGGG-GTAAAATGGT-AA-TTTCGGTGAAATCGGGGTTAAAAATGGAATTTT-AAAAGAT
**
22885544 TTTGGGGTCAAAAT-GTAATTT
1 TCGGGGGT-AAAATGGTAATTT
22885565 TGGTAAAGTT
Statistics
Matches: 172, Mismatches: 15, Indels: 23
0.82 0.07 0.11
Matches are distributed among these distances:
56 15 0.09
57 11 0.06
58 48 0.28
59 25 0.15
60 37 0.22
61 30 0.17
62 6 0.03
ACGTcount: A:0.36, C:0.04, G:0.27, T:0.32
Consensus pattern (58 bp):
TCGGGGGTAAAATGGTAATTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGAT
Found at i:22885575 original size:30 final size:30
Alignment explanation
Indices: 22885518--22885718 Score: 293
Period size: 30 Copynumber: 6.7 Consensus size: 30
22885508 CGGTGAAATC
*
22885518 GGGGTTAAAATGTAATTTT-GAAAAGTTTT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
* *
22885547 GGGGTCAAAATGTAATTTTGGTAAAGTTTC
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
22885577 GGGGTCAAAATGTAATTTTGGAAAAG-TTT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
*
22885606 GGGGTCAAAATGTAATTTTGGTAAAGTTTT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
*
22885636 GGGGTCAAAAATATAA-TTTGGAAAAG-TTT
1 GGGGTC-AAAATGTAATTTTGGAAAAGTTTT
*
22885665 GGGGTTTAAAATGTAATTTTGGAAAAGTTTT
1 GGGG-TCAAAATGTAATTTTGGAAAAGTTTT
22885696 GGGGTCAAAATGTAATTTCTGGA
1 GGGGTCAAAATGTAATTT-TGGA
22885719 CAATTTAGGG
Statistics
Matches: 154, Mismatches: 11, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
29 60 0.39
30 75 0.49
31 19 0.12
ACGTcount: A:0.33, C:0.03, G:0.26, T:0.37
Consensus pattern (30 bp):
GGGGTCAAAATGTAATTTTGGAAAAGTTTT
Found at i:22885590 original size:59 final size:58
Alignment explanation
Indices: 22885516--22885713 Score: 297
Period size: 59 Copynumber: 3.3 Consensus size: 58
22885506 TTCGGTGAAA
*
22885516 TCGGGGTTAAAATGTAATTTTGAAAAGTTTTGGGGTCAAAATGTAATTTTGGTAAAGTT
1 TCGGGGTCAAAATGTAATTTTGAAAAG-TTTGGGGTCAAAATGTAATTTTGGTAAAGTT
22885575 TCGGGGTCAAAATGTAATTTTGGAAAAGTTTGGGGTCAAAATGTAATTTTGGTAAAGTT
1 TCGGGGTCAAAATGTAATTTT-GAAAAGTTTGGGGTCAAAATGTAATTTTGGTAAAGTT
* * * * *
22885634 TTGGGGTCAAAAATATAATTTGGAAAAGTTTGGGGTTTAAAATGTAATTTTGGAAAAGTT
1 TCGGGGTC-AAAATGTAATTTTGAAAAGTTTGGGG-TCAAAATGTAATTTTGGTAAAGTT
*
22885694 TTGGGGTCAAAATGTAATTT
1 TCGGGGTCAAAATGTAATTT
22885714 CTGGACAATT
Statistics
Matches: 129, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
59 82 0.64
60 47 0.36
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (58 bp):
TCGGGGTCAAAATGTAATTTTGAAAAGTTTGGGGTCAAAATGTAATTTTGGTAAAGTT
Found at i:22885616 original size:119 final size:117
Alignment explanation
Indices: 22885348--22885718 Score: 354
Period size: 119 Copynumber: 3.1 Consensus size: 117
22885338 TTAGGGTTAG
*
22885348 AAATGGAATTTT--AAAAGATTCGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTTAAAAA
1 AAATGTAATTTTGGAAAAGATTCGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGG-TT-AAAA
* * * * * *
22885411 TGGAATTTT--AAAGATTCGGGGTAAAATGGTAATTTTTGATAAA--ATCGAGGTAA
64 TGTAATTTTGAAAAG-TTTGGGGTAAAAT-GTAA-TTTTGGTAAAGTTTCGGGGTCA
*
22885464 AAATGGAATTTT--AAAAGATTCGGGGGTGTAAAATGGTAAATTTTCGGTGAAATCGGGGTTAAA
1 AAATGTAATTTTGGAAAAGATTC-GGGG-GTAAAATGGT-AATTTTCGGTGAAATCGGGGTTAAA
22885527 ATGTAATTTTGAAAAGTTTTGGGGTCAAAATGTAATTTTGGTAAAGTTTCGGGGTCA
63 ATGTAATTTTGAAAAG-TTTGGGGT-AAAATGTAATTTTGGTAAAGTTTCGGGGTCA
* * *
22885584 AAATGTAATTTTGGAAAAG-TT-TGGGGTCAAAAT-GTAATTTT-GGT-AAAGTTTTGGGGTCAA
1 AAATGTAATTTTGGAAAAGATTCGGGGGT-AAAATGGTAATTTTCGGTGAAA---TCGGGGT-TA
* * * *
22885644 AAATATAATTTGGAAAAGTTTGGGGTTTAAAATGTAATTTTGGAAAAGTTTTGGGGTCA
61 AAATGTAATTTTGAAAAGTTTGGGG--TAAAATGTAATTTTGGTAAAGTTTCGGGGTCA
22885703 AAATGTAATTTCTGGA
1 AAATGTAATTT-TGGA
22885719 CAATTTAGGG
Statistics
Matches: 222, Mismatches: 15, Indels: 32
0.83 0.06 0.12
Matches are distributed among these distances:
115 3 0.01
116 24 0.11
117 22 0.10
118 38 0.17
119 100 0.45
120 28 0.13
121 2 0.01
122 5 0.02
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (117 bp):
AAATGTAATTTTGGAAAAGATTCGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAATG
TAATTTTGAAAAGTTTGGGGTAAAATGTAATTTTGGTAAAGTTTCGGGGTCA
Found at i:22886051 original size:163 final size:161
Alignment explanation
Indices: 22885815--22886125 Score: 450
Period size: 163 Copynumber: 1.9 Consensus size: 161
22885805 GAAAATCTTA
* *
22885815 AAAAAAATTTGGACCAATTTTGTAATTAAATAAAAGTCGATTTAAGGATTAAATTAAAAAAAATT
1 AAAAAAATTTGGACCAATTTCGTAATTAAATAAAAGTCGATTTAAGGATTAAATTAAAAAAAATA
*
22885880 AAAAATAAAAAGGACTAAATGCAG-AAATAATCCAAAAAGATGACACGTGGCAACCTCTAGTGC-
66 AAAAATAAAAAGGACTAAATGC-GTAAATAATCCAAAAAG-TGACACGTGGCAACCTAT-G-GCA
22885943 AGTCAAACAGTCAAAGGACTAGTTTATAAACCTTG
127 AGTCAAACAGTCAAAGGACTAGTTTATAAACCTTG
* * * * *
22885978 AAAAAATTATTGGGCCAATTTCGTAATTAAA-ATAAAGTTGATTT-GGGATTAAATTAAAACAAA
1 AAAAAAAT-TTGGACCAATTTCGTAATTAAATA-AAAGTCGATTTAAGGATTAAATTAAAAAAAA
*
22886041 TAAAAAATAAAAAGGACTAAATGCGTAAATAATCCAAAAAGTGACACGTGGCAGCCTATGGCATA
64 TAAAAAATAAAAAGGACTAAATGCGTAAATAATCCAAAAAGTGACACGTGGCAACCTATGGCA-A
22886106 GTCAAACAGTCAAAGGACTA
128 GTCAAACAGTCAAAGGACTA
22886126 AATTGAAAAG
Statistics
Matches: 134, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
160 2 0.01
161 1 0.01
162 38 0.28
163 63 0.47
164 30 0.22
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (161 bp):
AAAAAAATTTGGACCAATTTCGTAATTAAATAAAAGTCGATTTAAGGATTAAATTAAAAAAAATA
AAAAATAAAAAGGACTAAATGCGTAAATAATCCAAAAAGTGACACGTGGCAACCTATGGCAAGTC
AAACAGTCAAAGGACTAGTTTATAAACCTTG
Found at i:22886404 original size:18 final size:18
Alignment explanation
Indices: 22886362--22886405 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
22886352 AAAACACCCT
*
22886362 CCCCCTT-TCTTTCTTTC
1 CCCCCTTCTCTCTCTTTC
* *
22886379 CTCTCTTCTCTCTCTTTC
1 CCCCCTTCTCTCTCTTTC
22886397 CCCCCTTCT
1 CCCCCTTCT
22886406 TTTCTTTGGC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (18 bp):
CCCCCTTCTCTCTCTTTC
Found at i:22887544 original size:15 final size:15
Alignment explanation
Indices: 22887524--22887554 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
22887514 ATGGTGGATG
22887524 GAGCTGGTGGTGGCA
1 GAGCTGGTGGTGGCA
22887539 GAGCTGGTGGTGGCA
1 GAGCTGGTGGTGGCA
22887554 G
1 G
22887555 CGGCATAGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.55, T:0.19
Consensus pattern (15 bp):
GAGCTGGTGGTGGCA
Found at i:22887692 original size:14 final size:14
Alignment explanation
Indices: 22887673--22887733 Score: 90
Period size: 14 Copynumber: 4.5 Consensus size: 14
22887663 TTTGGGCCAT
22887673 TTGGGCCATTGTAA
1 TTGGGCCATTGTAA
*
22887687 TTGGGCC-CT-TAA
1 TTGGGCCATTGTAA
*
22887699 TTGGGCCTTTGTAA
1 TTGGGCCATTGTAA
22887713 TTGGGCCATTGTAA
1 TTGGGCCATTGTAA
22887727 TTGGGCC
1 TTGGGCC
22887734 CTGGGCCATG
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
12 10 0.24
13 2 0.05
14 30 0.71
ACGTcount: A:0.16, C:0.18, G:0.30, T:0.36
Consensus pattern (14 bp):
TTGGGCCATTGTAA
Found at i:22887705 original size:26 final size:28
Alignment explanation
Indices: 22887673--22887733 Score: 90
Period size: 26 Copynumber: 2.2 Consensus size: 28
22887663 TTTGGGCCAT
22887673 TTGGGCCATTGTAATTGGGCC-CT-TAA
1 TTGGGCCATTGTAATTGGGCCACTGTAA
* *
22887699 TTGGGCCTTTGTAATTGGGCCATTGTAA
1 TTGGGCCATTGTAATTGGGCCACTGTAA
22887727 TTGGGCC
1 TTGGGCC
22887734 CTGGGCCATG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 20 0.65
27 1 0.03
28 10 0.32
ACGTcount: A:0.16, C:0.18, G:0.30, T:0.36
Consensus pattern (28 bp):
TTGGGCCATTGTAATTGGGCCACTGTAA
Found at i:22887780 original size:17 final size:16
Alignment explanation
Indices: 22887760--22887828 Score: 77
Period size: 17 Copynumber: 4.1 Consensus size: 16
22887750 GACTTTCTTT
22887760 TTAAATTTATAA-TAACA
1 TTAAATTTA-AATTAA-A
22887777 TTAAATTTAAATTAAA
1 TTAAATTTAAATTAAA
22887793 TTCAAATTTAAATTTAAA
1 TT-AAATTTAAA-TTAAA
* *
22887811 TTGAATTTAAAATAAA
1 TTAAATTTAAATTAAA
22887827 TT
1 TT
22887829 TAAGATTAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
16 11 0.23
17 29 0.62
18 7 0.15
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (16 bp):
TTAAATTTAAATTAAA
Found at i:22887786 original size:6 final size:6
Alignment explanation
Indices: 22887777--22887831 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
22887767 TATAATAACA
* *
22887777 TTAAAT TTAAA- TTAAAT TCAAAT TTAAAT TTAAA- TTGAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
22887822 ATAAAT TTAA
1 TTAAAT TTAA
22887832 GATTAAAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
5 13 0.32
6 27 0.68
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (6 bp):
TTAAAT
Found at i:22887792 original size:11 final size:11
Alignment explanation
Indices: 22887776--22887838 Score: 81
Period size: 11 Copynumber: 5.5 Consensus size: 11
22887766 TTATAATAAC
22887776 ATTAAATTTAA
1 ATTAAATTTAA
*
22887787 ATTAAATTCAA
1 ATTAAATTTAA
22887798 ATTTAAATTTAA
1 A-TTAAATTTAA
*
22887810 ATTGAATTTAA
1 ATTAAATTTAA
*
22887821 AATAAATTTAA
1 ATTAAATTTAA
22887832 GATTAAA
1 -ATTAAA
22887839 ATAAATTTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
11 29 0.66
12 15 0.34
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:22888264 original size:68 final size:68
Alignment explanation
Indices: 22888184--22888656 Score: 716
Period size: 68 Copynumber: 6.9 Consensus size: 68
22888174 GGAAATGATC
* *
22888184 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTATTTCAATTTCGAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
22888249 ACG
66 ACG
** ** * *
22888252 TTGCTCTTACTTCAATTTCAGAGATAAAGATTTAATATCCAACTCTACTTCAATTTCAAGAGGAC
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGGGGAT
22888317 GACG
65 GACG
* * *
22888321 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGGGGAT
22888386 GACG
65 GACG
* *
22888390 TTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
**
22888455 AAA
66 ACG
*
22888458 TTGCTCTTACTTCAATTTCAGAGATGGAA-ACGTGTTATCCACTCTACTTCAATTTCAAGGGGAT
1 TTGCTCTTACTTCAATTTCAGAGAT-AAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGAT
*
22888522 GACA
65 GACG
*
22888526 TTGCTCTTACTTCAATTTCAGAGATGAAA-ACGTGTTATCCACTCTACTTCAATTTCAAGGGAAT
1 TTGCTCTTACTTCAATTTCAGAGAT-AAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGAT
22888590 GACG
65 GACG
* *
22888594 TTGCTCTTACTTCAATTTCAGAGATGAAGACATGTTATCCACTCTACTTCAATTTCAAGGGGA
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGA
22888657 CGATGTTGAG
Statistics
Matches: 378, Mismatches: 24, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
67 2 0.01
68 246 0.65
69 130 0.34
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (68 bp):
TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
ACG
Found at i:22888302 original size:38 final size:37
Alignment explanation
Indices: 22888259--22888378 Score: 108
Period size: 38 Copynumber: 3.4 Consensus size: 37
22888249 ACGTTGCTCT
22888259 TACTTCAATTTCAGAGATAAAGATTTAATATCCAACTC
1 TACTTCAATTTCAGAGATAAAGA-TTAATATCCAACTC
** * ** * *
22888297 TACTTCAATTTCA-AGAGGACGA--CGT-TGC-TCT-
1 TACTTCAATTTCAGAGATAAAGATTAATATCCAACTC
*
22888328 TACTTCAATTTCAGAGATAAAGACTTGATATCCAACTC
1 TACTTCAATTTCAGAGATAAAGA-TTAATATCCAACTC
22888366 TACTTCAATTTCA
1 TACTTCAATTTCA
22888379 AGAGGATGAC
Statistics
Matches: 61, Mismatches: 14, Indels: 14
0.69 0.16 0.16
Matches are distributed among these distances:
31 13 0.21
32 8 0.13
33 2 0.03
34 1 0.02
35 1 0.02
36 2 0.03
37 8 0.13
38 26 0.43
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (37 bp):
TACTTCAATTTCAGAGATAAAGATTAATATCCAACTC
Found at i:22888335 original size:31 final size:31
Alignment explanation
Indices: 22888297--22888620 Score: 179
Period size: 31 Copynumber: 9.7 Consensus size: 31
22888287 TATCCAACTC
*
22888297 TACTTCAATTTCAAGAGGACGACGTTGCTCT
1 TACTTCAATTTCAAGAGGATGACGTTGCTCT
** * * *
22888328 TACTTCAATTTCAGAGATAAAGACTTGATATCCAACT
1 TACTTCAATTTCA-AGAGGATGAC--G-T-TGC-TCT
22888365 CTACTTCAATTTCAAGAGGATGACGTTGCTCT
1 -TACTTCAATTTCAAGAGGATGACGTTGCTCT
* * * *
22888397 TACTTCAATTTCAGAGATGAAGACGTGTTATCCACT
1 TACTTCAATTTCA-AGAGGATGAC--G-T-TGCTCT
**
22888433 CTACTTCAATTTCAAGAGGATGAAATTGCTCT
1 -TACTTCAATTTCAAGAGGATGACGTTGCTCT
* * *
22888465 TACTTCAATTTCAGAGATGGA-AACGTGTTATCCACT
1 TACTTCAATTTCA-AGA-GGATGAC--G-T-TGCTCT
* *
22888501 CTACTTCAATTTCAAGGGGATGACATTGCTCT
1 -TACTTCAATTTCAAGAGGATGACGTTGCTCT
* ** * *
22888533 TACTTCAATTTCAGAGATGAAAACGTGTTATCCACT
1 TACTTCAATTTCA-AGAGGATGAC--G-T-TGCTCT
22888569 CTACTTCAATTTCAAG-GGAATGACGTTGCTCT
1 -TACTTCAATTTCAAGAGG-ATGACGTTGCTCT
22888601 TACTTCAATTTC-AGA-GATGA
1 TACTTCAATTTCAAGAGGATGA
22888621 AGACATGTTA
Statistics
Matches: 222, Mismatches: 42, Indels: 60
0.69 0.13 0.19
Matches are distributed among these distances:
29 4 0.02
30 3 0.01
31 64 0.29
32 39 0.18
33 8 0.04
34 4 0.02
35 9 0.04
36 30 0.14
37 48 0.22
38 13 0.06
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (31 bp):
TACTTCAATTTCAAGAGGATGACGTTGCTCT
Found at i:22900750 original size:59 final size:59
Alignment explanation
Indices: 22900651--22900859 Score: 314
Period size: 59 Copynumber: 3.6 Consensus size: 59
22900641 ACCCGAGGGC
* * * * *
22900651 AAAATGGTAACTTT-GGTGAAATTGGGGTTAGAAATGGAATTTTAAAAGATTCGGGGGT
1 AAAATGGTAATTTTCGATGAAATCGGGGTTAAAAACGGAATTTTAAAAGATTCGGGGGT
* *
22900709 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAACAGAATTTT-AAAGATTCGGGGGT
1 AAAATGGTAATTTTCGATGAAATCGGGGTTAAAAACGGAATTTTAAAAGATTCGGGGGT
* *
22900767 AAAATGGTAATTTTCGATGAAATCAGGGTTAAAAACGGAATTTTAAAAGATTTGGGGGT
1 AAAATGGTAATTTTCGATGAAATCGGGGTTAAAAACGGAATTTTAAAAGATTCGGGGGT
*
22900826 AAAATGGTAATTTCCGATGAAATCGGGGTTAAAA
1 AAAATGGTAATTTTCGATGAAATCGGGGTTAAAA
22900860 TGTAATTTTG
Statistics
Matches: 138, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
58 68 0.49
59 70 0.51
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.30
Consensus pattern (59 bp):
AAAATGGTAATTTTCGATGAAATCGGGGTTAAAAACGGAATTTTAAAAGATTCGGGGGT
Found at i:22900853 original size:29 final size:29
Alignment explanation
Indices: 22900704--22900868 Score: 106
Period size: 29 Copynumber: 5.7 Consensus size: 29
22900694 AAAAGATTCG
*
22900704 GGGGTAAAATGGTAATTTTCGGTGAAATC
1 GGGGTAAAATGGTAATTTTCGATGAAATC
** * * *
22900733 GGGGTTAAAAACAG-AATTTT-AAAG-ATTC
1 GGGG-T-AAAATGGTAATTTTCGATGAAATC
22900761 GGGGGTAAAATGGTAATTTTCGATGAAATC
1 -GGGGTAAAATGGTAATTTTCGATGAAATC
* * ** * ** *
22900791 AGGGTTAAAAACGG-AATTTTAAAAGATTTG
1 -GGGGT-AAAATGGTAATTTTCGATGAAATC
*
22900821 GGGGTAAAATGGTAATTTCCGATGAAATC
1 GGGGTAAAATGGTAATTTTCGATGAAATC
22900850 GGGGTTAAAAT-GTAATTTT
1 GGGG-TAAAATGGTAATTTT
22900869 GGAAAAGTTT
Statistics
Matches: 97, Mismatches: 30, Indels: 18
0.67 0.21 0.12
Matches are distributed among these distances:
27 5 0.05
28 16 0.16
29 35 0.36
30 30 0.31
31 11 0.11
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (29 bp):
GGGGTAAAATGGTAATTTTCGATGAAATC
Found at i:22900884 original size:30 final size:30
Alignment explanation
Indices: 22900850--22901019 Score: 252
Period size: 30 Copynumber: 5.6 Consensus size: 30
22900840 CGATGAAATC
*
22900850 GGGGTTAAAATGTAATTTTGGAAAAGTTTT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
* *
22900880 GGGGTCAAAATGTAA-TTTGGTAAAGTTTC
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
*
22900909 GGGGTTTAAAATGTAATTTTGGAAAAGTTTT
1 GGGG-TCAAAATGTAATTTTGGAAAAGTTTT
* *
22900940 GGGGTCAAAATGTAATTTTGGTAAAGTTTC
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
*
22900970 GGGGTCAAAAATATAATTTTGGAAAAGTTTT
1 GGGGTC-AAAATGTAATTTTGGAAAAGTTTT
22901001 GGGGTCAAAATGTAATTTT
1 GGGGTCAAAATGTAATTTT
22901020 TGGACAAATT
Statistics
Matches: 124, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
29 16 0.13
30 65 0.52
31 43 0.35
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.38
Consensus pattern (30 bp):
GGGGTCAAAATGTAATTTTGGAAAAGTTTT
Found at i:22900884 original size:59 final size:58
Alignment explanation
Indices: 22900650--22901018 Score: 291
Period size: 59 Copynumber: 6.2 Consensus size: 58
22900640 TACCCGAGGG
* * *
22900650 CAAAATGGTAACTTT-GGTGAAATTGGGGTTAGAAATGGAATTTTAAAAGATTCGGGGGT
1 CAAAATGGTAA-TTTCGGTGAAATCGGGGTTA-AAATGTAATTTTAAAAGATTTGGGGGT
* *
22900709 -AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAACAG-AATTTT-AAAGATTCGGGGGT
1 CAAAATGGTAA-TTTCGGTGAAATCGGGGTT-AAAA-TGTAATTTTAAAAGATTTGGGGGT
* * * *
22900767 -AAAATGGTAATTTTCGATGAAATCAGGGTTAAAAACGGAATTTTAAAAGATTTGGGGGT
1 CAAAATGGTAA-TTTCGGTGAAATCGGGGTT-AAAATGTAATTTTAAAAGATTTGGGGGT
* *
22900826 -AAAATGGTAATTTCCGATGAAATCGGGGTTAAAATGTAATTTTGGAAAAG-TTTTGGGGT
1 CAAAATGGTAATTT-CGGTGAAATCGGGGTTAAAATGTAATTTT--AAAAGATTTGGGGGT
*
22900885 CAAAAT-GTAATTT-GGT-AAAGTTTCGGGGTTTAAAATGTAATTTTGGAAAAG-TTTTGGGGT
1 CAAAATGGTAATTTCGGTGAAA---TCGGGG-TTAAAATGTAATTTT--AAAAGATTTGGGGGT
* * * *
22900945 CAAAAT-GTAATTTTGGT-AAAGTTTCGGGGTCAAAAATATAATTTTGGAAAAG-TTTTGGGGT
1 CAAAATGGTAATTTCGGTGAAA---TCGGGGT-TAAAATGTAATTTT--AAAAGATTTGGGGGT
22901006 CAAAAT-GTAATTT
1 CAAAATGGTAATTT
22901019 TTGGACAAAT
Statistics
Matches: 281, Mismatches: 14, Indels: 28
0.87 0.04 0.09
Matches are distributed among these distances:
56 3 0.01
57 3 0.01
58 80 0.28
59 82 0.29
60 57 0.20
61 56 0.20
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.33
Consensus pattern (58 bp):
CAAAATGGTAATTTCGGTGAAATCGGGGTTAAAATGTAATTTTAAAAGATTTGGGGGT
Found at i:22900990 original size:61 final size:60
Alignment explanation
Indices: 22900848--22901019 Score: 301
Period size: 61 Copynumber: 2.9 Consensus size: 60
22900838 TCCGATGAAA
22900848 TCGGGGTTAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAA-TTTGGTAAAGTT
1 TCGGGGTTAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTGGTAAAGTT
22900907 TCGGGGTTTAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTGGTAAAGTT
1 TCGGGG-TTAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTGGTAAAGTT
* *
22900968 TCGGGGTCAAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTT
1 TCGGGGT-TAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTT
22901020 TGGACAAATT
Statistics
Matches: 108, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
59 6 0.06
60 42 0.39
61 60 0.56
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.38
Consensus pattern (60 bp):
TCGGGGTTAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTGGTAAAGTT
Found at i:22901384 original size:161 final size:161
Alignment explanation
Indices: 22901117--22901429 Score: 472
Period size: 161 Copynumber: 1.9 Consensus size: 161
22901107 ATTTGAAAAT
* *
22901117 CTTGAAAAATTTTTGGACCAATTTTGTAATTAAATAAAAGTCGATTTAAGGATTAAATTAAAACA
1 CTTGAAAAATTATTGGACCAATTTCGTAATTAAATAAAAGTCGATTTAAGGATTAAATTAAAACA
* *
22901182 AATTAAAAATAAAAAAGACTAAATGCAGAAATAATCCAAAAAGATGACACGTGGCAACCTCTAGT
66 AATAAAAAATAAAAAAGACTAAATGCAGAAATAATCCAAAAAG-TGACACGTGGCAACCTAT-G-
22901247 GC-AGTCAAACAGTCAAAGGACTAGTTTATAAAC
128 GCAAGTCAAACAGTCAAAGGACTAGTTTATAAAC
* * *
22901280 CTTGAAAAATTATTGGGCCAATTTCGTAATTAAAT-AAAGTTGATTT-GGGATTAAATTAAAACA
1 CTTGAAAAATTATTGGACCAATTTCGTAATTAAATAAAAGTCGATTTAAGGATTAAATTAAAACA
* *
22901343 AATAAAAAATAAAAAGGACTAAATGC-GTAAATAATCCAAAAAGTGACACGTGGCAGCCTATGGC
66 AATAAAAAATAAAAAAGACTAAATGCAG-AAATAATCCAAAAAGTGACACGTGGCAACCTATGGC
22901407 ATAGTCAAACAGTCAAAGGACTA
130 A-AGTCAAACAGTCAAAGGACTA
22901430 AATTGAAAAG
Statistics
Matches: 138, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
158 2 0.01
159 1 0.01
160 38 0.28
161 55 0.40
162 10 0.07
163 32 0.23
ACGTcount: A:0.46, C:0.13, G:0.16, T:0.25
Consensus pattern (161 bp):
CTTGAAAAATTATTGGACCAATTTCGTAATTAAATAAAAGTCGATTTAAGGATTAAATTAAAACA
AATAAAAAATAAAAAAGACTAAATGCAGAAATAATCCAAAAAGTGACACGTGGCAACCTATGGCA
AGTCAAACAGTCAAAGGACTAGTTTATAAAC
Found at i:22901708 original size:18 final size:18
Alignment explanation
Indices: 22901666--22901709 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
22901656 AAACACACCT
*
22901666 CCCCCTT-TCTTTCTTTC
1 CCCCCTTCTCTCTCTTTC
* *
22901683 CTCTCTTCTCTCTCTTTC
1 CCCCCTTCTCTCTCTTTC
22901701 CCCCCTTCT
1 CCCCCTTCT
22901710 TTTCTTTGGC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (18 bp):
CCCCCTTCTCTCTCTTTC
Found at i:22902850 original size:15 final size:15
Alignment explanation
Indices: 22902830--22902860 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
22902820 ATGGTGGATG
22902830 GAGCTGGTGGTGGCA
1 GAGCTGGTGGTGGCA
22902845 GAGCTGGTGGTGGCA
1 GAGCTGGTGGTGGCA
22902860 G
1 G
22902861 CGGCATAGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.55, T:0.19
Consensus pattern (15 bp):
GAGCTGGTGGTGGCA
Found at i:22903091 original size:6 final size:6
Alignment explanation
Indices: 22903080--22903134 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
22903070 TATAATAACA
* * *
22903080 TTAAAT TTAAA- TTAAA- TCAAAT TTAAAT TTAAAC TTGAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
22903125 ATAAAT TTAA
1 TTAAAT TTAA
22903135 GATTAAAATA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
5 13 0.33
6 26 0.67
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (6 bp):
TTAAAT
Found at i:22903091 original size:22 final size:22
Alignment explanation
Indices: 22903063--22903112 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
22903053 TGGACTTTCT
22903063 TTTAAATTATAAT-AACA-TTAAA
1 TTTAAATTA-AATCAA-ATTTAAA
22903085 TTTAAATTAAATCAAATTTAAA
1 TTTAAATTAAATCAAATTTAAA
22903107 TTTAAA
1 TTTAAA
22903113 CTTGAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (22 bp):
TTTAAATTAAATCAAATTTAAA
Found at i:22903093 original size:11 final size:11
Alignment explanation
Indices: 22903079--22903141 Score: 65
Period size: 11 Copynumber: 5.5 Consensus size: 11
22903069 TTATAATAAC
22903079 ATTAAATTTAA
1 ATTAAATTTAA
*
22903090 ATTAAA-TCAA
1 ATTAAATTTAA
22903100 ATTTAAATTTAA
1 A-TTAAATTTAA
*
22903112 ACTTGAATTTAA
1 A-TTAAATTTAA
*
22903124 AATAAATTTAA
1 ATTAAATTTAA
22903135 GATTAAA
1 -ATTAAA
22903142 ATAAATTTGA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
10 4 0.10
11 19 0.45
12 19 0.45
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:22903129 original size:17 final size:16
Alignment explanation
Indices: 22903073--22903148 Score: 53
Period size: 17 Copynumber: 4.5 Consensus size: 16
22903063 TTTAAATTAT
*
22903073 AATAACATTAAATTTAA
1 AATAA-ATTGAATTTAA
* **
22903090 ATTAAATCAAATTTAA
1 AATAAATTGAATTTAA
*
22903106 ATTTAAACTTGAATTTAA
1 A-ATAAA-TTGAATTTAA
* *
22903124 AATAAATTTAAGATTAA
1 AATAAATTGAA-TTTAA
22903141 AATAAATT
1 AATAAATT
22903149 TGATTTTTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
16 15 0.31
17 25 0.51
18 9 0.18
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.38
Consensus pattern (16 bp):
AATAAATTGAATTTAA
Found at i:22906352 original size:37 final size:37
Alignment explanation
Indices: 22906298--22906370 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
22906288 TTTATTGAGA
*
22906298 ATGTTTACAAAACGAGATAGGATTGCTTCACCCAATC
1 ATGTTTACAAAACGAGATAGGATTGATTCACCCAATC
*
22906335 ATGTTTACAAAAGGAGATAGGATTGATTCACCCAAT
1 ATGTTTACAAAACGAGATAGGATTGATTCACCCAAT
22906371 TTTGTCCTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (37 bp):
ATGTTTACAAAACGAGATAGGATTGATTCACCCAATC
Found at i:22907989 original size:20 final size:20
Alignment explanation
Indices: 22907961--22908000 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
22907951 ATTCAGGTTA
*
22907961 GTGAGCAACGAACACATTTG
1 GTGAACAACGAACACATTTG
*
22907981 GTGAACAACGAACATATTTG
1 GTGAACAACGAACACATTTG
22908001 ATGAGCTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (20 bp):
GTGAACAACGAACACATTTG
Found at i:22908179 original size:28 final size:28
Alignment explanation
Indices: 22908108--22908195 Score: 97
Period size: 28 Copynumber: 3.1 Consensus size: 28
22908098 AGTGAAACTG
* *
22908108 CGAAGTGCGAACTGTCACAATTAAGTTG
1 CGAAGTGCGAACTGTCACAATGAAGTTA
* * *
22908136 CGAGGTG-TAAGCTGTCACAATGCAGTTA
1 CGAAGTGCGAA-CTGTCACAATGAAGTTA
* *
22908164 CGAAGTGCGAATTGTCATAATGAAGTTA
1 CGAAGTGCGAACTGTCACAATGAAGTTA
22908192 CGAA
1 CGAA
22908196 AAAATTGAAG
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
27 2 0.04
28 44 0.92
29 2 0.04
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (28 bp):
CGAAGTGCGAACTGTCACAATGAAGTTA
Found at i:22908316 original size:24 final size:25
Alignment explanation
Indices: 22908269--22908321 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
22908259 AAGATTTAAA
*
22908269 ATTTATTAGTATAATATTTCTAG-T
1 ATTTATTAGTATAAAATTTCTAGTT
22908293 ATTTATTAGTATAAGAATTT-TAGTT
1 ATTTATTAGTATAA-AATTTCTAGTT
22908318 ATTT
1 ATTT
22908322 CTTTCCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (25 bp):
ATTTATTAGTATAAAATTTCTAGTT
Found at i:22919147 original size:25 final size:25
Alignment explanation
Indices: 22919119--22919223 Score: 156
Period size: 25 Copynumber: 4.2 Consensus size: 25
22919109 TACTCCAGAT
22919119 TCTGGCTCGTAAGAGCGTAATTCTG
1 TCTGGCTCGTAAGAGCGTAATTCTG
*
22919144 TCTGGCTCGTATGAGCGTAATTCTG
1 TCTGGCTCGTAAGAGCGTAATTCTG
* *
22919169 TCTGGCTCGAAAGAGCGCAATTCTG
1 TCTGGCTCGTAAGAGCGTAATTCTG
* * *
22919194 TTTGGCTTGTAAGAGCATAATTCTG
1 TCTGGCTCGTAAGAGCGTAATTCTG
22919219 TCTGG
1 TCTGG
22919224 ATCGACAAAG
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 70 1.00
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (25 bp):
TCTGGCTCGTAAGAGCGTAATTCTG
Found at i:22919191 original size:50 final size:50
Alignment explanation
Indices: 22919119--22919260 Score: 162
Period size: 50 Copynumber: 2.8 Consensus size: 50
22919109 TACTCCAGAT
* * * *
22919119 TCTGGCTCGTAAGAGCGTAATTCTGTCTGGCTCGTATGAGCGTAATTCTG
1 TCTGGCTCGAAAGAGCGCAATTCTGTCTGGCTCGTAAGAGCATAATTCTG
* *
22919169 TCTGGCTCGAAAGAGCGCAATTCTGTTTGGCTTGTAAGAGCATAATTCTG
1 TCTGGCTCGAAAGAGCGCAATTCTGTCTGGCTCGTAAGAGCATAATTCTG
* * *
22919219 TCTGGATCGACAA-AGC-AAGATTTTGTCTCGGCTCGTAAGAGC
1 TCTGGCTCGA-AAGAGCGCA-ATTCTGTCT-GGCTCGTAAGAGC
22919261 TAAACTTTGT
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 63 0.81
51 14 0.18
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (50 bp):
TCTGGCTCGAAAGAGCGCAATTCTGTCTGGCTCGTAAGAGCATAATTCTG
Found at i:22920779 original size:40 final size:40
Alignment explanation
Indices: 22920646--22920789 Score: 116
Period size: 39 Copynumber: 3.6 Consensus size: 40
22920636 GGCCGTAGTT
** * *
22920646 CGATTCATTTCACCGATTAAAAGCCTGCTAA-ACAATAG-C
1 CGATTCATTTCACCGGCTAGAAGCCTGCTAAGCCAA-AGCC
* *
22920685 TGATTCATTTCACTGGCTAGAAGCCTGCTAAGCCAAAGGCC
1 CGATTCATTTCACCGGCTAGAAGCCTGCTAAGCCAAA-GCC
* * * *
22920726 TGAATCATTTCACCGGCATA-AAGCCTTCTATGCCACAA-CC
1 CGATTCATTTCACCGGC-TAGAAGCCTGCTAAGCCA-AAGCC
* *
22920766 CGATTCATTTCACCAGCTAAAAGC
1 CGATTCATTTCACCGGCTAGAAGC
22920790 TTACTAGGTC
Statistics
Matches: 86, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
39 29 0.34
40 24 0.28
41 29 0.34
42 4 0.05
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.25
Consensus pattern (40 bp):
CGATTCATTTCACCGGCTAGAAGCCTGCTAAGCCAAAGCC
Found at i:22924816 original size:15 final size:15
Alignment explanation
Indices: 22924796--22924827 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
22924786 TCCATATTAG
22924796 CTTAACCTAGCTAAA
1 CTTAACCTAGCTAAA
22924811 CTTAACCTAGCTAAA
1 CTTAACCTAGCTAAA
22924826 CT
1 CT
22924828 AAGGACTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.28, G:0.06, T:0.28
Consensus pattern (15 bp):
CTTAACCTAGCTAAA
Found at i:22925721 original size:94 final size:94
Alignment explanation
Indices: 22925549--22925768 Score: 293
Period size: 94 Copynumber: 2.4 Consensus size: 94
22925539 GCATATTCTC
* * * *
22925549 GTCAACTTAGTGTGAGCAGCATCGT-TA--GGGAACAGTTATATGCACAGATACTGTATCGATGA
1 GTCAGCTTAGTGTGAGCAGCATCGTATACTGGTAAAAGTTATATGCACAGATACCGTATCGATGA
* * *
22925611 TTGAGGTACCGCATATGTTGCGAGTCCTA
66 CTGAGGCACCGCATATGTTACGAGTCCTA
* * *
22925640 GTCAGCTTAGTGTAAGCAGCATCGTATACTGGTAAAAGTTATATGTACAGATACCGTATCGATGG
1 GTCAGCTTAGTGTGAGCAGCATCGTATACTGGTAAAAGTTATATGCACAGATACCGTATCGATGA
* *
22925705 CTGAGGCACCGTATATGTTACGAGTCCTC
66 CTGAGGCACCGCATATGTTACGAGTCCTA
* *
22925734 GTCAGCTTAGTGTGAGCAGTATCATATACTGGTAA
1 GTCAGCTTAGTGTGAGCAGCATCGTATACTGGTAA
22925769 CAGAAATGGT
Statistics
Matches: 111, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
91 23 0.21
92 2 0.02
94 86 0.77
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (94 bp):
GTCAGCTTAGTGTGAGCAGCATCGTATACTGGTAAAAGTTATATGCACAGATACCGTATCGATGA
CTGAGGCACCGCATATGTTACGAGTCCTA
Found at i:22926560 original size:21 final size:21
Alignment explanation
Indices: 22926536--22926589 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
22926526 AGAGTTTGTC
22926536 GTATCGGTAGAAGTAATAATT
1 GTATCGGTAGAAGTAATAATT
* ** * *
22926557 GTATTGGTATTAGTCATACTT
1 GTATCGGTAGAAGTAATAATT
22926578 GTATCGGTAGAA
1 GTATCGGTAGAA
22926590 CCTTCCCAAC
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.37
Consensus pattern (21 bp):
GTATCGGTAGAAGTAATAATT
Found at i:22927793 original size:36 final size:36
Alignment explanation
Indices: 22927746--22927831 Score: 136
Period size: 36 Copynumber: 2.4 Consensus size: 36
22927736 GCTTAAAAGT
*
22927746 CATGTCTCTTCATTTGTCTTTGAGGAGATGAAAGGG
1 CATGTCTCTTCATTTGTCTTTGAGGAGATGAAAGAG
* *
22927782 CATGTCTCTTCATTTGTCTTTGAGTAGATGACAGAG
1 CATGTCTCTTCATTTGTCTTTGAGGAGATGAAAGAG
*
22927818 CATGTCTTTTCATT
1 CATGTCTCTTCATT
22927832 AGTCCTTGGA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.41
Consensus pattern (36 bp):
CATGTCTCTTCATTTGTCTTTGAGGAGATGAAAGAG
Found at i:22928370 original size:51 final size:50
Alignment explanation
Indices: 22928315--22928508 Score: 237
Period size: 51 Copynumber: 3.8 Consensus size: 50
22928305 ACTTGTTTTA
** *
22928315 ATGATGCAAACTTTAACTAACATGGGAGTTACATAATGTATGAT-ATAATTT
1 ATGATGCAAAC-TTAACTAACATGAAAGTTACATAATGCATG-TCATAATTT
* * * * *
22928366 ATGATGCATATTTAACTAACATGTAAGTTACTTAATGCATGTCATTATTTT
1 ATGATGCAAACTTAACTAACATGAAAGTTACATAATGCATGTCA-TAATTT
* * *
22928417 ATGATGCAAACTTAACTAATCATGAGAGTTACATAATACATGTCATTATTT
1 ATGATGCAAACTTAACTAA-CATGAAAGTTACATAATGCATGTCATAATTT
*
22928468 ATGATGCAAACTTAACTAACATGAAAGTTACTTAATGCATG
1 ATGATGCAAACTTAACTAACATGAAAGTTACATAATGCATG
22928509 ACTTTATTAA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 46 0.38
51 54 0.44
52 21 0.17
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.36
Consensus pattern (50 bp):
ATGATGCAAACTTAACTAACATGAAAGTTACATAATGCATGTCATAATTT
Found at i:22928516 original size:50 final size:50
Alignment explanation
Indices: 22928291--22928516 Score: 240
Period size: 50 Copynumber: 4.4 Consensus size: 50
22928281 AACTAATAGA
* **
22928291 TTACTAAATGCATGACTTGT-TTTAATGATGCAAACTTTAACTAACATGGGAG
1 TTACTTAATGCATGACTT-TATTT-ATGATGCAAAC-TTAACTAACATGAAAG
* * * * * *
22928343 TTACATAATGTATGA-TATAATTTATGATGCATATTTAACTAACATGTAAG
1 TTACTTAATGCATGACT-TTATTTATGATGCAAACTTAACTAACATGAAAG
* * *
22928393 TTACTTAATGCATGTCATTATTTTATGATGCAAACTTAACTAATCATGAGAG
1 TTACTTAATGCATGACTTTA-TTTATGATGCAAACTTAACTAA-CATGAAAG
* * * *
22928445 TTACATAATACATGTCATTATTTATGATGCAAACTTAACTAACATGAAAG
1 TTACTTAATGCATGACTTTATTTATGATGCAAACTTAACTAACATGAAAG
22928495 TTACTTAATGCATGACTTTATT
1 TTACTTAATGCATGACTTTATT
22928517 AAATGCAGAA
Statistics
Matches: 145, Mismatches: 24, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
50 53 0.37
51 52 0.36
52 40 0.28
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (50 bp):
TTACTTAATGCATGACTTTATTTATGATGCAAACTTAACTAACATGAAAG
Found at i:22928516 original size:102 final size:102
Alignment explanation
Indices: 22928291--22928521 Score: 306
Period size: 102 Copynumber: 2.3 Consensus size: 102
22928281 AACTAATAGA
* * **
22928291 TTACTAAATGCATGACTTGT-TTTAATGATGCAAACTTTAACTAACATGGGAGTTACATAATGTA
1 TTACTTAATGCATGACTT-TATTTAATGATGCAAACTTTAACTAACATGAGAGTTACATAATACA
* * *
22928355 TGATATAATTTATGATGCATATTTAACTAACATGTAAG
65 TGATATAATTTATGATGCAAACTTAACTAACATGAAAG
* * *
22928393 TTACTTAATGCATGTCATTATTTTATGATGCAAAC-TTAACTAATCATGAGAGTTACATAATACA
1 TTACTTAATGCATGACTTTATTTAATGATGCAAACTTTAACTAA-CATGAGAGTTACATAATACA
*
22928457 TG-TCATTATTTATGATGCAAACTTAACTAACATGAAAG
65 TGAT-ATAATTTATGATGCAAACTTAACTAACATGAAAG
*
22928495 TTACTTAATGCATGACTTTATTAAATG
1 TTACTTAATGCATGACTTTATTTAATG
22928522 CAGAACACAT
Statistics
Matches: 111, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
101 10 0.09
102 101 0.91
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (102 bp):
TTACTTAATGCATGACTTTATTTAATGATGCAAACTTTAACTAACATGAGAGTTACATAATACAT
GATATAATTTATGATGCAAACTTAACTAACATGAAAG
Found at i:22929346 original size:28 final size:28
Alignment explanation
Indices: 22929313--22929385 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
22929303 GTGAACTATT
* *
22929313 ACAGTGAAGCTGCGAGGTGCGAGCTGTC
1 ACAGTGAAGCTGCGAAGTGCGAACTGTC
* * *
22929341 ATAGTGAAGCTACAAAGTGCGAACTGTC
1 ACAGTGAAGCTGCGAAGTGCGAACTGTC
*
22929369 ACAGTGAAACTGCGAAG
1 ACAGTGAAGCTGCGAAG
22929386 AAAGTGAAGT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.32, C:0.19, G:0.32, T:0.18
Consensus pattern (28 bp):
ACAGTGAAGCTGCGAAGTGCGAACTGTC
Found at i:22929504 original size:24 final size:24
Alignment explanation
Indices: 22929459--22929504 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
22929449 AGATTTAGAC
* * * *
22929459 TTTATTAGTATAATATTTTTAGCA
1 TTTATTAGCATAAGAATCTTAGCA
22929483 TTTATTAGCATAAGAATCTTAG
1 TTTATTAGCATAAGAATCTTAG
22929505 TTATTTCTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.48
Consensus pattern (24 bp):
TTTATTAGCATAAGAATCTTAGCA
Found at i:22935815 original size:21 final size:22
Alignment explanation
Indices: 22935791--22935841 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 22
22935781 GTAAAGAAAA
22935791 TAATGAGAAGAAA-TAAATAAT
1 TAATGAGAAGAAAGTAAATAAT
* * *
22935812 TAAT-AAAATAAAGTACATAAT
1 TAATGAGAAGAAAGTAAATAAT
22935833 TAAATGAGA
1 T-AATGAGA
22935842 GAACAAGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
20 6 0.26
21 12 0.52
22 3 0.13
23 2 0.09
ACGTcount: A:0.61, C:0.02, G:0.12, T:0.25
Consensus pattern (22 bp):
TAATGAGAAGAAAGTAAATAAT
Found at i:22935971 original size:15 final size:14
Alignment explanation
Indices: 22935951--22936028 Score: 59
Period size: 15 Copynumber: 5.2 Consensus size: 14
22935941 ATGACATGGA
*
22935951 AAATAATAAATGAAT
1 AAATAAAAAAT-AAT
*
22935966 AAATAAAAAATAAA
1 AAATAAAAAATAAT
22935980 ATAATGAAAACAATGAAT
1 A-AAT-AAAA-AAT-AAT
*
22935998 GAATAAAAAATAAAT
1 AAATAAAAAAT-AAT
*
22936013 AAAT-ATAAATAAT
1 AAATAAAAAATAAT
22936026 AAA
1 AAA
22936029 AATATACATA
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
13 6 0.12
14 8 0.15
15 22 0.42
16 8 0.15
17 6 0.12
18 2 0.04
ACGTcount: A:0.72, C:0.01, G:0.05, T:0.22
Consensus pattern (14 bp):
AAATAAAAAATAAT
Found at i:22935999 original size:36 final size:37
Alignment explanation
Indices: 22935949--22936020 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 37
22935939 AAATGACATG
*
22935949 GAAAATAATAAATGAATAAATAAA-AAATAAA-ATAAT
1 GAAAACAATAAATGAATAAA-AAATAAATAAATATAAT
*
22935985 GAAAACAATGAATGAATAAAAAATAAATAAATATAA
1 GAAAACAATAAATGAATAAAAAATAAATAAATATAA
22936021 ATAATAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
35 3 0.09
36 25 0.78
37 4 0.12
ACGTcount: A:0.71, C:0.01, G:0.07, T:0.21
Consensus pattern (37 bp):
GAAAACAATAAATGAATAAAAAATAAATAAATATAAT
Found at i:22936022 original size:6 final size:7
Alignment explanation
Indices: 22935951--22936032 Score: 51
Period size: 7 Copynumber: 11.1 Consensus size: 7
22935941 ATGACATGGA
22935951 AAATAAT
1 AAATAAT
22935958 AAATGAAT
1 AAAT-AAT
*
22935966 AAATAAA
1 AAATAAT
*
22935973 AAATAAA
1 AAATAAT
*
22935980 ATAATGAAA
1 A-AAT-AAT
22935989 ACAATGAAT
1 A-AAT-AAT
* *
22935998 GAATAAA
1 AAATAAT
22936005 AAATAAAT
1 AAAT-AAT
22936013 AAAT-AT
1 AAATAAT
22936019 AAATAAT
1 AAATAAT
22936026 AAA-AAT
1 AAATAAT
22936032 A
1 A
22936033 TACATATGGG
Statistics
Matches: 63, Mismatches: 7, Indels: 11
0.78 0.09 0.14
Matches are distributed among these distances:
6 10 0.16
7 24 0.38
8 19 0.30
9 10 0.16
ACGTcount: A:0.72, C:0.01, G:0.05, T:0.22
Consensus pattern (7 bp):
AAATAAT
Found at i:22939170 original size:24 final size:24
Alignment explanation
Indices: 22939142--22939204 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
22939132 AGAAATAATC
22939142 TTTCAGTTAAACTCTATTTATTTG
1 TTTCAGTTAAACTCTATTTATTTG
* *
22939166 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTATTTATTTG
* *
22939190 TTTGAGTCAAACTCT
1 TTTCAGTTAAACTCT
22939205 TATTAGTCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.25, C:0.14, G:0.10, T:0.51
Consensus pattern (24 bp):
TTTCAGTTAAACTCTATTTATTTG
Found at i:22940439 original size:42 final size:41
Alignment explanation
Indices: 22940296--22940976 Score: 721
Period size: 42 Copynumber: 16.9 Consensus size: 41
22940286 GATTTGGTGG
* * *
22940296 CTTCAATCTGCCCCATGGTCGAGGTAAGAGATTAGAT-ATGT
1 CTTCAATCTG-CCCATGATCGGGGTAAGAGATTGGATGATGT
* *
22940337 CTTTAATCTGCCCCATGATTGGGGTAAGAGATTGGATG--G-
1 CTTCAATCTG-CCCATGATCGGGGTAAGAGATTGGATGATGT
* * *
22940376 CTTTAATCTTCCCTATAATCGGGGTAAGAGATTGGATGATGT
1 CTTCAATCTGCCC-ATGATCGGGGTAAGAGATTGGATGATGT
22940418 CTTCAATCTGCCCTATGATCGGGGTAAGAGATTGGATG--G-
1 CTTCAATCTGCCC-ATGATCGGGGTAAGAGATTGGATGATGT
* * * *
22940457 CTTCAATCTGCCTCATGGTTGGGGTAAGAGATTGAATTATGT
1 CTTCAATCTGCC-CATGATCGGGGTAAGAGATTGGATGATGT
* *
22940499 CTTCAATCTGCCCTATGATTGAGGTAAGAGATTGGATG--G-
1 CTTCAATCTGCCC-ATGATCGGGGTAAGAGATTGGATGATGT
* *
22940538 CTTCAATCTACCCCATGGTCGGGGTAAGAGATTGGATGATGT
1 CTTCAATCT-GCCCATGATCGGGGTAAGAGATTGGATGATGT
*
22940580 CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGATGT
1 CTTCAATCT-GCCCATGATCGGGGTAAGAGATTGGATGATGT
* *
22940622 CTTCAATCTGCCACATGATCTGGGTAAGAGATTGGATGATAT
1 CTTCAATCTGCC-CATGATCGGGGTAAGAGATTGGATGATGT
**
22940664 CTTCAATCTGTCCCATGATCAAGGTAAGAGATTGGATG--G-
1 CTTCAATCTG-CCCATGATCGGGGTAAGAGATTGGATGATGT
* *
22940703 CTTCAATCTGCCTCATGGTTGGGGTAAGAGATTGGATGATGT
1 CTTCAATCTGCC-CATGATCGGGGTAAGAGATTGGATGATGT
* * ** * *
22940745 CTTCAATTTGGCCCATGATTGCTGTAAGAGATTCGATGATTT
1 CTTCAATCT-GCCCATGATCGGGGTAAGAGATTGGATGATGT
*
22940787 CTTCAATCTACCC-----C-----AAGAGATTGGATGATGT
1 CTTCAATCTGCCCATGATCGGGGTAAGAGATTGGATGATGT
*
22940818 CTTCAATCTGCCCCATGATTGGGGTAAGAGATTGGATGA---
1 CTTCAATCTG-CCCATGATCGGGGTAAGAGATTGGATGATGT
* *
22940857 CTTCAATCTGCCCCATGGTCGGAGTAAGAGATTGGATGATGT
1 CTTCAATCTG-CCCATGATCGGGGTAAGAGATTGGATGATGT
* *
22940899 CTTCAATCTGCCCATGGTCTGGGTAAGAGATTGGATGATGT
1 CTTCAATCTGCCCATGATCGGGGTAAGAGATTGGATGATGT
* *
22940940 CTTCAATCTGCCCATGATCGGGGTAACATATTGGATG
1 CTTCAATCTGCCCATGATCGGGGTAAGAGATTGGATG
22940977 GTAGCTTTGC
Statistics
Matches: 549, Mismatches: 56, Indels: 70
0.81 0.08 0.10
Matches are distributed among these distances:
31 24 0.04
32 3 0.01
38 5 0.01
39 160 0.29
40 7 0.01
41 104 0.19
42 241 0.44
43 5 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (41 bp):
CTTCAATCTGCCCATGATCGGGGTAAGAGATTGGATGATGT
Found at i:22940442 original size:81 final size:80
Alignment explanation
Indices: 22940289--22940976 Score: 675
Period size: 81 Copynumber: 8.6 Consensus size: 80
22940279 CTTCAGGGAT
* * * * * *
22940289 TTGG-TGGCTTCAATCTGCCCCATGGTCGAGGTAAGAGATTAGAT-ATGTCTTTAATCTGCCCCA
1 TTGGATGGCTTCAATCTTCCCTATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTG-CCCA
*
22940352 TGATTGGGGTAAGAGA
65 TGATCGGGGTAAGAGA
* *
22940368 TTGGATGGCTTTAATCTTCCCTATAATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCTA
1 TTGGATGGCTTCAATCTTCCCTATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCC-A
22940433 TGATCGGGGTAAGAGA
65 TGATCGGGGTAAGAGA
* * * * *
22940449 TTGGATGGCTTCAATC-TGCCTCATGGTTGGGGTAAGAGATTGAATTATGTCTTCAATCTGCCCT
1 TTGGATGGCTTCAATCTTCCCT-ATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCC-
* *
22940513 ATGATTGAGGTAAGAGA
64 ATGATCGGGGTAAGAGA
* * * *
22940530 TTGGATGGCTTCAATCTACCCCATGGTCGGGGTAAGAGATTGGATGATGTCTTCAATCTACCCCA
1 TTGGATGGCTTCAATCTTCCCTATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCT-GCCCA
22940595 TGATCGGGGTAAGAGA
65 TGATCGGGGTAAGAGA
* * *
22940611 TTGGATGATGTCTTCAATCTGCCAC-ATGATCTGGGTAAGAGATTGGATGATATCTTCAATCTGT
1 TTGGATG--G-CTTCAATCTTCC-CTATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTG-
**
22940675 CCCATGATCAAGGTAAGAGA
61 CCCATGATCGGGGTAAGAGA
* * * *
22940695 TTGGATGGCTTCAATC-TGCCTCATGGTTGGGGTAAGAGATTGGATGATGTCTTCAATTTGGCCC
1 TTGGATGGCTTCAATCTTCCCT-ATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCT-GCCC
* **
22940759 ATGATTGCTGTAAGAGA
64 ATGATCGGGGTAAGAGA
* * ** * ***
22940776 TTCGAT-GATT---TCTTCAATCT-A-C--CCCAAGAGATTGGATGATGTCTTCAATCTGCCCCA
1 TTGGATGGCTTCAATCTTCCCTATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTG-CCCA
*
22940833 TGATTGGGGTAAGAGA
65 TGATCGGGGTAAGAGA
* * * * *
22940849 TTGGATGACTTCAATCTGCCCCATGGTCGGAGTAAGAGATTGGATGATGTCTTCAATCTGCCCAT
1 TTGGATGGCTTCAATCTTCCCTATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCAT
* *
22940914 GGTCTGGGTAAGAGA
66 GATCGGGGTAAGAGA
* * *
22940929 TTGGATGATGTCTTCAATCTGCCC-ATGATCGGGGTAACATATTGGATG
1 TTGGATG--G-CTTCAATCTTCCCTATGATCGGGGTAAGAGATTGGATG
22940977 GTAGCTTTGC
Statistics
Matches: 503, Mismatches: 79, Indels: 51
0.79 0.12 0.08
Matches are distributed among these distances:
72 1 0.00
73 48 0.10
74 2 0.00
77 8 0.02
78 2 0.00
79 6 0.01
80 68 0.14
81 256 0.51
82 27 0.05
83 14 0.03
84 70 0.14
85 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (80 bp):
TTGGATGGCTTCAATCTTCCCTATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCAT
GATCGGGGTAAGAGA
Found at i:22940533 original size:123 final size:120
Alignment explanation
Indices: 22940296--22940965 Score: 683
Period size: 123 Copynumber: 5.5 Consensus size: 120
22940286 GATTTGGTGG
* * * *
22940296 CTTCAATCTGCCCCATGGTCGAGGTAAGAGATTAGATATGTCTTTAATCTGCCCCATGATTGGGG
1 CTTCAATCTGCCCCATGATCGAGGTAAGAGATT-G-GATGGCTTCAATCTGCCCCATGATTGGGG
* * * * *
22940361 TAAGAGATTG--GATGGCTTTAATCTTCCCTATAATCGGGGTAAGAGATTGGATGATGT
64 TAAGAGATTGATGATGTCTTCAATCTGCCC-ATGAT-TGGGTAAGAGATTGGATGATGT
* * * *
22940418 CTTCAATCTGCCCTATGATCGGGGTAAGAGATTGGATGGCTTCAATCTGCCTCATGGTTGGGGTA
1 CTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGGCTTCAATCTGCCCCATGATTGGGGTA
*
22940483 AGAGATTGAATTATGTCTTCAATCTGCCCTATGATTGAGGTAAGAGATTGGATG--G-
66 AGAGATTG-ATGATGTCTTCAATCTGCCC-ATGATTG-GGTAAGAGATTGGATGATGT
* * * * *
22940538 CTTCAATCTACCCCATGGTCGGGGTAAGAGATTGGATGATGTCTTCAATCTACCCCATGATCGGG
1 CTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATG--G-CTTCAATCTGCCCCATGATTGGG
*
22940603 GTAAGAGATTGGATGATGTCTTCAATCTGCCACATGATCTGGGTAAGAGATTGGATGATAT
63 GTAAGAGATT-GATGATGTCTTCAATCTGCC-CATGAT-TGGGTAAGAGATTGGATGATGT
* * * *
22940664 CTTCAATCTGTCCCATGATCAAGGTAAGAGATTGGATGGCTTCAATCTGCCTCATGGTTGGGGTA
1 CTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGGCTTCAATCTGCCCCATGATTGGGGTA
* * * *
22940729 AGAGATTGGATGATGTCTTCAATTTGGCCCATGATTGCTGTAAGAGATTCGATGATTT
66 AGAGATT-GATGATGTCTTCAATCT-GCCCATGATTG-GGTAAGAGATTGGATGATGT
* * * *
22940787 CTTCAATCTACCCCA--A--GAGAT-TG-GA-T-GATGTCTTCAATCTGCCCCATGATTGGGGTA
1 CTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGGCTTCAATCTGCCCCATGATTGGGGTA
* * *
22940844 AGAGATTG--GATGACTTCAATCTGCCCCATGGTCGGAGTAAGAGATTGGATGATGT
66 AGAGATTGATGATGTCTTCAATCTG-CCCATGATTGG-GTAAGAGATTGGATGATGT
* *
22940899 CTTCAATCTG-CCCATGGTCTG-GGTAAGAGATTGGATGATGTCTTCAATCTG-CCCATGATCGG
1 CTTCAATCTGCCCCATGATC-GAGGTAAGAGATTGGATG--G-CTTCAATCTGCCCCATGATTGG
22940961 GGTAA
62 GGTAA
22940966 CATATTGGAT
Statistics
Matches: 462, Mismatches: 57, Indels: 59
0.80 0.10 0.10
Matches are distributed among these distances:
111 5 0.01
112 46 0.10
114 1 0.00
115 37 0.08
116 3 0.01
117 4 0.01
118 2 0.00
119 7 0.02
120 69 0.15
121 18 0.04
122 44 0.10
123 185 0.40
124 8 0.02
126 33 0.07
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (120 bp):
CTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGGCTTCAATCTGCCCCATGATTGGGGTA
AGAGATTGATGATGTCTTCAATCTGCCCATGATTGGGTAAGAGATTGGATGATGT
Found at i:22940808 original size:31 final size:31
Alignment explanation
Indices: 22940770--22940832 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
22940760 TGATTGCTGT
*
22940770 AAGAGATTCGATGATTTCTTCAATCTACCCC
1 AAGAGATTCGATGATGTCTTCAATCTACCCC
* *
22940801 AAGAGATTGGATGATGTCTTCAATCTGCCCC
1 AAGAGATTCGATGATGTCTTCAATCTACCCC
22940832 A
1 A
22940833 TGATTGGGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (31 bp):
AAGAGATTCGATGATGTCTTCAATCTACCCC
Found at i:22940847 original size:73 final size:74
Alignment explanation
Indices: 22940728--22940949 Score: 231
Period size: 73 Copynumber: 2.9 Consensus size: 74
22940718 TGGTTGGGGT
* ** *
22940728 AAGAGATTGGATGATGTCTTCAATTTGGCCCATGATTGCTGTAAGAGATTCGATGATTTCTTCAA
1 AAGAGATTGGATGATGTCTTCAATCT-GCCCATGATTGGGGTAAGAGATTGGATGA-TTCTTCAA
22940793 TCT-ACCC-C-
64 TCTGACCCGCG
22940801 AAGAGATTGGATGATGTCTTCAATCTGCCCCATGATTGGGGTAAGAGATTGGATGA--CTTCAAT
1 AAGAGATTGGATGATGTCTTCAATCTG-CCCATGATTGGGGTAAGAGATTGGATGATTCTTCAAT
*
22940864 CTGCCCCATGGTCGGAG
65 CTGACCC---G-C---G
*
22940881 TAAGAGATTGGATGATGTCTTCAATCTGCCCATGGTCT-GGGTAAGAGATTGGATGATGTCTTCA
1 -AAGAGATTGGATGATGTCTTCAATCTGCCCATGAT-TGGGGTAAGAGATTGGATGAT-TCTTCA
22940945 ATCTG
63 ATCTG
22940950 CCCATGATCG
Statistics
Matches: 127, Mismatches: 6, Indels: 22
0.82 0.04 0.14
Matches are distributed among these distances:
70 9 0.07
71 3 0.02
72 1 0.01
73 50 0.39
76 1 0.01
80 25 0.20
81 28 0.22
83 10 0.08
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (74 bp):
AAGAGATTGGATGATGTCTTCAATCTGCCCATGATTGGGGTAAGAGATTGGATGATTCTTCAATC
TGACCCGCG
Found at i:22940973 original size:41 final size:42
Alignment explanation
Indices: 22940801--22940976 Score: 254
Period size: 41 Copynumber: 4.3 Consensus size: 42
22940791 AATCTACCCC
*
22940801 AAGAGATTGGATGATGTCTTCAATCTGCCCCATGATTGGGGT
1 AAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGGGGT
* *
22940843 AAGAGATTGGATGA---CTTCAATCTGCCCCATGGTCGGAGT
1 AAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGGGGT
* *
22940882 AAGAGATTGGATGATGTCTTCAATCTG-CCCATGGTCTGGGT
1 AAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGGGGT
22940923 AAGAGATTGGATGATGTCTTCAATCTG-CCCATGATCGGGGT
1 AAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGGGGT
* *
22940964 AACATATTGGATG
1 AAGAGATTGGATG
22940977 GTAGCTTTGC
Statistics
Matches: 122, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
39 36 0.30
41 62 0.51
42 24 0.20
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (42 bp):
AAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGGGGT
Found at i:22942207 original size:15 final size:16
Alignment explanation
Indices: 22942161--22942246 Score: 88
Period size: 15 Copynumber: 5.2 Consensus size: 16
22942151 TCGACCTCTC
22942161 TTTTTTCTTTCTTCCTT
1 TTTTTTCTTT-TTCCTT
*
22942178 TTCCTTTTCCATTTTCCTT
1 TT--TTTT-CTTTTTCCTT
*
22942197 TTTTTT-TTTTTTCTT
1 TTTTTTCTTTTTCCTT
22942212 TTTTTTCTTTTT--TT
1 TTTTTTCTTTTTCCTT
22942226 CTTTTTTCTTTTTCCTT
1 -TTTTTTCTTTTTCCTT
22942243 TTTT
1 TTTT
22942247 CTAGTGAAAT
Statistics
Matches: 59, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
14 2 0.03
15 25 0.42
16 9 0.15
17 8 0.14
19 12 0.20
20 3 0.05
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTTCTTTTTCCTT
Found at i:22942239 original size:6 final size:6
Alignment explanation
Indices: 22942162--22942245 Score: 59
Period size: 6 Copynumber: 13.8 Consensus size: 6
22942152 CGACCTCTCT
* * * *
22942162 TTTTTC TTTCTTCC TTTTCC TTTTCC ATTTTC CTTTT- TTTTT- TTTTTC
1 TTTTTC TTT-TT-C TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
22942210 TTTTT- TTTCTT- TTTTTC TTTTTTC TTTTTCC TTTTT
1 TTTTTC TTT-TTC TTTTTC -TTTTTC TTTTT-C TTTTT
22942246 TCTAGTGAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
5 14 0.21
6 33 0.50
7 15 0.23
8 4 0.06
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:22942245 original size:8 final size:8
Alignment explanation
Indices: 22942189--22942247 Score: 59
Period size: 8 Copynumber: 7.6 Consensus size: 8
22942179 TCCTTTTCCA
22942189 TTTTCCTT
1 TTTTCCTT
**
22942197 TTTTTTTT
1 TTTTCCTT
*
22942205 TTTTCTTT
1 TTTTCCTT
*
22942213 TTTTTCTT
1 TTTTCCTT
*
22942221 TTTTTCTT
1 TTTTCCTT
22942229 TTTT-C-T
1 TTTTCCTT
22942235 TTTTCCTT
1 TTTTCCTT
22942243 TTTTC
1 TTTTC
22942248 TAGTGAAATA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
6 5 0.11
7 2 0.05
8 37 0.84
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTCCTT
Found at i:22942246 original size:1 final size:1
Alignment explanation
Indices: 22942195--22942238 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
22942185 TCCATTTTCC
* * * *
22942195 TTTTTTTTTTTTTTCTTTTTTTTCTTTTTTTCTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
22942239 CCTTTTTTCT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:22942246 original size:9 final size:8
Alignment explanation
Indices: 22942189--22942238 Score: 68
Period size: 8 Copynumber: 6.4 Consensus size: 8
22942179 TCCTTTTCCA
*
22942189 TTTTCCTT
1 TTTTTCTT
22942197 TTTTT-TT
1 TTTTTCTT
22942204 TTTTTCTTT
1 TTTTTC-TT
22942213 TTTTTCTT
1 TTTTTCTT
22942221 TTTTTC-T
1 TTTTTCTT
22942228 TTTTTCTT
1 TTTTTCTT
22942236 TTT
1 TTT
22942239 CCTTTTTTCT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
7 14 0.37
8 16 0.42
9 8 0.21
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTCTT
Found at i:22943195 original size:16 final size:16
Alignment explanation
Indices: 22943154--22943203 Score: 68
Period size: 15 Copynumber: 3.2 Consensus size: 16
22943144 TCATCTTGAC
*
22943154 TTTTTTCTTTCCTTC-
1 TTTTTTCTTTTCTTCT
*
22943169 CTTTTTCTTTTCTTCT
1 TTTTTTCTTTTCTTCT
22943185 TTTTTTCTTTTCTT-T
1 TTTTTTCTTTTCTTCT
22943200 TTTT
1 TTTT
22943204 GGGGGGGAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
15 18 0.58
16 13 0.42
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTTCTTTTCTTCT
Found at i:22947640 original size:7 final size:7
Alignment explanation
Indices: 22947628--22947713 Score: 59
Period size: 7 Copynumber: 12.3 Consensus size: 7
22947618 CTCGAAAAAA
22947628 GTCAATG
1 GTCAATG
22947635 GTCAATG
1 GTCAATG
*
22947642 GTCAACG
1 GTCAATG
* *
22947649 ATCAACG
1 GTCAATG
*
22947656 GTCATTG
1 GTCAATG
*
22947663 GTCAACG
1 GTCAATG
*
22947670 TTCAACT-
1 GTCAA-TG
*
22947677 ATCAACT-
1 GTCAA-TG
*
22947684 GTTAATG
1 GTCAATG
22947691 GTCAATG
1 GTCAATG
*
22947698 GTCAATT
1 GTCAATG
22947705 GTCAATG
1 GTCAATG
22947712 GT
1 GT
22947714 TTCGGGCCGG
Statistics
Matches: 62, Mismatches: 15, Indels: 4
0.77 0.19 0.05
Matches are distributed among these distances:
6 1 0.02
7 61 0.98
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (7 bp):
GTCAATG
Found at i:22947658 original size:21 final size:21
Alignment explanation
Indices: 22947629--22947675 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
22947619 TCGAAAAAAG
*
22947629 TCAATGGTCAATGGTCAACGA
1 TCAACGGTCAATGGTCAACGA
* *
22947650 TCAACGGTCATTGGTCAACGT
1 TCAACGGTCAATGGTCAACGA
22947671 TCAAC
1 TCAAC
22947676 TATCAACTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (21 bp):
TCAACGGTCAATGGTCAACGA
Found at i:22947664 original size:28 final size:28
Alignment explanation
Indices: 22947628--22947702 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 28
22947618 CTCGAAAAAA
22947628 GTCAATGGTCAATGGTCAACGATCAACG
1 GTCAATGGTCAATGGTCAACGATCAACG
* * * * *
22947656 GTCATTGGTCAACGTTCAACTATCAACT
1 GTCAATGGTCAATGGTCAACGATCAACG
*
22947684 GTTAATGGTCAATGGTCAA
1 GTCAATGGTCAATGGTCAA
22947703 TTGTCAATGG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (28 bp):
GTCAATGGTCAATGGTCAACGATCAACG
Found at i:22965232 original size:7 final size:7
Alignment explanation
Indices: 22965220--22965255 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
22965210 GAAATTACCT
22965220 GAGGATG
1 GAGGATG
22965227 GAGGATG
1 GAGGATG
22965234 GAGGATG
1 GAGGATG
22965241 GAGGATG
1 GAGGATG
22965248 GAGGATG
1 GAGGATG
22965255 G
1 G
22965256 GATGAGTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.58, T:0.14
Consensus pattern (7 bp):
GAGGATG
Found at i:22966439 original size:19 final size:19
Alignment explanation
Indices: 22966417--22966454 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
22966407 CCACTGTCAC
22966417 CCACCGTAATAAAATTTGT
1 CCACCGTAATAAAATTTGT
* *
22966436 CCACTGTAATCAAATTTGT
1 CCACCGTAATAAAATTTGT
22966455 TATTAACTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (19 bp):
CCACCGTAATAAAATTTGT
Found at i:22967124 original size:61 final size:63
Alignment explanation
Indices: 22967056--22967181 Score: 211
Period size: 63 Copynumber: 2.0 Consensus size: 63
22967046 TTAAGAGTTT
*
22967056 TGGGAGTAAAATTTT-GAGTGAAAAATA-TTAAAAAAATGAGAGGAAATGAGTTTAAGATAGA
1 TGGGAGTAAAATTTTGGAGTGAAAAATATTTAAAAAAATGAGAGAAAATGAGTTTAAGATAGA
* *
22967117 TGGGAGTAAAATTTTGGAGTGAAAAATATTTAAAAAAATGAGAGAAAATGAGTTTGAGGTAGA
1 TGGGAGTAAAATTTTGGAGTGAAAAATATTTAAAAAAATGAGAGAAAATGAGTTTAAGATAGA
22967180 TG
1 TG
22967182 AGGTGACATG
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
61 15 0.25
62 12 0.20
63 33 0.55
ACGTcount: A:0.47, C:0.00, G:0.26, T:0.27
Consensus pattern (63 bp):
TGGGAGTAAAATTTTGGAGTGAAAAATATTTAAAAAAATGAGAGAAAATGAGTTTAAGATAGA
Found at i:22969764 original size:4 final size:4
Alignment explanation
Indices: 22969755--22969807 Score: 54
Period size: 4 Copynumber: 13.2 Consensus size: 4
22969745 AAATAAACGG
* * *
22969755 GAAA GAAA GAAA GAAA GAAG GAGAG GAAA GAAA GAAA G-AA GAAG GAAA
1 GAAA GAAA GAAA GAAA GAAA GA-AA GAAA GAAA GAAA GAAA GAAA GAAA
*
22969803 TAAA G
1 GAAA G
22969808 GTAATGTGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
3 3 0.07
4 34 0.83
5 4 0.10
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (4 bp):
GAAA
Found at i:22969785 original size:21 final size:19
Alignment explanation
Indices: 22969759--22969807 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 19
22969749 AAACGGGAAA
22969759 GAAAGAAAGAAAGAAGGAGAG
1 GAAAGAAAGAAAGAA-GA-AG
22969780 GAAAGAAAGAAAGAAGAAG
1 GAAAGAAAGAAAGAAGAAG
*
22969799 GAAATAAAG
1 GAAAGAAAG
22969808 GTAATGTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 10 0.37
20 2 0.07
21 15 0.56
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (19 bp):
GAAAGAAAGAAAGAAGAAG
Found at i:22969788 original size:25 final size:24
Alignment explanation
Indices: 22969754--22969800 Score: 85
Period size: 25 Copynumber: 1.9 Consensus size: 24
22969744 CAAATAAACG
22969754 GGAAAGAAAGAAAGAAAGAAGGAGA
1 GGAAAGAAAGAAAG-AAGAAGGAGA
22969779 GGAAAGAAAGAAAGAAGAAGGA
1 GGAAAGAAAGAAAGAAGAAGGA
22969801 AATAAAGGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (24 bp):
GGAAAGAAAGAAAGAAGAAGGAGA
Found at i:22974395 original size:21 final size:21
Alignment explanation
Indices: 22974371--22974485 Score: 83
Period size: 21 Copynumber: 5.5 Consensus size: 21
22974361 TTTTTAAAAT
* *
22974371 GTTTAATGTATAGGATTTAGG
1 GTTTAATGTTTAAGATTTAGG
* * *
22974392 GTTTAAGGCTTCAAG-TTTAAG
1 GTTTAATG-TTTAAGATTTAGG
* * * *
22974413 GTTTAAGGTTTAGGGTTTTA-A
1 GTTTAATGTTTA-AGATTTAGG
* *
22974434 GTTTAATATTTATGATTTAGG
1 GTTTAATGTTTAAGATTTAGG
22974455 GTTTTAA-GTTTAAGATTTAGG
1 G-TTTAATGTTTAAGATTTAGG
22974476 GTTTAATGTT
1 GTTTAATGTT
22974486 ATGAAAATTA
Statistics
Matches: 73, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
20 13 0.18
21 48 0.66
22 12 0.16
ACGTcount: A:0.27, C:0.02, G:0.24, T:0.47
Consensus pattern (21 bp):
GTTTAATGTTTAAGATTTAGG
Found at i:22974418 original size:7 final size:7
Alignment explanation
Indices: 22974386--22974481 Score: 54
Period size: 7 Copynumber: 13.7 Consensus size: 7
22974376 ATGTATAGGA
*
22974386 TTTAGGG
1 TTTAAGG
22974393 TTTAAGG
1 TTTAAGG
*
22974400 CTTCAA-G
1 -TTTAAGG
22974407 TTTAAGG
1 TTTAAGG
22974414 TTTAAGG
1 TTTAAGG
*
22974421 TTTAGGG
1 TTTAAGG
22974428 TTTTAA-G
1 -TTTAAGG
**
22974435 TTTAATA
1 TTTAAGG
* *
22974442 TTTATGA
1 TTTAAGG
*
22974449 TTTAGGG
1 TTTAAGG
22974456 TTTTAA-G
1 -TTTAAGG
*
22974463 TTTAAGA
1 TTTAAGG
*
22974470 TTTAGGG
1 TTTAAGG
22974477 TTTAA
1 TTTAA
22974482 TGTTATGAAA
Statistics
Matches: 68, Mismatches: 15, Indels: 12
0.72 0.16 0.13
Matches are distributed among these distances:
6 14 0.21
7 42 0.62
8 12 0.18
ACGTcount: A:0.27, C:0.02, G:0.24, T:0.47
Consensus pattern (7 bp):
TTTAAGG
Found at i:22974422 original size:28 final size:28
Alignment explanation
Indices: 22974384--22974481 Score: 115
Period size: 28 Copynumber: 3.5 Consensus size: 28
22974374 TAATGTATAG
* *
22974384 GATTTAGGGTTTAAGGCTTCAAGTTTAA
1 GATTTAGGGTTTAAGGTTTTAAGTTTAA
* * *
22974412 GGTTTAAGGTTTAGGGTTTTAAGTTTAA
1 GATTTAGGGTTTAAGGTTTTAAGTTTAA
* * * *
22974440 TATTTATGATTTAGGGTTTTAAGTTTAA
1 GATTTAGGGTTTAAGGTTTTAAGTTTAA
22974468 GATTTAGGGTTTAA
1 GATTTAGGGTTTAA
22974482 TGTTATGAAA
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.28, C:0.02, G:0.24, T:0.46
Consensus pattern (28 bp):
GATTTAGGGTTTAAGGTTTTAAGTTTAA
Found at i:22974803 original size:19 final size:19
Alignment explanation
Indices: 22974779--22974823 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
22974769 ATGCATATGT
*
22974779 GATGATCCCGCAAAATCAG
1 GATGATACCGCAAAATCAG
22974798 GATGATACCGCAAAATCAG
1 GATGATACCGCAAAATCAG
22974817 GATGATA
1 GATGATA
22974824 AGAATCATCG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (19 bp):
GATGATACCGCAAAATCAG
Found at i:22982428 original size:16 final size:16
Alignment explanation
Indices: 22982407--22982456 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
22982397 TGATGGGGAT
*
22982407 ATTATTTTGGTAATTA
1 ATTATTTTGATAATTA
*
22982423 ATTATTTT-TTATATT-
1 ATTATTTTGATA-ATTA
22982438 A-TATTTTGATAATTA
1 ATTATTTTGATAATTA
22982453 ATTA
1 ATTA
22982457 GCTAAGTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 9 0.32
15 6 0.21
16 13 0.46
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (16 bp):
ATTATTTTGATAATTA
Found at i:22983142 original size:23 final size:22
Alignment explanation
Indices: 22983116--22983193 Score: 59
Period size: 23 Copynumber: 3.3 Consensus size: 22
22983106 CTATAATAAC
22983116 ATTAAATAACAAATCAATTAAAA
1 ATTAAATAACAAATCAA-TAAAA
*
22983139 ATTAAATTAAACAAAACAA-AAAA
1 ATTAAA-T-AACAAATCAATAAAA
* *
22983162 CTTAAAATAATCAAATTAACTAACAA
1 ATT-AAATAA-CAAATCAA-TAA-AA
22983188 ATTAAA
1 ATTAAA
22983194 ATATTTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
22 2 0.05
23 19 0.44
24 4 0.09
25 14 0.33
26 4 0.09
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.24
Consensus pattern (22 bp):
ATTAAATAACAAATCAATAAAA
Done.