Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 74 of 203
Found at i:23557117 original size:20 final size:20
Alignment explanation
Indices: 23557080--23557119 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
23557070 CGTAAAATGA
**
23557080 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATAATTTACT
*
23557100 TTTCTGTAAAATAATTTACT
1 TTTCTGAAAAATAATTTACT
23557120 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATAATTTACT
Found at i:23564796 original size:18 final size:18
Alignment explanation
Indices: 23564732--23564813 Score: 58
Period size: 19 Copynumber: 4.3 Consensus size: 18
23564722 AAATGACTTT
* *
23564732 TTTTTATAATTTTTAATATT
1 TTTTTATGATTTTT-ATA-A
* * *
23564752 TTTTTCTAATTTATTAGAA
1 TTTTTATGATTT-TTATAA
23564771 TTTATTAT-ATTATTTATAA
1 TTT-TTATGATT-TTTATAA
23564790 TTTTTATGATTTTTATAA
1 TTTTTATGATTTTTATAA
*
23564808 GTTTTA
1 TTTTTA
23564814 ATGAAATTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
18 16 0.31
19 17 0.33
20 17 0.33
21 2 0.04
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.65
Consensus pattern (18 bp):
TTTTTATGATTTTTATAA
Found at i:23564898 original size:10 final size:10
Alignment explanation
Indices: 23564885--23565103 Score: 60
Period size: 10 Copynumber: 22.4 Consensus size: 10
23564875 AATTTATTTG
23564885 ATTTTTAATA
1 ATTTTTAATA
*
23564895 ATTTTTAATG
1 ATTTTTAATA
* *
23564905 ATATTT-GTA
1 ATTTTTAATA
23564914 AGTTTTT-ATGA
1 A-TTTTTAAT-A
* *
23564925 TTTTTTTATA
1 ATTTTTAATA
23564935 A-TTTTAA-A
1 ATTTTTAATA
*
23564943 A-GTTTATATCA
1 ATTTTTA-AT-A
23564954 A-TTTTAAT-
1 ATTTTTAATA
23564962 A--TTTAATA
1 ATTTTTAATA
*
23564970 ATTCTTT-ATT
1 ATT-TTTAATA
23564980 ATTTTTAATAA
1 ATTTTTAAT-A
*
23564991 ATTTTT-ATG
1 ATTTTTAATA
*
23565000 ATTTTTTATA
1 ATTTTTAATA
*
23565010 AGTTTTTAAGA
1 A-TTTTTAATA
23565021 ATTTTT-ATA
1 ATTTTTAATA
* *
23565030 TTTTTTTATAA
1 ATTTTTAAT-A
*
23565041 AATTTTAA-A
1 ATTTTTAATA
*
23565050 TATTTTAAATA
1 -ATTTTTAATA
23565061 TATTTTT--TA
1 -ATTTTTAATA
*
23565070 CTTTTATAATTA
1 ATTTT-TAA-TA
23565082 A-TTTT-ATA
1 ATTTTTAATA
23565090 ATTTATTAA-A
1 ATTT-TTAATA
23565100 ATTT
1 ATTT
23565104 ATTATATTTA
Statistics
Matches: 157, Mismatches: 27, Indels: 50
0.67 0.12 0.21
Matches are distributed among these distances:
7 6 0.04
8 15 0.10
9 31 0.20
10 60 0.38
11 43 0.27
12 2 0.01
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:23564988 original size:20 final size:19
Alignment explanation
Indices: 23564963--23565027 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 19
23564953 AATTTTAATA
*
23564963 TTTAATAATTCTTTATTATT
1 TTTAATAATT-TTTATGATT
23564983 TTTAATAAATTTTTATGATT
1 TTTAAT-AATTTTTATGATT
* *
23565003 TTTTATAAGTTTTTAAGAATT
1 TTTAATAA-TTTTTATG-ATT
23565024 TTTA
1 TTTA
23565028 TATTTTTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
19 2 0.05
20 26 0.68
21 10 0.26
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTAATAATTTTTATGATT
Found at i:23565024 original size:30 final size:31
Alignment explanation
Indices: 23564981--23565040 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
23564971 TTCTTTATTA
23564981 TTTTTAATAAATTTTTATGA-TTTTTTATAAG
1 TTTTTAATAAATTTTTAT-ATTTTTTTATAAG
*
23565012 TTTTTAA-GAATTTTTATATTTTTTTATAA
1 TTTTTAATAAATTTTTATATTTTTTTATAA
23565041 AATTTTAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 1 0.04
30 19 0.70
31 7 0.26
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (31 bp):
TTTTTAATAAATTTTTATATTTTTTTATAAG
Found at i:23565055 original size:30 final size:30
Alignment explanation
Indices: 23564990--23565048 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
23564980 ATTTTTAATA
**
23564990 AATTTTTATGA-TTTTTTATAAGTTTTTAAG
1 AATTTTTAT-ATTTTTTTATAAAATTTTAAG
23565020 AATTTTTATATTTTTTTATAAAATTTTAA
1 AATTTTTATATTTTTTTATAAAATTTTAA
23565049 ATATTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (30 bp):
AATTTTTATATTTTTTTATAAAATTTTAAG
Found at i:23571884 original size:25 final size:22
Alignment explanation
Indices: 23571852--23571896 Score: 63
Period size: 25 Copynumber: 1.9 Consensus size: 22
23571842 TAGTTGAGGA
23571852 AATGTTGGTATGATAGCTTAGCCT
1 AATGTTGGTATG-T-GCTTAGCCT
23571876 AATGCTTGGTATGTGCTTAGC
1 AATG-TTGGTATGTGCTTAGC
23571897 TTGAAATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.35
24 5 0.25
25 8 0.40
ACGTcount: A:0.22, C:0.13, G:0.27, T:0.38
Consensus pattern (22 bp):
AATGTTGGTATGTGCTTAGCCT
Found at i:23574372 original size:17 final size:18
Alignment explanation
Indices: 23574350--23574393 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
23574340 TAAGATGATT
23574350 AAAAATAAAT-AACTAAC
1 AAAAATAAATAAACTAAC
*
23574367 AAAAATAAATAAACTAAT
1 AAAAATAAATAAACTAAC
*
23574385 AAAGATAAA
1 AAAAATAAA
23574394 CAAATAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (18 bp):
AAAAATAAATAAACTAAC
Found at i:23576562 original size:514 final size:514
Alignment explanation
Indices: 23575591--23576623 Score: 2041
Period size: 514 Copynumber: 2.0 Consensus size: 514
23575581 GCATATTAAT
23575591 ATTC-AATTACACAAAACTGTTAATCAAGCTGTATATAACTTCTTGTTCATCAAACAAATAAAGT
1 ATTCAAATTACACAAAACTGTTAATCAAGCTGTATATAACTTCTTGTTCATCAAACAAATAAAGT
*
23575655 TACTATTCATATGGTCAATTTTTTTTAAACTTTAGCCGAATATAATTTTATTTTATTTTACTAAT
66 TACTATTCATATGGTCAATTTTTTTTAAACTTTAGCCAAATATAATTTTATTTTATTTTACTAAT
23575720 GTCACATTTAACAATATTCAACATTTTCATACCAAACATACCAACACCAAATCCTATATATATAT
131 GTCACATTTAACAATATTCAACATTTTCATACCAAACATACCAACACCAAATCCTATATATATAT
23575785 ACATATATATATTAGTATTATTTATTCCCCCAATTGATCAAAGATCATTTGTAAGGCAAATTCTA
196 ACATATATATATTAGTATTATTTATTCCCCCAATTGATCAAAGATCATTTGTAAGGCAAATTCTA
23575850 TAAACAAGATTCATTATGCAAATAACCAATTTCAACTATCCTATAATCACAGTAACTCAATATAC
261 TAAACAAGATTCATTATGCAAATAACCAATTTCAACTATCCTATAATCACAGTAACTCAATATAC
23575915 AACTTTCACATAGTAAATGATAATCCAAATTTCAATCTCAATTACCAAATATAAAGACATTAAAT
326 AACTTTCACATAGTAAATGATAATCCAAATTTCAATCTCAATTACCAAATATAAAGACATTAAAT
23575980 TAGCATCTCAACCATTTACGAAACTTAGCCATATCATCAACCATAATATTTAATCAAAACATGAA
391 TAGCATCTCAACCATTTACGAAACTTAGCCATATCATCAACCATAATATTTAATCAAAACATGAA
23576045 ACCATTCATAACAAAATAAACAAGCCATTTTCATATGGCTTATTATATATACACACTTC
456 ACCATTCATAACAAAATAAACAAGCCATTTTCATATGGCTTATTATATATACACACTTC
23576104 ATTCAAATTACACAAAACTGTTAATCAAGCTGTATATAACTTCTTGTTCATCAAACAAATAAAGT
1 ATTCAAATTACACAAAACTGTTAATCAAGCTGTATATAACTTCTTGTTCATCAAACAAATAAAGT
*
23576169 TACTATTCATATGGTCAATTTTTTTTAAACTTTAGTCAAATATAATTTTATTTTATTTTACTAAT
66 TACTATTCATATGGTCAATTTTTTTTAAACTTTAGCCAAATATAATTTTATTTTATTTTACTAAT
23576234 GTCACATTTAACAATATTCAACATTTTCATACCAAACATACCAACACCAAATCCTATATATATAT
131 GTCACATTTAACAATATTCAACATTTTCATACCAAACATACCAACACCAAATCCTATATATATAT
23576299 ACATATATATATTAGTATTATTTATTCCCCCAATTGATCAAAGATCATTTGTAAGGCAAATTCTA
196 ACATATATATATTAGTATTATTTATTCCCCCAATTGATCAAAGATCATTTGTAAGGCAAATTCTA
23576364 TAAACAAGATTCATTATGCAAATAACCAATTTCAACTATCCTATAATCACAGTAACTCAATATAC
261 TAAACAAGATTCATTATGCAAATAACCAATTTCAACTATCCTATAATCACAGTAACTCAATATAC
23576429 AACTTTCACATAGTAAATGATAATCCAAATTTCAATCTCAATTACCAAATATAAAGACATTAAAT
326 AACTTTCACATAGTAAATGATAATCCAAATTTCAATCTCAATTACCAAATATAAAGACATTAAAT
23576494 TAGCATCTCAACCATTTACGAAACTTAGCCATATCATCAACCATAATATTTAATCAAAACATGAA
391 TAGCATCTCAACCATTTACGAAACTTAGCCATATCATCAACCATAATATTTAATCAAAACATGAA
23576559 ACCATTCATAACAAAATAAACAAGCCATTTTCATATGGCTTATTATATATACACACTTC
456 ACCATTCATAACAAAATAAACAAGCCATTTTCATATGGCTTATTATATATACACACTTC
23576618 ATTCAA
1 ATTCAA
23576624 TATATATATA
Statistics
Matches: 517, Mismatches: 2, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
513 4 0.01
514 513 0.99
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.34
Consensus pattern (514 bp):
ATTCAAATTACACAAAACTGTTAATCAAGCTGTATATAACTTCTTGTTCATCAAACAAATAAAGT
TACTATTCATATGGTCAATTTTTTTTAAACTTTAGCCAAATATAATTTTATTTTATTTTACTAAT
GTCACATTTAACAATATTCAACATTTTCATACCAAACATACCAACACCAAATCCTATATATATAT
ACATATATATATTAGTATTATTTATTCCCCCAATTGATCAAAGATCATTTGTAAGGCAAATTCTA
TAAACAAGATTCATTATGCAAATAACCAATTTCAACTATCCTATAATCACAGTAACTCAATATAC
AACTTTCACATAGTAAATGATAATCCAAATTTCAATCTCAATTACCAAATATAAAGACATTAAAT
TAGCATCTCAACCATTTACGAAACTTAGCCATATCATCAACCATAATATTTAATCAAAACATGAA
ACCATTCATAACAAAATAAACAAGCCATTTTCATATGGCTTATTATATATACACACTTC
Found at i:23589118 original size:23 final size:22
Alignment explanation
Indices: 23589075--23589118 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
23589065 TTCTAAGTCG
23589075 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
23589098 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
23589119 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:23589227 original size:45 final size:45
Alignment explanation
Indices: 23589163--23589251 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
23589153 AACAGATACT
* * *
23589163 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACAACCTTACTAATCAATGATGTC
*
23589208 CGGTGGAATCAGCACATAGCAATAACCTTACTAATCAATGATGT
1 CGGTGGAATCAGCACATAGCAACAACCTTACTAATCAATGATGT
23589252 TAGGTTCACA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACAACCTTACTAATCAATGATGTC
Found at i:23589320 original size:51 final size:51
Alignment explanation
Indices: 23589258--23589391 Score: 153
Period size: 51 Copynumber: 2.6 Consensus size: 51
23589248 ATGTTAGGTT
*
23589258 CACATAGTAGCCTGCACATAGTACTACACATGT-AACCATTACCATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGAACCA-AACCATCCGATA
* * * * * * * *
23589309 TACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGAACCAAACCATCCGATA
* *
23589360 CGCATAGTAGCCTGCACCTAGTACTACACATG
1 CACATAGTAGCCTGCACATAGTACTACACATG
23589392 CGACTTATCA
Statistics
Matches: 67, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
51 64 0.96
52 3 0.04
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACATGTGAACCAAACCATCCGATA
Found at i:23601109 original size:20 final size:19
Alignment explanation
Indices: 23601085--23601150 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
23601075 GATTCAATAA
23601085 AAAAACAAAAAAATCAAAAT
1 AAAAA-AAAAAAATCAAAAT
* *
23601105 CAAAAATAAAAAATCTAAAT
1 -AAAAAAAAAAAATCAAAAT
* *
23601125 AAAAATAAAAAATCTAAAT
1 AAAAAAAAAAAATCAAAAT
23601144 ATAAAAA
1 A-AAAAA
23601151 TGAAAATGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 20 0.49
20 16 0.39
21 5 0.12
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.17
Consensus pattern (19 bp):
AAAAAAAAAAAATCAAAAT
Found at i:23601128 original size:19 final size:19
Alignment explanation
Indices: 23601092--23601149 Score: 89
Period size: 19 Copynumber: 2.9 Consensus size: 19
23601082 TAAAAAAACA
*
23601092 AAAAAATCAAAATCAAAAAT
1 AAAAAATCTAAAT-AAAAAT
23601112 AAAAAATCTAAATAAAAAT
1 AAAAAATCTAAATAAAAAT
23601131 AAAAAATCTAAATATAAAA
1 AAAAAATCTAAATA-AAAA
23601150 ATGAAAATGA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 20 0.56
20 16 0.44
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAAAATCTAAATAAAAAT
Found at i:23601151 original size:14 final size:14
Alignment explanation
Indices: 23601093--23601165 Score: 53
Period size: 13 Copynumber: 5.4 Consensus size: 14
23601083 AAAAAAACAA
*
23601093 AAAAATCAAAAT-C
1 AAAAATCAAAATAT
*
23601106 AAAAAT-AAAAAAT
1 AAAAATCAAAATAT
** *
23601119 CTAAATAAAAATA-
1 AAAAATCAAAATAT
*
23601132 AAAAATCTAAATAT
1 AAAAATCAAAATAT
*
23601146 AAAAATGAAAATGAT
1 AAAAATCAAAAT-AT
23601161 AAAAA
1 AAAAA
23601166 AAGAAAAAGA
Statistics
Matches: 45, Mismatches: 11, Indels: 6
0.73 0.18 0.10
Matches are distributed among these distances:
12 4 0.09
13 19 0.42
14 15 0.33
15 7 0.16
ACGTcount: A:0.73, C:0.05, G:0.03, T:0.19
Consensus pattern (14 bp):
AAAAATCAAAATAT
Found at i:23602093 original size:48 final size:48
Alignment explanation
Indices: 23602022--23602117 Score: 149
Period size: 48 Copynumber: 2.0 Consensus size: 48
23602012 AAGGAGAAGG
* *
23602022 GACCAAGGTGAAAATCCACAAAGGGCGCTTTGATTCCTAAAAAA-AAAA
1 GACCAAGGTGAAAACCCACAAAGGGCGCTTTGAGT-CTAAAAAATAAAA
*
23602070 GACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCTAAAAAATAAAA
1 GACCAAGGTGAAAACCCACAAAGGGCGCTTTGAGTCTAAAAAATAAAA
23602118 AAAGTAAACA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
47 8 0.18
48 36 0.82
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.16
Consensus pattern (48 bp):
GACCAAGGTGAAAACCCACAAAGGGCGCTTTGAGTCTAAAAAATAAAA
Found at i:23602819 original size:35 final size:35
Alignment explanation
Indices: 23602768--23602835 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
23602758 AAAGGCTGAA
* *
23602768 AATCTAAGAAGGAAGAGTCTAAATTAAGACTATAT
1 AATCTAAGAAGAAAGAGTCAAAATTAAGACTATAT
*
23602803 AATCTAAGAATAAAGAGTCAAAATTAAGACTAT
1 AATCTAAGAAGAAAGAGTCAAAATTAAGACTAT
23602836 CTCTTTGGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.51, C:0.09, G:0.15, T:0.25
Consensus pattern (35 bp):
AATCTAAGAAGAAAGAGTCAAAATTAAGACTATAT
Found at i:23603558 original size:88 final size:88
Alignment explanation
Indices: 23603402--23604160 Score: 991
Period size: 88 Copynumber: 8.6 Consensus size: 88
23603392 GAAACCACAA
* *
23603402 AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAACAGATCTTGCATTCCTACACCGA
1 AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTACACCGA
23603467 CAGTGAAGCAGATCGAAGACACC
66 CAGTGAAGCAGATCGAAGACACC
* * ** * * * *
23603490 AGCCTTGCCTTCCTGGGTTGCAGCGGAGCAAGTTGAAAATAATAGATATTGTCTTCCTGCACCAA
1 AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTACACCGA
*
23603555 CAGTGAAGCAGATTGAAGACACC
66 CAGTGAAGCAGATCGAAGACACC
* * * * *
23603578 AGCCTTGCCTCCCTAGGTTGCAGCGGAACAGGTTAAAAATAGCAGATCTTGCCTTCTTGCACCGA
1 AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTACACCGA
*
23603643 CAG-CAAGCAGATCGAAGACACC
66 CAGTGAAGCAGATCGAAGACACC
* * * *
23603665 AGCCTTACCTCCCTGGGTTGTAGTGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCACCGA
1 AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTACACCGA
*
23603730 CAGCGAAGCAGATCGAAGACACC
66 CAGTGAAGCAGATCGAAGACACC
* * * *
23603753 AGTCTTCCCTCCTTGGGTTGCAGCGGAGCAAGTTGAAAATAGCAGATCTTGCCTTCCTACACCGA
1 AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTACACCGA
** *
23603818 CAACGAAGCAGATCAAAGACACC
66 CAGTGAAGCAGATCGAAGACACC
* * * * * *
23603841 AGCCTTGCCTCCCTAGGTTGCAGTGGAGCAGGTTGAAAATAGAAAATCTTGCTTTCTTACACCGA
1 AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTACACCGA
*
23603906 CAGTGAAGCAGATCGAAGACACT
66 CAGTGAAGCAGATCGAAGACACC
* * * **
23603929 AGCCTTGCCTCCTTGGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTATATTGA
1 AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTACACCGA
* *
23603994 CAGTGGAGCAGATCGAAGACACT
66 CAGTGAAGCAGATCGAAGACACC
* * * * ** **
23604017 AGCCTTGCCTCCCTAGGTTGCAGCAGAGCAGGTTGAATATGGCAGATCTTGCCTTCCTGTA-TTA
1 AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTACACCGA
*
23604081 GCAGCGAAGCAGATCGAAGACACC
66 -CAGTGAAGCAGATCGAAGACACC
* ** *
23604105 AGCCTTGCCTCCCTGGGTTACAGCGGAGCAGGTTGAAAGCACCAGATCTTGCCTTC
1 AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTC
23604161 TTCTATAAGC
Statistics
Matches: 586, Mismatches: 83, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
87 80 0.14
88 506 0.86
ACGTcount: A:0.27, C:0.26, G:0.25, T:0.22
Consensus pattern (88 bp):
AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTACACCGA
CAGTGAAGCAGATCGAAGACACC
Found at i:23603882 original size:263 final size:263
Alignment explanation
Indices: 23603402--23604162 Score: 1038
Period size: 263 Copynumber: 2.9 Consensus size: 263
23603392 GAAACCACAA
* *
23603402 AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAACAGATCTTGCATTCCTACACCGA
1 AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTACACCGA
* *
23603467 CAGTGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGGGTTGCAGCGGAGCAAGTTGAAAATAA
66 CAGTGAAGCAGATCGAAGACACCAGCCTT-CCCTCCTGGGTTGCAGCGGAGCAAGTTGAAAATAG
* * * * *
23603532 TAGATATTGTCTTCCTGCACCAACAGTGAAGCAGATTGAAGACACCAGCCTTGCCTCCCTAGGTT
130 CAGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTT
* * *
23603597 GCAGCGGAACAGGTTAAAAATAGCAGATCTTGCCTTCTTGCACCGACAG-CAAGCAGATCGAAGA
195 GCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCTTACACCGACAGTCAAGCAGATCGAAGA
23603661 CACC
260 CACC
* * * *
23603665 AGCCTTACCTCCCTGGGTTGTAGTGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCACCGA
1 AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTACACCGA
* *
23603730 CAGCGAAGCAGATCGAAGACACCAGTCTTCCCTCCTTGGGTTGCAGCGGAGCAAGTTGAAAATAG
66 CAGTGAAGCAGATCGAAGACACCAGCCTTCCCTCC-TGGGTTGCAGCGGAGCAAGTTGAAAATAG
* * * *
23603795 CAGATCTTGCCTTCCTACACCGACAACGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTAGGTT
130 CAGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTT
* * * * *
23603860 GCAGTGGAGCAGGTTGAAAATAGAAAATCTTGCTTTCTTACACCGACAGTGAAGCAGATCGAAGA
195 GCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCTTACACCGACAGTCAAGCAGATCGAAGA
*
23603925 CACT
260 CACC
* * * **
23603929 AGCCTTGCCTCCTTGGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTATATTGA
1 AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTACACCGA
* * * * * * * *
23603994 CAGTGGAGCAGATCGAAGACACTAGCCTTGCCTCCCTAGGTTGCAGCAGAGCAGGTTGAATATGG
66 CAGTGAAGCAGATCGAAGACACCAGCCTTCCCT-CCTGGGTTGCAGCGGAGCAAGTTGAAAATAG
* ** * *
23604059 CAGATCTTGCCTTCCTGTATTAGCAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
130 CAGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTT
* ** *
23604124 ACAGCGGAGCAGGTTGAAAGCACCAGATCTTGCCTTCTT
195 GCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCTT
23604163 CTATAAGCAA
Statistics
Matches: 431, Mismatches: 64, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
262 5 0.01
263 212 0.49
264 212 0.49
265 2 0.00
ACGTcount: A:0.27, C:0.26, G:0.25, T:0.22
Consensus pattern (263 bp):
AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTACACCGA
CAGTGAAGCAGATCGAAGACACCAGCCTTCCCTCCTGGGTTGCAGCGGAGCAAGTTGAAAATAGC
AGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTTG
CAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCTTACACCGACAGTCAAGCAGATCGAAGAC
ACC
Found at i:23604068 original size:44 final size:44
Alignment explanation
Indices: 23603581--23604158 Score: 165
Period size: 44 Copynumber: 13.2 Consensus size: 44
23603571 AGACACCAGC
* * *
23603581 CTTGCCTCCCTAGGTTGCAGCGGAACAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTAGGTTGCAGCGGAGCAGGTTGAAGATAGCAGAT
* * *** * * * * * *
23603625 CTTGCCT-TCTTGCACCGACAGC-AAGCAGATCGAAGACACCAG-C
1 CTTGCCTCCCTAG-GTTG-CAGCGGAGCAGGTTGAAGATAGCAGAT
* * * * *
23603668 CTTACCTCCCTGGGTTGTAGTGGAGCAGGTTGAAAATAGCAGAT
1 CTTGCCTCCCTAGGTTGCAGCGGAGCAGGTTGAAGATAGCAGAT
* *** * * * * *
23603712 CTTGCCTTCCT-GCACCGACAGCGAAGCAGATCGAAGACACCAG-T
1 CTTGCCTCCCTAG-GTTG-CAGCGGAGCAGGTTGAAGATAGCAGAT
* * * * *
23603756 CTTCCCTCCTTGGGTTGCAGCGGAGCAAGTTGAAAATAGCAGAT
1 CTTGCCTCCCTAGGTTGCAGCGGAGCAGGTTGAAGATAGCAGAT
* **** * * * ** * * *
23603800 CTTGCCTTCCTACACCGACAACGAAGCAGATCAAAGACACCAG-C
1 CTTGCCTCCCTAGGTTG-CAGCGGAGCAGGTTGAAGATAGCAGAT
* * * *
23603844 CTTGCCTCCCTAGGTTGCAGTGGAGCAGGTTGAAAATAGAAAAT
1 CTTGCCTCCCTAGGTTGCAGCGGAGCAGGTTGAAGATAGCAGAT
* * * **** * * * * * *
23603888 CTTGCTTTCTTACACCGACAGTGAAGCAGATCGAAGACA-CTAG-C
1 CTTGCCTCCCTAGGTTG-CAGCGGAGCAGGTTGAAGATAGC-AGAT
* *
23603932 CTTGCCTCCTTGGGTTGCAGCGGAGCAGGTTGAAGATAGCAGAT
1 CTTGCCTCCCTAGGTTGCAGCGGAGCAGGTTGAAGATAGCAGAT
* ** * * * * *
23603976 CTTGCCTTCCTATATTGACAGTGGAGCAGATCGAAGACA-CTAG-C
1 CTTGCCTCCCTAGGTTG-CAGCGGAGCAGGTTGAAGATAGC-AGAT
* * *
23604020 CTTGCCTCCCTAGGTTGCAGCAGAGCAGGTTGAATATGGCAGAT
1 CTTGCCTCCCTAGGTTGCAGCGGAGCAGGTTGAAGATAGCAGAT
* * * * * * * *
23604064 CTTGCCTTCCT-GTATTAGCAGCGAAGCAGATCGAAGACACCAG-C
1 CTTGCCTCCCTAG-GTT-GCAGCGGAGCAGGTTGAAGATAGCAGAT
* * * *
23604108 CTTGCCTCCCTGGGTTACAGCGGAGCAGGTTGAA-AGCACCAGAT
1 CTTGCCTCCCTAGGTTGCAGCGGAGCAGGTTGAAGA-TAGCAGAT
23604152 CTTGCCT
1 CTTGCCT
23604159 TCTTCTATAA
Statistics
Matches: 353, Mismatches: 157, Indels: 48
0.63 0.28 0.09
Matches are distributed among these distances:
42 3 0.01
43 112 0.32
44 145 0.41
45 93 0.26
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.22
Consensus pattern (44 bp):
CTTGCCTCCCTAGGTTGCAGCGGAGCAGGTTGAAGATAGCAGAT
Found at i:23604258 original size:44 final size:43
Alignment explanation
Indices: 23604192--23604445 Score: 259
Period size: 44 Copynumber: 5.9 Consensus size: 43
23604182 TCGAAGCTAA
* * *
23604192 TAATCCTATCTCCTTGGACAGCAGTGGAATAGGTTGTAGAGTG
1 TAATCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTG
* *
23604235 TGAATCCTATCTCCCTGGTCAGCAGTGGAATA----GAAAATTG
1 T-AATCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTG
* * *
23604275 TAAGTCTTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTG
1 TAA-TCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTG
* * * *
23604319 TGAGTCCTATCTCCCTAGACAGCAGTGGAACAGGTTGAAGATTA
1 T-AATCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTG
* * *
23604363 CATGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTG
1 TA-ATCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTG
*
23604407 TAGA-CCTTATCTCCCT-GAGCAACAGTGGAATAGGTTGAA
1 TA-ATCC-TATCTCCCTGGA-CAGCAGTGGAATAGGTTGAA
23604446 AATTACAAAT
Statistics
Matches: 176, Mismatches: 25, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
39 2 0.01
40 32 0.18
43 6 0.03
44 135 0.77
45 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (43 bp):
TAATCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTG
Found at i:23604404 original size:88 final size:86
Alignment explanation
Indices: 23604195--23604464 Score: 296
Period size: 88 Copynumber: 3.1 Consensus size: 86
23604185 AAGCTAATAA
* * * * *
23604195 TCCTATCTCCTTGGACAGCAGTGGAATAGGTTGTAGAGTGTGAATCCTATCTCCCTGGTCAGCAG
1 TCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCT-GACAGCAG
* **
23604260 TGG-AA--TAGAAAATTGTAAG
65 TGGAAAGGTTGAAAATTACAAG
* * *
23604279 TCTTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTAGACAGCAG
1 TCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCT-GACAGCAG
* *
23604344 TGGAACAGGTTGAAGATTACATG
65 TGGAA-AGGTTGAAAATTACAAG
* * *
23604367 TCCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGT-AGACCTTATCTCCCTGAGCAACA
1 TCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAGTCC-TATCTCCCTGA-CAGCA
*
23604431 GTGGAATAGGTTGAAAATTACAAA
64 GTGGAA-AGGTTGAAAATTACAAG
*
23604455 TCTTATCTCC
1 TCCTATCTCC
23604465 ATAAGCAATA
Statistics
Matches: 155, Mismatches: 25, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
84 59 0.38
85 1 0.01
86 1 0.01
87 6 0.04
88 88 0.57
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (86 bp):
TCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGACAGCAGT
GGAAAGGTTGAAAATTACAAG
Found at i:23604472 original size:44 final size:43
Alignment explanation
Indices: 23604279--23604479 Score: 134
Period size: 44 Copynumber: 4.6 Consensus size: 43
23604269 AAATTGTAAG
* ** * *** *
23604279 TCTTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGTGAG
1 TCTTATCTCCCTAG-CAACAGTGGAATAGGTTGAAAATTACAAA
* * * * **
23604323 TCCTATCTCCCTAGACAGCAGTGGAACAGGTTGAAGATTACATG
1 TCTTATCTCCCTAG-CAACAGTGGAATAGGTTGAAAATTACAAA
* * * ** *
23604367 TCCTATCTCCCTGGACAGCAGTGGAATAGGTT-AAAGATTGTAGA
1 TCTTATCTCCCTAG-CAACAGTGGAATAGGTTGAAA-ATTACAAA
*
23604411 CCTTATCTCCCTGAGCAACAGTGGAATAGGTTGAAAATTACAAA
1 TCTTATCTCCCT-AGCAACAGTGGAATAGGTTGAAAATTACAAA
* *
23604455 TCTTATCTCCATAAGCAATAGTGGA
1 TCTTATCTCCCT-AGCAACAGTGGA
23604480 GCAGATCGAA
Statistics
Matches: 127, Mismatches: 27, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
43 2 0.02
44 121 0.95
45 4 0.03
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (43 bp):
TCTTATCTCCCTAGCAACAGTGGAATAGGTTGAAAATTACAAA
Found at i:23604491 original size:132 final size:128
Alignment explanation
Indices: 23604239--23604491 Score: 278
Period size: 132 Copynumber: 1.9 Consensus size: 128
23604229 AGAGTGTGAA
* * **
23604239 TCCTATCTCCCTGGTCAGCAGTGGAATAGAAAATTGTAAGTCTTATCTCCCTGGTCAGTAGTGGA
1 TCCTATCTCCCTGGACAGCAGTGGAATAGAAAATTGTAAGCCTTATCTCCCTGGTCAACAGTGGA
* *** * * * * *
23604304 ATAGGTTGAAGATTGTGAGTCCTATCTCCCTAGACAGCAGTGGAACAGGTTGAAGATTACATG
66 ATAGGTTGAAAATTACAAATCCTATCTCCATAGACAACAGTGGAACAGATCGAAGATTACATG
23604367 TCCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGT-AGACCTTATCTCCCTGAG-CAAC
1 TCCTATCTCCCTGGACAGCAGTGGAATA-G--AAA-ATTGTAAG-CCTTATCTCCCTG-GTCAAC
* * *
23604430 AGTGGAATAGGTTGAAAATTACAAATCTTATCTCCATA-AGCAATAGTGGAGCAGATCGAAGA
60 AGTGGAATAGGTTGAAAATTACAAATCCTATCTCCATAGA-CAACAGTGGAACAGATCGAAGA
23604492 CGTGAATTTT
Statistics
Matches: 102, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
128 27 0.26
129 1 0.01
131 6 0.06
132 67 0.66
133 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (128 bp):
TCCTATCTCCCTGGACAGCAGTGGAATAGAAAATTGTAAGCCTTATCTCCCTGGTCAACAGTGGA
ATAGGTTGAAAATTACAAATCCTATCTCCATAGACAACAGTGGAACAGATCGAAGATTACATG
Found at i:23604625 original size:88 final size:88
Alignment explanation
Indices: 23604523--23604908 Score: 497
Period size: 88 Copynumber: 4.4 Consensus size: 88
23604513 CGAAGTAGAT
*
23604523 ACTAGCCTTGCCTCCCTGGGTTACAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCAC
1 ACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCA-
*
23604588 CT-ACAGTGAAGCAGATCGAAGAC
65 CTGACAGCGAAGCAGATCGAAGAC
* * * * *
23604611 ACTAGCCTTGCCTCCCTGGGTTGTAGTGGAGTAGGATGAAAATAGCAGATCTTGCCTTCTTGCAC
1 ACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCAC
23604676 TGACAGCGAAGCAGATCGAAGAC
66 TGACAGCGAAGCAGATCGAAGAC
* * * * * *
23604699 ACTAGCCTTGCCTCTCTGGGTTGCAGCGGAGCAGGTTGAAGATAGCAAATCTTGCCTTCTTGTAT
1 ACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCAC
** *
23604764 TGACAATGAAGCAGATCGAAAAC
66 TGACAGCGAAGCAGATCGAAGAC
* * * * * *
23604787 ACTAGCCTTGCCTCCTTTGGTTGTAGCAGAGCAGGTT-AAAGATGGCAGATCTTGCCTTCCTGTA
1 ACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAA-ATAGCAGATCTTGCCTTCCTGCA
* ** *
23604851 TTGGTAGCGAAGCAAATCGAAGAC
65 CTGACAGCGAAGCAGATCGAAGAC
*
23604875 ACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAG
1 ACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAG
23604909 TTGCAATAGA
Statistics
Matches: 257, Mismatches: 39, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
87 4 0.02
88 253 0.98
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (88 bp):
ACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCAC
TGACAGCGAAGCAGATCGAAGAC
Found at i:23604709 original size:44 final size:44
Alignment explanation
Indices: 23604661--23604799 Score: 120
Period size: 44 Copynumber: 3.2 Consensus size: 44
23604651 AATAGCAGAT
*
23604661 CTTGCCTTCTTGCACTGACAGCGAAGCAGATCGAAGACACTAGC
1 CTTGCCTTCTTGCATTGACAGCGAAGCAGATCGAAGACACTAGC
** * * * * * **
23604705 CTTGCC-TCTCTGGGTTG-CAGCGGAGCAGGTTGAAGATAGCAAAT
1 CTTGCCTTCT-TGCATTGACAGCGAAGCAGATCGAAGACA-CTAGC
* ** *
23604749 CTTGCCTTCTTGTATTGACAATGAAGCAGATCGAAAACACTAGC
1 CTTGCCTTCTTGCATTGACAGCGAAGCAGATCGAAGACACTAGC
23604793 CTTGCCT
1 CTTGCCT
23604800 CCTTTGGTTG
Statistics
Matches: 69, Mismatches: 22, Indels: 8
0.70 0.22 0.08
Matches are distributed among these distances:
43 20 0.29
44 32 0.46
45 17 0.25
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (44 bp):
CTTGCCTTCTTGCATTGACAGCGAAGCAGATCGAAGACACTAGC
Found at i:23605010 original size:44 final size:45
Alignment explanation
Indices: 23604931--23605345 Score: 172
Period size: 44 Copynumber: 9.6 Consensus size: 45
23604921 GGATCGCATT
* * * *
23604931 AGGTCTTATCTCCCTGAAGTTGTAGCGGAGTAGACTGAATA-AGC
1 AGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC
* * * *
23604975 AGGTTTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGC
1 AGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC
** * * ** **
23605020 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC
* * * * * ** * *
23605065 A-ATCCTATCTCCCTAAAGTTACAGCGGAGTGGATTAAAATGATAG-
1 AGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAA-GATAGC
** * ** *
23605110 A--TCTTATCTCTTTGAGGTTGCA-AAGAGCAGA-TCG--CAT--C
1 AGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGATAGC
* * * *
23605148 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCG--CAT--C
1 AGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGATAGC
* * *
23605188 AAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAATA-AGC
1 AGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC
* *
23605232 AGGTCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGC
1 AGGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC
* * * * ** **
23605277 -GAATCTTATCTCCCT-AAGGTTGTAGTGGAGCAGATTAAAGCCAAT
1 AG-GTCTTATCTCCCTGAA-GTTGCAGTGGAGCAGACTGAAGATAGC
*
23605322 A-ATCTTATCTCCCTGAAGTTGCAG
1 AGGTCTTATCTCCCTGAAGTTGCAG
23605346 CAGAACGGAT
Statistics
Matches: 285, Mismatches: 66, Indels: 40
0.73 0.17 0.10
Matches are distributed among these distances:
38 1 0.00
39 2 0.01
40 55 0.19
41 8 0.03
42 2 0.01
43 7 0.02
44 135 0.47
45 72 0.25
46 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (45 bp):
AGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC
Found at i:23605153 original size:40 final size:40
Alignment explanation
Indices: 23605108--23605211 Score: 147
Period size: 40 Copynumber: 2.6 Consensus size: 40
23605098 TTAAAATGAT
* *
23605108 AGATCTTATCTCTTTGAGGTTGCAAAGAGCAGATCGCATC
1 AGATCTTATCTCTCTGAAGTTGCAAAGAGCAGATCGCATC
*
23605148 AGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATC
1 AGATCTTATCTCTCTGAAGTTGCAAAGAGCAGATCGCATC
* *
23605188 A-AGTCTTATCTCCCTAAAGTTGCA
1 AGA-TCTTATCTCTCTGAAGTTGCA
23605212 GTGGAGCAGA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.02
40 57 0.98
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (40 bp):
AGATCTTATCTCTCTGAAGTTGCAAAGAGCAGATCGCATC
Found at i:23605293 original size:213 final size:211
Alignment explanation
Indices: 23604980--23605482 Score: 550
Period size: 213 Copynumber: 2.4 Consensus size: 211
23604970 TAAGCAGGTT
* * * *
23604980 TTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAATCTTAT-CTCCCTGAAGTTGCA
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA-A-AGCAAGTCTTATCCT-CCTGAAGTTGCA
* * * ** **
23605044 GTGGAGCAGA-TTAAAGCCAATAATCCTATCTCCCTAAAGTTACAGCGGAGTGGATTAAA-ATGA
63 GTGGGGCAGACTGAAAGCC-AGAATCCTATCTCCCTAAAGTTACAGCGGAGCAGATTAAAGACAA
** * * **
23605107 TAGATCTTATCTCTTTGAGGTTGCA-AAGAGCAGATC-GCATCAGATCTTATCTCTCTGAAGTTG
127 TA-ATCTTATCTCCCTGAAGTTGCAGAAGAACAGATCAAAAT--GATCTTATCTCTCTGAAGTTG
*
23605170 CAGAGAGCAGATCGCATCAAGTC
189 CAAAGAGCAGATCGCATCAAGTC
* *
23605193 TTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAATAAGCAGGTCTTATCCTCCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA-AAGCAAGTCTTATCCTCCTGAAGTTGCAGT
* * * ** * *
23605258 GGGGCAGACTGAAGATGGC-GAATCTTATCTCCCTAAGGTTGTAGTGGAGCAGATTAAAGCCAAT
65 GGGGCAGACTGAA-A-GCCAGAATCCTATCTCCCTAAAGTTACAGCGGAGCAGATTAAAGACAAT
* * *
23605322 AATCTTATCTCCCTGAAGTTGCAGCAGAACGGATTAAAATGATCTTATCTCTCTGAAGTTGCAAA
128 AATCTTATCTCCCTGAAGTTGCAGAAGAACAGATCAAAATGATCTTATCTCTCTGAAGTTGCAAA
23605387 GAGCAGATCGCATCAAGTC
193 GAGCAGATCGCATCAAGTC
* * * * *
23605406 TTATCTCCCTGAGGTTGCAGCGGAGTAGACTGGGAAAGCAAGTCTTATCCTTCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAAAGCAAGTCTTATCCTCCTGAAGTTGCAGT
23605471 GGGGCAGACTGA
65 GGGGCAGACTGA
23605483 GAATAGCAAA
Statistics
Matches: 244, Mismatches: 38, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
212 30 0.12
213 197 0.81
214 13 0.05
215 4 0.02
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (211 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAAGCAAGTCTTATCCTCCTGAAGTTGCAGTG
GGGCAGACTGAAAGCCAGAATCCTATCTCCCTAAAGTTACAGCGGAGCAGATTAAAGACAATAAT
CTTATCTCCCTGAAGTTGCAGAAGAACAGATCAAAATGATCTTATCTCTCTGAAGTTGCAAAGAG
CAGATCGCATCAAGTC
Found at i:23605450 original size:257 final size:256
Alignment explanation
Indices: 23604933--23605482 Score: 761
Period size: 257 Copynumber: 2.1 Consensus size: 256
23604923 ATCGCATTAG
* * * *
23604933 GTCTTATCTCCCTGAAGTTGTAGCGGAGTAGACTGAATAAGCAGGTTTTATCCCCCTGAAGTTGC
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGCAGGTCTTATCCCCCTGAAGTTGC
23604998 AGTGGGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA
66 AGTGGGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA
* ** * *
23605063 ATAATCCTATCTCCCTAAAGTTACAGCGGAGTGGATTAAAATGATAGATCTTATCTCTTTGAGGT
131 ATAATCCTATCTCCCTAAAGTTACAGCAGAACGGATTAAAA-GATAGATCTTATCTCTCTGAAGT
* * *
23605128 TGCAAAGAGCAGATCGCATCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCAA
195 TGCAAAGAGCAGATCGCATCAGATCTTATCTCCCTGAAGTTGCAGAGAGCAGATCGAAGCAA
* *
23605190 GTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAATAAGCAGGTCTTATCCTCCTGAAGTTGC
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGCAGGTCTTATCCCCCTGAAGTTGC
* *
23605255 AGTGGGGCAGACTGAAGATGGCGAATCTTATCTCCCT-AAGGTTGTAGTGGAGCAGATTAAAGCC
66 AGTGGGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAA-GTTGCAGTGGAGCAGATTAAAGCC
* * *
23605319 AATAATCTTATCTCCCTGAAGTTGCAGCAGAACGGATT-AAA-AT-GATCTTATCTCTCTGAAGT
130 AATAATCCTATCTCCCTAAAGTTACAGCAGAACGGATTAAAAGATAGATCTTATCTCTCTGAAGT
* * * *
23605381 TGCAAAGAGCAGATCGCATCA-AGTCTTATCTCCCTGAGGTTGCAGCGGAGTAGACTGGGAAAGC
195 TGCAAAGAGCAGATCGCATCAGA-TCTTATCTCCCTGAAGTTGCAG-AGAGCAGA-T-CG-AAGC
23605445 AA
255 AA
* *
23605447 GTCTTATC-CTTCTGAAGTTGCAGTGGGGCAGACTGA
1 GTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACTGA
23605483 GAATAGCAAA
Statistics
Matches: 260, Mismatches: 26, Indels: 14
0.87 0.09 0.05
Matches are distributed among these distances:
252 1 0.00
253 58 0.22
254 8 0.03
255 1 0.00
256 7 0.03
257 185 0.71
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (256 bp):
GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGCAGGTCTTATCCCCCTGAAGTTGC
AGTGGGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA
ATAATCCTATCTCCCTAAAGTTACAGCAGAACGGATTAAAAGATAGATCTTATCTCTCTGAAGTT
GCAAAGAGCAGATCGCATCAGATCTTATCTCCCTGAAGTTGCAGAGAGCAGATCGAAGCAA
Found at i:23605467 original size:44 final size:45
Alignment explanation
Indices: 23604933--23605497 Score: 163
Period size: 44 Copynumber: 13.1 Consensus size: 45
23604923 ATCGCATTAG
* * *
23604933 GTCTTATCTCCCTGAAGTTGTAGCGGAGTAGACT--GAATAAGCAG
1 GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAAT-AGCAA
* * * * *
23604977 GTTTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGA-AGATGGCAA
1 GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGA-ATAGCAA
* * *
23605022 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T--TAA-AGCCAATA
1 GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAATAG-C-A-A
* * * * ** * *
23605066 ATCCTATCTCCCTAAAGTTACAGCGGAGTGGA-TTAAAAT-G-ATA
1 GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAATAGCA-A
** * ** * *
23605109 GATCTTATCTCTTTGAGGTTGCA-AAGAGCAGA-T-CGCAT--C-A
1 G-TCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAATAGCAA
* * * *
23605149 GATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCAT--CAA
1 G-TCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAATAGCAA
* * *
23605190 GTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACT--GAATAAGCAG
1 GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAAT-AGCAA
* * *
23605234 GTCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGA-AGATGGCGAA
1 GTCTTATCTC-CCTGAAGTTGCAGCGGAGCAGACTGAGA-ATAGC-AA
* * *
23605280 -TCTTATCTCCCT-AAGGTTGTAGTGGAGCAGA-T--TAA-AGCCAATA
1 GTCTTATCTCCCTGAA-GTTGCAGCGGAGCAGACTGAGAATAG-C-A-A
* * * * * *
23605323 ATCTTATCTCCCTGAAGTTGCAGCAGAACGGA-TTAAAAT-G--A
1 GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAATAGCAA
* ** * *
23605364 -TCTTATCTCTCTGAAGTTGCA-AAGAGCAGA-T-CGCAT--CAA
1 GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAATAGCAA
* * *
23605403 GTCTTATCTCCCTGAGGTTGCAGCGGAGTAGACTGGGAA-AGCAA
1 GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAATAGCAA
* * *
23605447 GTCTTATC-CTTCTGAAGTTGCAGTGGGGCAGACTGAGAATAGCAA
1 GTCTTATCTC-CCTGAAGTTGCAGCGGAGCAGACTGAGAATAGCAA
*
23605492 ATCTTA
1 GTCTTA
23605498 CTTCCCTAGC
Statistics
Matches: 401, Mismatches: 76, Indels: 87
0.71 0.13 0.15
Matches are distributed among these distances:
38 2 0.00
39 8 0.02
40 96 0.24
41 21 0.05
42 9 0.02
43 17 0.04
44 165 0.41
45 71 0.18
46 12 0.03
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (45 bp):
GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAATAGCAA
Found at i:23606941 original size:16 final size:16
Alignment explanation
Indices: 23606921--23606967 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
23606911 TTAGTCTTTC
23606921 TTTTATTTTTATTTA-
1 TTTTATTTTTATTTAG
*
23606936 TGTTTATTTCCTATTTAG
1 T-TTTATTT-TTATTTAG
*
23606954 TTTTGTTTTTATTT
1 TTTTATTTTTATTT
23606968 CAATTTAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 1 0.04
16 12 0.46
17 12 0.46
18 1 0.04
ACGTcount: A:0.15, C:0.04, G:0.06, T:0.74
Consensus pattern (16 bp):
TTTTATTTTTATTTAG
Found at i:23614308 original size:10 final size:9
Alignment explanation
Indices: 23614288--23614352 Score: 52
Period size: 8 Copynumber: 7.8 Consensus size: 9
23614278 AATATAAATT
*
23614288 TTTTCAAAA
1 TTTTAAAAA
23614297 TTATTAAAAA
1 TT-TTAAAAA
23614307 TTTTAAAAA
1 TTTTAAAAA
23614316 -TTTAAAAA
1 TTTTAAAAA
*
23614324 --CTAAAAA
1 TTTTAAAAA
23614331 --TTAAAAA
1 TTTTAAAAA
23614338 -TTTAAAAA
1 TTTTAAAAA
*
23614346 TTATAAA
1 TTTTAAA
23614353 TATATAAATA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
7 12 0.24
8 15 0.31
9 14 0.29
10 8 0.16
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:23614319 original size:8 final size:8
Alignment explanation
Indices: 23614300--23614352 Score: 65
Period size: 8 Copynumber: 6.6 Consensus size: 8
23614290 TTCAAAATTA
23614300 TTAAAAATT
1 TTAAAAA-T
23614309 TTAAAAAT
1 TTAAAAAT
23614317 TTAAAAA-
1 TTAAAAAT
*
23614324 CTAAAAA-
1 TTAAAAAT
23614331 TTAAAAAT
1 TTAAAAAT
23614339 TTAAAAAT
1 TTAAAAAT
23614347 TATAAA
1 T-TAAA
23614353 TATATAAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
7 12 0.30
8 17 0.43
9 11 0.28
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (8 bp):
TTAAAAAT
Found at i:23614338 original size:7 final size:7
Alignment explanation
Indices: 23614299--23614353 Score: 56
Period size: 7 Copynumber: 7.3 Consensus size: 7
23614289 TTTCAAAATT
23614299 ATTAAAA
1 ATTAAAA
23614306 ATTTTAAAA
1 A--TTAAAA
23614315 ATTTAAAA
1 A-TTAAAA
*
23614323 ACTAAAA
1 ATTAAAA
23614330 ATTAAAA
1 ATTAAAA
23614337 ATTTAAAA
1 A-TTAAAA
*
23614345 ATTATAA
1 ATTAAAA
23614352 AT
1 AT
23614354 ATATAAATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
7 20 0.48
8 15 0.36
9 7 0.17
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (7 bp):
ATTAAAA
Found at i:23614353 original size:15 final size:15
Alignment explanation
Indices: 23614299--23614353 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
23614289 TTTCAAAATT
23614299 ATTAAAAATTTTAAAA
1 ATTAAAAA-TTTAAAA
*
23614315 ATTTAAAAA-CTAAAA
1 A-TTAAAAATTTAAAA
23614330 ATTAAAAATTTAAAA
1 ATTAAAAATTTAAAA
*
23614345 ATTATAAAT
1 ATTAAAAAT
23614354 ATATAAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
14 7 0.21
15 19 0.56
16 1 0.03
17 7 0.21
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (15 bp):
ATTAAAAATTTAAAA
Found at i:23614361 original size:15 final size:15
Alignment explanation
Indices: 23614299--23614361 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
23614289 TTTCAAAATT
*
23614299 ATTAAAAATTTTAAAA
1 ATTAAAAA-TATAAAA
*
23614315 ATTTAAAAA-CTAAAA
1 A-TTAAAAATATAAAA
*
23614330 ATTAAAAATTTAAAA
1 ATTAAAAATATAAAA
* *
23614345 ATTATAAATATATAA
1 ATTAAAAATATAAAA
23614360 AT
1 AT
23614362 ATTACTAACT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
14 7 0.17
15 25 0.62
16 1 0.03
17 7 0.17
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (15 bp):
ATTAAAAATATAAAA
Found at i:23616147 original size:38 final size:38
Alignment explanation
Indices: 23616096--23616170 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
23616086 AGAAAATCTG
23616096 CCATTTACTTCCAAACTGGAATTGTAAGTCATTTCTTT
1 CCATTTACTTCCAAACTGGAATTGTAAGTCATTTCTTT
*
23616134 CCATTTACTTCCAAATTGGAATTGTAAGTCATTTCTT
1 CCATTTACTTCCAAACTGGAATTGTAAGTCATTTCTT
23616171 AAAAAATCGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.43
Consensus pattern (38 bp):
CCATTTACTTCCAAACTGGAATTGTAAGTCATTTCTTT
Found at i:23617595 original size:23 final size:22
Alignment explanation
Indices: 23617543--23617620 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 22
23617533 TCATGACATT
*
23617543 TAATGAA-ATAATAAC-ATAAA
1 TAATGAATAAAATAACAATAAA
* *
23617563 TAATAAAATAAAATGACAATAATA
1 TAAT-GAATAAAATAACAATAA-A
* *
23617587 TAATGAATACAATAATAATAAA
1 TAATGAATAAAATAACAATAAA
*
23617609 TAATGAAAAAAA
1 TAATGAATAAAA
23617621 ATATTCAATT
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
20 4 0.09
21 2 0.04
22 17 0.38
23 17 0.38
24 5 0.11
ACGTcount: A:0.67, C:0.04, G:0.05, T:0.24
Consensus pattern (22 bp):
TAATGAATAAAATAACAATAAA
Found at i:23619441 original size:14 final size:14
Alignment explanation
Indices: 23619422--23619449 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23619412 TAATTAATGG
23619422 ATTTATTTTTGTTT
1 ATTTATTTTTGTTT
23619436 ATTTATTTTTGTTT
1 ATTTATTTTTGTTT
23619450 GGGTCGGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (14 bp):
ATTTATTTTTGTTT
Found at i:23631789 original size:19 final size:19
Alignment explanation
Indices: 23631749--23631791 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
23631739 AATTCTGTAG
*
23631749 AGAAATGAAAATAAATCTA
1 AGAAATGAAAATAAATCAA
*
23631768 AGAAATGAAGATAAAAT-AA
1 AGAAATGAAAAT-AAATCAA
23631787 AGAAA
1 AGAAA
23631792 GATGTAGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.67, C:0.02, G:0.14, T:0.16
Consensus pattern (19 bp):
AGAAATGAAAATAAATCAA
Found at i:23634756 original size:16 final size:16
Alignment explanation
Indices: 23634735--23634770 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
23634725 TAAAGAAAAC
23634735 ATATATAAA-TATAAA
1 ATATATAAATTATAAA
23634750 TATATATAAATTATAAA
1 -ATATATAAATTATAAA
23634767 ATAT
1 ATAT
23634771 GTGTTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATATATAAATTATAAA
Found at i:23636722 original size:45 final size:45
Alignment explanation
Indices: 23636654--23636774 Score: 179
Period size: 45 Copynumber: 2.7 Consensus size: 45
23636644 TTAGTTTGCC
* *
23636654 CCACTGCAACTTTAGGGGGATAAGACTTGCTTTCTTGAGTCTGCT
1 CCACTGCATCTTTAGGGAGATAAGACTTGCTTTCTTGAGTCTGCT
* * *
23636699 CCACTGCATCTTTAGGGAAATAAGACTCGCTTTCTTGGGTCTGCT
1 CCACTGCATCTTTAGGGAGATAAGACTTGCTTTCTTGAGTCTGCT
* *
23636744 CCACTGCATCTTCAGGGAGATAAGACCTGCT
1 CCACTGCATCTTTAGGGAGATAAGACTTGCT
23636775 ATGATCTGCT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 67 1.00
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.31
Consensus pattern (45 bp):
CCACTGCATCTTTAGGGAGATAAGACTTGCTTTCTTGAGTCTGCT
Found at i:23637006 original size:217 final size:217
Alignment explanation
Indices: 23636738--23637139 Score: 608
Period size: 217 Copynumber: 1.9 Consensus size: 217
23636728 CTTTCTTGGG
* * * * *
23636738 TCTGCTCCACTGCATCTTCAGGGAGATAAGACCTGCTATGATCTGCTCTCTGCAACTTCAGAGAG
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGACCTGATACGATCTACTCTCTGCAACTTCAGAGAG
** * * *
23636803 ATAAGATCTATCACTTTAATCTTCTCTACTGCAATTTCAAGGAGATAGGATTATTGGCTTTAATC
66 ATAAGATCTATCACTTTAATCCACTCCACTGCAACTTCAAGGAGATAGAATTATTGGCTTTAATC
* **
23636868 TGCTCCACTGAAACCTCAGGGAGATAAGATTCGCCATCTTGGGTCTGCTCCACTGTGACTTCAGG
131 TACTCCACTGAAACCTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCTCCACTGTGACTTCAGG
23636933 AGGATAAGACTTGCTTACTCAA
196 AGGATAAGACTTGCTTACTCAA
* *
23636955 TCTGCTCCACTGCAACTTCAATGAGATAAGA-CTAGATGCGATCTACTCTCTGCAACTTCAGAGA
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGACCT-GATACGATCTACTCTCTGCAACTTCAGAGA
* *
23637019 GATAAGATCTATCACTTTAATCCACTCCATTGCAACTTCAGGGAGATAGAATTATTGGCTTTAAT
65 GATAAGATCTATCACTTTAATCCACTCCACTGCAACTTCAAGGAGATAGAATTATTGGCTTTAAT
* * *
23637084 CTACTCCATTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCTCCACTG
130 CTACTCCACTGAAACCTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCTCCACTG
23637140 CAATAGACCT
Statistics
Matches: 164, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
216 2 0.01
217 162 0.99
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (217 bp):
TCTGCTCCACTGCAACTTCAAGGAGATAAGACCTGATACGATCTACTCTCTGCAACTTCAGAGAG
ATAAGATCTATCACTTTAATCCACTCCACTGCAACTTCAAGGAGATAGAATTATTGGCTTTAATC
TACTCCACTGAAACCTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCTCCACTGTGACTTCAGG
AGGATAAGACTTGCTTACTCAA
Found at i:23637039 original size:173 final size:173
Alignment explanation
Indices: 23636693--23637066 Score: 388
Period size: 173 Copynumber: 2.2 Consensus size: 173
23636683 CTTTCTTGAG
* * * **
23636693 TCTGCTCCACTGCATCTTTAGGGAAATAAGACTCGCTTTCTTGGGTCTGCTCCACTGCATCTTCA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCCATCTTGGGTCTGCTCCACTGCATCTTCA
* * **
23636758 GGGAGATAAGACCTGCTATGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTATCACTTTAAT
66 GGGAGATAAGACCTGCTATAATCTGCTCACTGCAACTTCAGAGAGATAAGATCTATCACTGCAAT
* * * **
23636823 CTTCTCTACTGCAATTTCAAGGAGATAGGATTATTGGCTTTAA
131 CTACTCTACTGCAACTTCAAGGAGATAAGATTATTCACTTTAA
* * * *
23636866 TCTGCTCCACTGAAACCTCAGGGAGATAAGATTCGCCATCTTGGGTCTGCTCCACTGTGA-CTTC
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCCATCTTGGGTCTGCTCCACTG-CATCTTC
* *
23636930 A-GGAGGATAAGACTTGCTTACTCAATCTGCTCCACTGCAACTTCA-ATGAGATAAGA-CTA-GA
65 AGGGA-GATAAGACCTGC-TA-T-AATCTGCT-CACTGCAACTTCAGA-GAGATAAGATCTATCA
*
23636991 -TGCGATCTACTCT-CTGCAACTTC-AGAGAGATAAGATCTA-TCACTTTAA
124 CTGCAATCTACTCTACTGCAACTTCAAG-GAGATAAGAT-TATTCACTTTAA
** *
23637039 TCCACTCCATTGCAACTTCAGGGAGATA
1 TCTGCTCCACTGCAACTTCAGGGAGATA
23637067 GAATTATTGG
Statistics
Matches: 166, Mismatches: 26, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
172 5 0.03
173 113 0.68
174 14 0.08
175 2 0.01
176 11 0.07
177 21 0.13
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (173 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCCATCTTGGGTCTGCTCCACTGCATCTTCA
GGGAGATAAGACCTGCTATAATCTGCTCACTGCAACTTCAGAGAGATAAGATCTATCACTGCAAT
CTACTCTACTGCAACTTCAAGGAGATAAGATTATTCACTTTAA
Found at i:23637057 original size:44 final size:44
Alignment explanation
Indices: 23637005--23637115 Score: 154
Period size: 44 Copynumber: 2.5 Consensus size: 44
23636995 ATCTACTCTC
*
23637005 TGCAACTTCAGAGAGATAAGATCTA-TCACTTTAATCCACTCCAT
1 TGCAACTTCAGGGAGATAAGAT-TATTCACTTTAATCCACTCCAT
** *
23637049 TGCAACTTCAGGGAGAT-AGAATTATTGGCTTTAATCTACTCCAT
1 TGCAACTTCAGGGAGATAAG-ATTATTCACTTTAATCCACTCCAT
23637093 TGCAACTTCAGGGAGATAAGATT
1 TGCAACTTCAGGGAGATAAGATT
23637116 CGCCATCTTC
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
43 4 0.07
44 54 0.90
45 2 0.03
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (44 bp):
TGCAACTTCAGGGAGATAAGATTATTCACTTTAATCCACTCCAT
Found at i:23637791 original size:14 final size:14
Alignment explanation
Indices: 23637772--23637803 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
23637762 TTCATTCAAT
*
23637772 CAATATTTGGATGA
1 CAATATTTGGAAGA
23637786 CAATATTTGGAAGA
1 CAATATTTGGAAGA
23637800 CAAT
1 CAAT
23637804 CTTAGACATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.31
Consensus pattern (14 bp):
CAATATTTGGAAGA
Found at i:23641451 original size:18 final size:18
Alignment explanation
Indices: 23641428--23641470 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
23641418 ACCCAATCTA
**
23641428 AACCCAAGTATTCAACCC
1 AACCCAAGTACCCAACCC
*
23641446 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
23641464 AACCCAA
1 AACCCAA
23641471 TCATAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:23655562 original size:3 final size:3
Alignment explanation
Indices: 23655554--23655634 Score: 162
Period size: 3 Copynumber: 27.0 Consensus size: 3
23655544 TACTATGATT
23655554 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
23655602 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
23655635 CATACGCATG
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:23655895 original size:28 final size:28
Alignment explanation
Indices: 23655861--23655918 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
23655851 CATATACATC
23655861 TATTTTTATAATATTCATACATATTTTT
1 TATTTTTATAATATTCATACATATTTTT
23655889 TATTTTTATAATATTCATACATATTTTT
1 TATTTTTATAATATTCATACATATTTTT
23655917 TA
1 TA
23655919 AAATATTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (28 bp):
TATTTTTATAATATTCATACATATTTTT
Found at i:23657161 original size:36 final size:35
Alignment explanation
Indices: 23657108--23657194 Score: 147
Period size: 36 Copynumber: 2.5 Consensus size: 35
23657098 TATTCATTAG
* *
23657108 AAAAAATATATAAATATATTTACATGTACATATAT
1 AAAAAATAAATATATATATTTACATGTACATATAT
23657143 AAAAAAATAAATATATATATTTACATGTACATATAT
1 -AAAAAATAAATATATATATTTACATGTACATATAT
23657179 AAAAAATAAATATATA
1 AAAAAATAAATATATA
23657195 CATATATATA
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
35 16 0.33
36 33 0.67
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (35 bp):
AAAAAATAAATATATATATTTACATGTACATATAT
Found at i:23657241 original size:29 final size:29
Alignment explanation
Indices: 23657134--23657253 Score: 88
Period size: 29 Copynumber: 4.2 Consensus size: 29
23657124 TATTTACATG
* *
23657134 TACATATATA-AAAAAATAAATATATATATT
1 TACATATATATAAAAAATAAA-A-AAATAAT
* * * *
23657164 TACATGTACATATATAAA-AAATAAAT-AT
1 TACATATATATA-AAAAATAAAAAAATAAT
**
23657192 ATACATATATATAAATTATAAAAAAATAAT
1 -TACATATATATAAAAAATAAAAAAATAAT
*
23657222 TACATATATATAAAAAAT--AATAATAAT
1 TACATATATATAAAAAATAAAAAAATAAT
23657249 TACAT
1 TACAT
23657254 TCTTGAAATT
Statistics
Matches: 70, Mismatches: 15, Indels: 13
0.71 0.15 0.13
Matches are distributed among these distances:
27 13 0.19
28 3 0.04
29 36 0.51
30 10 0.14
31 4 0.06
32 4 0.06
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.34
Consensus pattern (29 bp):
TACATATATATAAAAAATAAAAAAATAAT
Found at i:23657246 original size:27 final size:26
Alignment explanation
Indices: 23657173--23657253 Score: 94
Period size: 29 Copynumber: 3.0 Consensus size: 26
23657163 TTACATGTAC
23657173 ATATATAAAAAAT-AAAT-ATATACAT
1 ATATATAAAAAATAAAATAAT-TACAT
*
23657198 ATATATAAATTATAAAAAAATAATTACAT
1 ATATATAAA--A-AATAAAATAATTACAT
23657227 ATATATAAAAAATAATAATAATTACAT
1 ATATATAAAAAATAA-AATAATTACAT
23657254 TCTTGAAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
25 9 0.19
26 4 0.08
27 13 0.27
28 2 0.04
29 18 0.38
30 2 0.04
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (26 bp):
ATATATAAAAAATAAAATAATTACAT
Found at i:23660150 original size:23 final size:22
Alignment explanation
Indices: 23660107--23660164 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
23660097 AAAGGGTATC
* *
23660107 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
23660128 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
23660151 TGCATATCATATCT
1 TACAAATCATATCT
23660165 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:23660307 original size:15 final size:14
Alignment explanation
Indices: 23660276--23660306 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
23660266 GGACTTAGAC
*
23660276 TTTGTTTTATTATT
1 TTTGGTTTATTATT
23660290 TTTGGTTTATTATT
1 TTTGGTTTATTATT
23660304 TTT
1 TTT
23660307 TTATGAGCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (14 bp):
TTTGGTTTATTATT
Found at i:23663253 original size:25 final size:25
Alignment explanation
Indices: 23663225--23663387 Score: 97
Period size: 24 Copynumber: 6.6 Consensus size: 25
23663215 ATCCGGGCAA
23663225 TATAACGGGAAGCTCACAAAGAGCC
1 TATAACGGGAAGCTCACAAAGAGCC
* *
23663250 TATAACAGGTAGCTC-CAAAGAG-C
1 TATAACGGGAAGCTCACAAAGAGCC
* * ** *
23663273 AATTAACGGGAAGCAC-CGGATAGCC
1 TA-TAACGGGAAGCTCACAAAGAGCC
* * **
23663298 ATATAATGGGAAGTTCA-AGCGAG-C
1 -TATAACGGGAAGCTCACAAAGAGCC
*
23663322 -ACTAACAGGAAGCTCACAAAGAGCC
1 TA-TAACGGGAAGCTCACAAAGAGCC
* * *
23663347 TTTAATCGGAAAGCTCACAAAGAGTC
1 TATAA-CGGGAAGCTCACAAAGAGCC
*
23663373 -ATAACGGGATGCTCA
1 TATAACGGGAAGCTCA
23663388 TAAGAGCTGC
Statistics
Matches: 101, Mismatches: 28, Indels: 19
0.68 0.19 0.13
Matches are distributed among these distances:
22 1 0.01
23 13 0.13
24 35 0.35
25 34 0.34
26 18 0.18
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.16
Consensus pattern (25 bp):
TATAACGGGAAGCTCACAAAGAGCC
Found at i:23670587 original size:19 final size:20
Alignment explanation
Indices: 23670550--23670588 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
23670540 GTAATTTTTG
* *
23670550 GAAAAATTAATTTTGATCAA
1 GAAAAATTAATATTAATCAA
23670570 GAAAAATTAA-ATTAATCAA
1 GAAAAATTAATATTAATCAA
23670589 ATCAATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.31
Consensus pattern (20 bp):
GAAAAATTAATATTAATCAA
Found at i:23671090 original size:20 final size:20
Alignment explanation
Indices: 23671061--23671099 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23671051 ATAATATTTT
*
23671061 ATTATTTTAATACTAAATTG
1 ATTATATTAATACTAAATTG
*
23671081 ATTATATTAATATTAAATT
1 ATTATATTAATACTAAATT
23671100 AAATTTAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (20 bp):
ATTATATTAATACTAAATTG
Found at i:23674109 original size:20 final size:20
Alignment explanation
Indices: 23674071--23674110 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
23674061 TCTTTCTTTC
*
23674071 TTCTTTTATTTACTTAATTA
1 TTCTTTTATTTACTAAATTA
*
23674091 TTCTTTTATTTGCTAAATTA
1 TTCTTTTATTTACTAAATTA
23674111 CTACTTTGGC
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:0.25, C:0.10, G:0.03, T:0.62
Consensus pattern (20 bp):
TTCTTTTATTTACTAAATTA
Found at i:23676409 original size:13 final size:12
Alignment explanation
Indices: 23676386--23676420 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
23676376 ATTATTTGTG
23676386 AAAATATAAAAAT
1 AAAA-ATAAAAAT
23676399 ATAAAATAAAAAT
1 A-AAAATAAAAAT
23676412 AAAAATAAA
1 AAAAATAAA
23676421 TTTAATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 8 0.38
13 10 0.48
14 3 0.14
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (12 bp):
AAAAATAAAAAT
Found at i:23676412 original size:6 final size:6
Alignment explanation
Indices: 23676386--23676420 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
23676376 ATTATTTGTG
23676386 AAAATAT AAAAAT ATAAAAT AAAAAT AAAAAT AAA
1 AAAA-AT AAAAAT A-AAAAT AAAAAT AAAAAT AAA
23676421 TTTAATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 17 0.63
7 10 0.37
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAAAT
Found at i:23677717 original size:23 final size:23
Alignment explanation
Indices: 23677691--23677734 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
23677681 TAAGCTCCAC
*
23677691 CGATTTCGATCGTCGGCGATCGG
1 CGATTGCGATCGTCGGCGATCGG
* *
23677714 CGATTGGGATCGTTGGCGATC
1 CGATTGCGATCGTCGGCGATC
23677735 AAGCGGAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.14, C:0.23, G:0.36, T:0.27
Consensus pattern (23 bp):
CGATTGCGATCGTCGGCGATCGG
Found at i:23683640 original size:14 final size:14
Alignment explanation
Indices: 23683614--23683653 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
23683604 AGTTGTGCCG
23683614 TTTTTATTT-TTTA
1 TTTTTATTTATTTA
23683627 TTTTTATTTATTTA
1 TTTTTATTTATTTA
**
23683641 TTTACATTTATTT
1 TTTTTATTTATTT
23683654 TAAAAAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 9 0.38
14 15 0.62
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTTATTTATTTA
Found at i:23696862 original size:24 final size:24
Alignment explanation
Indices: 23696830--23696884 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
23696820 TCCCAAAATC
23696830 ACAGTGGATTGAACCTTGAAGATT
1 ACAGTGGATTGAACCTTGAAGATT
*
23696854 ACAGTGGATTGAGCCTTGAAGATT
1 ACAGTGGATTGAACCTTGAAGATT
23696878 ACAGTGG
1 ACAGTGG
23696885 GGGCAATCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (24 bp):
ACAGTGGATTGAACCTTGAAGATT
Found at i:23697305 original size:51 final size:50
Alignment explanation
Indices: 23697229--23697683 Score: 415
Period size: 51 Copynumber: 9.2 Consensus size: 50
23697219 GCATCACAGT
* * *
23697229 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGTAATGGAAC
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGTAGTGG-AC
** * * **
23697280 AGATTAAAGCTGAAGGCAGAAAATCTTTTTTCCCTGGCGTTACAGT----
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGTAGTGGAC
* * * *
23697326 ATATTAAAGCTGAAGGCAGCGAATCTTTTTTTTCCTTAGCGTTGCAGTAGGAC
1 AGATTAAAGCTGAAGGCAGCGAATC--TTATTTCCCTAGCGTTGTAGT-GGAC
* *
23697379 AGATTAAAGTTGAAGGCAGCGAATCTT-TTTCCCTGGCGTTGTAGT----
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGTAGTGGAC
*
23697424 AGATTAAAGCTGAAGGCAGCGAATCTTACTTT-CCTAGCGTCGCT-GTGGAAC
1 AGATTAAAGCTGAAGGCAGCGAATCTTA-TTTCCCTAGCGTTG-TAGTGG-AC
* *
23697475 AGATTAATGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGCAGTGGGAC
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGTAGT-GGAC
* * *
23697526 AGATTAAAGTTGAAGGCAGCGAATCTT-TTTCCCTGGCGTTGCAGT----
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGTAGTGGAC
* * * * *
23697571 AGATTAAAGTTGAAGGCAGCGAATCTTACTGT-CTTAGCATCGCT-GTGGAAC
1 AGATTAAAGCTGAAGGCAGCGAATCTTA-TTTCCCTAGCGTTG-TAGTGG-AC
* * *
23697622 AGATTAAAGCTGAAGGCAGCGAATCTAATTTCCCTAGTGTTGTAGTGGAAT
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGTAGTGG-AC
23697673 AGATTAAAGCT
1 AGATTAAAGCT
23697684 ACAAGTTACG
Statistics
Matches: 335, Mismatches: 41, Indels: 56
0.78 0.09 0.13
Matches are distributed among these distances:
45 53 0.16
46 40 0.12
47 6 0.02
48 18 0.05
50 38 0.11
51 155 0.46
52 2 0.01
53 23 0.07
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (50 bp):
AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGTAGTGGAC
Found at i:23697332 original size:97 final size:97
Alignment explanation
Indices: 23697175--23697683 Score: 475
Period size: 97 Copynumber: 5.2 Consensus size: 97
23697165 CTGGCGTGGC
* ** * *
23697175 AGTGGAACAGATTAAAGCTGAAGGTAGCGAATCTTATTTCATTGGCATCACAGTAGATTAAAGCT
1 AGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTACAGTAGATTAAAGCT
*
23697240 GAAGGCAGCGAATCTTATTTCCTTGGCGTTGT
66 GAAGGCAGCGAATCTTATTTCCTTAGCGTTGT
* ** * *
23697272 AATGGAACAGATTAAAGCTGAAGGCAGAAAATCTTTTTTCCCTGGCGTTACAGTATATTAAAGCT
1 AGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTACAGTAGATTAAAGCT
* *
23697337 GAAGGCAGCGAATCTTTTTTTTCCTTAGCGTTGC
66 GAAGGCAGCGAATC--TTATTTCCTTAGCGTTGT
* **
23697371 AGTAGG-ACAGATTAAAGTTGAAGGCAGCGAATCTT-TTTCCCTGGCGTTGTAGTAGATTAAAGC
1 AGT-GGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTACAGTAGATTAAAGC
*
23697434 TGAAGGCAGCGAATCTTACTTTCC-TAGCGTCGCT
65 TGAAGGCAGCGAATCTTA-TTTCCTTAGCGTTG-T
* * *
23697468 -GTGGAACAGATTAATGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGCAGTGGGACAGATTA
1 AGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTACAGT-----AGATTA
* * * *
23697532 AAGTTGAAGGCAGCGAATCTT-TTTCCCTGGCGTTGC
61 AAGCTGAAGGCAGCGAATCTTATTTCCTTAGCGTTGT
* * * * * *
23697568 AGT-----AGATTAAAGTTGAAGGCAGCGAATCTTACTGTCTTAGCATCGCTGTGGA-A-CAGAT
1 AGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTA---T-TT-CCCTGGC-GT-TACAGTAGAT
* * *
23697626 TAAAGCTGAAGGCAGCGAATCTAATTTCCCTAGTGTTGT
59 TAAAGCTGAAGGCAGCGAATCTTATTTCCTTAGCGTTGT
*
23697665 AGTGGAATAGATTAAAGCT
1 AGTGGAACAGATTAAAGCT
23697684 ACAAGTTACG
Statistics
Matches: 340, Mismatches: 45, Indels: 49
0.78 0.10 0.11
Matches are distributed among these distances:
95 2 0.01
96 89 0.26
97 105 0.31
98 40 0.12
99 44 0.13
100 9 0.03
101 12 0.04
102 39 0.11
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (97 bp):
AGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTACAGTAGATTAAAGCT
GAAGGCAGCGAATCTTATTTCCTTAGCGTTGT
Found at i:23697543 original size:147 final size:147
Alignment explanation
Indices: 23697328--23697681 Score: 564
Period size: 147 Copynumber: 2.4 Consensus size: 147
23697318 GTTACAGTAT
* * *
23697328 ATTAAAGCTGAAGGCAGCGAATCTTTTTTTTCCTTAGCGTTGCAGTAGGACAGATTAAAGTTGAA
1 ATTAAAGCTGAAGGCAGCGAATC--TTATTTCCCTAGCGTTGCAGTGGGACAGATTAAAGTTGAA
* *
23697393 GGCAGCGAATCTTTTTCCCTGGCGTTGTAGTAGATTAAAGCTGAAGGCAGCGAATCTTACTTTCC
64 GGCAGCGAATCTTTTTCCCTGGCGTTGCAGTAGATTAAAGCTGAAGGCAGCGAATCTTACTGTCC
*
23697458 TAGCGTCGCTGTGGAACAG
129 TAGCATCGCTGTGGAACAG
*
23697477 ATTAATGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGCAGTGGGACAGATTAAAGTTGAAGG
1 ATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGCAGTGGGACAGATTAAAGTTGAAGG
* *
23697542 CAGCGAATCTTTTTCCCTGGCGTTGCAGTAGATTAAAGTTGAAGGCAGCGAATCTTACTGTCTTA
66 CAGCGAATCTTTTTCCCTGGCGTTGCAGTAGATTAAAGCTGAAGGCAGCGAATCTTACTGTCCTA
23697607 GCATCGCTGTGGAACAG
131 GCATCGCTGTGGAACAG
* * * * *
23697624 ATTAAAGCTGAAGGCAGCGAATCTAATTTCCCTAGTGTTGTAGTGGAATAGATTAAAG
1 ATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGCAGTGGGACAGATTAAAG
23697682 CTACAAGTTA
Statistics
Matches: 190, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
147 168 0.88
149 22 0.12
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (147 bp):
ATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGCAGTGGGACAGATTAAAGTTGAAGG
CAGCGAATCTTTTTCCCTGGCGTTGCAGTAGATTAAAGCTGAAGGCAGCGAATCTTACTGTCCTA
GCATCGCTGTGGAACAG
Found at i:23697624 original size:96 final size:97
Alignment explanation
Indices: 23697424--23697656 Score: 256
Period size: 96 Copynumber: 2.4 Consensus size: 97
23697414 GCGTTGTAGT
* * ** *
23697424 AGATTAAAGCTGAAGGCAGCGAATCTTACTTT-CCTAGCGTCGCTGTGGAACAGATTAATGCTGA
1 AGATTAAAGCTGAAGGCAGCGAATC-TAATTTCCCT-G-G-CG-T-TGCAGTAGATTAAAGCTGA
* * * *
23697488 AGGCAGCGAATCTTATTTCCCTAGCGTTGCAGTGGGAC
60 AGGCAGCGAATCTTATGTCCCTAGCATCGCAGTGGAAC
* * *
23697526 AGATTAAAGTTGAAGGCAGCGAATCT-TTTTCCCTGGCGTTGCAGTAGATTAAAGTTGAAGGCAG
1 AGATTAAAGCTGAAGGCAGCGAATCTAATTTCCCTGGCGTTGCAGTAGATTAAAGCTGAAGGCAG
* *
23697590 CGAATCTTACTGT-CTTAGCATCGCTGTGGAAC
66 CGAATCTTA-TGTCCCTAGCATCGCAGTGGAAC
23697622 AGATTAAAGCTGAAGGCAGCGAATCTAATTTCCCT
1 AGATTAAAGCTGAAGGCAGCGAATCTAATTTCCCT
23697657 AGTGTTGTAG
Statistics
Matches: 113, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
96 68 0.60
97 10 0.09
98 2 0.02
99 1 0.01
100 4 0.04
101 4 0.04
102 24 0.21
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (97 bp):
AGATTAAAGCTGAAGGCAGCGAATCTAATTTCCCTGGCGTTGCAGTAGATTAAAGCTGAAGGCAG
CGAATCTTATGTCCCTAGCATCGCAGTGGAAC
Found at i:23702770 original size:47 final size:47
Alignment explanation
Indices: 23702710--23702801 Score: 141
Period size: 47 Copynumber: 2.0 Consensus size: 47
23702700 CACAAAAGAC
*
23702710 AAAAAAAAGGAAGCAATGT-GAAAGCAACCACAACCAAGAAAAGATTA
1 AAAAAAAAGGAAGCAACGTAG-AAGCAACCACAACCAAGAAAAGATTA
* *
23702757 AAAAAAAAGGAAGCAACGTAGAAGCAACCACAATCAAGACAAGAT
1 AAAAAAAAGGAAGCAACGTAGAAGCAACCACAACCAAGAAAAGAT
23702802 GTCATCATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
47 40 0.98
48 1 0.02
ACGTcount: A:0.59, C:0.16, G:0.17, T:0.08
Consensus pattern (47 bp):
AAAAAAAAGGAAGCAACGTAGAAGCAACCACAACCAAGAAAAGATTA
Found at i:23704217 original size:71 final size:71
Alignment explanation
Indices: 23704093--23704236 Score: 189
Period size: 71 Copynumber: 2.0 Consensus size: 71
23704083 AGTGAATGTT
** * *
23704093 TAACCATGGAGAATAGCATTTCTAAGTGGACTTTAACATCGAACGCATGCCTTCTTCCTTAACCT
1 TAACCATGGAGAATAGCATTTCTAAGCAGACTCTAACATCGAACGCATACCTTCTTCCTTAACCT
23704158 CGGGTG
66 CGGGTG
* * * * * *
23704164 TAACCATGGCGGATAGCATTTTTAGGCAGACTCTAACATCGGATGCATACCTTCTTCCTTAACCT
1 TAACCATGGAGAATAGCATTTCTAAGCAGACTCTAACATCGAACGCATACCTTCTTCCTTAACCT
*
23704229 TGGGTG
66 CGGGTG
23704235 TA
1 TA
23704237 TACTTCCATC
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (71 bp):
TAACCATGGAGAATAGCATTTCTAAGCAGACTCTAACATCGAACGCATACCTTCTTCCTTAACCT
CGGGTG
Found at i:23704546 original size:48 final size:48
Alignment explanation
Indices: 23704472--23704610 Score: 217
Period size: 48 Copynumber: 2.9 Consensus size: 48
23704462 ATCAGCAATT
* *
23704472 ATACATAACATATAACACATATAGAGTTCTACTAACTTACTCTTTTTG
1 ATACATATCATATATCACATATAGAGTTCTACTAACTTACTCTTTTTG
* * *
23704520 ATACATATCATATATCACATACAGAGTCCTATTAACTTACTCTTTTTG
1 ATACATATCATATATCACATATAGAGTTCTACTAACTTACTCTTTTTG
23704568 ATACATATCATATATCACATATAGAG-TCATACTAACTTACTCT
1 ATACATATCATATATCACATATAGAGTTC-TACTAACTTACTCT
23704611 ATTCAAATTC
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
47 1 0.01
48 81 0.99
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (48 bp):
ATACATATCATATATCACATATAGAGTTCTACTAACTTACTCTTTTTG
Found at i:23704942 original size:49 final size:48
Alignment explanation
Indices: 23704862--23704985 Score: 126
Period size: 49 Copynumber: 2.5 Consensus size: 48
23704852 GGCTATCAAC
* * * * *
23704862 CTAGTTAACAACTAACATATCC-TACTAGTGGCCCAAT-AGACATGCCAAT
1 CTAGTTAGCAACTAACAT-GCCTTACCAGTGGCCC-ATCACAC-TACCAAT
* *
23704911 CTGGTTAGCAACTAACATGCCTTACCAGTGGCCCATCACATCTACCATT
1 CTAGTTAGCAACTAACATGCCTTACCAGTGGCCCATCACA-CTACCAAT
*
23704960 CTAGTTTGCAACTAACATGCCTTACC
1 CTAGTTAGCAACTAACATGCCTTACC
23704986 GGTGACTCTT
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
48 4 0.06
49 58 0.92
50 1 0.02
ACGTcount: A:0.31, C:0.30, G:0.13, T:0.27
Consensus pattern (48 bp):
CTAGTTAGCAACTAACATGCCTTACCAGTGGCCCATCACACTACCAAT
Found at i:23711865 original size:3 final size:3
Alignment explanation
Indices: 23711857--23711889 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
23711847 CTGTTGAACA
23711857 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23711890 CATTTATCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:23718686 original size:23 final size:23
Alignment explanation
Indices: 23718652--23718702 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
23718642 TATATATTTT
23718652 TTAT-ATTTTTATA-ATTTATAAA
1 TTATAATTTTTATATATTTA-AAA
23718674 TTATAATTTTTATATATTTAAAA
1 TTATAATTTTTATATATTTAAAA
*
23718697 TAATAA
1 TTATAA
23718703 CCTAAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 4 0.15
23 17 0.65
24 5 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TTATAATTTTTATATATTTAAAA
Found at i:23722612 original size:22 final size:19
Alignment explanation
Indices: 23722572--23722612 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 19
23722562 TTAATTAAGA
23722572 AATTAATTAAATTTATTTT
1 AATTAATTAAATTTATTTT
23722591 AATTAATATATAATATTATTTT
1 AATTAAT-TA-AAT-TTATTTT
23722613 TGGGAATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 2 0.11
21 3 0.16
22 7 0.37
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
AATTAATTAAATTTATTTT
Found at i:23729891 original size:49 final size:47
Alignment explanation
Indices: 23729822--23730033 Score: 361
Period size: 47 Copynumber: 4.5 Consensus size: 47
23729812 ATTCAGCCAA
*
23729822 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
*
23729869 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
23729918 GAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
* *
23729965 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
*
23730012 GAAAGTGTATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
23730034 TCCCGAAGGG
Statistics
Matches: 159, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
47 112 0.70
49 47 0.30
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
Found at i:23738937 original size:28 final size:28
Alignment explanation
Indices: 23738874--23738944 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
23738864 ATCTTGTCCA
*
23738874 ATGGACTTA-CCCGAGTTTATTGTCCCG
1 ATGGACTTATCTCGAGTTTATTGTCCCG
* * * **
23738901 ACGGGCTTATCTCGTGTTTATTGTCTTG
1 ATGGACTTATCTCGAGTTTATTGTCCCG
23738929 ATGGACTTAATCTCGA
1 ATGGACTT-ATCTCGA
23738945 TTCCATGTTT
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
27 7 0.21
28 20 0.61
29 6 0.18
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (28 bp):
ATGGACTTATCTCGAGTTTATTGTCCCG
Found at i:23743142 original size:38 final size:38
Alignment explanation
Indices: 23743100--23743178 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
23743090 GACATGGGAG
23743100 ACAATCTGATCTACATTATGGAACAAAATGGGTGGCCC
1 ACAATCTGATCTACATTATGGAACAAAATGGGTGGCCC
23743138 ACAATCTGATCTACATTATGGAACAAAATGGGTGGCCC
1 ACAATCTGATCTACATTATGGAACAAAATGGGTGGCCC
23743176 ACA
1 ACA
23743179 CCAACACCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (38 bp):
ACAATCTGATCTACATTATGGAACAAAATGGGTGGCCC
Found at i:23745207 original size:18 final size:18
Alignment explanation
Indices: 23745184--23745218 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23745174 TCAATTTTTA
23745184 AGTAAAGTATTATATTTG
1 AGTAAAGTATTATATTTG
* *
23745202 AGTAAATTATTCTATTT
1 AGTAAAGTATTATATTT
23745219 CTATTTACCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.49
Consensus pattern (18 bp):
AGTAAAGTATTATATTTG
Found at i:23758727 original size:25 final size:25
Alignment explanation
Indices: 23758687--23758737 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
23758677 GTTTTCGATT
*
23758687 TTGTATTTCATTTATTATTGGTGTA
1 TTGTATTTCATATATTATTGGTGTA
* *
23758712 TTGTATTTGATATATTTTTGGTGTA
1 TTGTATTTCATATATTATTGGTGTA
23758737 T
1 T
23758738 AAAGTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.20, C:0.02, G:0.18, T:0.61
Consensus pattern (25 bp):
TTGTATTTCATATATTATTGGTGTA
Found at i:23771560 original size:71 final size:72
Alignment explanation
Indices: 23771408--23771631 Score: 292
Period size: 72 Copynumber: 3.1 Consensus size: 72
23771398 AACTCTTCTC
* * * *
23771408 CCAAAAATACTAAACTGTTTTATTCACACACAAAA-AATATTATAAAAATAAAAATGTTATTTTA
1 CCAAAAATACTAAATTGTTTTATTCACA-A-AAAATATTATTATAAAAATAAAATTATTATTTTA
23771472 TTATACATA
64 TTATACATA
* * *
23771481 CCAAAAATAATAAATTGCTTTATTCACAAAAAATATTATTATAAAAATAAAATTATT-TTTTGTT
1 CCAAAAATACTAAATTGTTTTATTCACAAAAAATATTATTATAAAAATAAAATTATTATTTTATT
23771545 ATACATA
66 ATACATA
* *
23771552 CCACAAATACTAAATTGTTTTATT-AAAAAAACATTATTATTATAAAAATAAAATTATTATTTTA
1 CCAAAAATACTAAATTGTTTTATTCACAAAAA-A-TATTATTATAAAAATAAAATTATTATTTTA
*
23771616 CTATACATA
64 TTATACATA
*
23771625 CAAAAAA
1 CCAAAAA
23771632 ATCAACATAT
Statistics
Matches: 132, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
70 6 0.05
71 39 0.30
72 45 0.34
73 42 0.32
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.37
Consensus pattern (72 bp):
CCAAAAATACTAAATTGTTTTATTCACAAAAAATATTATTATAAAAATAAAATTATTATTTTATT
ATACATA
Found at i:23771599 original size:20 final size:20
Alignment explanation
Indices: 23771575--23771612 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23771565 ATTGTTTTAT
*
23771575 TAAAAA-AACATTATTATTA
1 TAAAAATAAAATTATTATTA
23771594 TAAAAATAAAATTATTATT
1 TAAAAATAAAATTATTATT
23771613 TTACTATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAAAATAAAATTATTATTA
Found at i:23772510 original size:21 final size:22
Alignment explanation
Indices: 23772466--23772524 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
23772456 TTTTATTTGA
*
23772466 AAATAA-AAAGTACATTTGAATT
1 AAATAATAAAGT-TATTTGAATT
23772488 AAATAATAAAGTTATTT-AATT
1 AAATAATAAAGTTATTTGAATT
*
23772509 AAA-AATTAAAGCTATT
1 AAATAA-TAAAGTTATT
23772525 CTGTATTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 2 0.06
21 16 0.48
22 10 0.30
23 5 0.15
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (22 bp):
AAATAATAAAGTTATTTGAATT
Found at i:23775587 original size:18 final size:17
Alignment explanation
Indices: 23775566--23775618 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
23775556 TGAATCACTG
23775566 AATTTTTAAAATATATCA
1 AATTTTTAAAATATAT-A
*
23775584 AATTTTTGAAGAATACATA
1 AATTTTT-AA-AATATATA
* *
23775603 AATTTATAATATATAT
1 AATTTTTAAAATATAT
23775619 TTTTATATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
17 5 0.17
18 9 0.31
19 9 0.31
20 6 0.21
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (17 bp):
AATTTTTAAAATATATA
Found at i:23775605 original size:19 final size:18
Alignment explanation
Indices: 23775566--23775607 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
23775556 TGAATCACTG
*
23775566 AATTTTTAAAATATATCA
1 AATTTTTAAAATACATCA
23775584 AATTTTTGAAGAATACAT-A
1 AATTTTT-AA-AATACATCA
23775603 AATTT
1 AATTT
23775608 ATAATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 7 0.33
19 8 0.38
20 6 0.29
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (18 bp):
AATTTTTAAAATACATCA
Found at i:23780015 original size:21 final size:25
Alignment explanation
Indices: 23779991--23780045 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 25
23779981 AATATATATA
23779991 TAAAATAATACAT-TAT-G-AAA-T
1 TAAAATAATACATATATGGAAAACT
23780012 T-AAATAATA-ATATATGGAAAACT
1 TAAAATAATACATATATGGAAAACT
23780035 TAAAATAATAC
1 TAAAATAATAC
23780046 TACATAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 2 0.07
20 11 0.39
21 2 0.07
22 3 0.11
23 2 0.07
24 8 0.29
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.31
Consensus pattern (25 bp):
TAAAATAATACATATATGGAAAACT
Found at i:23780109 original size:12 final size:12
Alignment explanation
Indices: 23780094--23780127 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
23780084 TTGATAAAAA
*
23780094 AATAATACTACT
1 AATAATAATACT
*
23780106 AATAATAATAGT
1 AATAATAATACT
23780118 AATAATAATA
1 AATAATAATA
23780128 ATATTAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (12 bp):
AATAATAATACT
Found at i:23780114 original size:15 final size:15
Alignment explanation
Indices: 23780094--23780130 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
23780084 TTGATAAAAA
*
23780094 AATAATACTACTAAT
1 AATAATACTAATAAT
*
23780109 AATAATAGTAATAAT
1 AATAATACTAATAAT
23780124 AATAATA
1 AATAATA
23780131 TTAAACTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (15 bp):
AATAATACTAATAAT
Found at i:23781113 original size:25 final size:27
Alignment explanation
Indices: 23781082--23781134 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
23781072 TGGGGAACAC
* *
23781082 TTTGGGCT-GTGTT-GGGTTTGGGTAT
1 TTTGGGCTAGAGTTCGGGTTTAGGTAT
23781107 TTTGGGCTAGAGTTCGGGTTTAGGTAT
1 TTTGGGCTAGAGTTCGGGTTTAGGTAT
23781134 T
1 T
23781135 GTATTGGGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 4 0.17
27 12 0.50
ACGTcount: A:0.09, C:0.06, G:0.40, T:0.45
Consensus pattern (27 bp):
TTTGGGCTAGAGTTCGGGTTTAGGTAT
Found at i:23785537 original size:21 final size:22
Alignment explanation
Indices: 23785511--23785558 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
23785501 GATTCAAGAG
* *
23785511 TTCAAAGTAAAAT-AATCACTT
1 TTCAAAATAAAATAAATCACAT
*
23785532 TTCAAAATAAAGTAAATCACAT
1 TTCAAAATAAAATAAATCACAT
23785554 TTCAA
1 TTCAA
23785559 GAACATCATC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.50, C:0.15, G:0.04, T:0.31
Consensus pattern (22 bp):
TTCAAAATAAAATAAATCACAT
Found at i:23786004 original size:30 final size:30
Alignment explanation
Indices: 23785968--23786029 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
23785958 AAAAAAAAAA
23785968 AGACAAAGCATTCAATTAAGAAATCTAACC
1 AGACAAAGCATTCAATTAAGAAATCTAACC
23785998 AGACAAAGCATTCAATTAAGAAATCTAACC
1 AGACAAAGCATTCAATTAAGAAATCTAACC
23786028 AG
1 AG
23786030 CAGTGAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.50, C:0.19, G:0.11, T:0.19
Consensus pattern (30 bp):
AGACAAAGCATTCAATTAAGAAATCTAACC
Found at i:23791668 original size:30 final size:31
Alignment explanation
Indices: 23791616--23791683 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
23791606 AAAACTTCAA
* * *
23791616 AATTTGAAAACTACAGGTACT-AAATTGACC
1 AATTTAAAAACTAAAGGGACTAAAATTGACC
* *
23791646 AATTTAAAAAGTAAAGGGACTAAAATTGAGC
1 AATTTAAAAACTAAAGGGACTAAAATTGACC
*
23791677 AAATTAA
1 AATTTAA
23791684 GGAAAGGACT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
30 17 0.55
31 14 0.45
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.25
Consensus pattern (31 bp):
AATTTAAAAACTAAAGGGACTAAAATTGACC
Found at i:23797628 original size:22 final size:22
Alignment explanation
Indices: 23797603--23797755 Score: 136
Period size: 22 Copynumber: 6.7 Consensus size: 22
23797593 GCCTGTCTAG
23797603 TTTTGTATGAATATTGCAATTT
1 TTTTGTATGAATATTGCAATTT
*
23797625 TTTTGTATGAATATTGTAA---
1 TTTTGTATGAATATTGCAATTT
23797644 TTTTGTATGAATATT--ATATTT
1 TTTTGTATGAATATTGCA-ATTT
**
23797665 TTTTGTATGAATATTATAATATTAT
1 TTTTGTATGAATATT-GCA-ATT-T
*
23797690 AATTTTGTATGAATATTGCAGTTT
1 --TTTTGTATGAATATTGCAATTT
*
23797714 TTTTGTATGAATATTGGAATATT
1 TTTTGTATGAATATTGCAAT-TT
23797737 GTAATTTGTATGAATATTG
1 -T--TTTGTATGAATATTG
23797756 TAAGGTGGGG
Statistics
Matches: 111, Mismatches: 6, Indels: 24
0.79 0.04 0.17
Matches are distributed among these distances:
17 1 0.01
18 1 0.01
19 15 0.14
21 15 0.14
22 36 0.32
23 2 0.02
24 7 0.06
25 3 0.03
26 16 0.14
27 15 0.14
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (22 bp):
TTTTGTATGAATATTGCAATTT
Found at i:23797667 original size:41 final size:41
Alignment explanation
Indices: 23797603--23797739 Score: 143
Period size: 41 Copynumber: 3.2 Consensus size: 41
23797593 GCCTGTCTAG
23797603 TTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAA
1 TTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAA
*
23797644 TTTTGTATGAATATT--ATATTTTTTTGTATGAATATTATAATATTATAA
1 TTTTGTATGAATATTGCA-ATTTTTTTGTATG--------AATATTGTAA
* *
23797692 TTTTGTATGAATATTGCAGTTTTTTTGTATGAATATTGGAA
1 TTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAA
*
23797733 TATTGTA
1 TTTTGTA
23797740 ATTTGTATGA
Statistics
Matches: 80, Mismatches: 5, Indels: 22
0.75 0.05 0.21
Matches are distributed among these distances:
39 1 0.01
40 13 0.16
41 29 0.36
48 24 0.30
49 12 0.15
50 1 0.01
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (41 bp):
TTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAA
Found at i:23797676 original size:40 final size:40
Alignment explanation
Indices: 23797603--23797684 Score: 130
Period size: 40 Copynumber: 2.0 Consensus size: 40
23797593 GCCTGTCTAG
*
23797603 TTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAA
1 TTTTGTATGAATATT-CAATTTTTTTGTATGAATATTATAA
23797644 TTTTGTATGAATATT-ATATTTTTTTGTATGAATATTATAA
1 TTTTGTATGAATATTCA-ATTTTTTTGTATGAATATTATAA
23797684 T
1 T
23797685 ATTATAATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
39 1 0.03
40 23 0.59
41 15 0.38
ACGTcount: A:0.30, C:0.01, G:0.12, T:0.56
Consensus pattern (40 bp):
TTTTGTATGAATATTCAATTTTTTTGTATGAATATTATAA
Found at i:23797755 original size:48 final size:48
Alignment explanation
Indices: 23797633--23797755 Score: 185
Period size: 48 Copynumber: 2.6 Consensus size: 48
23797623 TTTTTTGTAT
**
23797633 GAATATTGTAATTTTGTATGAATATTATATTTTTTTGTATGAATATTA
1 GAATATTGTAATTTTGTATGAATATTGCATTTTTTTGTATGAATATTA
* * *
23797681 TAATATTATAATTTTGTATGAATATTGCAGTTTTTTTGTATGAATATTG
1 GAATATTGTAATTTTGTATGAATATTGCA-TTTTTTTGTATGAATATTA
23797730 GAATATTGTAA-TTTGTATGAATATTG
1 GAATATTGTAATTTTGTATGAATATTG
23797756 TAAGGTGGGG
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
48 40 0.60
49 27 0.40
ACGTcount: A:0.33, C:0.01, G:0.15, T:0.52
Consensus pattern (48 bp):
GAATATTGTAATTTTGTATGAATATTGCATTTTTTTGTATGAATATTA
Found at i:23797881 original size:60 final size:60
Alignment explanation
Indices: 23797800--23797921 Score: 165
Period size: 60 Copynumber: 2.0 Consensus size: 60
23797790 TGTATGAATA
* * * * * *
23797800 TTGTAATTATTTTATAATTAATTTGTTAGTAATTTGGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
*
23797860 TTGTAATTA-TTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAGTTGTTGTGT
1 TTGTAATTATTTTAAAA-TTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
23797920 TT
1 TT
23797922 AGTTTAGTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 6 0.11
60 48 0.89
ACGTcount: A:0.30, C:0.01, G:0.15, T:0.54
Consensus pattern (60 bp):
TTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
Found at i:23798000 original size:38 final size:38
Alignment explanation
Indices: 23797955--23798036 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
23797945 CATATAAAGT
23797955 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
*
23797993 TTATAAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
23798031 TTATAA
1 TTATAA
23798037 CTGACTTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (38 bp):
TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
Found at i:23798114 original size:15 final size:15
Alignment explanation
Indices: 23798073--23798114 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
23798063 GTTAACTCAT
*
23798073 TTAAGTTTTATATAA
1 TTAAATTTTATATAA
*
23798088 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
23798104 TTAAATTTTAT
1 TTAAATTTTAT
23798115 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:23800908 original size:22 final size:21
Alignment explanation
Indices: 23800873--23800917 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
23800863 TACCTAATTT
*
23800873 TTTTCTTCTTTTCCTTCCTTC
1 TTTTCTTCTCTTCCTTCCTTC
23800894 TTTTCTTCTGCTTCCTTCCTTC
1 TTTTCTTCT-CTTCCTTCCTTC
23800916 TT
1 TT
23800918 ATTTCTTTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTCTTCTCTTCCTTCCTTC
Found at i:23802592 original size:48 final size:48
Alignment explanation
Indices: 23802539--23802636 Score: 151
Period size: 48 Copynumber: 2.0 Consensus size: 48
23802529 AAAAATATTT
*
23802539 TTTCAATTAAAATTATTCATTTGTTTTTGTCAAAAACTAAAATACCCA
1 TTTCAATTAAAATTATTCATTTGTTTTTGTAAAAAACTAAAATACCCA
** * *
23802587 TTTCAATTAAAATTATTTGTTTGTTTTTGTAAAAAAGTAAATTACCCA
1 TTTCAATTAAAATTATTCATTTGTTTTTGTAAAAAACTAAAATACCCA
23802635 TT
1 TT
23802637 ATTATTCATG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (48 bp):
TTTCAATTAAAATTATTCATTTGTTTTTGTAAAAAACTAAAATACCCA
Found at i:23803327 original size:16 final size:16
Alignment explanation
Indices: 23803306--23803365 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
23803296 TTTTCTACTT
*
23803306 TATAATATATATTTTA
1 TATAATATATAATTTA
*
23803322 TATAATATCTAATTTA
1 TATAATATATAATTTA
* *
23803338 TATAAAAT-TAA-ATA
1 TATAATATATAATTTA
23803352 TATAATAATATAAT
1 TATAAT-ATATAAT
23803366 GCAAACATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
14 7 0.19
15 5 0.14
16 24 0.67
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATATATAATTTA
Found at i:23804482 original size:39 final size:37
Alignment explanation
Indices: 23804392--23804484 Score: 91
Period size: 40 Copynumber: 2.4 Consensus size: 37
23804382 TAAAATTCAG
23804392 GAATTAGCGGCGCTTGACAGAAAACGCCGCTAAAAAAT
1 GAATTAGCGGCG-TTGACAGAAAACGCCGCTAAAAAAT
* *
23804430 GAGCTTTCA-CGGCGTT-ACTAAGAAAACGCCGCTGAAAATAT
1 GA--ATT-AGCGGCGTTGAC--AGAAAACGCCGCT-AAAAAAT
23804471 GAATTAGCGGCGTT
1 GAATTAGCGGCGTT
23804485 TTCGTCAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
38 5 0.11
39 11 0.24
40 20 0.44
41 9 0.20
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.20
Consensus pattern (37 bp):
GAATTAGCGGCGTTGACAGAAAACGCCGCTAAAAAAT
Found at i:23804696 original size:41 final size:39
Alignment explanation
Indices: 23804651--23804820 Score: 112
Period size: 41 Copynumber: 4.2 Consensus size: 39
23804641 TTTAATCAAC
23804651 CGCCGCTAAAGTTAAGGTATTTAGCGGCGATTTCTTTGAAG
1 CGCCGCTAAAGTTAAGGT-TTTAGCGGCG-TTTCTTTGAAG
* * *
23804692 CGCCGCGAATA-TT-TGGTCTTCTAGCGGCGTTT-TTATATAAG
1 CGCCGCTAA-AGTTAAGGT-TT-TAGCGGCGTTTCTT-T-GAAG
* * ** *
23804733 CGACGCTAAAGTTAAGATTTTTAGCGGCAATTCTATGATAAG
1 CGCCGCTAAAGTTAAG-GTTTTAGCGGCGTTTCTTTG--AAG
* * *
23804775 CGCCGCTAATGTTAGGGTTTTAGCGGCGTTTTTGTTGAAG
1 CGCCGCTAAAGTTAAGGTTTTAGCGGCGTTTCT-TTGAAG
*
23804815 TGCCGC
1 CGCCGC
23804821 AAAAAAAAAC
Statistics
Matches: 97, Mismatches: 21, Indels: 23
0.69 0.15 0.16
Matches are distributed among these distances:
39 2 0.02
40 18 0.19
41 53 0.55
42 23 0.24
43 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (39 bp):
CGCCGCTAAAGTTAAGGTTTTAGCGGCGTTTCTTTGAAG
Found at i:23804742 original size:82 final size:81
Alignment explanation
Indices: 23804625--23804807 Score: 210
Period size: 82 Copynumber: 2.2 Consensus size: 81
23804615 TAATGGTCAG
* * * * *
23804625 GGGTTTTAGTGGCGTTTTTAATCAACCGCCGCTAAAGTTAAGGTATTTAGCGGCGATTTCTTTG-
1 GGGTTTTAGCGGCGTTTTTAATCAACCGACGCTAAAGTTAAGATATTTAGCGGC-AATTCTATGA
23804689 AAGCGCCGCGAATATT-
65 AAGCGCCGCGAATATTA
* * *
23804705 TGGTCTTCTAGCGGCGTTTTTATAT-AAGCGACGCTAAAGTTAAGATTTTTAGCGGCAATTCTAT
1 GGGT-TT-TAGCGGCGTTTTTA-ATCAACCGACGCTAAAGTTAAGATATTTAGCGGCAATTCTAT
* *
23804769 GATAAGCGCCGCTAATGTTA
63 GA-AAGCGCCGCGAATATTA
23804789 GGGTTTTAGCGGCGTTTTT
1 GGGTTTTAGCGGCGTTTTT
23804808 GTTGAAGTGC
Statistics
Matches: 86, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
80 3 0.03
81 9 0.10
82 53 0.62
83 18 0.21
84 3 0.03
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (81 bp):
GGGTTTTAGCGGCGTTTTTAATCAACCGACGCTAAAGTTAAGATATTTAGCGGCAATTCTATGAA
AGCGCCGCGAATATTA
Found at i:23805856 original size:7 final size:7
Alignment explanation
Indices: 23805840--23805927 Score: 50
Period size: 7 Copynumber: 11.9 Consensus size: 7
23805830 AATATAAGGT
*
23805840 TTAGGAG
1 TTAGGGG
23805847 TTAGGGG
1 TTAGGGG
*
23805854 TTAGGGAT
1 TTAGGG-G
23805862 TTAGGGGG
1 TTA-GGGG
*
23805870 TTAGGAG
1 TTAGGGG
*
23805877 TTAAGGG
1 TTAGGGG
***
23805884 TTAGAAAT
1 TTAG-GGG
23805892 TTAGGGG
1 TTAGGGG
* *
23805899 CTAGGAGAT
1 TTAGG-G-G
23805908 TTAGGGG
1 TTAGGGG
23805915 TTAGGGG
1 TTAGGGG
23805922 TTAGGG
1 TTAGGG
23805928 ATTTAGGGTT
Statistics
Matches: 59, Mismatches: 17, Indels: 10
0.69 0.20 0.12
Matches are distributed among these distances:
7 40 0.68
8 12 0.20
9 7 0.12
ACGTcount: A:0.24, C:0.01, G:0.45, T:0.30
Consensus pattern (7 bp):
TTAGGGG
Found at i:23805871 original size:16 final size:15
Alignment explanation
Indices: 23805847--23805920 Score: 78
Period size: 15 Copynumber: 4.9 Consensus size: 15
23805837 GGTTTAGGAG
23805847 TTAGGGGTTAGGGAT
1 TTAGGGGTTAGGGAT
*
23805862 TTAGGGGGTTA-GGAG
1 TTA-GGGGTTAGGGAT
* **
23805877 TTAAGGGTTAGAAAT
1 TTAGGGGTTAGGGAT
*
23805892 TTAGGGGCTAGGAGAT
1 TTAGGGGTTAGG-GAT
23805908 TTAGGGGTTAGGG
1 TTAGGGGTTAGGG
23805921 GTTAGGGATT
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
14 6 0.13
15 20 0.43
16 20 0.43
ACGTcount: A:0.24, C:0.01, G:0.45, T:0.30
Consensus pattern (15 bp):
TTAGGGGTTAGGGAT
Found at i:23805875 original size:30 final size:29
Alignment explanation
Indices: 23805840--23805920 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 29
23805830 AATATAAGGT
23805840 TTAGGAGTTAGGGGTTAGGGATTTAGGGGG
1 TTAGGAGTTAGGGGTTAGGGATTTA-GGGG
* **
23805870 TTAGGAGTTAAGGGTTAGAAATTTAGGGG
1 TTAGGAGTTAGGGGTTAGGGATTTAGGGG
*
23805899 CTAGGAGATTTAGGGGTTAGGG
1 TTAGGAG--TTAGGGGTTAGGG
23805921 GTTAGGGATT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 10 0.24
30 22 0.52
31 10 0.24
ACGTcount: A:0.25, C:0.01, G:0.44, T:0.30
Consensus pattern (29 bp):
TTAGGAGTTAGGGGTTAGGGATTTAGGGG
Found at i:23809017 original size:11 final size:11
Alignment explanation
Indices: 23808997--23809029 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
23808987 ATTGATTGAC
*
23808997 TGTCAGTGAAT
1 TGTCAATGAAT
23809008 TGTCAATGAA-
1 TGTCAATGAAT
23809018 TGTCAATGAAT
1 TGTCAATGAAT
23809029 T
1 T
23809030 ATTAATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.36
Consensus pattern (11 bp):
TGTCAATGAAT
Found at i:23809110 original size:13 final size:13
Alignment explanation
Indices: 23809064--23809155 Score: 91
Period size: 13 Copynumber: 6.9 Consensus size: 13
23809054 TATAACTTAC
23809064 ATTACTTAAATAT
1 ATTACTTAAATAT
* *
23809077 ATTAATTACTAAAAT
1 ATTACTTA--AATAT
23809092 -TTACTTAAATAT
1 ATTACTTAAATAT
*
23809104 ATTACTTAAATAC
1 ATTACTTAAATAT
23809117 ATTACTTACTAGA-AT
1 ATTACTTA--A-ATAT
23809132 -TTACTTAAATAT
1 ATTACTTAAATAT
23809144 ATTACTTAAATA
1 ATTACTTAAATA
23809156 CATGACTTAC
Statistics
Matches: 65, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
11 1 0.02
12 7 0.11
13 37 0.57
14 13 0.20
15 6 0.09
16 1 0.02
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.43
Consensus pattern (13 bp):
ATTACTTAAATAT
Found at i:23809126 original size:40 final size:38
Alignment explanation
Indices: 23809047--23809298 Score: 226
Period size: 40 Copynumber: 6.5 Consensus size: 38
23809037 TATATATTTT
* * * *
23809047 TAAAATTTATAACTTACATTACTTAAATATATTAATTAC
1 TAAAATTTATAA-ATATATTACTTAAATACATTACTTAC
23809086 TAAAATTTACTTAAATATATTACTTAAATACATTACTTAC
1 TAAAATTTA--TAAATATATTACTTAAATACATTACTTAC
* *
23809126 TAGAATTTACTTAAATATATTACTTAAATACATGACTTAC
1 TAAAATTTA--TAAATATATTACTTAAATACATTACTTAC
**
23809166 TAAAA-TTA-AAGTATATATTACATTACTTACATTACTTAC
1 TAAAATTTATAA--ATATATTAC-TTAAATACATTACTTAC
* * *
23809205 TAAAA--TAT-ATTACATTACTTAAATATATTACTTAC
1 TAAAATTTATAAATATATTACTTAAATACATTACTTAC
* * * *
23809240 AAAAATTTATAACTTACATTACTTAAATAAATTACATTAC
1 TAAAATTTATAA-ATATATTACTTAAATACATTAC-TTAC
*
23809280 TTAAAATTTATATATATAT
1 -TAAAATTTATAAATATAT
23809299 ATATATTAAA
Statistics
Matches: 180, Mismatches: 21, Indels: 23
0.80 0.09 0.10
Matches are distributed among these distances:
35 18 0.10
36 9 0.05
37 3 0.02
38 13 0.07
39 52 0.29
40 72 0.40
41 13 0.07
ACGTcount: A:0.46, C:0.11, G:0.01, T:0.42
Consensus pattern (38 bp):
TAAAATTTATAAATATATTACTTAAATACATTACTTAC
Found at i:23809163 original size:13 final size:13
Alignment explanation
Indices: 23809061--23809164 Score: 79
Period size: 13 Copynumber: 7.8 Consensus size: 13
23809051 ATTTATAACT
23809061 TACATTACTTAAA
1 TACATTACTTAAA
* *
23809074 TATATTAATTACTAA
1 TACATTACTTA--AA
23809089 -A-ATTTACTTAAA
1 TACA-TTACTTAAA
*
23809101 TATATTACTTAAA
1 TACATTACTTAAA
*
23809114 TACATTACTT-AC
1 TACATTACTTAAA
*
23809126 TAGAATTTACTTAAA
1 TA-CA-TTACTTAAA
*
23809141 TATATTACTTAAA
1 TACATTACTTAAA
*
23809154 TACATGACTTA
1 TACATTACTTA
23809165 CTAAAATTAA
Statistics
Matches: 73, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
12 5 0.07
13 48 0.66
14 15 0.21
15 5 0.07
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (13 bp):
TACATTACTTAAA
Found at i:23809222 original size:18 final size:18
Alignment explanation
Indices: 23809196--23809286 Score: 87
Period size: 18 Copynumber: 4.9 Consensus size: 18
23809186 CATTACTTAC
23809196 ATTAC-TTACTAAAATAT
1 ATTACATTACTAAAATAT
*
23809213 ATTACATTACTTAAATAT
1 ATTACATTACTAAAATAT
*
23809231 ATTAC-TTACAAAAATTTAT
1 ATTACATTACTAAAA--TAT
* *
23809250 AACTTACATTACTTAAATAA
1 -A-TTACATTACTAAAATAT
23809270 ATTACATTACTTAAAAT
1 ATTACATTAC-TAAAAT
23809287 TTATATATAT
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
17 12 0.20
18 25 0.42
19 9 0.15
20 3 0.05
21 4 0.07
22 7 0.12
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTACATTACTAAAATAT
Found at i:23809236 original size:31 final size:31
Alignment explanation
Indices: 23809178--23809236 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
23809168 AAATTAAAGT
*
23809178 ATATATTACATTACTTACATTACTTACTAAA
1 ATATATTACATTACTTAAATTACTTACTAAA
23809209 ATATATTACATTACTTAAATATA-TTACT
1 ATATATTACATTACTTAAAT-TACTTACT
23809237 TACAAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (31 bp):
ATATATTACATTACTTAAATTACTTACTAAA
Found at i:23809245 original size:17 final size:17
Alignment explanation
Indices: 23809196--23809257 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
23809186 CATTACTTAC
*
23809196 ATTACTTACTAAAATAT
1 ATTACTTACAAAAATAT
**
23809213 ATTACATTACTTAAATAT
1 ATTAC-TTACAAAAATAT
*
23809231 ATTACTTACAAAAATTT
1 ATTACTTACAAAAATAT
*
23809248 ATAACTTACA
1 ATTACTTACA
23809258 TTACTTAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
17 23 0.59
18 16 0.41
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTACTTACAAAAATAT
Found at i:23809412 original size:32 final size:32
Alignment explanation
Indices: 23809353--23809413 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
23809343 CTTCAATTTT
*
23809353 ATTGTAAATTATTTTTTATAATTTTAAAAATA
1 ATTGTAAATTATTTTTTATAATATTAAAAATA
23809385 ATTGTAAATGT-TATTTTTA-AATATTAAAA
1 ATTGTAAAT-TAT-TTTTTATAATATTAAAA
23809414 CCTATATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
32 19 0.73
33 7 0.27
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (32 bp):
ATTGTAAATTATTTTTTATAATATTAAAAATA
Found at i:23809579 original size:9 final size:9
Alignment explanation
Indices: 23809561--23809839 Score: 177
Period size: 9 Copynumber: 32.8 Consensus size: 9
23809551 CTTATATATA
*
23809561 AACTTGCAT
1 AACTTACAT
23809570 AACTTACAT
1 AACTTACAT
*
23809579 AA-TAACATAAT
1 AACTTAC---AT
23809590 AACTTACAT
1 AACTTACAT
23809599 AA--TACAT
1 AACTTACAT
23809606 AGAC-TACAT
1 A-ACTTACAT
23809615 AACTTACAT
1 AACTTACAT
*
23809624 AACTTAAAT
1 AACTTACAT
23809633 AACTTACAT
1 AACTTACAT
23809642 AA--TACAT
1 AACTTACAT
**
23809649 AACTTTGAT
1 AACTTACAT
*
23809658 AACTAACAT
1 AACTTACAT
* *
23809667 TA--TACAC
1 AACTTACAT
23809674 AACTTACAT
1 AACTTACAT
23809683 AA--TACAT
1 AACTTACAT
* *
23809690 TACTTACTT
1 AACTTACAT
*
23809699 AACATACAT
1 AACTTACAT
* *
23809708 AGCCTACAT
1 AACTTACAT
23809717 AACTTACAT
1 AACTTACAT
*
23809726 AA--TACAC
1 AACTTACAT
23809733 AACTTACAT
1 AACTTACAT
*
23809742 AACTTAAAT
1 AACTTACAT
23809751 AACTTACAT
1 AACTTACAT
23809760 AA--TACAT
1 AACTTACAT
**
23809767 AACTTTGAT
1 AACTTACAT
*
23809776 AACTAACAT
1 AACTTACAT
* *
23809785 TA--TACAC
1 AACTTACAT
23809792 AACTTACAT
1 AACTTACAT
*
23809801 AA--TACAC
1 AACTTACAT
23809808 AACTTACAT
1 AACTTACAT
23809817 AGA-TTACAT
1 A-ACTTACAT
23809826 AA--TACAT
1 AACTTACAT
23809833 AACTTAC
1 AACTTAC
23809840 CCGTGCAATT
Statistics
Matches: 206, Mismatches: 40, Indels: 48
0.70 0.14 0.16
Matches are distributed among these distances:
7 53 0.26
8 7 0.03
9 138 0.67
10 1 0.00
11 4 0.02
12 3 0.01
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:23809666 original size:25 final size:25
Alignment explanation
Indices: 23809619--23809684 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
23809609 CTACATAACT
*
23809619 TACATAACTTAAATAACTTACATAA
1 TACATAACTTAAATAACTAACATAA
** *
23809644 TACATAACTTTGATAACTAACATTA
1 TACATAACTTAAATAACTAACATAA
* *
23809669 TACACAACTTACATAA
1 TACATAACTTAAATAA
23809685 TACATTACTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.32
Consensus pattern (25 bp):
TACATAACTTAAATAACTAACATAA
Found at i:23809706 original size:59 final size:57
Alignment explanation
Indices: 23809610--23809827 Score: 256
Period size: 59 Copynumber: 3.7 Consensus size: 57
23809600 ATACATAGAC
* *
23809610 TACATAACTTACATAACTTAAATAACTTACATAATACATAACTTTGATAACTAACATTA
1 TACACAACTTACATAA--TACATAACTTACATAATACATAACTTTGATAACTAACATTA
* * * * ** * *
23809669 TACACAACTTACATAATACATTACTTACTTAACATACATAGCCTACATAACTTACATAA
1 TACACAACTTACATAATACATAACTTACAT-A-ATACATAACTTTGATAACTAACATTA
*
23809728 TACACAACTTACATAACTTAAATAACTTACATAATACATAACTTTGATAACTAACATTA
1 TACACAACTTACATAA--TACATAACTTACATAATACATAACTTTGATAACTAACATTA
*
23809787 TACACAACTTACATAATACACAACTTACATAGATTACATAA
1 TACACAACTTACATAATACATAACTTACATA-A-TACATAA
23809828 TACATAACTT
Statistics
Matches: 132, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
57 24 0.18
58 2 0.02
59 94 0.71
60 1 0.01
61 11 0.08
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.31
Consensus pattern (57 bp):
TACACAACTTACATAATACATAACTTACATAATACATAACTTTGATAACTAACATTA
Found at i:23809730 original size:25 final size:24
Alignment explanation
Indices: 23809702--23809839 Score: 86
Period size: 25 Copynumber: 5.5 Consensus size: 24
23809692 CTTACTTAAC
*
23809702 ATACATAGCCTACATAACTTACATA
1 ATACATA-CTTACATAACTTACATA
* *
23809727 ATACACAACTTACATAACTTAAATA
1 ATACA-TACTTACATAACTTACATA
* **
23809752 ACTTACATA-ATACATAACTTTGATA
1 A--TACATACTTACATAACTTACATA
*
23809777 ACTAACAT--TATACACAACTTACATA
1 A-T-ACATACT-TACATAACTTACATA
*
23809802 ATACACAACTTACATAGA-TTACATA
1 ATACA-TACTTACATA-ACTTACATA
23809827 ATACATAACTTAC
1 ATACAT-ACTTAC
23809840 CCGTGCAATT
Statistics
Matches: 88, Mismatches: 15, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
23 3 0.03
24 2 0.02
25 75 0.85
26 4 0.05
27 4 0.05
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (24 bp):
ATACATACTTACATAACTTACATA
Done.