Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 123 of 187
Found at i:36562221 original size:17 final size:18
Alignment explanation
Indices: 36562199--36562237 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
36562189 AGAAGGGAAA
36562199 AAGATA-AAAAGAAAAAG-
1 AAGATAGAAAA-AAAAAGC
36562216 AAGATAGAAAAAAAAAGC
1 AAGATAGAAAAAAAAAGC
36562234 AAGA
1 AAGA
36562238 AGTTAGGTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.74, C:0.03, G:0.18, T:0.05
Consensus pattern (18 bp):
AAGATAGAAAAAAAAAGC
Found at i:36577619 original size:5 final size:5
Alignment explanation
Indices: 36577609--36577649 Score: 82
Period size: 5 Copynumber: 8.2 Consensus size: 5
36577599 TAAGAGGCAT
36577609 ATCTA ATCTA ATCTA ATCTA ATCTA ATCTA ATCTA ATCTA A
1 ATCTA ATCTA ATCTA ATCTA ATCTA ATCTA ATCTA ATCTA A
36577650 CATACAAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (5 bp):
ATCTA
Found at i:36578467 original size:52 final size:52
Alignment explanation
Indices: 36578372--36578473 Score: 150
Period size: 52 Copynumber: 2.0 Consensus size: 52
36578362 CAAATCTCTA
* *
36578372 TTCTGACTTCCCTACATGTTTAAAAACATAGAGGTATCATTTTTGAAACCTG
1 TTCTGACTTCCCTACACGTTTAAAAACATAGAGGTATCATTTTTAAAACCTG
* * **
36578424 TTCTGACTTCCCTACCCGTTTCAAAACATAGAGGTATTGTTTTTAAAACC
1 TTCTGACTTCCCTACACGTTTAAAAACATAGAGGTATCATTTTTAAAACC
36578474 CGATTATCGA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (52 bp):
TTCTGACTTCCCTACACGTTTAAAAACATAGAGGTATCATTTTTAAAACCTG
Found at i:36582022 original size:16 final size:17
Alignment explanation
Indices: 36581992--36582025 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
36581982 TAGGGTAATT
36581992 TAAAAAAGAAAAAGAAA
1 TAAAAAAGAAAAAGAAA
*
36582009 TAAAAAA-AAGAAGAAA
1 TAAAAAAGAAAAAGAAA
36582025 T
1 T
36582026 CAGCCACCGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (17 bp):
TAAAAAAGAAAAAGAAA
Found at i:36586189 original size:43 final size:42
Alignment explanation
Indices: 36586139--36586276 Score: 145
Period size: 43 Copynumber: 3.3 Consensus size: 42
36586129 TATCCCGGAT
* * * *
36586139 ATGGTCTTACATGTTAACACATTTTGATGCCACTGTACCAGAC
1 ATGGTCTTACACGTT-ACTCATTTTGATGCCAATGTCCCAGAC
* * * *
36586182 AGGGTCTTATACG--ACTCATATATGATGCCAATATCCCAGAC
1 ATGGTCTTACACGTTACTCAT-TTTGATGCCAATGTCCCAGAC
* *
36586223 ATGGTCTTACACGTTCTCTCATTTCGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTT-ACTCATTTTGATGCCAATGTCCCAGAC
36586266 ATGGTCTTACA
1 ATGGTCTTACA
36586277 TGAAATCACA
Statistics
Matches: 77, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
40 5 0.06
41 28 0.36
43 39 0.51
44 5 0.06
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (42 bp):
ATGGTCTTACACGTTACTCATTTTGATGCCAATGTCCCAGAC
Found at i:36588496 original size:14 final size:15
Alignment explanation
Indices: 36588461--36588498 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
36588451 GTAGCTTGTT
*
36588461 CGGTTC-ACTAGATT
1 CGGTTCAACTAGATG
36588475 CGGTTCAACTA-ATG
1 CGGTTCAACTAGATG
36588489 CGGTTCAACT
1 CGGTTCAACT
36588499 GAACCCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (15 bp):
CGGTTCAACTAGATG
Found at i:36599506 original size:17 final size:16
Alignment explanation
Indices: 36599471--36599529 Score: 86
Period size: 15 Copynumber: 3.8 Consensus size: 16
36599461 TATAGTCTCA
*
36599471 TATAGTGTCACAA-TC
1 TATAGTTTCACAAGTC
36599486 TATAGTTTTCACAAGTC
1 TATAG-TTTCACAAGTC
36599503 TATAGTTTCA-AAGTC
1 TATAGTTTCACAAGTC
36599518 TATAGTTTCACA
1 TATAGTTTCACA
36599530 TCTAAACAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
15 20 0.50
16 13 0.32
17 7 0.17
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (16 bp):
TATAGTTTCACAAGTC
Found at i:36600553 original size:22 final size:21
Alignment explanation
Indices: 36600504--36600554 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
36600494 TGGATAAGCC
*
36600504 ACCACATAATTGCCGATAACG
1 ACCACATAATTGCCAATAACG
*
36600525 ACCACATAATTG-CAATTAAACT
1 ACCACATAATTGCCAA-T-AACG
36600547 ACCACATA
1 ACCACATA
36600555 GCTTCCTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 2 0.08
21 13 0.50
22 11 0.42
ACGTcount: A:0.43, C:0.27, G:0.08, T:0.22
Consensus pattern (21 bp):
ACCACATAATTGCCAATAACG
Found at i:36611551 original size:67 final size:67
Alignment explanation
Indices: 36611441--36611648 Score: 389
Period size: 67 Copynumber: 3.1 Consensus size: 67
36611431 ATACTATGGA
* * *
36611441 TTAGGGATTAATTGTGAAAATAAGCTTGTTTTAGTTTTAGGGACTAAATTAAACAAATTGAAAAA
1 TTAGGGATTATTTGTGAAAATAAGCTTGTTTCAGTTTTTGGGACTAAATTAAACAAATTGAAAAA
36611506 CT
66 CT
36611508 TTAGGGATTATTTGTGAAAATAAGCTTGTTTCAGTTTTTGGGACTAAATTAAACAAATTGAAAAA
1 TTAGGGATTATTTGTGAAAATAAGCTTGTTTCAGTTTTTGGGACTAAATTAAACAAATTGAAAAA
36611573 CT
66 CT
36611575 TTAGGGATTATTTGTGAAAATAAGCTTGTTTCAGTTTTTGGGACTAAATTAAACAAATTGAAAAA
1 TTAGGGATTATTTGTGAAAATAAGCTTGTTTCAGTTTTTGGGACTAAATTAAACAAATTGAAAAA
36611640 CT
66 CT
36611642 TTAGGGA
1 TTAGGGA
36611649 AATTATGAAA
Statistics
Matches: 138, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 138 1.00
ACGTcount: A:0.38, C:0.07, G:0.19, T:0.37
Consensus pattern (67 bp):
TTAGGGATTATTTGTGAAAATAAGCTTGTTTCAGTTTTTGGGACTAAATTAAACAAATTGAAAAA
CT
Found at i:36620796 original size:34 final size:34
Alignment explanation
Indices: 36620758--36620830 Score: 128
Period size: 34 Copynumber: 2.1 Consensus size: 34
36620748 CACATTCAAG
* *
36620758 CCAATATTGGACGTTATGTCACCACATGGGAGAT
1 CCAATATTGGACATTATGTCACCACATGGGAGAC
36620792 CCAATATTGGACATTATGTCACCACATGGGAGAC
1 CCAATATTGGACATTATGTCACCACATGGGAGAC
36620826 CCAAT
1 CCAAT
36620831 GTCGCAACAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25
Consensus pattern (34 bp):
CCAATATTGGACATTATGTCACCACATGGGAGAC
Found at i:36626111 original size:17 final size:17
Alignment explanation
Indices: 36626066--36626113 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
36626056 CATTGTCCCC
*
36626066 AATGCATTGAC-ATGAA
1 AATGCAATGACAATGAA
* * *
36626082 TATGTAATTACAATGAA
1 AATGCAATGACAATGAA
36626099 AATGCAATGACAATG
1 AATGCAATGACAATG
36626114 TATACTTATC
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.27
Consensus pattern (17 bp):
AATGCAATGACAATGAA
Found at i:36631907 original size:50 final size:50
Alignment explanation
Indices: 36631824--36631923 Score: 139
Period size: 50 Copynumber: 2.0 Consensus size: 50
36631814 TGAAGCAGAT
* * * *
36631824 AAAGAAGTGCCAATCATCCTAGGAGGCCTTTTCCTAGTAATTGGAAGGAC
1 AAAGAAGTGCCAATCATCCTAGAAGACCTTTTCCTAGCAACTGGAAGGAC
*
36631874 AAAGAAGTGCCAATCATCCTACGAAGACC-TTTCCTTGCAACTGGAAGGAC
1 AAAGAAGTGCCAATCATCCTA-GAAGACCTTTTCCTAGCAACTGGAAGGAC
36631924 TTTTATTGAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
50 39 0.89
51 5 0.11
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (50 bp):
AAAGAAGTGCCAATCATCCTAGAAGACCTTTTCCTAGCAACTGGAAGGAC
Found at i:36640831 original size:19 final size:19
Alignment explanation
Indices: 36640807--36640846 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
36640797 ATCTCACCTC
36640807 ATTCA-TTGCATTTAGATTA
1 ATTCATTTGCATTTAG-TTA
36640826 ATTCATTTGCATTTAGTTA
1 ATTCATTTGCATTTAGTTA
36640845 AT
1 AT
36640847 ATTAATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (19 bp):
ATTCATTTGCATTTAGTTA
Found at i:36654094 original size:58 final size:58
Alignment explanation
Indices: 36653972--36654101 Score: 156
Period size: 58 Copynumber: 2.2 Consensus size: 58
36653962 CATCTTAAAT
** *
36653972 TTAAATTTAATTTAATATTTATGTTCTTGATAAATATTATATTAATATAATAGATTTAGTA
1 TTAAATTTAATCAAATATTTA--TTCTTGATAAATATTATATTAATATAATA-ATTAAGTA
*
36654033 TTAAATTTAATCAAATATTTA-TCTTGATAAATATTATATTAATTTAAT-ATTAAAGTGA
1 TTAAATTTAATCAAATATTTATTCTTGATAAATATTATATTAATATAATAATT-AAGT-A
*
36654091 TTAAGTTTAAT
1 TTAAATTTAAT
36654102 TATAGTTGAA
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
56 3 0.05
57 3 0.05
58 37 0.60
61 19 0.31
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (58 bp):
TTAAATTTAATCAAATATTTATTCTTGATAAATATTATATTAATATAATAATTAAGTA
Found at i:36657975 original size:31 final size:31
Alignment explanation
Indices: 36657937--36657996 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
36657927 TCAAACTTTG
*
36657937 GACATAGGTATCGATACCCAGATCAGGTACC
1 GACATAGGTATCGATACACAGATCAGGTACC
36657968 GACATAGGTATCGATACACAGATCAGGTA
1 GACATAGGTATCGATACACAGATCAGGTA
36657997 TCGATACCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (31 bp):
GACATAGGTATCGATACACAGATCAGGTACC
Found at i:36657997 original size:19 final size:19
Alignment explanation
Indices: 36657973--36658011 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
36657963 GTACCGACAT
36657973 AGGTATCGATACACAGATC
1 AGGTATCGATACACAGATC
*
36657992 AGGTATCGATACCCAGATC
1 AGGTATCGATACACAGATC
36658011 A
1 A
36658012 AGTACCAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.21
Consensus pattern (19 bp):
AGGTATCGATACACAGATC
Found at i:36658185 original size:20 final size:19
Alignment explanation
Indices: 36658143--36658190 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
36658133 AAGTCAATTC
*
36658143 GTATTGATACCTTTATAAA
1 GTATTGATACCTTGATAAA
36658162 GTATTGAT-CCTTGATGATAA
1 GTATTGATACCTTGAT-A-AA
*
36658182 GTATCGATA
1 GTATTGATA
36658191 TTGTATACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 6 0.25
19 9 0.38
20 9 0.38
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (19 bp):
GTATTGATACCTTGATAAA
Found at i:36661055 original size:13 final size:12
Alignment explanation
Indices: 36661028--36661061 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
36661018 CCTTTTTACA
36661028 TTATTTTAATTT
1 TTATTTTAATTT
*
36661040 TTATTTTAGTTTT
1 TTATTTTA-ATTT
36661053 TTATTTTAA
1 TTATTTTAA
36661062 ATCCATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (12 bp):
TTATTTTAATTT
Found at i:36663629 original size:23 final size:23
Alignment explanation
Indices: 36663603--36663653 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
36663593 TTTGTTGAAG
*
36663603 TTAAATGAAAATATTCGTGAACA
1 TTAAATGAAAATATTCGTAAACA
* * *
36663626 TTAAATTAATATGTTCGTAAACA
1 TTAAATGAAAATATTCGTAAACA
36663649 TTAAA
1 TTAAA
36663654 CAAATATGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (23 bp):
TTAAATGAAAATATTCGTAAACA
Found at i:36663659 original size:23 final size:23
Alignment explanation
Indices: 36663616--36663663 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
36663606 AATGAAAATA
* **
36663616 TTCGTGAACATTAAATTAATATG
1 TTCGTAAACATTAAACAAATATG
36663639 TTCGTAAACATTAAACAAATATG
1 TTCGTAAACATTAAACAAATATG
36663662 TT
1 TT
36663664 TAGTAACATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (23 bp):
TTCGTAAACATTAAACAAATATG
Found at i:36663672 original size:23 final size:23
Alignment explanation
Indices: 36663622--36663669 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
36663612 AATATTCGTG
** *
36663622 AACATTAAATTAATATGTTCGTA
1 AACATTAAACAAATATGTTAGTA
36663645 AACATTAAACAAATATGTTTAGTA
1 AACATTAAACAAATATG-TTAGTA
36663669 A
1 A
36663670 CATATTCATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.35
Consensus pattern (23 bp):
AACATTAAACAAATATGTTAGTA
Found at i:36669932 original size:7 final size:8
Alignment explanation
Indices: 36669915--36669941 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
36669905 TCTCTCTCTC
36669915 TTTTTCTT
1 TTTTTCTT
36669923 TTTTTCTT
1 TTTTTCTT
36669931 TTTTTCTT
1 TTTTTCTT
36669939 TTT
1 TTT
36669942 GTAATTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTCTT
Found at i:36672911 original size:28 final size:28
Alignment explanation
Indices: 36672880--36673090 Score: 109
Period size: 28 Copynumber: 7.2 Consensus size: 28
36672870 GAAAGCTTTC
36672880 TTTTCAGAGATTTGCCACAAAGGCATCA
1 TTTTCAGAGATTTGCCACAAAGGCATCA
* * * * * * * *
36672908 TTTTTATTCAGTACTCGCTAAAAAGGCTTCCC
1 TTTTCA--GAG-ATTTGCCACAAAGGCAT-CA
36672940 TTTT-AGAGATTTGCCACAAAGGCATCA
1 TTTTCAGAGATTTGCCACAAAGGCATCA
* * * * * **
36672967 TTTTCATTCAGTACTCGCCAAAAAGGCTTTT
1 TTTTCA--GAG-ATTTGCCACAAAGGCATCA
*
36672998 TTTTTAGAGATTTGCCACAAAGGCATCA
1 TTTTCAGAGATTTGCCACAAAGGCATCA
* * * * * **
36673026 TTTTCATTCAGTACTCGCCAAAAAGGCTTTT
1 TTTTCA--GAG-ATTTGCCACAAAGGCATCA
*
36673057 TTTTTAGAGATTTGCCACAAAGGCATCA
1 TTTTCAGAGATTTGCCACAAAGGCATCA
36673085 TTTTCA
1 TTTTCA
36673091 TTCAATACTC
Statistics
Matches: 125, Mismatches: 47, Indels: 22
0.64 0.24 0.11
Matches are distributed among these distances:
27 5 0.04
28 54 0.43
29 6 0.05
30 6 0.05
31 49 0.39
32 5 0.04
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (28 bp):
TTTTCAGAGATTTGCCACAAAGGCATCA
Found at i:36672933 original size:31 final size:31
Alignment explanation
Indices: 36672893--36673111 Score: 118
Period size: 31 Copynumber: 7.4 Consensus size: 31
36672883 TCAGAGATTT
*
36672893 GCCACAAAGGCATCATTTTTATTCAGTACTC
1 GCCAAAAAGGCATCATTTTTATTCAGTACTC
* * ** * * *
36672924 GCTAAAAAGGCTTCCCTTTTA--GAG-ATTT
1 GCCAAAAAGGCATCATTTTTATTCAGTACTC
* *
36672952 GCCACAAAGGCATCATTTTCATTCAGTACTC
1 GCCAAAAAGGCATCATTTTTATTCAGTACTC
* * * *
36672983 GCCAAAAAGGC-T--TTTTT-TTTAGAGATTT
1 GCCAAAAAGGCATCATTTTTATTCAG-TACTC
* *
36673011 GCCACAAAGGCATCATTTTCATTCAGTACTC
1 GCCAAAAAGGCATCATTTTTATTCAGTACTC
* * * *
36673042 GCCAAAAAGGC-T--TTTTT-TTTAGAGATTT
1 GCCAAAAAGGCATCATTTTTATTCAG-TACTC
* * *
36673070 GCCACAAAGGCATCATTTTCATTCAATACTC
1 GCCAAAAAGGCATCATTTTTATTCAGTACTC
* *
36673101 TCCACAAAGGC
1 GCCAAAAAGGC
36673112 TTTCTTTTAA
Statistics
Matches: 132, Mismatches: 43, Indels: 26
0.66 0.21 0.13
Matches are distributed among these distances:
27 8 0.06
28 49 0.37
29 4 0.03
30 4 0.03
31 60 0.45
32 7 0.05
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (31 bp):
GCCAAAAAGGCATCATTTTTATTCAGTACTC
Found at i:36672948 original size:59 final size:59
Alignment explanation
Indices: 36672865--36673546 Score: 787
Period size: 59 Copynumber: 11.7 Consensus size: 59
36672855 AACAGAGGTA
*
36672865 GCCACGAAA-GCTTT-CTTTTCAGAGATTTGCCACAAAGGCATCATTTTTATTCAGTACTC
1 GCCAC-AAAGGCTTTCCTTTT-AGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
* * *
36672924 GCTAAAAAGGCTTCCCTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
1 GCCACAAAGGCTTTCCTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
* **
36672983 GCCAAAAAGGCTTTTTTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
1 GCCACAAAGGCTTTCCTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
* ** *
36673042 GCCAAAAAGGCTTTTTTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAATACTC
1 GCCACAAAGGCTTTCCTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
* * * * *
36673101 TCCACAAAGGCTTT-CTTTTAAGTGATTTTCCACAAAATGCATCACTTTT-ATTTAGTACTC
1 GCCACAAAGGCTTTCCTTTT-AGAGATTTGCCAC-AAAGGCATCA-TTTTCATTCAGTACTC
* * * *
36673161 GTCACAAAGGCTTTCCTTTAAGAGATTTGCCACAAAGGTATCCTTTTCATTCAGTACTC
1 GCCACAAAGGCTTTCCTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
* * * * *
36673220 GCCACAAATGCTTTCCTTTCAAAGATTTTCCACAAAGGCATCCTTTTCATTCAGTACTC
1 GCCACAAAGGCTTTCCTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
* * *
36673279 GCCACAAAGGCTTTCCTTTAAGAGATTTTCCACAAAGGCATCCTTTTCATTCAGTACTC
1 GCCACAAAGGCTTTCCTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
* * * * *
36673338 GCCACAAAGGCTTTCCTTTAAGAGATTTTCCACAAAGGCATCCTTTTCATTCAATATTC
1 GCCACAAAGGCTTTCCTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
* * * * * *
36673397 GCCACAAAGGCTCTCCTTTCAAAGATTTGCCACAAAGACATCCTTTTCATTCAGTACTT
1 GCCACAAAGGCTTTCCTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
* * * * * *
36673456 GCCACAAA-G--TT-C----A-ATGATTTTCTACAAATGAATCATTTTCTTTTAGTACTC
1 GCCACAAAGGCTTTCCTTTTAGA-GATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
* *
36673507 GCCACAAAGGCTTTCCTTTTTGTAGGTTTGCCACAAAGGC
1 GCCACAAAGGCTTTCCTTTTAG-AGATTTGCCACAAAGGC
36673547 TTTCCTTTTC
Statistics
Matches: 544, Mismatches: 61, Indels: 35
0.85 0.10 0.05
Matches are distributed among these distances:
50 1 0.00
51 36 0.07
52 1 0.00
54 2 0.00
55 2 0.00
56 1 0.00
58 12 0.02
59 423 0.78
60 57 0.10
61 9 0.02
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.34
Consensus pattern (59 bp):
GCCACAAAGGCTTTCCTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
Found at i:36673432 original size:296 final size:296
Alignment explanation
Indices: 36672874--36673432 Score: 823
Period size: 296 Copynumber: 1.9 Consensus size: 296
36672864 AGCCACGAAA
* * * *
36672874 GCTTTCTTTTCAGAGATTTGCCACAAAGGCATCATTTTTATTCAGTACTCGCTAAAAAGGCTTCC
1 GCTTTCCTTTAAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTCGCCAAAAAGGCTTCC
* * ** *
36672939 CTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTCGCCAAAAAGGCTTTTTTTTTA
66 CTTTCAAAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTCGCCAAAAAGGCTTTCCTTTAA
** *
36673004 GAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTCGCCAAAAAGGCTTTTTTTTTAGAGATT
131 GAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTCGCCAAAAAGGCTTTCCTTTAAGAGATT
* * * * *
36673069 TGCCACAAAGGCATCATTTTCATTCAATACTCTCCACAAAGGCTTTCTTTTAAGTGATTTTCCAC
196 TGCCACAAAGGCATCATTTTCATTCAATACTCGCCACAAAGGCTTCCTTTCAAGAGATTTGCCAC
36673134 AAAATGCATCACTTTTATTTAGTACTCGTCACAAAG
261 AAAATGCATCACTTTTATTTAGTACTCGTCACAAAG
* * * * *
36673170 GCTTTCCTTTAAGAGATTTGCCACAAAGGTATCCTTTTCATTCAGTACTCGCCACAAATGCTTTC
1 GCTTTCCTTTAAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTCGCCAAAAAGGCTTCC
* * *
36673235 CTTTCAAAGATTTTCCACAAAGGCATCCTTTTCATTCAGTACTCGCCACAAAGGCTTTCCTTTAA
66 CTTTCAAAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTCGCCAAAAAGGCTTTCCTTTAA
* * *
36673300 GAGATTTTCCACAAAGGCATCCTTTTCATTCAGTACTCGCCACAAAGGCTTTCCTTTAAGAGATT
131 GAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTCGCCAAAAAGGCTTTCCTTTAAGAGATT
* * *
36673365 TTCCACAAAGGCATCCTTTTCATTCAATATTCGCCACAAAGGCTCTCCTTTCAA-AGATTTGCCA
196 TGCCACAAAGGCATCATTTTCATTCAATACTCGCCACAAAGGCT-TCCTTTCAAGAGATTTGCCA
36673429 CAAA
260 CAAA
36673433 GACATCCTTT
Statistics
Matches: 231, Mismatches: 31, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
296 224 0.97
297 7 0.03
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.34
Consensus pattern (296 bp):
GCTTTCCTTTAAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTCGCCAAAAAGGCTTCC
CTTTCAAAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTCGCCAAAAAGGCTTTCCTTTAA
GAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTCGCCAAAAAGGCTTTCCTTTAAGAGATT
TGCCACAAAGGCATCATTTTCATTCAATACTCGCCACAAAGGCTTCCTTTCAAGAGATTTGCCAC
AAAATGCATCACTTTTATTTAGTACTCGTCACAAAG
Found at i:36673444 original size:28 final size:28
Alignment explanation
Indices: 36673183--36673445 Score: 133
Period size: 28 Copynumber: 9.0 Consensus size: 28
36673173 TTCCTTTAAG
* *
36673183 AGATTTGCCACAAAGGTATCCTTTTCATTC
1 AGATTTGCCACAAAGGCATCCTTTTCA--A
* * * *
36673213 AGTACTCGCCACAAATGCTTTCC-TTTCAA
1 AG-ATTTGCCACAAAGGC-ATCCTTTTCAA
* *
36673242 AGATTTTCCACAAAGGCATCCTTTTCATTC
1 AGATTTGCCACAAAGGCATCCTTTTCA--A
* * *
36673272 AGTACTCGCCACAAAGGCTTTCC-TTT-AA
1 AG-ATTTGCCACAAAGGC-ATCCTTTTCAA
* *
36673300 GAGATTTTCCACAAAGGCATCCTTTTCATTC
1 -AGATTTGCCACAAAGGCATCCTTTTCA--A
* * *
36673331 AGTACTCGCCACAAAGGCTTTCC-TTT-AA
1 AG-ATTTGCCACAAAGGC-ATCCTTTTCAA
*
36673359 GAGATTTTCCACAAAGGCATCCTTTTCATTCA
1 -AGATTTGCCACAAAGGCATCCTTTTCA---A
* * *
36673391 ATATTCGCCACAAAGGC-TCTCCTTTCAA
1 AGATTTGCCACAAAGGCATC-CTTTTCAA
*
36673419 AGATTTGCCACAAAGACATCCTTTTCA
1 AGATTTGCCACAAAGGCATCCTTTTCA
36673446 TTCAGTACTT
Statistics
Matches: 172, Mismatches: 39, Indels: 46
0.67 0.15 0.18
Matches are distributed among these distances:
27 9 0.05
28 67 0.39
29 10 0.06
30 10 0.06
31 66 0.38
32 10 0.06
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.32
Consensus pattern (28 bp):
AGATTTGCCACAAAGGCATCCTTTTCAA
Found at i:36673495 original size:51 final size:51
Alignment explanation
Indices: 36673414--36673515 Score: 125
Period size: 51 Copynumber: 2.0 Consensus size: 51
36673404 AGGCTCTCCT
* *
36673414 TTCAAAGATTTGCCACAAAGACATCCTTTTCATTCAGTACTTGCCACAAAG
1 TTCAAAGATTTGCCACAAAGACATCATTTTCATTCAGTACTCGCCACAAAG
* * * * *
36673465 TTCAATGATTTTCTACAAATGA-ATCATTTTCTTTTAGTACTCGCCACAAAG
1 TTCAAAGATTTGCCACAAA-GACATCATTTTCATTCAGTACTCGCCACAAAG
36673516 GCTTTCCTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 41 0.95
52 2 0.05
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (51 bp):
TTCAAAGATTTGCCACAAAGACATCATTTTCATTCAGTACTCGCCACAAAG
Found at i:36673569 original size:29 final size:29
Alignment explanation
Indices: 36673508--36673585 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 29
36673498 TTAGTACTCG
** * **
36673508 CCACAAAGGCTTTCCTTTTTGTAGGTTTG
1 CCACAAAGGCTTTCCTTTTCATAAGTTCA
36673537 CCACAAAGGCTTTCCTTTTCATAAGTTCA
1 CCACAAAGGCTTTCCTTTTCATAAGTTCA
* *
36673566 CCACAAAGGTTTTTCTTTTC
1 CCACAAAGGCTTTCCTTTTC
36673586 TGACGTGTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (29 bp):
CCACAAAGGCTTTCCTTTTCATAAGTTCA
Found at i:36691979 original size:13 final size:14
Alignment explanation
Indices: 36691954--36691984 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
36691944 GAAGCAACAG
36691954 AGAAAAGAAAAGCC
1 AGAAAAGAAAAGCC
36691968 AGAAAA-AAAAGCC
1 AGAAAAGAAAAGCC
36691981 AGAA
1 AGAA
36691985 TAAAGTCTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.68, C:0.13, G:0.19, T:0.00
Consensus pattern (14 bp):
AGAAAAGAAAAGCC
Found at i:36692259 original size:15 final size:18
Alignment explanation
Indices: 36692226--36692260 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
36692216 TTTTATAGCC
36692226 AAAAATACAGAAAGAAAA
1 AAAAATACAGAAAGAAAA
36692244 AAAAAT-CA-AAAGAAAA
1 AAAAATACAGAAAGAAAA
36692260 A
1 A
36692261 GGAATCCCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 2 0.12
18 6 0.35
ACGTcount: A:0.80, C:0.06, G:0.09, T:0.06
Consensus pattern (18 bp):
AAAAATACAGAAAGAAAA
Found at i:36693149 original size:45 final size:45
Alignment explanation
Indices: 36693093--36693225 Score: 155
Period size: 44 Copynumber: 3.0 Consensus size: 45
36693083 TCAATCGGCT
* * **
36693093 CCACTGTAACTTAAGGGAGATAAGATTTGCCATCTTCGATCTGCC
1 CCACTGCAACTTCAGGGAGATAAGACCTGCCATCTTCGATCTGCC
* * *
36693138 CCACTGCAACTTCAGGGGGATAAGACCTG-CTTGC-TC-AGTCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACCTGCCAT-CTTCGA-TCTGCC
*
36693182 CCGCTGCAACTTCAGGGAGATAAGACCTGCCATCTTCGATCTGC
1 CCACTGCAACTTCAGGGAGATAAGACCTGCCATCTTCGATCTGC
36693226 TCCGCTACTG
Statistics
Matches: 73, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 37 0.51
45 34 0.47
46 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.26
Consensus pattern (45 bp):
CCACTGCAACTTCAGGGAGATAAGACCTGCCATCTTCGATCTGCC
Found at i:36693245 original size:44 final size:45
Alignment explanation
Indices: 36693081--36693231 Score: 164
Period size: 45 Copynumber: 3.4 Consensus size: 45
36693071 GAATTATCGG
* * * * * **
36693081 CTTCAATCGGCTCCACTGTAACTTAAGGGAGATAAGATTTGCCAT
1 CTTCGATCTGCTCCGCTGCAACTTCAGGGAGATAAGACCTGCCAT
* * * *
36693126 CTTCGATCTGCCCCACTGCAACTTCAGGGGGATAAGACCTG-CTT
1 CTTCGATCTGCTCCGCTGCAACTTCAGGGAGATAAGACCTGCCAT
36693170 GC-TC-AGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACCTGCCAT
1 -CTTCGA-TCTGCTCCGCTGCAACTTCAGGGAGATAAGACCTGCCAT
36693215 CTTCGATCTGCTCCGCT
1 CTTCGATCTGCTCCGCT
36693232 ACTGCTTAGG
Statistics
Matches: 88, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
43 1 0.01
44 37 0.42
45 49 0.56
46 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (45 bp):
CTTCGATCTGCTCCGCTGCAACTTCAGGGAGATAAGACCTGCCAT
Found at i:36693357 original size:131 final size:131
Alignment explanation
Indices: 36693214--36693693 Score: 768
Period size: 131 Copynumber: 3.7 Consensus size: 131
36693204 AGACCTGCCA
* * *
36693214 TCTTCGATCTGCTCCGCTACT-GCTTAGGGAGACCAA-ATCTGTAATTTCCAACCTATTCCACTA
1 TCTTCGATCTGCTCCACTA-TAGCTTAGGGAGA-TAAGATCTGTAGTTTCCAACCTATTCCACTA
* * * **
36693277 CTGAC-CAGGGACATAGGACTTGTGGCTTGAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTC
64 CTG-CTCAGGGAAATAGAACTTGTGGCTTAAATCTATTTCCCTACTCCTGGGGAAGATAAGATTC
*
36693341 ACCG
128 GCCG
**
36693345 TCTTCGATCTGCTCCACTATTTCTTAGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTACT
1 TCTTCGATCTGCTCCACTATAGCTTAGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTACT
36693410 GCTCAGGGAAATAGAACTTGTGGCTTAAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGCC
66 GCTCAGGGAAATAGAACTTGTGGCTTAAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGCC
36693475 G
131 G
*
36693476 TCTTCGATCTGCTCCACTATAGCTTACGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTACT
1 TCTTCGATCTGCTCCACTATAGCTTAGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTACT
*
36693541 GCTCAGGGAAATAGAACTTGTGGCTTAAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGCT
66 GCTCAGGGAAATAGAACTTGTGGCTTAAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGCC
36693606 G
131 G
* *
36693607 TCTTCGATCTACTCCACTATAGCTTAGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTGCT
1 TCTTCGATCTGCTCCACTATAGCTTAGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTACT
*
36693672 GCTCAGGGAAATAGGACTTGTG
66 GCTCAGGGAAATAGAACTTGTG
36693694 ATTTCACCAA
Statistics
Matches: 328, Mismatches: 18, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
130 4 0.01
131 324 0.99
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.31
Consensus pattern (131 bp):
TCTTCGATCTGCTCCACTATAGCTTAGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTACT
GCTCAGGGAAATAGAACTTGTGGCTTAAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGCC
G
Found at i:36693418 original size:44 final size:43
Alignment explanation
Indices: 36693370--36693680 Score: 149
Period size: 44 Copynumber: 7.1 Consensus size: 43
36693360 ACTATTTCTT
*
36693370 AGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTACTGCTC
1 AGGGAGATAAGATCTGTAGTTT-CAATCTATTCCACTACTGCTC
* * * * * *
36693414 AGGGAAAT-AGAACTTGTGGCTTAAATCTATTTCC-CTACTCCT-
1 AGGGAGATAAGATC-TGTAGTTTCAATCTA-TTCCACTACTGCTC
* ** * ** *
36693456 GGGGAAGATAAGAT-TCGCCGTCTTCGATCTGCTCCACTA-TAGCTT
1 AGGG-AGATAAGATCT-GTAGT-TTCAATCTATTCCACTACT-GCTC
* *
36693501 ACGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTACTGCTC
1 AGGGAGATAAGATCTGTAGTTT-CAATCTATTCCACTACTGCTC
* * * * * *
36693545 AGGGAAAT-AGAACTTGTGGCTTAAATCTATTTCC-CTACTCCT-
1 AGGGAGATAAGATC-TGTAGTTTCAATCTA-TTCCACTACTGCTC
* * * *
36693587 GGGGAAGATAAGAT-TCGCT-GTCTTCGATCTACTCCACTA-TAGCTT
1 AGGG-AGATAAGATCT-G-TAGT-TTCAATCTATTCCACTACT-GCTC
* *
36693632 AGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTGCTGCTC
1 AGGGAGATAAGATCTGTAGTTT-CAATCTATTCCACTACTGCTC
36693676 AGGGA
1 AGGGA
36693681 AATAGGACTT
Statistics
Matches: 192, Mismatches: 49, Indels: 52
0.66 0.17 0.18
Matches are distributed among these distances:
42 8 0.04
43 55 0.29
44 120 0.62
45 9 0.05
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (43 bp):
AGGGAGATAAGATCTGTAGTTTCAATCTATTCCACTACTGCTC
Found at i:36694934 original size:7 final size:7
Alignment explanation
Indices: 36694913--36694969 Score: 73
Period size: 7 Copynumber: 8.0 Consensus size: 7
36694903 CCTTAGCCTC
36694913 TTCATTT
1 TTCATTT
36694920 TT-ACTTT
1 TTCA-TTT
36694927 TTCATTT
1 TTCATTT
36694934 TTCATTT
1 TTCATTT
36694941 TTCA-TT
1 TTCATTT
36694947 TTCATTTTT
1 TTCA--TTT
36694956 TTCATTT
1 TTCATTT
36694963 TTCATTT
1 TTCATTT
36694970 CTTTTTTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
6 7 0.16
7 31 0.69
8 1 0.02
9 6 0.13
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (7 bp):
TTCATTT
Found at i:36694937 original size:21 final size:21
Alignment explanation
Indices: 36694913--36694977 Score: 80
Period size: 22 Copynumber: 3.1 Consensus size: 21
36694903 CCTTAGCCTC
*
36694913 TTCATTTTTACTTTTTCA-TTT
1 TTCATTTTT-CATTTTCATTTT
36694934 TTCATTTTTCATTTTCATTTTT
1 TTCATTTTTCATTTTCA-TTTT
*
36694956 TTCATTTTTCA-TTTCTTTTT
1 TTCATTTTTCATTTTCATTTT
36694976 TT
1 TT
36694978 TTTGACTCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
20 13 0.32
21 13 0.32
22 14 0.35
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.74
Consensus pattern (21 bp):
TTCATTTTTCATTTTCATTTT
Found at i:36694980 original size:16 final size:16
Alignment explanation
Indices: 36694924--36694974 Score: 72
Period size: 16 Copynumber: 3.3 Consensus size: 16
36694914 TCATTTTTAC
36694924 TTTTTCATTTTTCA--
1 TTTTTCATTTTTCATT
36694938 TTTTTCA-TTTTCATT
1 TTTTTCATTTTTCATT
36694953 TTTTTCATTTTTCATT
1 TTTTTCATTTTTCATT
36694969 TCTTTT
1 T-TTTT
36694975 TTTTTTGACT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
13 6 0.18
14 7 0.21
15 7 0.21
16 9 0.27
17 4 0.12
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTCATTTTTCATT
Found at i:36695901 original size:6 final size:6
Alignment explanation
Indices: 36695892--36695932 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
36695882 TTTCTCTCAT
* *
36695892 TTTTTA TTTTGA TTTTTTA TTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA -TTTTGA TTTTGA TTTTGA TTTTGA TTTT
36695933 TTTCCTTCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.76
Consensus pattern (6 bp):
TTTTGA
Found at i:36695906 original size:13 final size:13
Alignment explanation
Indices: 36695890--36695934 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
36695880 TTTTTCTCTC
36695890 ATTTTTTATTTTG
1 ATTTTTTATTTTG
36695903 ATTTTTTATTTTG
1 ATTTTTTATTTTG
*
36695916 A-TTTTGATTTTG
1 ATTTTTTATTTTG
36695928 ATTTTTT
1 ATTTTTT
36695935 TCCTTCTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.16, C:0.00, G:0.09, T:0.76
Consensus pattern (13 bp):
ATTTTTTATTTTG
Found at i:36695907 original size:12 final size:12
Alignment explanation
Indices: 36695892--36695933 Score: 66
Period size: 12 Copynumber: 3.4 Consensus size: 12
36695882 TTTCTCTCAT
36695892 TTTTTATTTTGA
1 TTTTTATTTTGA
36695904 TTTTTTATTTTGA
1 -TTTTTATTTTGA
*
36695917 TTTTGATTTTGA
1 TTTTTATTTTGA
36695929 TTTTT
1 TTTTT
36695934 TTCCTTCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 15 0.56
13 12 0.44
ACGTcount: A:0.14, C:0.00, G:0.10, T:0.76
Consensus pattern (12 bp):
TTTTTATTTTGA
Found at i:36695945 original size:25 final size:25
Alignment explanation
Indices: 36695891--36695945 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
36695881 TTTTCTCTCA
* * *
36695891 TTTTTTATTTTGATTTTTTATTTTG
1 TTTTTGATTTTGATTTTTTATCTTC
*
36695916 ATTTTGATTTTGATTTTTT-TCCTTC
1 TTTTTGATTTTGATTTTTTAT-CTTC
36695941 TTTTT
1 TTTTT
36695946 TTTTCTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.11, C:0.05, G:0.07, T:0.76
Consensus pattern (25 bp):
TTTTTGATTTTGATTTTTTATCTTC
Found at i:36698124 original size:22 final size:22
Alignment explanation
Indices: 36698107--36698157 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
36698097 TCCCAAATAT
36698107 CCAAAGAAAGACAACCAAACAAC
1 CCAAA-AAAGACAACCAAACAAC
*
36698130 CCAAAATAGACAACCAAACAAC
1 CCAAAAAAGACAACCAAACAAC
36698152 CCAAAA
1 CCAAAA
36698158 TAGTGATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.61, C:0.31, G:0.06, T:0.02
Consensus pattern (22 bp):
CCAAAAAAGACAACCAAACAAC
Found at i:36698158 original size:22 final size:22
Alignment explanation
Indices: 36698115--36698160 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
36698105 ATCCAAAGAA
36698115 AGACAACCAAACAACCCAAAAT
1 AGACAACCAAACAACCCAAAAT
36698137 AGACAACCAAACAACCCAAAAT
1 AGACAACCAAACAACCCAAAAT
36698159 AG
1 AG
36698161 TGATATAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.59, C:0.30, G:0.07, T:0.04
Consensus pattern (22 bp):
AGACAACCAAACAACCCAAAAT
Found at i:36703623 original size:30 final size:30
Alignment explanation
Indices: 36703589--36703667 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
36703579 GGTTGACATG
* **
36703589 TCCCTTTTCATAATTTGATAGCCGAAGTTA
1 TCCCTTTTCATAATTTGATAACCGAAGCAA
** * *
36703619 TCCCTTAACATAGTTTGATAATCGAAGCAA
1 TCCCTTTTCATAATTTGATAACCGAAGCAA
*
36703649 TCCCTTTTTATAATTTGAT
1 TCCCTTTTCATAATTTGAT
36703668 GGTTGTCACC
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.41
Consensus pattern (30 bp):
TCCCTTTTCATAATTTGATAACCGAAGCAA
Found at i:36703683 original size:30 final size:30
Alignment explanation
Indices: 36703648--36703807 Score: 112
Period size: 30 Copynumber: 5.3 Consensus size: 30
36703638 AATCGAAGCA
*
36703648 ATCCCTTTTTATAATTTGATGGT-TGTCACC
1 ATCCCTTTTCATAATTTGATGGTCT-TCACC
* **
36703678 GTCCCTTTTCATAATTCAATGGTCTTCACC
1 ATCCCTTTTCATAATTTGATGGTCTTCACC
***
36703708 ATCCCTTTTCATAATTTGATGG-CAGAAGCC
1 ATCCCTTTTCATAATTTGATGGTCTTCA-CC
* * * ***
36703738 ATCCCTTTTCA-AAGATCGATAG-CCAAAGCC
1 ATCCCTTTTCATAA-TTTGATGGTCTTCA-CC
* * *
36703768 ATCCCTTTTCATAGTTCGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCTTCACC
36703798 ATCCCTTTTC
1 ATCCCTTTTC
36703808 TTGAACGATA
Statistics
Matches: 104, Mismatches: 21, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
29 4 0.04
30 96 0.92
31 4 0.04
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.37
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATGGTCTTCACC
Found at i:36717044 original size:129 final size:129
Alignment explanation
Indices: 36716800--36717545 Score: 1201
Period size: 129 Copynumber: 5.8 Consensus size: 129
36716790 GTGAAGATAG
*
36716800 CAGATCTTGTCACCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
* *
36716865 AGGAAGCAGATTTAAGGCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTT-GAGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCATATATCCCTGGTCAGCAGTGGAATAGGTTAG-GAAATTA
*
36716929 CAGATCTTGCCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
* * * * * ** *
36716994 AAGAAGCAGATTTAAGCCATAAGTCCTATATCCCTGATCAGTAGCAGAATAGGTTGGGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCATATATCCCTGGTCAGCAGTGGAATAGGTTAGGAAATTA
* *
36717058 CAGATCTTGTCTCTCTAAGCAGTAGCGGAGCAGATCAAAGACGGCGAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
*
36717123 AGGAAGGAGATTTAAGCCACAAGTCATATATCCCTGGTCAGCAGTGGAATAGGTTAGGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCATATATCCCTGGTCAGCAGTGGAATAGGTTAGGAAATTA
* * *
36717187 CAGATTTTGTCTCCCTATGCAGTAGCGGAGCAGATCGAAGAC-GCTGAATCTTATCTTCAAGTCT
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGC-GAATCTTATCTTCAAGTGT
36717251 AAGGAAGCAGATTTAAGCCACAAGTCATATATCCCTGGTCAGCAGTGGAATAGGTTAGGAAATTA
65 AAGGAAGCAGATTTAAGCCACAAGTCATATATCCCTGGTCAGCAGTGGAATAGGTTAGGAAATTA
* * *
36717316 CAGATTTTGTCTCCCTATGCAGTAGCGGAGCAGATCGAAGAC-GCTGAATCTTATCTTCAAGTCT
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGC-GAATCTTATCTTCAAGTGT
36717380 AAGGAAGCAGATTTAAGCCACAAGTCATATATCCCTGGTCAGCAGTGGAATAGGTTAGGAAATTA
65 AAGGAAGCAGATTTAAGCCACAAGTCATATATCCCTGGTCAGCAGTGGAATAGGTTAGGAAATTA
* * *
36717445 CAGATTTTGTCTCCCTATGCAGTAGCGGAGCAGATCGAAGACGGTGAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
* * *
36717510 AGGAAGCAGATTTAAGCCACAAATCCTATCTCCCTG
66 AGGAAGCAGATTTAAGCCACAAGTCATATATCCCTG
36717546 AAGTTGTAGT
Statistics
Matches: 582, Mismatches: 32, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
128 2 0.00
129 578 0.99
130 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (129 bp):
CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
AGGAAGCAGATTTAAGCCACAAGTCATATATCCCTGGTCAGCAGTGGAATAGGTTAGGAAATTA
Found at i:36717609 original size:44 final size:44
Alignment explanation
Indices: 36717536--36717774 Score: 172
Period size: 44 Copynumber: 5.6 Consensus size: 44
36717526 CCACAAATCC
* * * *
36717536 TATCTCCCTGAAGTTGTAGTGGAGCGGATCAAAGTAATAGATCA
1 TATCTCCCTGAAGTTGCAGTAGAGCGGATCAAAGCAATAGATCT
* * * *
36717580 TATCTCTCTGAAGTTGCAGTAGAGTGGATC---GCATTAAATCT
1 TATCTCCCTGAAGTTGCAGTAGAGCGGATCAAAGCAATAGATCT
* * * * *
36717621 TATCTCCCTGAGGTTGCAGT-GAAGCAGATTAAAGCCGATA-ATCC
1 TATCTCCCTGAAGTTGCAGTAG-AGCGGATCAAAG-CAATAGATCT
* * * * * *
36717665 TATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGTAATAGGTCT
1 TATCTCCCTGAAGTTGCAGTAGAGCGGATCAAAGCAATAGATCT
* * *
36717709 TATCTCTCTGAAGTTGCAGTAGAGTGGATC---GC-ATCAGGTCT
1 TATCTCCCTGAAGTTGCAGTAGAGCGGATCAAAGCAAT-AGATCT
* *
36717750 TATCTCCCTGAGGTTGCAGTGGAGC
1 TATCTCCCTGAAGTTGCAGTAGAGC
36717775 ACACTGAGAA
Statistics
Matches: 152, Mismatches: 35, Indels: 19
0.74 0.17 0.09
Matches are distributed among these distances:
40 3 0.02
41 58 0.38
43 3 0.02
44 84 0.55
45 4 0.03
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTAGAGCGGATCAAAGCAATAGATCT
Found at i:36717650 original size:258 final size:249
Alignment explanation
Indices: 36716845--36717625 Score: 868
Period size: 258 Copynumber: 3.0 Consensus size: 249
36716835 CGAAGACGGC
* *
36716845 GAATCTTATCTTCAAG-TGTAAGGAAGCAGATTTAAGGCACAAGTCCTATATCCCTGGTCAGCAG
1 GAATCTTATCTTCAAGTTG-AAGGAAGCAGATTTAAGCCACAAGTCATATATCCCTGGTCAGCAG
* * *
36716909 TGGAATAGGTT-GAGAAATTACAGATCTTGCCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGG
65 TGGAATAGGTTAG-GAAATTACAGATTTTGTCTCCCTATGCAGTAGCGGAGCAGATCGAAGACGG
* * *
36716973 CGAATCTTATCTTCAAGTGTAAAGAAGCAGATTTAAGCCATAAGTCCTATATCCCTGATCAGTAG
129 TGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGA--AGTAG
** * *
36717038 CAGAATAGGTTGGG-AAATTACAGATCTTGTCTCTCTAAGCAGTAGCGGAGCAGA-TCAAAGA-C
192 CAG--T-GGAAGGGTAAATTACAGATCTTGTCTCTCT--GAAGTAGC--AGCAGAGT---GGATC
36717100 GGC-
247 -GCT
*
36717103 GAATCTTATCTTCAAG-TGTAAGGAAGGAGATTTAAGCCACAAGTCATATATCCCTGGTCAGCAG
1 GAATCTTATCTTCAAGTTG-AAGGAAGCAGATTTAAGCCACAAGTCATATATCCCTGGTCAGCAG
*
36717167 TGGAATAGGTTAGGAAATTACAGATTTTGTCTCCCTATGCAGTAGCGGAGCAGATCGAAGACGCT
65 TGGAATAGGTTAGGAAATTACAGATTTTGTCTCCCTATGCAGTAGCGGAGCAGATCGAAGACGGT
* *
36717232 GAATCTTATCTTCAAGTCTAAGGAAGCAGATTTAAGCCACAAGTCATATATCCCTG--GTCAGCA
130 GAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGAAGT-AGCA
* * * *
36717295 GTGGAATAGGTTAGGAAATTACAGATTTTGTCTCCCTATGCAGTAGCGGAGCAGA-TCGAAGA-C
194 GTGG-A-AGG---GTAAATTACAGATCTTGTCT--CTCTGAAGTAGC--AGCAGAGT-G--GATC
36717358 GCT
247 GCT
36717361 GAATCTTATCTTCAAGTCT-AAGGAAGCAGATTTAAGCCACAAGTCATATATCCCTGGTCAGCAG
1 GAATCTTATCTTCAAGT-TGAAGGAAGCAGATTTAAGCCACAAGTCATATATCCCTGGTCAGCAG
36717425 TGGAATAGGTTAGGAAATTACAGATTTTGTCTCCCTATGCAGTAGCGGAGCAGATCGAAGACGGT
65 TGGAATAGGTTAGGAAATTACAGATTTTGTCTCCCTATGCAGTAGCGGAGCAGATCGAAGACGGT
* * * *
36717490 GAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAATCCTATCTCCCTGAAGTTGTAG
130 GAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGAAGTAGCAG
* * * * * *
36717555 TGG-AGCGGATCAAAGTAATAGATCATATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATT
195 TGGAAG-GG-T-AAA-TTACAGATCTTGTCTCTCTGAAGTAGCAGCAGAGTGGATCGC--T
*
36717615 AAATCTTATCT
1 GAATCTTATCT
36717626 CCCTGAGGTT
Statistics
Matches: 461, Mismatches: 37, Indels: 54
0.84 0.07 0.10
Matches are distributed among these distances:
251 2 0.00
252 5 0.01
253 7 0.02
254 17 0.04
255 14 0.03
256 5 0.01
257 14 0.03
258 384 0.83
259 7 0.02
260 6 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (249 bp):
GAATCTTATCTTCAAGTTGAAGGAAGCAGATTTAAGCCACAAGTCATATATCCCTGGTCAGCAGT
GGAATAGGTTAGGAAATTACAGATTTTGTCTCCCTATGCAGTAGCGGAGCAGATCGAAGACGGTG
AATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGAAGTAGCAGT
GGAAGGGTAAATTACAGATCTTGTCTCTCTGAAGTAGCAGCAGAGTGGATCGCT
Found at i:36717808 original size:129 final size:129
Alignment explanation
Indices: 36717531--36717808 Score: 398
Period size: 129 Copynumber: 2.2 Consensus size: 129
36717521 TTAAGCCACA
36717531 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATCAAAGTAATAGATCATATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATCAAAGTAATAGATCATATCTCTCTGAAGTTG
* * * *
36717596 CAGTAGAGTGGATCGCATTAAATCTTATCTCCCTGAGGTTGCAGTGAAGCAGATTAAAGCCGAT
66 CAGTAGAGTGGATCGCATCAAATCTTATCTCCCTGAGGTTGCAGTGAAGCACATGAAAGACGAT
* * * *
36717660 AATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGTAATAGGTCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATCAAAGTAATAGATCATATCTCTCTGAAGTTG
** *
36717725 CAGTAGAGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCACACTGAGAAGAC-A
66 CAGTAGAGTGGATCGCATCAAATCTTATCTCCCTGAGGTTGCAGTGAAGCACA-TGA-AAGACGA
36717789 -
129 T
* * *
36717789 AGTCTTATCCCCCTGAAGTT
1 AATCCTATCTCCCTGAAGTT
36717809 ATAGCGTGGC
Statistics
Matches: 132, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
129 125 0.95
130 3 0.02
131 4 0.03
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29
Consensus pattern (129 bp):
AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATCAAAGTAATAGATCATATCTCTCTGAAGTTG
CAGTAGAGTGGATCGCATCAAATCTTATCTCCCTGAGGTTGCAGTGAAGCACATGAAAGACGAT
Found at i:36721875 original size:43 final size:43
Alignment explanation
Indices: 36721827--36721913 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
36721817 ACATAAGCCA
36721827 AATACACCTTACACTCTATCTGAATCAATTTCAAAGCCACTAG
1 AATACACCTTACACTCTATCTGAATCAATTTCAAAGCCACTAG
* *
36721870 AATACACCTTACCCTCTTTCTGAATCAATTTCAAAGCCACTAG
1 AATACACCTTACACTCTATCTGAATCAATTTCAAAGCCACTAG
36721913 A
1 A
36721914 GCAGAGATCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.29
Consensus pattern (43 bp):
AATACACCTTACACTCTATCTGAATCAATTTCAAAGCCACTAG
Found at i:36725501 original size:106 final size:106
Alignment explanation
Indices: 36725315--36725942 Score: 738
Period size: 106 Copynumber: 5.9 Consensus size: 106
36725305 TGTGTTTCTA
* * * * * * *
36725315 GTAGGTCATCGAGCCGTTTTAGAATTTTCGATATTAAATCAGCTAACT-AAAAAAAGCTTGGGTT
1 GTAGGTCATCGAGCTGTTTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAA-CTTAGGTT
* *
36725379 GCAATCTTAAATCAACTAAACTTTATAATATCAGTTATGAAT
65 GCGATCTTAAATCAACTAACCTTTATAATATCAGTTATGAAT
*
36725421 GTAGGTCATCGAGCTGTTTTAGGAGTTGCGATCTTAAATTAGCTAACTCAAAGAAACTTAGGTTG
1 GTAGGTCATCGAGCTGTTTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTG
* * *
36725486 CGATATTAAACCAACTAACCTTTATAATATCAATTATGAAT
66 CGATCTTAAATCAACTAACCTTTATAATATCAGTTATGAAT
** * * * *
36725527 GTAGGTCATCGATTTTTTTTAAGAGTTGCAATCTTAAATCAGCTAACTCAATGAAACTTAGGTTG
1 GTAGGTCATCGAGCTGTTTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTG
* * ** * **
36725592 AGATCTTAAATCAGCTAACCTTTATAATATCAACTGTGAGC
66 CGATCTTAAATCAACTAACCTTTATAATATCAGTTATGAAT
* * * * * * * *
36725633 ATAGGTCATCGAACTGTTTTTGGATTTGCAATCTTAAATTAGTTACCTCAAAGAAACTTAGGTTG
1 GTAGGTCATCGAGCTGTTTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTG
* * * * * *
36725698 CAATCCTAAATTAGCTAACCTTTATAATATCAGTTGTGAAC
66 CGATCTTAAATCAACTAACCTTTATAATATCAGTTATGAAT
* * * * * * *
36725739 ATGGGTCATCAAGTTGTTTTAGGAGTTGCGATATTAAATCATCTAACTCAAAGAAACTTAGGTTA
1 GTAGGTCATCGAGCTGTTTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTG
*** *
36725804 CGATCTTCGGTCAACTAACCTTTATAATATCAGCTA-GTAAT
66 CGATCTTAAATCAACTAACCTTTATAATATCAGTTATG-AAT
* *
36725845 GTAGATCATCGAGCTATTTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTG
1 GTAGGTCATCGAGCTGTTTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTG
*
36725910 CGATCTTAAATCAACTAACTTTTATAATATCAG
66 CGATCTTAAATCAACTAACCTTTATAATATCAG
36725943 CACTTTTAAA
Statistics
Matches: 438, Mismatches: 82, Indels: 4
0.84 0.16 0.01
Matches are distributed among these distances:
105 1 0.00
106 431 0.98
107 6 0.01
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (106 bp):
GTAGGTCATCGAGCTGTTTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTG
CGATCTTAAATCAACTAACCTTTATAATATCAGTTATGAAT
Found at i:36744192 original size:25 final size:25
Alignment explanation
Indices: 36744164--36744219 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
36744154 AAGCCCTTGG
*
36744164 GGCGAAATCTTTGAAAATCC-TATGT
1 GGCGAAATATTTGAAAATCCTTA-GT
***
36744189 GGCGTGTTATTTGAAAATCCTTAGT
1 GGCGAAATATTTGAAAATCCTTAGT
36744214 GGCGAA
1 GGCGAA
36744220 GTTATCTGGA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (25 bp):
GGCGAAATATTTGAAAATCCTTAGT
Found at i:36744361 original size:72 final size:71
Alignment explanation
Indices: 36744235--36744373 Score: 188
Period size: 72 Copynumber: 1.9 Consensus size: 71
36744225 CTGGAAAGCC
* * * * *
36744235 TTTGTGTCAAGTCATTTGGAAACCCGTATGGCAAATTCTGCGATGCCTACGTGGCGAGTTGTTAC
1 TTTGTGGCAAGTCATTTGCAAACCCGTATGGCAAATTCTACAATGCCTAAGTGGCGAGTTGTTAC
36744300 TCCATA
66 TCCATA
* ** *
36744306 TTTGTGGCAAGTCATTTGCAAAGCCTGTATGGTGAATTCTACAATGCGTAAGTGGCGAGTTGTTA
1 TTTGTGGCAAGTCATTTGCAAA-CCCGTATGGCAAATTCTACAATGCCTAAGTGGCGAGTTGTTA
36744371 CTC
65 CTC
36744374 TGCCTTTGTA
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
71 20 0.34
72 38 0.66
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (71 bp):
TTTGTGGCAAGTCATTTGCAAACCCGTATGGCAAATTCTACAATGCCTAAGTGGCGAGTTGTTAC
TCCATA
Found at i:36746924 original size:18 final size:19
Alignment explanation
Indices: 36746890--36746925 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
36746880 TTCTAATTAG
*
36746890 TTTTAAATGTTAATTATTC
1 TTTTAAATGTGAATTATTC
36746909 TTTTAAA-GTGAATTATT
1 TTTTAAATGTGAATTATT
36746926 AGTCATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (19 bp):
TTTTAAATGTGAATTATTC
Found at i:36748241 original size:39 final size:39
Alignment explanation
Indices: 36748182--36748300 Score: 159
Period size: 39 Copynumber: 3.1 Consensus size: 39
36748172 AACATGTTTT
* *
36748182 TGAGTGTTACGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGCGATATATGCTTGAATGTTATGTGATTATA
* * *
36748221 TGAGTATTGTGATATGTGCTTGAACGTTATGT-ACTTATA
1 TGAGTATTGCGATATATGCTTGAATGTTATGTGA-TTATA
* *
36748260 TGAGTATTGCAATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGCGATATATGCTTGAATGTTATGTGATTATA
36748299 TG
1 TG
36748301 TGTCATATGA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 66 0.97
40 1 0.01
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.44
Consensus pattern (39 bp):
TGAGTATTGCGATATATGCTTGAATGTTATGTGATTATA
Found at i:36748314 original size:39 final size:37
Alignment explanation
Indices: 36748192--36748322 Score: 147
Period size: 39 Copynumber: 3.4 Consensus size: 37
36748182 TGAGTGTTAC
*
36748192 GATATATGCTTGAATGTTATGTGATTATATGAGTATTGT
1 GATATATGCTTAAATGTTATGTGATTATATGAGTA-T-T
* * *
36748231 GATATGTGCTTGAACGTTATGT-ACTTATATGAGTATT
1 GATATATGCTTAAATGTTATGTGA-TTATATGAGTATT
*
36748268 GCAATATATGCTTAAATGTTATGTGATTATATGTGTCATAT
1 G--ATATATGCTTAAATGTTATGTGATTATATGAGT-AT-T
36748309 GATATATGCTTAAA
1 GATATATGCTTAAA
36748323 AGTGAATATG
Statistics
Matches: 80, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
37 2 0.03
38 2 0.03
39 71 0.89
40 3 0.04
41 2 0.03
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.44
Consensus pattern (37 bp):
GATATATGCTTAAATGTTATGTGATTATATGAGTATT
Found at i:36749688 original size:24 final size:23
Alignment explanation
Indices: 36749635--36749688 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
36749625 TTAGAATAAT
*
36749635 TTTGTA-TTAGTTTATTTTTCTT
1 TTTGTATTTAGTTTATTTTTCTC
* *
36749657 TTTATATTTAGTGTTATTTTTGTC
1 TTTGTATTTAGT-TTATTTTTCTC
36749681 TTTGTATT
1 TTTGTATT
36749689 GAAGTTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 5 0.19
23 5 0.19
24 16 0.62
ACGTcount: A:0.15, C:0.04, G:0.11, T:0.70
Consensus pattern (23 bp):
TTTGTATTTAGTTTATTTTTCTC
Found at i:36760696 original size:41 final size:42
Alignment explanation
Indices: 36760651--36760736 Score: 138
Period size: 41 Copynumber: 2.1 Consensus size: 42
36760641 AAGCATAAAG
*
36760651 CTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTG-AT
1 CTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGAAT
* *
36760692 CTGAATCAGGCTATAAGCCTAGCGGGCTAAGTGCCGGTGAAT
1 CTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGAAT
36760734 CTG
1 CTG
36760737 TTAAATTAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 36 0.88
42 5 0.12
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (42 bp):
CTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGAAT
Found at i:36767897 original size:41 final size:41
Alignment explanation
Indices: 36767840--36767948 Score: 191
Period size: 41 Copynumber: 2.6 Consensus size: 41
36767830 GACTATACAT
*
36767840 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
*
36767881 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
36767922 CTAGCAGGCTAAGTGCCGGTGAATCTG
1 CTAGCAGGCTAAGTGCCGGTG-ATCTG
36767949 TTAAATTAAG
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
41 60 0.92
42 5 0.08
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
Found at i:36774083 original size:12 final size:12
Alignment explanation
Indices: 36774054--36774090 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
36774044 TGTCATTTTT
36774054 TTTATT-TT-TA
1 TTTATTATTATA
*
36774064 TATATTATTATA
1 TTTATTATTATA
36774076 TTTATTATTATA
1 TTTATTATTATA
36774088 TTT
1 TTT
36774091 TTTAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 5 0.22
11 2 0.09
12 16 0.70
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTATTATTATA
Found at i:36774092 original size:37 final size:35
Alignment explanation
Indices: 36774025--36774094 Score: 86
Period size: 37 Copynumber: 1.9 Consensus size: 35
36774015 AAAATTTACA
* * *
36774025 TTTATATATTATTATTTCTTGTCATTTTTTTTATT
1 TTTATATATTATTATTTATTATCATATTTTTTATT
*
36774060 TTTATATATTATTATATTTATTATTATATTTTTTA
1 TTTATATATTA-T-TATTTATTATCATATTTTTTA
36774095 AAAAATATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 11 0.38
36 1 0.03
37 17 0.59
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (35 bp):
TTTATATATTATTATTTATTATCATATTTTTTATT
Found at i:36775003 original size:27 final size:29
Alignment explanation
Indices: 36774971--36775048 Score: 101
Period size: 27 Copynumber: 2.8 Consensus size: 29
36774961 ATATTTTTTT
*
36774971 TAAAAATTATATAAACTTATAATG-ATTA
1 TAAAAATTATATAAACTTATAAGGTATTA
36774999 TAAAAATTATA-AAACTTAT-AGGTATTA
1 TAAAAATTATATAAACTTATAAGGTATTA
36775026 TAAAAATTTATAATAAA-TTATAA
1 TAAAAA-TTAT-ATAAACTTATAA
36775049 AAATAATAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
26 2 0.05
27 18 0.41
28 15 0.34
29 5 0.11
30 4 0.09
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.38
Consensus pattern (29 bp):
TAAAAATTATATAAACTTATAAGGTATTA
Found at i:36775007 original size:9 final size:9
Alignment explanation
Indices: 36774971--36775130 Score: 88
Period size: 9 Copynumber: 17.0 Consensus size: 9
36774961 ATATTTTTTT
36774971 TAAAAATTA
1 TAAAAATTA
*
36774980 TATAAACTTA
1 TA-AAAATTA
**
36774990 TAATGATTA
1 TAAAAATTA
36774999 TAAAAATTA
1 TAAAAATTA
*
36775008 TAAAACTTA
1 TAAAAATTA
***
36775017 TAGGTATTA
1 TAAAAATTA
36775026 TAAAAATTTA
1 TAAAAA-TTA
36775036 TAATAAATTA
1 TAA-AAATTA
*
36775046 TAAAAATAA
1 TAAAAATTA
36775055 TAAAAA-TA
1 TAAAAATTA
* * *
36775063 TTTAAGATTT
1 -TAAAAATTA
*
36775073 TAAAATTTTA
1 TAAAA-ATTA
*
36775083 TATAAATTA
1 TAAAAATTA
*
36775092 TAAAAAATCA
1 T-AAAAATTA
* *
36775102 CACAAACTTA
1 TA-AAAATTA
*
36775112 TAAATATTA
1 TAAAAATTA
36775121 TAAAATATTA
1 TAAAA-ATTA
36775131 CAAGAAGAAA
Statistics
Matches: 108, Mismatches: 34, Indels: 17
0.68 0.21 0.11
Matches are distributed among these distances:
8 1 0.01
9 61 0.56
10 43 0.40
11 3 0.03
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.38
Consensus pattern (9 bp):
TAAAAATTA
Found at i:36776840 original size:18 final size:19
Alignment explanation
Indices: 36776793--36776840 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
36776783 TTATTTCAAA
36776793 ATTATAAAA-TATTAAAAT
1 ATTATAAAAGTATTAAAAT
* *
36776811 ATTAAAAAAAGTATTATAAT
1 ATT-ATAAAAGTATTAAAAT
36776831 -TTATAAAAGT
1 ATTATAAAAGT
36776841 GTTCAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 10 0.40
19 7 0.28
20 8 0.32
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (19 bp):
ATTATAAAAGTATTAAAAT
Found at i:36777729 original size:30 final size:32
Alignment explanation
Indices: 36777673--36777738 Score: 93
Period size: 31 Copynumber: 2.1 Consensus size: 32
36777663 TTCTTATAGA
*
36777673 TTGATGGATTTTTATTTGTTATGTTAATTTT-
1 TTGATGGATTTTTATTTGTGATGTTAATTTTC
36777704 TTGATGGATTTTGT-TTT-TGATGTTAATTTTC
1 TTGATGGATTTT-TATTTGTGATGTTAATTTTC
36777735 TTGA
1 TTGA
36777739 GTTTTTTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 12 0.38
31 19 0.59
32 1 0.03
ACGTcount: A:0.18, C:0.02, G:0.18, T:0.62
Consensus pattern (32 bp):
TTGATGGATTTTTATTTGTGATGTTAATTTTC
Found at i:36783343 original size:37 final size:37
Alignment explanation
Indices: 36783293--36783371 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
36783283 TTATTACGAA
* * *
36783293 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
36783330 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
36783367 GTCTT
1 GTCTT
36783372 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:36783568 original size:47 final size:47
Alignment explanation
Indices: 36783490--36783770 Score: 490
Period size: 47 Copynumber: 6.0 Consensus size: 47
36783480 CCCTTCGGGA
* * * * * *
36783490 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36783537 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36783584 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36783631 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36783678 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36783725 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
36783771 ACTACGAATC
Statistics
Matches: 224, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 224 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:36786138 original size:25 final size:25
Alignment explanation
Indices: 36786082--36786200 Score: 93
Period size: 25 Copynumber: 4.8 Consensus size: 25
36786072 GCTCTCTCTT
* *
36786082 GAGCCATATAATGGGAAGCTCATAT
1 GAGCCATATAACGGGAAGCTCATAA
* *
36786107 GAACCATATAACGGGAAGCTTATAA
1 GAGCCATATAACGGGAAGCTCATAA
* ** **
36786132 GAGCCATA-ATCAAGAAGCTCATGC
1 GAGCCATATAACGGGAAGCTCATAA
* *
36786156 GAGCCA-ATAATGGGTAGCTC-TGAA
1 GAGCCATATAACGGGAAGCTCAT-AA
36786180 GAGCCAT-TAATCGGGAAGCTC
1 GAGCCATATAA-CGGGAAGCTC
36786201 CGGATAGCCA
Statistics
Matches: 70, Mismatches: 20, Indels: 8
0.71 0.20 0.08
Matches are distributed among these distances:
23 2 0.03
24 32 0.46
25 36 0.51
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.20
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATAA
Found at i:36789163 original size:36 final size:36
Alignment explanation
Indices: 36789113--36789193 Score: 112
Period size: 36 Copynumber: 2.2 Consensus size: 36
36789103 TGACCAGATT
36789113 TAATATTAAATTAAA-TTAATA-AAATACTATCAAAA
1 TAATATTAAATTAAATTTAATATAAATA-TATCAAAA
*
36789148 TAAGTATTAAATTAAATTTAATATTAAATATATTAAAA
1 TAA-TATTAAATTAAATTTAATA-TAAATATATCAAAA
36789186 TAATATTA
1 TAATATTA
36789194 TTTTTGAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
35 3 0.07
36 12 0.29
37 11 0.27
38 10 0.24
39 5 0.12
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (36 bp):
TAATATTAAATTAAATTTAATATAAATATATCAAAA
Found at i:36789930 original size:14 final size:15
Alignment explanation
Indices: 36789913--36789941 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
36789903 TTAATTTAAG
36789913 TAATTTTA-TTAATC
1 TAATTTTACTTAATC
36789927 TAATTTTACTTAATC
1 TAATTTTACTTAATC
36789942 AAAATTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.55
Consensus pattern (15 bp):
TAATTTTACTTAATC
Found at i:36792573 original size:20 final size:20
Alignment explanation
Indices: 36792535--36792575 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
36792525 TGTCTTCTTT
*
36792535 CTATGTGTAGCATTTCCCTA
1 CTATGTGTAGCACTTCCCTA
36792555 CNTATGTGTAGC-CTTCCCTA
1 C-TATGTGTAGCACTTCCCTA
36792575 C
1 C
36792576 AAGTCTAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.17, C:0.29, G:0.15, T:0.37
Consensus pattern (20 bp):
CTATGTGTAGCACTTCCCTA
Found at i:36796977 original size:26 final size:26
Alignment explanation
Indices: 36796908--36796977 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 26
36796898 TTTAAAGCAC
* *
36796908 AAAAGTATATATAC-ATAAATATTTTT
1 AAAAATATATA-ACAATAAATATTATT
*
36796934 AAAAATATCATAAAAATAAA-ATTATT
1 AAAAATAT-ATAACAATAAATATTATT
36796960 AAAAATATATAGACAATA
1 AAAAATATATA-ACAATA
36796978 TTAGATTAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
25 3 0.08
26 26 0.70
27 8 0.22
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (26 bp):
AAAAATATATAACAATAAATATTATT
Found at i:36800999 original size:37 final size:37
Alignment explanation
Indices: 36800958--36801079 Score: 144
Period size: 37 Copynumber: 3.3 Consensus size: 37
36800948 TCCATTTGAA
36800958 AACACGCCAAATGCTCATAAGAACTCATCCACCTGAT
1 AACACGCCAAATGCTCATAAGAACTCATCCACCTGAT
* * * *
36800995 AACACGCCAATTGCTC-TGAAGAGCT-AGTGCAACC-GAA
1 AACACGCCAAATGCTCAT-AAGAACTCA-T-CCACCTGAT
36801032 AACACGCCAAATGCTCATAA-AAGCTCATCCACCTGAT
1 AACACGCCAAATGCTCATAAGAA-CTCATCCACCTGAT
36801069 AACACGCCAAA
1 AACACGCCAAA
36801080 ACAAGGAGTA
Statistics
Matches: 70, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
36 7 0.10
37 57 0.81
38 6 0.09
ACGTcount: A:0.39, C:0.31, G:0.14, T:0.16
Consensus pattern (37 bp):
AACACGCCAAATGCTCATAAGAACTCATCCACCTGAT
Found at i:36805209 original size:9 final size:9
Alignment explanation
Indices: 36805197--36805237 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
36805187 TTTTGGTTAA
36805197 AATTAACCG
1 AATTAACCG
*
36805206 AATTACCCG
1 AATTAACCG
36805215 AATTAACCG
1 AATTAACCG
*
36805224 AATTACCCG
1 AATTAACCG
36805233 AATTA
1 AATTA
36805238 TATGTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:36805220 original size:18 final size:18
Alignment explanation
Indices: 36805197--36805237 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
36805187 TTTTGGTTAA
36805197 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
36805215 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
36805233 AATTA
1 AATTA
36805238 TATGTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.24
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:36805272 original size:25 final size:26
Alignment explanation
Indices: 36805244--36805293 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
36805234 ATTATATGTT
*
36805244 TTTTATTTTTA-AACTTTAATTTTAG
1 TTTTAGTTTTAGAACTTTAATTTTAG
* *
36805269 TTTTAGTTTTAGAATTTTATTTTTA
1 TTTTAGTTTTAGAACTTTAATTTTA
36805294 TTTATTAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.26, C:0.02, G:0.06, T:0.66
Consensus pattern (26 bp):
TTTTAGTTTTAGAACTTTAATTTTAG
Found at i:36805336 original size:5 final size:5
Alignment explanation
Indices: 36805326--36805368 Score: 59
Period size: 5 Copynumber: 8.0 Consensus size: 5
36805316 TTATGATTGT
36805326 GTTGG GTTGG GTTGG GTTGG GTTGG GTAATTGG GTTGG GTTGG
1 GTTGG GTTGG GTTGG GTTGG GTTGG G---TTGG GTTGG GTTGG
36805369 ATACTTGGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 30 0.86
8 5 0.14
ACGTcount: A:0.05, C:0.00, G:0.56, T:0.40
Consensus pattern (5 bp):
GTTGG
Found at i:36805360 original size:18 final size:18
Alignment explanation
Indices: 36805321--36805389 Score: 72
Period size: 18 Copynumber: 3.9 Consensus size: 18
36805311 AATTTTTATG
*
36805321 ATTGTGTTGGGTTGGG--
1 ATTGGGTTGGGTTGGGTA
36805337 -TTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGGGTA
*
36805354 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGGGTA
* *
36805372 CTTGGGTTTGGATTGGGT
1 ATTGGG-TTGGGTTGGGT
36805390 TTAGGTGAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
15 14 0.32
18 21 0.48
19 9 0.20
ACGTcount: A:0.09, C:0.01, G:0.48, T:0.42
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGGTA
Found at i:36806098 original size:43 final size:43
Alignment explanation
Indices: 36806021--36806153 Score: 151
Period size: 43 Copynumber: 3.1 Consensus size: 43
36806011 AGCATATTGT
* ** * *
36806021 GGCATTTGTAGCTAGAATTGCCGCAAAAGATCATGTTCTTTAGC
1 GGCATTTGTAG-TAAAAGCGCCGCTAAAGATCATGTTCTATAGC
*
36806065 GGCATTTGTAGTAAAAGCGCCGCTAAATATCATGTTCTATAGC
1 GGCATTTGTAGTAAAAGCGCCGCTAAAGATCATGTTCTATAGC
* ** *
36806108 GGCGA-TTGTAATAAAAGCGTTGTTAAAGATCATGTTCTATAGC
1 GGC-ATTTGTAGTAAAAGCGCCGCTAAAGATCATGTTCTATAGC
36806151 GGC
1 GGC
36806154 GTTTTCCCAC
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
43 65 0.84
44 12 0.16
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (43 bp):
GGCATTTGTAGTAAAAGCGCCGCTAAAGATCATGTTCTATAGC
Found at i:36806154 original size:43 final size:44
Alignment explanation
Indices: 36806040--36806154 Score: 153
Period size: 43 Copynumber: 2.7 Consensus size: 44
36806030 AGCTAGAATT
* * *
36806040 GCCGCAAAAGATCATGTTCTTTAGCGGC-ATTTGTAGTAAAAGC
1 GCCGCTAAAGATCATGTTCTATAGCGGCGATTTGTAATAAAAGC
*
36806083 GCCGCTAAATATCATGTTCTATAGCGGCGA-TTGTAATAAAAGC
1 GCCGCTAAAGATCATGTTCTATAGCGGCGATTTGTAATAAAAGC
** *
36806126 GTTGTTAAAGATCATGTTCTATAGCGGCG
1 GCCGCTAAAGATCATGTTCTATAGCGGCG
36806155 TTTTCCCACA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 62 0.98
44 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (44 bp):
GCCGCTAAAGATCATGTTCTATAGCGGCGATTTGTAATAAAAGC
Found at i:36809111 original size:41 final size:42
Alignment explanation
Indices: 36809051--36809160 Score: 125
Period size: 41 Copynumber: 2.6 Consensus size: 42
36809041 AAAAATATTC
* *
36809051 GTGGCGTTTATGGGCAAAACGCCGCTATTG-CTTT-ACCTTTA
1 GTGGCGTTTAT-GGAAAAACGCCGCTATCGTCTTTAACCTTTA
* * *
36809092 GTGGCATTTATGAGAAAAACGCCGCTATCGTTTTTAACCTTTT
1 GTGGCGTTTATG-GAAAAACGCCGCTATCGTCTTTAACCTTTA
* *
36809135 GCGGCGTTTATGCAAAAACGCCGCTA
1 GTGGCGTTTATGGAAAAACGCCGCTA
36809161 ACGTTGCTCC
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
40 1 0.02
41 25 0.43
42 16 0.28
43 16 0.28
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.32
Consensus pattern (42 bp):
GTGGCGTTTATGGAAAAACGCCGCTATCGTCTTTAACCTTTA
Found at i:36811824 original size:44 final size:44
Alignment explanation
Indices: 36811776--36812016 Score: 161
Period size: 44 Copynumber: 5.7 Consensus size: 44
36811766 TACCTTGGGA
** * * *
36811776 AGATAAGATTCGCCGTCTTCGATCTGTTCCACTACTGCTTAGGG
1 AGATAAGATTCGCAATCTTCAACCTATTCCACTACTGCTTAGGG
* * * *
36811820 AGATAAGA-TCTGTAATTTTCAACCTATTCCACTGCTGCTCAGGG
1 AGATAAGATTC-GCAATCTTCAACCTATTCCACTACTGCTTAGGG
*
36811864 AGATAAGATTCACAATCTTCAACCTATTCCACTACTGAC-TAGGG
1 AGATAAGATTCGCAATCTTCAACCTATTCCACTACTG-CTTAGGG
* *
36811908 AGAT-AG----G--A--TTC-ACCAATTCCACTACTGAC-CAGGG
1 AGATAAGATTCGCAATCTTCAACCTATTCCACTACTG-CTTAGGG
* * * *
36811942 AGATAGGACTT-ACAATCTTCAACCTATTCCACTGCTGAC-CAGGG
1 AGATAAGA-TTCGCAATCTTCAACCTATTCCACTACTG-CTTAGGG
* * *
36811986 AGATAGGACTCACAATCTTCAACCTATTCCA
1 AGATAAGATTCGCAATCTTCAACCTATTCCA
36812017 TTGCTGACCA
Statistics
Matches: 161, Mismatches: 22, Indels: 28
0.76 0.10 0.13
Matches are distributed among these distances:
34 25 0.16
35 4 0.02
37 1 0.01
41 1 0.01
43 8 0.05
44 119 0.74
45 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (44 bp):
AGATAAGATTCGCAATCTTCAACCTATTCCACTACTGCTTAGGG
Found at i:36811974 original size:78 final size:78
Alignment explanation
Indices: 36811845--36811998 Score: 231
Period size: 78 Copynumber: 2.0 Consensus size: 78
36811835 TTTTCAACCT
* *
36811845 ATTCCACTGCTGCTCAGGGAGATAAGATTCACAATCTTCAACCTATTCCACTACTGACTAGGGAG
1 ATTCCACTACTGCTCAGGGAGATAAGATTCACAATCTTCAACCTATTCCACTACTGACCAGGGAG
*
36811910 ATAGGATTCACCA
66 ATAGGACTCACCA
* *
36811923 ATTCCACTACTGAC-CAGGGAGATAGGACTT-ACAATCTTCAACCTATTCCACTGCTGACCAGGG
1 ATTCCACTACTG-CTCAGGGAGATAAGA-TTCACAATCTTCAACCTATTCCACTACTGACCAGGG
36811986 AGATAGGACTCAC
64 AGATAGGACTCAC
36811999 AATCTTCAAC
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
78 66 0.96
79 3 0.04
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.24
Consensus pattern (78 bp):
ATTCCACTACTGCTCAGGGAGATAAGATTCACAATCTTCAACCTATTCCACTACTGACCAGGGAG
ATAGGACTCACCA
Found at i:36812022 original size:44 final size:44
Alignment explanation
Indices: 36811923--36812042 Score: 204
Period size: 44 Copynumber: 2.7 Consensus size: 44
36811913 GGATTCACCA
* *
36811923 ATTCCACTACTGACCAGGGAGATAGGACTTACAATCTTCAACCT
1 ATTCCACTGCTGACCAGGGAGATAGGACTCACAATCTTCAACCT
36811967 ATTCCACTGCTGACCAGGGAGATAGGACTCACAATCTTCAACCT
1 ATTCCACTGCTGACCAGGGAGATAGGACTCACAATCTTCAACCT
* *
36812011 ATTCCATTGCTGACCAGGGAGATAGGATTCAC
1 ATTCCACTGCTGACCAGGGAGATAGGACTCAC
36812043 CTATTCCATT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 72 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (44 bp):
ATTCCACTGCTGACCAGGGAGATAGGACTCACAATCTTCAACCT
Found at i:36812171 original size:44 final size:43
Alignment explanation
Indices: 36812123--36812403 Score: 291
Period size: 44 Copynumber: 6.4 Consensus size: 43
36812113 CTTCGATCTG
* * *
36812123 TTCCACTACTG-CTTAGGGAGATAAGATCTGTAATTTTCAACCTA
1 TTCCACTGCTGAC-TAGGGAGATAGGATCT-TAATCTTCAACCTA
**
36812167 TTCCACTGCTG-CTCAGGGAGATAGGATTCACAATCTTCAACCTA
1 TTCCACTGCTGACT-AGGGAGATAGGA-TCTTAATCTTCAACCTA
* * *
36812211 TTCCACTACTGACCAGGGAGATAAGA-CTTACAATCTTCAACCTA
1 TTCCACTGCTGACTAGGGAGATAGGATCTT--AATCTTCAACCTA
**
36812255 TTCCACTGCTGACTAGGGAGATAGGATTCACAATCTTCAACCTA
1 TTCCACTGCTGACTAGGGAGATAGGA-TCTTAATCTTCAACCTA
36812299 TTCCACTGCTGACTAGGGAGATAGGA-CTTACAATCTTCAACCTA
1 TTCCACTGCTGACTAGGGAGATAGGATCTT--AATCTTCAACCTA
* * **
36812343 TTCCACTGCTGACCAAGGAGATAGGATTCACAATCTTCAACCTA
1 TTCCACTGCTGACTAGGGAGATAGGA-TCTTAATCTTCAACCTA
** *
36812387 TTATAGTGCTGACTAGG
1 TTCCACTGCTGACTAGG
36812404 TGATGCGGAA
Statistics
Matches: 200, Mismatches: 26, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
42 2 0.01
43 1 0.00
44 192 0.96
45 3 0.01
46 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (43 bp):
TTCCACTGCTGACTAGGGAGATAGGATCTTAATCTTCAACCTA
Found at i:36812250 original size:88 final size:89
Alignment explanation
Indices: 36812123--36812388 Score: 418
Period size: 88 Copynumber: 3.0 Consensus size: 89
36812113 CTTCGATCTG
*
36812123 TTCCACTACTG-CTTAGGGAGATAAGATCTGT--AATTTTCAACCTATTCCACTGCTG-CTCAGG
1 TTCCACTACTGAC-TAGGGAGATAAGA-CT-TACAATCTTCAACCTATTCCACTGCTGACTCAGG
36812184 GAGATAGGATTCACAATCTTCAACCTA
63 GAGATAGGATTCACAATCTTCAACCTA
*
36812211 TTCCACTACTGACCAGGGAGATAAGACTTACAATCTTCAACCTATTCCACTGCTGACT-AGGGAG
1 TTCCACTACTGACTAGGGAGATAAGACTTACAATCTTCAACCTATTCCACTGCTGACTCAGGGAG
36812275 ATAGGATTCACAATCTTCAACCTA
66 ATAGGATTCACAATCTTCAACCTA
* * *
36812299 TTCCACTGCTGACTAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGAC-CAAGGAG
1 TTCCACTACTGACTAGGGAGATAAGACTTACAATCTTCAACCTATTCCACTGCTGACTCAGGGAG
36812363 ATAGGATTCACAATCTTCAACCTA
66 ATAGGATTCACAATCTTCAACCTA
36812387 TT
1 TT
36812389 ATAGTGCTGA
Statistics
Matches: 167, Mismatches: 6, Indels: 10
0.91 0.03 0.05
Matches are distributed among these distances:
86 1 0.01
87 2 0.01
88 161 0.96
89 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (89 bp):
TTCCACTACTGACTAGGGAGATAAGACTTACAATCTTCAACCTATTCCACTGCTGACTCAGGGAG
ATAGGATTCACAATCTTCAACCTA
Found at i:36812334 original size:132 final size:132
Alignment explanation
Indices: 36812158--36812403 Score: 390
Period size: 132 Copynumber: 1.9 Consensus size: 132
36812148 ATCTGTAATT
36812158 TTCAACCTATTCCACTGCTGCTCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTACTGA
1 TTCAACCTATTCCACTGCTGCTCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTACTGA
* *
36812223 CCAGGGAGATAAGACTT-ACAATCTTCAACCTATTCCACTGCTGACTAGGGAGATAGGATTCACA
66 CCAAGGAGATAAGA-TTCACAATCTTCAACCTATTACACTGCTGACTAGGGAGATAGGATTCACA
36812287 ATC
130 ATC
*
36812290 TTCAACCTATTCCACTGCTGACT-AGGGAGATAGGACTT-ACAATCTTCAACCTATTCCACTGCT
1 TTCAACCTATTCCACTGCTG-CTCAGGGAGATAGGA-TTCACAATCTTCAACCTATTCCACTACT
* * *
36812353 GACCAAGGAGATAGGATTCACAATCTTCAACCTATTATAGTGCTGACTAGG
64 GACCAAGGAGATAAGATTCACAATCTTCAACCTATTACACTGCTGACTAGG
36812404 TGATGCGGAA
Statistics
Matches: 105, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
131 2 0.02
132 99 0.94
133 4 0.04
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (132 bp):
TTCAACCTATTCCACTGCTGCTCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTACTGA
CCAAGGAGATAAGATTCACAATCTTCAACCTATTACACTGCTGACTAGGGAGATAGGATTCACAA
TC
Found at i:36812840 original size:31 final size:31
Alignment explanation
Indices: 36812802--36812895 Score: 163
Period size: 31 Copynumber: 3.0 Consensus size: 31
36812792 AGGCAAATTA
36812802 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
36812833 CAAGAGTAATTGAATCCTAATAAAAACTC-TT
1 CAAGAGTAATTGAATCCTAAT-AAAACTCTTT
36812864 CAAAGAGTAATTGAATCCTAATAAAACTCTTT
1 C-AAGAGTAATTGAATCCTAATAAAACTCTTT
36812896 AAAATTATCT
Statistics
Matches: 60, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
31 31 0.52
32 29 0.48
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.31
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:36813293 original size:44 final size:44
Alignment explanation
Indices: 36813230--36813375 Score: 238
Period size: 44 Copynumber: 3.3 Consensus size: 44
36813220 TCGTATCACT
*
36813230 AGGGAGATAGGATTCACAATCTTCAACCTATTCCACTACTGACC
1 AGGGAGATAGGACTCACAATCTTCAACCTATTCCACTACTGACC
* *
36813274 AGGGAGATAGGACTCACAATCTTCAACCTATTCCATTGCTGACC
1 AGGGAGATAGGACTCACAATCTTCAACCTATTCCACTACTGACC
* **
36813318 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTACTTTCC
1 AGGGAGATAGGACTCACAATCTTCAACCTATTCCACTACTGACC
36813362 AGGGAGATAGGACT
1 AGGGAGATAGGACT
36813376 AGTCTCTTCG
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 94 1.00
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (44 bp):
AGGGAGATAGGACTCACAATCTTCAACCTATTCCACTACTGACC
Found at i:36816256 original size:9 final size:9
Alignment explanation
Indices: 36816237--36816269 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
36816227 ATGCAAAGCT
36816237 AATGC-ATG
1 AATGCAATG
36816245 AATGCAATG
1 AATGCAATG
*
36816254 AATGCCATG
1 AATGCAATG
36816263 AATGCAA
1 AATGCAA
36816270 AAGAAGAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 5 0.23
9 17 0.77
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.21
Consensus pattern (9 bp):
AATGCAATG
Found at i:36817484 original size:23 final size:22
Alignment explanation
Indices: 36817448--36817491 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 22
36817438 AAATTATAAA
36817448 ATATAAAAAAATATATATGTAC
1 ATATAAAAAAATATATATGTAC
36817470 ATATAAGAAAAATATATATGTA
1 ATATAA-AAAAATATATATGTA
36817492 TGTGAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (22 bp):
ATATAAAAAAATATATATGTAC
Found at i:36817635 original size:37 final size:37
Alignment explanation
Indices: 36817594--36817670 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 37
36817584 TGAAACATAG
*
36817594 AAAATATATAAAAGTATGT-GTATATATATAT-TTATAA
1 AAAAT-TA-AAAAATATGTAGTATATATATATATTATAA
* *
36817631 AAAATTAAAAAATGTGTACGTATATGTATATATTATAA
1 AAAATTAAAAAATATGTA-GTATATATATATATTATAA
36817669 AA
1 AA
36817671 CGTATGTATG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
35 8 0.24
36 2 0.06
37 16 0.47
38 8 0.24
ACGTcount: A:0.52, C:0.01, G:0.09, T:0.38
Consensus pattern (37 bp):
AAAATTAAAAAATATGTAGTATATATATATATTATAA
Found at i:36818250 original size:23 final size:22
Alignment explanation
Indices: 36818207--36818264 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
36818197 AAAGGATATC
* *
36818207 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
36818228 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
36818251 TGCATATCATATCT
1 TACAAATCATATCT
36818265 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:36818613 original size:15 final size:16
Alignment explanation
Indices: 36818572--36818636 Score: 52
Period size: 15 Copynumber: 4.4 Consensus size: 16
36818562 CAAATATAAA
* *
36818572 TAAATAATGA-ATTGA
1 TAAATAATTATATTGT
*
36818587 TAAAT-ATAATATTGT
1 TAAATAATTATATTGT
36818602 T-AATCAA-TATATT-T
1 TAAAT-AATTATATTGT
36818616 TAAATAATTATATTG-
1 TAAATAATTATATTGT
36818631 TAAATA
1 TAAATA
36818637 TTTTTTGTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
14 10 0.24
15 30 0.73
16 1 0.02
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (16 bp):
TAAATAATTATATTGT
Found at i:36820752 original size:28 final size:25
Alignment explanation
Indices: 36820721--36820797 Score: 73
Period size: 28 Copynumber: 2.8 Consensus size: 25
36820711 AATAAATTCA
36820721 TTCAATTTTAAAAATATAAATAAATATT
1 TTCAATTTTAAAAA-ATAAA-AAATA-T
**
36820749 TTCAAAATTAAAAAGATTAAGAAAATAT
1 TTCAATTTTAAAAA-A-TAA-AAAATAT
*
36820777 TTAAATTTTAAAAAATAAAAA
1 TTCAATTTTAAAAAATAAAAA
36820798 TATGGGAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
25 3 0.07
26 3 0.07
27 1 0.02
28 25 0.61
29 8 0.20
30 1 0.02
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (25 bp):
TTCAATTTTAAAAAATAAAAAATAT
Found at i:36823683 original size:14 final size:15
Alignment explanation
Indices: 36823650--36823685 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
36823640 CCACTTGTTT
*
36823650 TTTTAATTTTATATA
1 TTTTAGTTTTATATA
36823665 TTTTAGTTTTATA-A
1 TTTTAGTTTTATATA
36823679 TTTTAGT
1 TTTTAGT
36823686 CACTTGTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (15 bp):
TTTTAGTTTTATATA
Found at i:36824669 original size:32 final size:32
Alignment explanation
Indices: 36824628--36824694 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
36824618 ATGAGAAAAG
36824628 ATTGTTTAAAATTGTGATTCCATGTCATTCTT
1 ATTGTTTAAAATTGTGATTCCATGTCATTCTT
36824660 ATTGTTTAAAATTGTGATTCCATGTCATTCTT
1 ATTGTTTAAAATTGTGATTCCATGTCATTCTT
36824692 ATT
1 ATT
36824695 CCTTTCCAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.51
Consensus pattern (32 bp):
ATTGTTTAAAATTGTGATTCCATGTCATTCTT
Found at i:36830557 original size:21 final size:20
Alignment explanation
Indices: 36830519--36830558 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
36830509 AATTTTAAAA
**
36830519 TATTTTTAAAATTCTTTTTT
1 TATTTTTAAAATAATTTTTT
36830539 TATTTTTAAAATAAATTTTT
1 TATTTTTAAAAT-AATTTTT
36830559 CGTGTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTT
Found at i:36834986 original size:24 final size:24
Alignment explanation
Indices: 36834921--36834990 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
36834911 CTAATAATTG
36834921 TAAAAATTATAATTATTTTTAAAT
1 TAAAAATTATAATTATTTTTAAAT
* * * * **
36834945 GAATAACTATTACAATTTTTAAAT
1 TAAAAATTATAATTATTTTTAAAT
*
36834969 TAAAAATTCTAATTATTTTTAA
1 TAAAAATTATAATTATTTTTAA
36834991 TTGTATAAGT
Statistics
Matches: 33, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (24 bp):
TAAAAATTATAATTATTTTTAAAT
Found at i:36859027 original size:17 final size:17
Alignment explanation
Indices: 36859007--36859039 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
36858997 TGATTGTTTG
36859007 TTTTTCTGTTTT-TTTTC
1 TTTTTCT-TTTTGTTTTC
36859024 TTTTTCTTTTTGTTTT
1 TTTTTCTTTTTGTTTT
36859040 AGGAAACCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (17 bp):
TTTTTCTTTTTGTTTTC
Found at i:36860414 original size:13 final size:13
Alignment explanation
Indices: 36860396--36860422 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
36860386 CCACATTAGT
36860396 AATCTATTAGTGG
1 AATCTATTAGTGG
36860409 AATCTATTAGTGG
1 AATCTATTAGTGG
36860422 A
1 A
36860423 TTAAGAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (13 bp):
AATCTATTAGTGG
Found at i:36865432 original size:20 final size:20
Alignment explanation
Indices: 36865398--36865435 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
36865388 CATCCATACC
36865398 ATTTGGCATACATTCAAAGG
1 ATTTGGCATACATTCAAAGG
36865418 ATTTGAGCATA-ATTCAAA
1 ATTTG-GCATACATTCAAA
36865436 CACACATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (20 bp):
ATTTGGCATACATTCAAAGG
Found at i:36868309 original size:47 final size:49
Alignment explanation
Indices: 36868250--36868343 Score: 129
Period size: 47 Copynumber: 1.9 Consensus size: 49
36868240 ATTACTTTAA
* * **
36868250 TATTAAATTAATATAATATTTA-T-CAAGATAAATTTAATATTAAACAT
1 TATTAAAATAATAGAATATTTACTACAAGATAAACATAATATTAAACAT
36868297 TATTAAAATAATAGAATATTTATCTACAAGATAAACATAATATTAAA
1 TATTAAAATAATAGAATATTTA-CTACAAGATAAACATAATATTAAA
36868344 TTTAATATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
47 20 0.50
49 1 0.03
50 19 0.47
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.38
Consensus pattern (49 bp):
TATTAAAATAATAGAATATTTACTACAAGATAAACATAATATTAAACAT
Found at i:36874321 original size:17 final size:17
Alignment explanation
Indices: 36874299--36874332 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
36874289 CATTATGCAT
*
36874299 GAAAAATATAAAAGACA
1 GAAAAATACAAAAGACA
36874316 GAAAAATACAAAAGACA
1 GAAAAATACAAAAGACA
36874333 TAATAGTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.09, G:0.12, T:0.09
Consensus pattern (17 bp):
GAAAAATACAAAAGACA
Found at i:36874661 original size:38 final size:38
Alignment explanation
Indices: 36874610--36874685 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
36874600 CCAAGACTAG
*
36874610 CCATCTTCCCAATTGAAATTGTAGACGACATAATAATC
1 CCATCTCCCCAATTGAAATTGTAGACGACATAATAATC
* *
36874648 CCATCTCCCCAATTGGAATTGTGGACGACATAATAATC
1 CCATCTCCCCAATTGAAATTGTAGACGACATAATAATC
36874686 TTTCTCAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (38 bp):
CCATCTCCCCAATTGAAATTGTAGACGACATAATAATC
Found at i:36877748 original size:26 final size:27
Alignment explanation
Indices: 36877718--36877773 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 27
36877708 TTTTTGAAAA
*
36877718 AAATGT-CTATTCGCATAATTTTTCCT
1 AAATGTACTATTCACATAATTTTTCCT
* *
36877744 AAATGTACCTATTCACGTAATTTTTTCT
1 AAATGTA-CTATTCACATAATTTTTCCT
36877772 AA
1 AA
36877774 CATTTATTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.24
28 19 0.76
ACGTcount: A:0.30, C:0.18, G:0.07, T:0.45
Consensus pattern (27 bp):
AAATGTACTATTCACATAATTTTTCCT
Found at i:36879870 original size:24 final size:24
Alignment explanation
Indices: 36879823--36879870 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
36879813 TAAGAATTTG
* *
36879823 AAAAATATATTATAAAATGTAATA
1 AAAAATAAATTATAAAATGAAATA
36879847 AAAAATAAATTATATAAAT-AAATA
1 AAAAATAAATTATA-AAATGAAATA
36879871 TAAATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (24 bp):
AAAAATAAATTATAAAATGAAATA
Found at i:36882731 original size:45 final size:45
Alignment explanation
Indices: 36882681--36882777 Score: 158
Period size: 45 Copynumber: 2.2 Consensus size: 45
36882671 GGTTATTTGT
*
36882681 GTTCATTAGTGTATACTTTGGGCCTACGAATTGTCACTTCGCATC
1 GTTCATTAGTGCATACTTTGGGCCTACGAATTGTCACTTCGCATC
* *
36882726 GTTCATTAGTGCATACTTTGGGCCTATGAATTGTCACTTTGCATC
1 GTTCATTAGTGCATACTTTGGGCCTACGAATTGTCACTTCGCATC
*
36882771 GTACATT
1 GTTCATT
36882778 CCATCACGCT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.39
Consensus pattern (45 bp):
GTTCATTAGTGCATACTTTGGGCCTACGAATTGTCACTTCGCATC
Found at i:36883457 original size:17 final size:17
Alignment explanation
Indices: 36883435--36883467 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
36883425 TGCGATTTAA
*
36883435 TTTTTTTTTTGTTTTTG
1 TTTTTTATTTGTTTTTG
36883452 TTTTTTATTTGTTTTT
1 TTTTTTATTTGTTTTT
36883468 TCGTTAATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.03, C:0.00, G:0.09, T:0.88
Consensus pattern (17 bp):
TTTTTTATTTGTTTTTG
Found at i:36886661 original size:18 final size:17
Alignment explanation
Indices: 36886635--36886668 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
36886625 GTTACTCTTG
36886635 TAAAATATTAAATTAAAA
1 TAAAATATT-AATTAAAA
*
36886653 TAAATTATTAATTAAA
1 TAAAATATTAATTAAA
36886669 TTCCAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAAATATTAATTAAAA
Found at i:36886971 original size:18 final size:20
Alignment explanation
Indices: 36886948--36886985 Score: 53
Period size: 18 Copynumber: 1.9 Consensus size: 20
36886938 TTACATGTAC
36886948 AAATAA-TTGAAA-AATAAA
1 AAATAACTTGAAACAATAAA
36886966 AAATAACTTTGAAACAATAA
1 AAATAAC-TTGAAACAATAA
36886986 TATTATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
20 6 0.35
21 5 0.29
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (20 bp):
AAATAACTTGAAACAATAAA
Found at i:36900977 original size:23 final size:23
Alignment explanation
Indices: 36900943--36901008 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
36900933 AATCTGAAAT
36900943 AATAATAAATAATAAATTTAAG-
1 AATAATAAATAATAAATTTAAGC
* *
36900965 AATAAATATATAATAAATCTAAGC
1 AAT-AATAAATAATAAATTTAAGC
*
36900989 TAATAATACATAA-AAATTTA
1 -AATAATAAATAATAAATTTA
36901009 TGATGTTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 3 0.08
23 23 0.62
24 8 0.22
25 3 0.08
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (23 bp):
AATAATAAATAATAAATTTAAGC
Found at i:36905523 original size:27 final size:27
Alignment explanation
Indices: 36905493--36905670 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
36905483 ATATTGAGTC
* * * *
36905493 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
36905520 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
36905547 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
36905575 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
36905602 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
36905629 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
36905656 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36905671 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:36905632 original size:82 final size:81
Alignment explanation
Indices: 36905514--36905669 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
36905504 TGCTATATAA
* *
36905514 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
36905579 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
36905596 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
36905660 CACTTAGTGC
65 CACTTAGTGC
36905670 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:36909315 original size:13 final size:13
Alignment explanation
Indices: 36909297--36909322 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36909287 GTTGAATAAA
36909297 GTAATAAAGTGAT
1 GTAATAAAGTGAT
36909310 GTAATAAAGTGAT
1 GTAATAAAGTGAT
36909323 AAGTAAGATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (13 bp):
GTAATAAAGTGAT
Found at i:36934672 original size:17 final size:18
Alignment explanation
Indices: 36934650--36934686 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
36934640 CTAAATTTAC
*
36934650 AACCTTAAACTC-TAAAA
1 AACCTTAAACCCTTAAAA
36934667 AACCTTAAACCCTTAAAA
1 AACCTTAAACCCTTAAAA
36934685 AA
1 AA
36934687 AGGTCGAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.54, C:0.24, G:0.00, T:0.22
Consensus pattern (18 bp):
AACCTTAAACCCTTAAAA
Found at i:36936488 original size:51 final size:51
Alignment explanation
Indices: 36936364--36936548 Score: 221
Period size: 51 Copynumber: 3.6 Consensus size: 51
36936354 GTGAAAGTGA
* *
36936364 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CCGA-AATGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATAGT-AT
* * * * * * *
36936414 AGGTCGCATGTGTAGTACCATGTGCAGACTACTATGCGTATCAGATAGTTT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATAGTAT
* * * *
36936465 TGATCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAA
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATAGTAT
*
36936516 TGGTCACATATGTAGTACTATGTGCAGGCTACT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACT
36936549 GTGTGAACTG
Statistics
Matches: 111, Mismatches: 22, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
50 34 0.31
51 75 0.68
52 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (51 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATAGTAT
Found at i:36936616 original size:45 final size:45
Alignment explanation
Indices: 36936560--36936648 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
36936550 TGTGAACTGA
* * *
36936560 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCT-AATTCCACCGG
1 ACATAATTGATTAATAAGGTGGTTACTATGTGCTGAA-TCCACCGG
36936605 ACATAATTGATTAATAAGGTGGTTACTATGTGCTGAATCCACCG
1 ACATAATTGATTAATAAGGTGGTTACTATGTGCTGAATCCACCG
36936649 AGTATCTGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 38 0.95
46 2 0.05
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (45 bp):
ACATAATTGATTAATAAGGTGGTTACTATGTGCTGAATCCACCGG
Found at i:36947140 original size:29 final size:29
Alignment explanation
Indices: 36947077--36947140 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
36947067 TCTTTTTCTC
* * *
36947077 TTAAAAATTGAGTTATTTCTCTAAATATT
1 TTAAAAATTGACTCATTTCCCTAAATATT
* * *
36947106 TAAAAAATTGACTCATTTCCCTAATTTTT
1 TTAAAAATTGACTCATTTCCCTAAATATT
36947135 TTAAAA
1 TTAAAA
36947141 TATGACATTT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (29 bp):
TTAAAAATTGACTCATTTCCCTAAATATT
Done.