Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 47 of 143
Found at i:14812974 original size:13 final size:13
Alignment explanation
Indices: 14812956--14812980 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14812946 CCCATTGTAT
14812956 CATTTTTAGCATG
1 CATTTTTAGCATG
14812969 CATTTTTAGCAT
1 CATTTTTAGCAT
14812981 TTTGTATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.12, T:0.48
Consensus pattern (13 bp):
CATTTTTAGCATG
Found at i:14833320 original size:17 final size:17
Alignment explanation
Indices: 14833281--14833322 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
14833271 CAGCCTGGGG
14833281 AAGAAGAA-G-CAAAAC
1 AAGAAGAAGGCCAAAAC
*
14833296 AAGAAGAAGGCCAAAAG
1 AAGAAGAAGGCCAAAAC
*
14833313 AAGGAGAAGG
1 AAGAAGAAGG
14833323 AAAGAGAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 8 0.35
16 1 0.04
17 14 0.61
ACGTcount: A:0.60, C:0.10, G:0.31, T:0.00
Consensus pattern (17 bp):
AAGAAGAAGGCCAAAAC
Found at i:14845826 original size:24 final size:24
Alignment explanation
Indices: 14845794--14845892 Score: 92
Period size: 24 Copynumber: 4.1 Consensus size: 24
14845784 ATATGCTGGT
* *
14845794 TAACTATTCAGGGCTCATAAGAGC
1 TAACCATTCAGGGCTCGTAAGAGC
*
14845818 TAACCATTCTGGGCTCGTAAGAGC
1 TAACCATTCAGGGCTCGTAAGAGC
* *
14845842 TGACCATTCTA-GGCTCGTAAGAGT
1 TAACCATTC-AGGGCTCGTAAGAGC
* * * * *
14845866 TGACCATCCTGGGCTCGTGAGATC
1 TAACCATTCAGGGCTCGTAAGAGC
14845890 TAA
1 TAA
14845893 TGTTGTCTGT
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.26
Consensus pattern (24 bp):
TAACCATTCAGGGCTCGTAAGAGC
Found at i:14852232 original size:12 final size:12
Alignment explanation
Indices: 14852217--14852242 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14852207 AATTAAAGAA
14852217 ATAATAGCATTC
1 ATAATAGCATTC
14852229 ATAATAGCATTC
1 ATAATAGCATTC
14852241 AT
1 AT
14852243 CATGATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (12 bp):
ATAATAGCATTC
Found at i:14858268 original size:192 final size:192
Alignment explanation
Indices: 14857916--14858301 Score: 468
Period size: 192 Copynumber: 2.0 Consensus size: 192
14857906 CCGTACCATT
** * *
14857916 GTCCGTGCATTACACTGCCCTTACCATCATTCTTCTTGTCACTTCGAGATCTCACCCACACCATT
1 GTCCGTGCATTACACCACCCTTACCATCATTCTTCTTGTCACTTAGAGATCTCACCCACACCATC
* * * * * * *
14857981 AAACCTCCCTCGTCGTTACCATTGAGAAATTGGCACAAGAACCCCTCTTTCGGCCTTCAACTTTT
66 AAACCTCCATCATCATCACCATTGAGAAATCGGCACAAGAACCCCTCTTTCGACCTTCAACTTTA
* ** * * * ***
14858046 TCGCCTTTTCTACAACGTTTCTTGCCGTTCTAGGAGTTGCTAAGTAGTGTTTGGTGTTTGGG
131 CCAACTTTCCTACAACATTCCGACCCGTTCTAGGAGTTGCTAAGTAGTGTTTGGTGTTTGGG
*
14858108 GTCCGTGCATTACACCACCCTTACCATCATTCTTCTTGTCACTTAGCGATCTCACCCACACCATC
1 GTCCGTGCATTACACCACCCTTACCATCATTCTTCTTGTCACTTAGAGATCTCACCCACACCATC
* * * ** *
14858173 GAACCTCTATTATCATCGTCGTT-ACGAAATCGGCACAAGAACCCCTCTTTCGACCTTCAACTTT
66 AAACCTCCATCATCATCACCATTGA-GAAATCGGCACAAGAACCCCTCTTTCGACCTTCAACTTT
* ** * *
14858237 ACCAACTTTCCTCCGTCATTCCGACCCGTTCTAGGCGTTGGTAAGTAGTGTTTGGTGTTTGGG
130 ACCAACTTTCCTACAACATTCCGACCCGTTCTAGGAGTTGCTAAGTAGTGTTTGGTGTTTGGG
14858300 GT
1 GT
14858302 GTTGTTTGGT
Statistics
Matches: 161, Mismatches: 32, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
191 1 0.01
192 160 0.99
ACGTcount: A:0.20, C:0.30, G:0.17, T:0.33
Consensus pattern (192 bp):
GTCCGTGCATTACACCACCCTTACCATCATTCTTCTTGTCACTTAGAGATCTCACCCACACCATC
AAACCTCCATCATCATCACCATTGAGAAATCGGCACAAGAACCCCTCTTTCGACCTTCAACTTTA
CCAACTTTCCTACAACATTCCGACCCGTTCTAGGAGTTGCTAAGTAGTGTTTGGTGTTTGGG
Found at i:14861930 original size:59 final size:59
Alignment explanation
Indices: 14861838--14861963 Score: 252
Period size: 59 Copynumber: 2.1 Consensus size: 59
14861828 AATTAAAGAA
14861838 ATCGATACTTGGATCAATGAATCAATACTTCCTTATAGGTACCGATACCTTACCTTAGT
1 ATCGATACTTGGATCAATGAATCAATACTTCCTTATAGGTACCGATACCTTACCTTAGT
14861897 ATCGATACTTGGATCAATGAATCAATACTTCCTTATAGGTACCGATACCTTACCTTAGT
1 ATCGATACTTGGATCAATGAATCAATACTTCCTTATAGGTACCGATACCTTACCTTAGT
14861956 ATCGATAC
1 ATCGATAC
14861964 CAAATTGATA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 67 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (59 bp):
ATCGATACTTGGATCAATGAATCAATACTTCCTTATAGGTACCGATACCTTACCTTAGT
Found at i:14862945 original size:20 final size:18
Alignment explanation
Indices: 14862906--14862968 Score: 54
Period size: 20 Copynumber: 3.3 Consensus size: 18
14862896 GGTTTAATGG
***
14862906 TTAATTAATCTAACTTAA
1 TTAATTAATCTTTTTTAA
14862924 TTAATTAAATCTTTATTTAA
1 TTAATT-AATCTTT-TTTAA
*
14862944 TTTACTTAATCTTTTTCTAA
1 -TTAATTAATCTTTTT-TAA
14862964 TTAAT
1 TTAAT
14862969 CTTAATGGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
18 6 0.17
19 11 0.31
20 14 0.39
21 5 0.14
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.54
Consensus pattern (18 bp):
TTAATTAATCTTTTTTAA
Found at i:14862972 original size:21 final size:21
Alignment explanation
Indices: 14862920--14862974 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
14862910 TTAATCTAAC
*
14862920 TTAATTAAT-TAAATCTTTAT
1 TTAATTAATCTTAATCTTTAT
*
14862940 TTAATTTA-CTTAATCTTT-T
1 TTAATTAATCTTAATCTTTAT
14862959 TCTAATTAATCTTAAT
1 T-TAATTAATCTTAAT
14862975 GGAAGGTCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 2 0.07
20 21 0.72
21 6 0.21
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (21 bp):
TTAATTAATCTTAATCTTTAT
Found at i:14864250 original size:20 final size:20
Alignment explanation
Indices: 14864227--14864264 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14864217 TTTTTTCAAT
14864227 TTTTTGAATTTTAATATATA
1 TTTTTGAATTTTAATATATA
* *
14864247 TTTTTGAGTTTTTATATA
1 TTTTTGAATTTTAATATA
14864265 AAAATTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (20 bp):
TTTTTGAATTTTAATATATA
Found at i:14878472 original size:17 final size:17
Alignment explanation
Indices: 14878416--14878484 Score: 65
Period size: 17 Copynumber: 4.2 Consensus size: 17
14878406 TTTTTCTATT
14878416 TAACTTAAAT-TAAATAA
1 TAAC-TAAATATAAATAA
*
14878433 TAA-TAAATTCTAAAT-A
1 TAACTAAA-TATAAATAA
*
14878449 -GACTAAATATAAATAA
1 TAACTAAATATAAATAA
*
14878465 TAACTAAATAGAAATAA
1 TAACTAAATATAAATAA
14878482 TAA
1 TAA
14878485 TTTAAATAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
15 11 0.26
16 7 0.16
17 25 0.58
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (17 bp):
TAACTAAATATAAATAA
Found at i:14878480 original size:32 final size:29
Alignment explanation
Indices: 14878421--14878497 Score: 84
Period size: 32 Copynumber: 2.6 Consensus size: 29
14878411 CTATTTAACT
**
14878421 TAAATTAAATAATAATAAATTCTAAATAGA
1 TAAATTAAATAATAATAAATTAGAAATA-A
14878451 CTAAATATAAATAATAACTAAA-TAGAAATAA
1 -TAAAT-TAAATAATAA-TAAATTAGAAATAA
*
14878482 TAATTTAAATAATAAT
1 TAAATTAAATAATAAT
14878498 TCATGGGGTG
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 1 0.02
29 10 0.24
30 4 0.10
31 6 0.15
32 16 0.39
33 4 0.10
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (29 bp):
TAAATTAAATAATAATAAATTAGAAATAA
Found at i:14883064 original size:24 final size:24
Alignment explanation
Indices: 14883026--14883143 Score: 130
Period size: 24 Copynumber: 4.9 Consensus size: 24
14883016 ACAAACAATA
14883026 TTAGC-CCATACGAGCCCAGAATGG
1 TTAGCTCC-TACGAGCCCAGAATGG
*
14883050 TTAGCTCCTATGAGCCCAGAATGG
1 TTAGCTCCTACGAGCCCAGAATGG
**
14883074 TTAGCTCCTACGAGCCCAGAACAG
1 TTAGCTCCTACGAGCCCAGAATGG
* * * * *
14883098 TTAGCTCTTACAAACCCAAAAAGG
1 TTAGCTCCTACGAGCCCAGAATGG
* *
14883122 TTAGCTCTTTCGAGCCCAGAAT
1 TTAGCTCCTACGAGCCCAGAAT
14883144 CAGAATAATG
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
24 76 0.97
25 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (24 bp):
TTAGCTCCTACGAGCCCAGAATGG
Found at i:14883177 original size:27 final size:27
Alignment explanation
Indices: 14883125--14883233 Score: 146
Period size: 27 Copynumber: 4.0 Consensus size: 27
14883115 AAAAAGGTTA
* *
14883125 GCTCTTTCGAGCCCAGAATCAGAATAAT
1 GCTCTTTTGAG-CCAGAATCAGAATAAC
*
14883153 GCTCTTTTGAGCCAGAATCAAAATAAC
1 GCTCTTTTGAGCCAGAATCAGAATAAC
*
14883180 ACTCTTTTGAGCCAGAATCAGAATAAC
1 GCTCTTTTGAGCCAGAATCAGAATAAC
* * *
14883207 GCTTTTTTGAGGCAGAATTAGAATAAC
1 GCTCTTTTGAGCCAGAATCAGAATAAC
14883234 TCCTCAAGCC
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
27 62 0.86
28 10 0.14
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (27 bp):
GCTCTTTTGAGCCAGAATCAGAATAAC
Found at i:14885903 original size:28 final size:28
Alignment explanation
Indices: 14885871--14885930 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 28
14885861 TGTGCCTAGT
*
14885871 TGACTGAAGCTTTAA-ATTTTTCAAAGGC
1 TGACTGAAGCTTTAATA-ATTTCAAAGGC
14885899 TGACTGAAGCTTTAATAATTTCAAAGGC
1 TGACTGAAGCTTTAATAATTTCAAAGGC
14885927 TGAC
1 TGAC
14885931 CAAGTGACAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 29 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (28 bp):
TGACTGAAGCTTTAATAATTTCAAAGGC
Found at i:14893483 original size:26 final size:26
Alignment explanation
Indices: 14893447--14893522 Score: 91
Period size: 26 Copynumber: 2.9 Consensus size: 26
14893437 TCAACAACTC
*
14893447 AATCAATCGGTCTATACTGGTTTTCA
1 AATCAATCGGTCTATACTGGTTTCCA
* *
14893473 AGTC-ATCCGGTCTATATTGGTTTCCA
1 AATCAAT-CGGTCTATACTGGTTTCCA
* *
14893499 AATCAATTGGTCTATACTGCTTTC
1 AATCAATCGGTCTATACTGGTTTC
14893523 TAAGTCAACC
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
25 2 0.05
26 37 0.90
27 2 0.05
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (26 bp):
AATCAATCGGTCTATACTGGTTTCCA
Found at i:14894279 original size:14 final size:14
Alignment explanation
Indices: 14894260--14894286 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14894250 ACATTAGGGA
14894260 ATATAAATTTATAG
1 ATATAAATTTATAG
14894274 ATATAAATTTATA
1 ATATAAATTTATA
14894287 TTTAATTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (14 bp):
ATATAAATTTATAG
Found at i:14897656 original size:19 final size:20
Alignment explanation
Indices: 14897624--14897661 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
14897614 TAAAATTAAA
14897624 TTTTCAAAAATATT-TTTAT
1 TTTTCAAAAATATTGTTTAT
* *
14897643 TTTTCCAAATTATTGTTTA
1 TTTTCAAAAATATTGTTTA
14897662 ATCGATTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.58
Consensus pattern (20 bp):
TTTTCAAAAATATTGTTTAT
Found at i:14898908 original size:14 final size:14
Alignment explanation
Indices: 14898891--14899023 Score: 65
Period size: 14 Copynumber: 9.4 Consensus size: 14
14898881 TCAGTGATAT
14898891 CCTTTCGGATATAA
1 CCTTTCGGATATAA
* *
14898905 CCTTTTC-AATAATAT
1 CC-TTTCGGAT-ATAA
* *
14898920 CTTTTCGGATATAG
1 CCTTTCGGATATAA
** *
14898934 CCTTTCCAATAATAT
1 CCTTTCGGAT-ATAA
14898949 CCTTTCGGATATAA
1 CCTTTCGGATATAA
** * *
14898963 CCTTTCCAAAATAT
1 CCTTTCGGATATAA
*
14898977 CATTTCGGATAT-A
1 CCTTTCGGATATAA
* *
14898990 CCTTTTC-AATAATAT
1 CC-TTTCGGAT-ATAA
*
14899005 CCTTTCAGATATAA
1 CCTTTCGGATATAA
14899019 CCTTT
1 CCTTT
14899024 TCAATAATAT
Statistics
Matches: 85, Mismatches: 26, Indels: 16
0.67 0.20 0.13
Matches are distributed among these distances:
13 3 0.04
14 57 0.67
15 25 0.29
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.41
Consensus pattern (14 bp):
CCTTTCGGATATAA
Found at i:14898912 original size:58 final size:58
Alignment explanation
Indices: 14898862--14899089 Score: 241
Period size: 57 Copynumber: 4.0 Consensus size: 58
14898852 TCATTGATGC
* * * *
14898862 TCGTTT-GGATACAATCTTTTCAGTGATATCCTTTCGGATATAACCTTTTCAATAATA
1 TCGTTTCGGATACAACCTTTCCAATAATATCCTTTCGGATATAACCTTTTCAATAATA
* * * *
14898919 TCTTTTCGGATATAGCCTTTCCAATAATATCCTTTCGGATATAACCTTTCCAA-AATA
1 TCGTTTCGGATACAACCTTTCCAATAATATCCTTTCGGATATAACCTTTTCAATAATA
* * * *
14898976 TCATTTCGGATA-TACCTTTTCAATAATATCCTTTCAGATATAACCTTTTCAATAATA
1 TCGTTTCGGATACAACCTTTCCAATAATATCCTTTCGGATATAACCTTTTCAATAATA
* * * * ** * *
14899033 TCCTTCCAGATA-TACCTTTTGAATAATATCCTTTCGAATAT-ATCTTTTCAATAATA
1 TCGTTTCGGATACAACCTTTCCAATAATATCCTTTCGGATATAACCTTTTCAATAATA
14899089 T
1 T
14899090 ATAAAAGCAT
Statistics
Matches: 148, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
56 50 0.34
57 59 0.40
58 39 0.26
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.42
Consensus pattern (58 bp):
TCGTTTCGGATACAACCTTTCCAATAATATCCTTTCGGATATAACCTTTTCAATAATA
Found at i:14898984 original size:28 final size:29
Alignment explanation
Indices: 14898868--14899089 Score: 281
Period size: 29 Copynumber: 7.8 Consensus size: 29
14898858 ATGCTCGTTT
* * * *
14898868 GGATACAATCTTTTCAGTGATATCCTTTC
1 GGATATAACCTTTTCAATAATATCCTTTC
*
14898897 GGATATAACCTTTTCAATAATATCTTTTC
1 GGATATAACCTTTTCAATAATATCCTTTC
* *
14898926 GGATATAGCCTTTCCAATAATATCCTTTC
1 GGATATAACCTTTTCAATAATATCCTTTC
* *
14898955 GGATATAACCTTTCCAA-AATATCATTTC
1 GGATATAACCTTTTCAATAATATCCTTTC
14898983 GGATAT-ACCTTTTCAATAATATCCTTTC
1 GGATATAACCTTTTCAATAATATCCTTTC
* *
14899011 AGATATAACCTTTTCAATAATATCCTTCC
1 GGATATAACCTTTTCAATAATATCCTTTC
* *
14899040 AGATAT-ACCTTTTGAATAATATCCTTTC
1 GGATATAACCTTTTCAATAATATCCTTTC
* *
14899068 GAATAT-ATCTTTTCAATAATAT
1 GGATATAACCTTTTCAATAATAT
14899090 ATAAAAGCAT
Statistics
Matches: 171, Mismatches: 20, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
27 9 0.05
28 69 0.40
29 93 0.54
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.41
Consensus pattern (29 bp):
GGATATAACCTTTTCAATAATATCCTTTC
Found at i:14899004 original size:85 final size:85
Alignment explanation
Indices: 14898887--14899089 Score: 282
Period size: 85 Copynumber: 2.4 Consensus size: 85
14898877 CTTTTCAGTG
* * *
14898887 ATATCCTTTCGGATATAACCTTTTCAATAATATCTTTTCGGATATAGCCTTTCCAATAATATCCT
1 ATATCCTTTCGGATAT-ACCTTTTCAATAATATCCTTTCAGATATAACCTTTCCAATAATATCCT
* *
14898952 TTCGGATATAACCTTTCCAA-A
65 TCCAGATAT-ACCTTTCCAATA
* *
14898973 ATATCATTTCGGATATACCTTTTCAATAATATCCTTTCAGATATAACCTTTTCAATAATATCCTT
1 ATATCCTTTCGGATATACCTTTTCAATAATATCCTTTCAGATATAACCTTTCCAATAATATCCTT
**
14899038 CCAGATATACCTTTTGAATA
66 CCAGATATACCTTTCCAATA
* *
14899058 ATATCCTTTCGAATATATCTTTTCAATAATAT
1 ATATCCTTTCGGATATACCTTTTCAATAATAT
14899090 ATAAAAGCAT
Statistics
Matches: 104, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
84 8 0.08
85 81 0.78
86 15 0.14
ACGTcount: A:0.32, C:0.20, G:0.06, T:0.41
Consensus pattern (85 bp):
ATATCCTTTCGGATATACCTTTTCAATAATATCCTTTCAGATATAACCTTTCCAATAATATCCTT
CCAGATATACCTTTCCAATA
Found at i:14904707 original size:18 final size:18
Alignment explanation
Indices: 14904684--14904718 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14904674 ATAAAAAAGT
*
14904684 TTTTAATTTAATTTATTG
1 TTTTAAATTAATTTATTG
*
14904702 TTTTAAATTGATTTATT
1 TTTTAAATTAATTTATT
14904719 ATTCTTTAAA
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:0.29, C:0.00, G:0.06, T:0.66
Consensus pattern (18 bp):
TTTTAAATTAATTTATTG
Found at i:14904832 original size:71 final size:71
Alignment explanation
Indices: 14904746--14904967 Score: 290
Period size: 71 Copynumber: 3.1 Consensus size: 71
14904736 TTTTAATCTA
** * *
14904746 TTTTTAAAATTTTAATTTATTACTTTAAATTGATTTATTCTTTAAAGATGTCTTTTTTAATTTAG
1 TTTTTAAAA-TTTAATTTATTGTTTTAAATTGATTTATTCTTTAAATATGTCTTTTTTAATTTAA
14904811 ATTATAT
65 ATTATAT
* * *
14904818 TTTTTAAAATTTAATTTATTGTTTTAAATTGATTTATTATTCTTTAAATATAT-ATTTTTAA-TA
1 TTTTTAAAATTTAATTTATTGTTTTAAATTGA--T-TTATTCTTTAAATATGTCTTTTTTAATTT
*
14904881 AAATTCTAT
63 AAATTATAT
14904890 TTTTT-AAATTTAA-TTATTGTTTTAAATTGATTTATTCTTTAAATATGTCTTTTTTAATTTAAA
1 TTTTTAAAATTTAATTTATTGTTTTAAATTGATTTATTCTTTAAATATGTCTTTTTTAATTTAAA
14904953 TTATACAT
66 TTAT--AT
14904961 TTTTTAA
1 TTTTTAA
14904968 TTTTTCGATA
Statistics
Matches: 130, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
67 16 0.12
68 8 0.06
69 7 0.05
70 17 0.13
71 36 0.28
72 23 0.18
73 8 0.06
74 15 0.12
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (71 bp):
TTTTTAAAATTTAATTTATTGTTTTAAATTGATTTATTCTTTAAATATGTCTTTTTTAATTTAAA
TTATAT
Found at i:14904837 original size:19 final size:22
Alignment explanation
Indices: 14904804--14904845 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
14904794 TGTCTTTTTT
14904804 AATTTAGATTATATT-TTTTAA
1 AATTTAGATTATATTGTTTTAA
14904825 AATTTA-ATT-TATTGTTTTAA
1 AATTTAGATTATATTGTTTTAA
14904845 A
1 A
14904846 TTGATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 10 0.50
21 6 0.30
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (22 bp):
AATTTAGATTATATTGTTTTAA
Found at i:14904846 original size:19 final size:18
Alignment explanation
Indices: 14904737--14904933 Score: 78
Period size: 18 Copynumber: 11.1 Consensus size: 18
14904727 AATATGTATT
* *
14904737 TTTAATCTATTTTTAAAA
1 TTTAATTTATTTTTTAAA
*
14904755 TTTTAATTTATTACTTTAAA
1 -TTTAATTTATT-TTTTAAA
* *
14904775 -TTGATTTATTCTTTAAA
1 TTTAATTTATTTTTTAAA
* * *
14904792 ---GATGTCTTTTTT-AA
1 TTTAATTTATTTTTTAAA
14904806 TTTAGATTATATTTTTTAAAA
1 TTTA-ATT-TATTTTTT-AAA
14904827 TTTAATTTATTGTTTTAAA
1 TTTAATTTATT-TTTTAAA
*
14904846 -TTGATTTATTATTCTTTAAA
1 TTTAATTTA-T-TT-TTTAAA
*
14904866 --T-ATATA-TTTTT-AA
1 TTTAATTTATTTTTTAAA
**
14904879 TAAAATTCTATTTTTTAAA
1 TTTAATT-TATTTTTTAAA
14904898 TTTAA-TTATTGTTTTAAA
1 TTTAATTTATT-TTTTAAA
* *
14904916 -TTGATTTATTCTTTAAA
1 TTTAATTTATTTTTTAAA
14904933 T
1 T
14904934 ATGTCTTTTT
Statistics
Matches: 139, Mismatches: 18, Indels: 43
0.69 0.09 0.22
Matches are distributed among these distances:
13 2 0.01
14 5 0.04
15 11 0.08
16 2 0.01
17 22 0.16
18 40 0.29
19 32 0.23
20 19 0.14
21 6 0.04
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.59
Consensus pattern (18 bp):
TTTAATTTATTTTTTAAA
Found at i:14904846 original size:137 final size:140
Alignment explanation
Indices: 14904688--14904967 Score: 426
Period size: 141 Copynumber: 2.0 Consensus size: 140
14904678 AAAAGTTTTT
*
14904688 AATTTAATTTATTGTTTTAAATTGATTTATTATTCTTTAAATATGTA-TTTT-T-AA-TCTATTT
1 AATTTAATTTATTGTTTTAAATTGATTTATTATTCTTTAAATATATATTTTTATAAATTCTATTT
*
14904749 TTAAAATTTTAATTTATTACTTTAAATTGATTTATTCTTTAAAGATGTCTTTTTTAATTTAGATT
66 TTAAAA-TTTAA-TTATTACTTTAAATTGATTTATTCTTTAAAGATGTCTTTTTTAATTTAAATT
14904814 AT-ATTTTTTAA
129 ATAATTTTTTAA
14904825 AATTTAATTTATTGTTTTAAATTGATTTATTATTCTTTAAATATATATTTTTAATAAAATTCTAT
1 AATTTAATTTATTGTTTTAAATTGATTTATTATTCTTTAAATATATATTTTT-AT-AAATTCTAT
* ** *
14904890 TTTTTAAATTTAATTATTGTTTTAAATTGATTTATTCTTTAAATATGTCTTTTTTAATTTAAATT
64 TTTTAAAATTTAATTATTACTTTAAATTGATTTATTCTTTAAAGATGTCTTTTTTAATTTAAATT
14904955 ATACATTTTTTAA
129 ATA-ATTTTTTAA
14904968 TTTTTCGATA
Statistics
Matches: 129, Mismatches: 6, Indels: 10
0.89 0.04 0.07
Matches are distributed among these distances:
137 46 0.36
138 4 0.03
140 1 0.01
141 50 0.39
142 7 0.05
143 21 0.16
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (140 bp):
AATTTAATTTATTGTTTTAAATTGATTTATTATTCTTTAAATATATATTTTTATAAATTCTATTT
TTAAAATTTAATTATTACTTTAAATTGATTTATTCTTTAAAGATGTCTTTTTTAATTTAAATTAT
AATTTTTTAA
Found at i:14904854 original size:18 final size:17
Alignment explanation
Indices: 14904769--14904933 Score: 92
Period size: 18 Copynumber: 9.4 Consensus size: 17
14904759 AATTTATTAC
*
14904769 TTTAAATTGATTTATTC
1 TTTAAATTGATTTATTT
* *
14904786 TTTAAA--GATGTCTTT
1 TTTAAATTGATTTATTT
*
14904801 TTTAATTTAGATTATATTT
1 TTTAAATT-GATT-TATTT
*
14904820 TTTAAAATTTAATTTATTGT
1 TTT-AAA-TTGATTTATT-T
14904840 TTTAAATTGATTTATTATT
1 TTTAAATTGATTTA-T-TT
*
14904859 CTTTAAA-T-ATATATTT
1 -TTTAAATTGATTTATTT
14904875 TTAATAAA---ATTCTATTT
1 TT--TAAATTGATT-TATTT
* *
14904892 TTTAAATTTAATTATTGT
1 TTTAAATTGATTTATT-T
*
14904910 TTTAAATTGATTTATTC
1 TTTAAATTGATTTATTT
14904927 TTTAAAT
1 TTTAAAT
14904934 ATGTCTTTTT
Statistics
Matches: 116, Mismatches: 15, Indels: 34
0.70 0.09 0.21
Matches are distributed among these distances:
15 17 0.15
16 4 0.03
17 29 0.25
18 31 0.27
19 17 0.15
20 16 0.14
21 2 0.02
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (17 bp):
TTTAAATTGATTTATTT
Found at i:14906434 original size:16 final size:18
Alignment explanation
Indices: 14906398--14906436 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
14906388 GGGTTTAGAG
*
14906398 ATAAAACGTTAAACTAAA
1 ATAAAACGTAAAACTAAA
14906416 ATAAAACG-AAAAC-AAA
1 ATAAAACGTAAAACTAAA
14906432 ATAAA
1 ATAAA
14906437 TAAAGTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 4 0.20
18 8 0.40
ACGTcount: A:0.69, C:0.10, G:0.05, T:0.15
Consensus pattern (18 bp):
ATAAAACGTAAAACTAAA
Found at i:14913777 original size:15 final size:15
Alignment explanation
Indices: 14913757--14913808 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
14913747 ACACTGGAGC
14913757 TACGAACACTCATGT
1 TACGAACACTCATGT
* * ***
14913772 TGCGAACACACACAA
1 TACGAACACTCATGT
*
14913787 TACGAACACTGATGT
1 TACGAACACTCATGT
14913802 TACGAAC
1 TACGAAC
14913809 CCTCGTGTTG
Statistics
Matches: 26, Mismatches: 11, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.38, C:0.27, G:0.15, T:0.19
Consensus pattern (15 bp):
TACGAACACTCATGT
Found at i:14916655 original size:31 final size:32
Alignment explanation
Indices: 14916617--14916688 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 32
14916607 ATAAATAATT
* *
14916617 TAATATATTTTTTATA-TTTATATTTATATTA-
1 TAATATATTTTTTATATTTTATA-TGATATAAG
*
14916648 TAATATATATTTTATATTTTATATGATATAAG
1 TAATATATTTTTTATATTTTATATGATATAAG
14916680 TAATATATT
1 TAATATATT
14916689 ATATAAACTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 21 0.60
32 14 0.40
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (32 bp):
TAATATATTTTTTATATTTTATATGATATAAG
Found at i:14921032 original size:14 final size:14
Alignment explanation
Indices: 14920995--14921061 Score: 66
Period size: 14 Copynumber: 4.8 Consensus size: 14
14920985 CCTTGAGTCC
14920995 AAGGTTTAGGGTCT
1 AAGGTTTAGGGTCT
*
14921009 AAGGTCTAGGGTC-
1 AAGGTTTAGGGTCT
*
14921022 AATGGTTTAGGATCT
1 AA-GGTTTAGGGTCT
* *
14921037 -AGAGTTTGGGGACT
1 AAG-GTTTAGGGTCT
14921051 AAGGTTTAGGG
1 AAGGTTTAGGG
14921062 GTTAGAGGTT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
13 3 0.07
14 37 0.88
15 2 0.05
ACGTcount: A:0.24, C:0.07, G:0.37, T:0.31
Consensus pattern (14 bp):
AAGGTTTAGGGTCT
Found at i:14924343 original size:117 final size:117
Alignment explanation
Indices: 14924137--14924347 Score: 332
Period size: 117 Copynumber: 1.8 Consensus size: 117
14924127 TTTGGTTTGT
* * *
14924137 TGGTTATTTGTGATTTATTATTGCAATTTCAATGCCATAATGTAGGGTTTGTTTGGTCGATTTGT
1 TGGTTATTTGTGATTTATTATTGCAATTTCAATGCCACAATGTAGGGTTTGTTTGGCCAATTTGT
*
14924202 GATGCAATAATGGTCCCGATGTTGTTGATAAAGTTATTGTTAAAATTGTAAA
66 GATGCAACAATGGTCCCGATGTTGTTGATAAAGTTATTGTTAAAATTGTAAA
* * *
14924254 TGGTTATTTGTGATTTATTATTGCAATTTTAGTGCCACAATGTAGGGTTTGTTTTGCCAATTTGT
1 TGGTTATTTGTGATTTATTATTGCAATTTCAATGCCACAATGTAGGGTTTGTTTGGCCAATTTGT
** *
14924319 GATGTGACAATGGTCCCTATGTTGTTGAT
66 GATGCAACAATGGTCCCGATGTTGTTGAT
14924348 TTCTGTTACC
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
117 84 1.00
ACGTcount: A:0.24, C:0.09, G:0.23, T:0.45
Consensus pattern (117 bp):
TGGTTATTTGTGATTTATTATTGCAATTTCAATGCCACAATGTAGGGTTTGTTTGGCCAATTTGT
GATGCAACAATGGTCCCGATGTTGTTGATAAAGTTATTGTTAAAATTGTAAA
Found at i:14924878 original size:27 final size:27
Alignment explanation
Indices: 14924847--14924900 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
14924837 TTCTGTTGAC
*
14924847 TGTTGGGGAGGGTGATGTTGAAGGGGT
1 TGTTGGGGAGGGTGATGATGAAGGGGT
14924874 TGTTGGGGAGGGTGATGATGAAGGGGT
1 TGTTGGGGAGGGTGATGATGAAGGGGT
14924901 AGAAGTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.17, C:0.00, G:0.56, T:0.28
Consensus pattern (27 bp):
TGTTGGGGAGGGTGATGATGAAGGGGT
Found at i:14924914 original size:33 final size:33
Alignment explanation
Indices: 14924872--14925055 Score: 194
Period size: 33 Copynumber: 5.6 Consensus size: 33
14924862 TGTTGAAGGG
*
14924872 GTTGTTGGGGAGGGTGATGATGAAGGGGTAGAA
1 GTTGATGGGGAGGGTGATGATGAAGGGGTAGAA
* *
14924905 GTTTATGGGGAGGGTGATGATAAAGGGGTAGAA
1 GTTGATGGGGAGGGTGATGATGAAGGGGTAGAA
* *
14924938 GTTGAT-GGGAGGATGATGATAAAGGGGTA-AA
1 GTTGATGGGGAGGGTGATGATGAAGGGGTAGAA
* *
14924969 ATCTGATGGGGAGGGTGATGATGAAGAGGTAGAA
1 GT-TGATGGGGAGGGTGATGATGAAGGGGTAGAA
* * * * * *
14925003 TTTGATAGTGAAGGTGAT-TTGGAAAAGGGTAGAA
1 GTTGATGGGGAGGGTGATGAT-G-AAGGGGTAGAA
*
14925037 GTTGATGGAGAGGGTGATG
1 GTTGATGGGGAGGGTGATG
14925056 TAGGAGGGGT
Statistics
Matches: 125, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
31 3 0.02
32 27 0.22
33 69 0.55
34 26 0.21
ACGTcount: A:0.30, C:0.01, G:0.45, T:0.24
Consensus pattern (33 bp):
GTTGATGGGGAGGGTGATGATGAAGGGGTAGAA
Found at i:14924966 original size:65 final size:65
Alignment explanation
Indices: 14924879--14925055 Score: 191
Period size: 65 Copynumber: 2.7 Consensus size: 65
14924869 GGGGTTGTTG
* * *
14924879 GGGAGGGTGATGATGAAGGGGTAGAAGTTTATGGGGAGGGTGATGATAAAGGGGTAGAAGTTGAT
1 GGGA-GGTGATGATAAAGGGGTAGAAGTTGATGGGGAGGGTGATGATAAAGAGGTAGAAGTTGAT
14924944 -
65 A
* * *
14924944 GGGAGGATGATGATAAAGGGGTA-AAATCTGATGGGGAGGGTGATGATGAAGAGGTAGAATTTGA
1 GGGAGG-TGATGATAAAGGGGTAGAAGT-TGATGGGGAGGGTGATGATAAAGAGGTAGAAGTTGA
14925008 TA
64 TA
* *
14925010 GTGAAGGTGATTTGGA-AAA-GGGTAGAAGTTGATGGAGAGGGTGATG
1 G-GGAGGTGA--T-GATAAAGGGGTAGAAGTTGATGGGGAGGGTGATG
14925056 TAGGAGGGGT
Statistics
Matches: 95, Mismatches: 9, Indels: 14
0.81 0.08 0.12
Matches are distributed among these distances:
64 5 0.05
65 52 0.55
66 4 0.04
67 25 0.26
68 7 0.07
69 2 0.02
ACGTcount: A:0.32, C:0.01, G:0.45, T:0.23
Consensus pattern (65 bp):
GGGAGGTGATGATAAAGGGGTAGAAGTTGATGGGGAGGGTGATGATAAAGAGGTAGAAGTTGATA
Found at i:14925019 original size:98 final size:99
Alignment explanation
Indices: 14924877--14925055 Score: 249
Period size: 98 Copynumber: 1.8 Consensus size: 99
14924867 AAGGGGTTGT
* * *
14924877 TGGGGAGGGTGATGATGAAGGGGTAGAAGTTTATGGGGAGGGTGA-T-GATAAAGGGGTAGAAGT
1 TGGGGAGGGTGATGATGAAGAGGTAGAAGTTTATAGGGAAGGTGATTGGA-AAA-GGGTAGAAGT
14924940 TGATGG-GAGGATGATGATAAAGGGGTAAAATCTGA
64 TGATGGAGAGGATGATGATAAAGGGGTAAAATCTGA
*
14924975 TGGGGAGGGTGATGATGAAGAGGTAGAA-TTTGATAGTGAAGGTGATTTGGAAAAGGGTAGAAGT
1 TGGGGAGGGTGATGATGAAGAGGTAGAAGTTT-ATAGGGAAGGTGA-TTGGAAAAGGGTAGAAGT
*
14925039 TGATGGAGAGGGTGATG
64 TGATGGAGAGGATGATG
14925056 TAGGAGGGGT
Statistics
Matches: 71, Mismatches: 5, Indels: 8
0.85 0.06 0.10
Matches are distributed among these distances:
97 3 0.04
98 37 0.52
99 16 0.23
100 13 0.18
101 2 0.03
ACGTcount: A:0.31, C:0.01, G:0.45, T:0.23
Consensus pattern (99 bp):
TGGGGAGGGTGATGATGAAGAGGTAGAAGTTTATAGGGAAGGTGATTGGAAAAGGGTAGAAGTTG
ATGGAGAGGATGATGATAAAGGGGTAAAATCTGA
Found at i:14928113 original size:16 final size:16
Alignment explanation
Indices: 14928094--14928125 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
14928084 CTGGTATAAC
14928094 GTGAATGGTGTATAGG
1 GTGAATGGTGTATAGG
14928110 GTGAATGGTGTATAGG
1 GTGAATGGTGTATAGG
14928126 CTAATCACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.44, T:0.31
Consensus pattern (16 bp):
GTGAATGGTGTATAGG
Found at i:14929287 original size:16 final size:16
Alignment explanation
Indices: 14929268--14929309 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
14929258 GAATGTTATG
* *
14929268 GATTTGGGTATTTCAC
1 GATTTGGGGATTTCAA
*
14929284 GATTTGGGGGTTTCAA
1 GATTTGGGGATTTCAA
14929300 GATTTGGGGA
1 GATTTGGGGA
14929310 ATTTGATGAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.19, C:0.07, G:0.36, T:0.38
Consensus pattern (16 bp):
GATTTGGGGATTTCAA
Found at i:14930738 original size:28 final size:26
Alignment explanation
Indices: 14930686--14930745 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
14930676 TACATATCTA
* * *
14930686 TTAGTTTATATATATTAGTTAATTTG
1 TTAGTTCATATATATTAATTAATTTC
*
14930712 TTAGTTCATATATATTGTAATTGATTTC
1 TTAGTTCATATATA-T-TAATTAATTTC
14930740 TTAGTT
1 TTAGTT
14930746 TTCAACATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 13 0.46
27 1 0.04
28 14 0.50
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.57
Consensus pattern (26 bp):
TTAGTTCATATATATTAATTAATTTC
Found at i:14932934 original size:3 final size:3
Alignment explanation
Indices: 14932926--14932960 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
14932916 GATTATGATT
* *
14932926 AAG AAG AAG AAG AAG AAG AAA AAG AAA AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
14932961 ATGATAGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:14933019 original size:31 final size:33
Alignment explanation
Indices: 14932969--14933037 Score: 106
Period size: 31 Copynumber: 2.2 Consensus size: 33
14932959 AAATGATAGA
*
14932969 AAAATTTGGGTGGTCGAGAAAAGTCAAAATT-G
1 AAAATTTGGGTGGGCGAGAAAAGTCAAAATTAG
*
14933001 AAAATTT-GGTGGGGGAGAAAAGTCAAAATTAG
1 AAAATTTGGGTGGGCGAGAAAAGTCAAAATTAG
14933033 AAAAT
1 AAAAT
14933038 GTTTTTTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 21 0.62
32 13 0.38
ACGTcount: A:0.45, C:0.04, G:0.28, T:0.23
Consensus pattern (33 bp):
AAAATTTGGGTGGGCGAGAAAAGTCAAAATTAG
Found at i:14933092 original size:22 final size:20
Alignment explanation
Indices: 14933058--14933101 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
14933048 ATTTTTTTAT
14933058 ATTATGACATCATTGTGATGCC
1 ATTATGACATCATT-T-ATGCC
**
14933080 ATTATGATGTCATTTATGCC
1 ATTATGACATCATTTATGCC
14933100 AT
1 AT
14933102 GTGCACAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 1 0.05
22 12 0.60
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (20 bp):
ATTATGACATCATTTATGCC
Found at i:14945516 original size:23 final size:24
Alignment explanation
Indices: 14945490--14945536 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
14945480 AACTATTCAT
14945490 TTTATCTTA-ATTTGC-TATGACAA
1 TTTATCTTATATTTGCGT-TGACAA
*
14945513 TTTATTTTATATTTGCGTTGACAA
1 TTTATCTTATATTTGCGTTGACAA
14945537 ATTAACTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 8 0.38
24 12 0.57
25 1 0.05
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.51
Consensus pattern (24 bp):
TTTATCTTATATTTGCGTTGACAA
Found at i:14965791 original size:17 final size:17
Alignment explanation
Indices: 14965771--14965808 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
14965761 TTGTCATTGG
*
14965771 ATTTTAGTTGTT-GTTGC
1 ATTTTACTTGTTAGTT-C
14965788 ATTTTACTTGTTAGTTC
1 ATTTTACTTGTTAGTTC
14965805 ATTT
1 ATTT
14965809 GCATTGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.61
Consensus pattern (17 bp):
ATTTTACTTGTTAGTTC
Found at i:14967997 original size:24 final size:23
Alignment explanation
Indices: 14967960--14968006 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
14967950 AACTATTCGT
14967960 TTTATCTTAATTTGC-TCTGACAA
1 TTTATCTTAATTTGCGT-TGACAA
*
14967983 TTTATTTTATATTTGCGTTGACAA
1 TTTATCTTA-ATTTGCGTTGACAA
14968007 ATTAACTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 8 0.38
24 12 0.57
25 1 0.05
ACGTcount: A:0.26, C:0.13, G:0.11, T:0.51
Consensus pattern (23 bp):
TTTATCTTAATTTGCGTTGACAA
Found at i:14969815 original size:40 final size:40
Alignment explanation
Indices: 14969759--14969924 Score: 255
Period size: 40 Copynumber: 4.2 Consensus size: 40
14969749 GTGTAAAGAA
14969759 TCAAGCTACGACTTAGCAGGCTATGAG-TCGGTGTTAAAAT
1 TCAAGCTACGACTTAGCAGGCTATGAGCT-GGTGTTAAAAT
*
14969799 TCAAGCTACGATTTAGCAGGCTATGAG-TCGGTGTTAAAAT
1 TCAAGCTACGACTTAGCAGGCTATGAGCT-GGTGTTAAAAT
*
14969839 TCAAGCTATGACTTAGCAGGCTATGAGCTGGTGTTAAAAT
1 TCAAGCTACGACTTAGCAGGCTATGAGCTGGTGTTAAAAT
* * *
14969879 TCAAGCTATGACTTAGTAGGCTATAAGCTGGTGTTAAAAT
1 TCAAGCTACGACTTAGCAGGCTATGAGCTGGTGTTAAAAT
14969919 TCAAGC
1 TCAAGC
14969925 CAAGCTATGG
Statistics
Matches: 120, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
40 119 0.99
41 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.30
Consensus pattern (40 bp):
TCAAGCTACGACTTAGCAGGCTATGAGCTGGTGTTAAAAT
Found at i:14970849 original size:12 final size:12
Alignment explanation
Indices: 14970832--14970861 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
14970822 TACACACGAT
14970832 ACACGGGCTGAC
1 ACACGGGCTGAC
*
14970844 ACACGGGCTGAT
1 ACACGGGCTGAC
14970856 ACACGG
1 ACACGG
14970862 TCGTGTGTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.30, G:0.33, T:0.10
Consensus pattern (12 bp):
ACACGGGCTGAC
Found at i:14976124 original size:40 final size:40
Alignment explanation
Indices: 14976069--14976234 Score: 235
Period size: 40 Copynumber: 4.2 Consensus size: 40
14976059 GTGTAAGGAA
* *
14976069 TCAAGCTACGGCTTAGTAGGCTATGAGCCGATGTTAAAAT
1 TCAAGCTACGACTTAGCAGGCTATGAGCCGATGTTAAAAT
*
14976109 TCAAGCTAC-AGCTTAGCAGGCTATGAGCCGGTGTTAAAAT
1 TCAAGCTACGA-CTTAGCAGGCTATGAGCCGATGTTAAAAT
* * *
14976149 TCATGCTACGATTTAGCAGGCTATTAGCCGATGTTAAAAT
1 TCAAGCTACGACTTAGCAGGCTATGAGCCGATGTTAAAAT
* * *
14976189 TCAAGCTACGACTTAGCAAGCTATAAGCCGGTGTTAAAAT
1 TCAAGCTACGACTTAGCAGGCTATGAGCCGATGTTAAAAT
14976229 TCAAGC
1 TCAAGC
14976235 CAAGCTACGA
Statistics
Matches: 112, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
40 111 0.99
41 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (40 bp):
TCAAGCTACGACTTAGCAGGCTATGAGCCGATGTTAAAAT
Found at i:14982253 original size:15 final size:15
Alignment explanation
Indices: 14982221--14982268 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
14982211 AAATCTCCTT
14982221 ATCTTCATAG-TATCC
1 ATCTTCATAGATAT-C
14982236 ATCTTCATAGATATC
1 ATCTTCATAGATATC
* * *
14982251 ATCCTCGTAGATGTC
1 ATCTTCATAGATATC
14982266 ATC
1 ATC
14982269 ATCGTAACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 26 0.90
16 3 0.10
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.38
Consensus pattern (15 bp):
ATCTTCATAGATATC
Found at i:15001231 original size:29 final size:29
Alignment explanation
Indices: 15001195--15001253 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
15001185 ATCTTCTAAG
15001195 TCTGTGGGCCAATGGATTAAGACGGCAAT
1 TCTGTGGGCCAATGGATTAAGACGGCAAT
* *
15001224 TCTGTGGGTCGATGGATTAAGACGGCAAT
1 TCTGTGGGCCAATGGATTAAGACGGCAAT
15001253 T
1 T
15001254 TTAATATCGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
TCTGTGGGCCAATGGATTAAGACGGCAAT
Found at i:15007052 original size:21 final size:20
Alignment explanation
Indices: 15007019--15007070 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 20
15007009 GTTTTGTTTT
15007019 AATTAGGTTTAGGGTTTTAA
1 AATTAGGTTTAGGGTTTTAA
*
15007039 AATTAGGATTTAGGTTTTTAA
1 AATTAGG-TTTAGGGTTTTAA
15007060 AATTAAGGTTT
1 AATT-AGGTTT
15007071 TGGTATTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 7 0.24
21 19 0.66
22 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
AATTAGGTTTAGGGTTTTAA
Found at i:15007079 original size:21 final size:21
Alignment explanation
Indices: 15007019--15007079 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
15007009 GTTTTGTTTT
15007019 AATTAGG-TTTAGGGT-TTTAA
1 AATTAGGATTTA-GGTATTTAA
*
15007039 AATTAGGATTTAGGTTTTTAA
1 AATTAGGATTTAGGTATTTAA
*
15007060 AATTAAGG-TTTTGGTATTTA
1 AATT-AGGATTTAGGTATTTA
15007080 TTTTATAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
20 10 0.28
21 23 0.64
22 3 0.08
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (21 bp):
AATTAGGATTTAGGTATTTAA
Found at i:15009609 original size:22 final size:20
Alignment explanation
Indices: 15009574--15009667 Score: 86
Period size: 20 Copynumber: 4.5 Consensus size: 20
15009564 ACATAAAAAA
15009574 TATAAAAAAATTAATTAAAT
1 TATAAAAAAATTAATTAAAT
*
15009594 TATAAAAATAATT--TAAAAT
1 TATAAAAA-AATTAATTAAAT
*
15009613 TATTTAAAAAA-TAATTAAAT
1 TA-TAAAAAAATTAATTAAAT
*
15009633 TATAAAAATTAAATAATTAAAT
1 TATAAAAA--AATTAATTAAAT
15009655 AATATAAAAAAAT
1 --TATAAAAAAAT
15009668 AAAATTAACT
Statistics
Matches: 60, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
18 1 0.02
19 14 0.23
20 20 0.33
21 6 0.10
22 11 0.18
24 8 0.13
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
TATAAAAAAATTAATTAAAT
Found at i:15009650 original size:8 final size:8
Alignment explanation
Indices: 15009621--15009662 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
15009611 ATTATTTAAA
15009621 AAATAATT
1 AAATAATT
*
15009629 AAATTA-T
1 AAATAATT
15009636 AAA-AATT
1 AAATAATT
15009643 AAATAATT
1 AAATAATT
15009651 AAATAATAT
1 AAATAAT-T
15009660 AAA
1 AAA
15009663 AAAATAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
6 1 0.03
7 8 0.28
8 16 0.55
9 4 0.14
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AAATAATT
Found at i:15009672 original size:26 final size:22
Alignment explanation
Indices: 15009580--15009669 Score: 68
Period size: 22 Copynumber: 4.3 Consensus size: 22
15009570 AAAATATAAA
15009580 AAAATTAATTAAATTATAAAAAT
1 AAAA-TAATTAAATTATAAAAAT
**
15009603 --AAT--TTAAAATTAT-TTAA-
1 AAAATAATT-AAATTATAAAAAT
15009620 AAAATAATTAAATTATAAAAAT
1 AAAATAATTAAATTATAAAAAT
* * *
15009642 TAAATAATTAAATAATATAAA-
1 AAAATAATTAAATTATAAAAAT
15009663 AAAATAA
1 AAAATAA
15009670 AATTAACTCT
Statistics
Matches: 52, Mismatches: 8, Indels: 16
0.68 0.11 0.21
Matches are distributed among these distances:
18 4 0.08
19 10 0.19
20 8 0.15
21 12 0.23
22 18 0.35
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
AAAATAATTAAATTATAAAAAT
Found at i:15033688 original size:15 final size:15
Alignment explanation
Indices: 15033629--15033689 Score: 50
Period size: 15 Copynumber: 4.1 Consensus size: 15
15033619 ATTAGAACTC
* *
15033629 CGAACACTCATATCG
1 CGAACACTCACATTG
* *
15033644 CGAACACACACAATG
1 CGAACACTCACATTG
* **
15033659 CGAACACTAATGTTG
1 CGAACACTCACATTG
*
15033674 CGAACACTCACGTTG
1 CGAACACTCACATTG
15033689 C
1 C
15033690 AAGCATAGAG
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.34, C:0.31, G:0.16, T:0.18
Consensus pattern (15 bp):
CGAACACTCACATTG
Found at i:15040074 original size:15 final size:15
Alignment explanation
Indices: 15040038--15040088 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
15040028 AGCACTCATA
15040038 TTACGAACACTGGAG
1 TTACGAACACTGGAG
* *
15040053 CTGCGAACACT-GATG
1 TTACGAACACTGGA-G
* *
15040068 TTACGAACACTTGCG
1 TTACGAACACTGGAG
15040083 TTACGA
1 TTACGA
15040089 GCATGGAGGA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
14 2 0.07
15 26 0.90
16 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (15 bp):
TTACGAACACTGGAG
Found at i:15042009 original size:23 final size:24
Alignment explanation
Indices: 15041983--15042029 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
15041973 ACAATTCATT
15041983 TTTATCTTA-ATTTGC-TCTGACAA
1 TTTATCTTATATTTGCAT-TGACAA
*
15042006 TTTATTTTATATTTGCATTGACAA
1 TTTATCTTATATTTGCATTGACAA
15042030 ATTAAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 8 0.38
24 12 0.57
25 1 0.05
ACGTcount: A:0.28, C:0.13, G:0.09, T:0.51
Consensus pattern (24 bp):
TTTATCTTATATTTGCATTGACAA
Found at i:15050376 original size:17 final size:17
Alignment explanation
Indices: 15050350--15050394 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
15050340 GCATGCATTT
15050350 ATTTTAATTGTCAT-TGC
1 ATTTTAATTGTC-TCTGC
*
15050367 ATTTTTATTGTCTCTGC
1 ATTTTAATTGTCTCTGC
*
15050384 ATTTTAGTTGT
1 ATTTTAATTGT
15050395 TTAGCATTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 1 0.04
17 23 0.96
ACGTcount: A:0.18, C:0.11, G:0.13, T:0.58
Consensus pattern (17 bp):
ATTTTAATTGTCTCTGC
Found at i:15060158 original size:15 final size:16
Alignment explanation
Indices: 15060127--15060167 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
15060117 CATTTTCCTT
15060127 TTCTTCTC-TTCCATC
1 TTCTTCTCTTTCCATC
*
15060142 TTCTTCTCTTTTC-TC
1 TTCTTCTCTTTCCATC
15060157 TTCTTCCTCTT
1 TTCTT-CTCTT
15060168 CAACACCCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 15 0.65
16 8 0.35
ACGTcount: A:0.02, C:0.37, G:0.00, T:0.61
Consensus pattern (16 bp):
TTCTTCTCTTTCCATC
Found at i:15083245 original size:22 final size:21
Alignment explanation
Indices: 15083194--15083253 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
15083184 TTTATTTAGT
* * *
15083194 TTTGAGGTTTTTTAAATTAGGG
1 TTTG-GGTATTTTAAATAAGAG
*
15083216 TTTTGGTATTTTAAATAAGAG
1 TTTGGGTATTTTAAATAAGAG
15083237 TTTAGGGTATTTTAAAT
1 TTT-GGGTATTTTAAAT
15083254 TAATAGTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 17 0.53
22 15 0.47
ACGTcount: A:0.28, C:0.00, G:0.22, T:0.50
Consensus pattern (21 bp):
TTTGGGTATTTTAAATAAGAG
Found at i:15083284 original size:7 final size:7
Alignment explanation
Indices: 15083272--15083307 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
15083262 ATAGAAAATA
15083272 TTTAATT
1 TTTAATT
15083279 TTTAATT
1 TTTAATT
15083286 TTTAATT
1 TTTAATT
15083293 TTTAATT
1 TTTAATT
15083300 TTTAATT
1 TTTAATT
15083307 T
1 T
15083308 AAATAGTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTAATT
Found at i:15083336 original size:14 final size:14
Alignment explanation
Indices: 15083268--15083332 Score: 55
Period size: 14 Copynumber: 4.8 Consensus size: 14
15083258 AGTTATAGAA
*
15083268 AATATTTAATTTTT
1 AATATTTAATTTAT
* *
15083282 AATTTTTAATTTTT
1 AATATTTAATTTAT
*
15083296 AATTTTTAATTTA-
1 AATATTTAATTTAT
*
15083309 AATAGTTT--TTAAT
1 AATA-TTTAATTTAT
15083322 AATATTTAATT
1 AATATTTAATT
15083333 AATATGTCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
12 6 0.14
13 7 0.16
14 30 0.70
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (14 bp):
AATATTTAATTTAT
Found at i:15084552 original size:29 final size:31
Alignment explanation
Indices: 15084511--15084577 Score: 97
Period size: 29 Copynumber: 2.3 Consensus size: 31
15084501 CCTCTATAAA
15084511 TTTCA-AACCCATC-TCATCAAAA-TA-TTTT
1 TTTCAGAACCCATCTTC-TCAAAATTATTTTT
15084539 TTTCAGAACCCATCTTCTCAAAATTATTTTT
1 TTTCAGAACCCATCTTCTCAAAATTATTTTT
15084570 TTTCAGAA
1 TTTCAGAA
15084578 TACATCATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
28 5 0.14
29 14 0.40
30 4 0.11
31 12 0.34
ACGTcount: A:0.33, C:0.22, G:0.03, T:0.42
Consensus pattern (31 bp):
TTTCAGAACCCATCTTCTCAAAATTATTTTT
Found at i:15085311 original size:21 final size:21
Alignment explanation
Indices: 15085256--15085359 Score: 119
Period size: 21 Copynumber: 5.1 Consensus size: 21
15085246 ACACGTTTTG
15085256 AATTAAACAAACCTTAATTTA
1 AATTAAACAAACCTTAATTTA
* *
15085277 AATT-ACCTTAAACCCTAATTTA
1 AATTAAAC--AAACCTTAATTTA
*
15085299 AATTAAATAAACCTTAATTT-
1 AATTAAACAAACCTTAATTTA
15085319 AA--AAA-AAACCTTAATTTA
1 AATTAAACAAACCTTAATTTA
*
15085337 AATTAAACAAACCCTAATTTA
1 AATTAAACAAACCTTAATTTA
15085358 AA
1 AA
15085360 AAACCCTAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 14
0.78 0.07 0.16
Matches are distributed among these distances:
17 12 0.17
18 5 0.07
20 7 0.10
21 29 0.41
22 16 0.23
23 1 0.01
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (21 bp):
AATTAAACAAACCTTAATTTA
Found at i:15085317 original size:43 final size:38
Alignment explanation
Indices: 15085256--15085362 Score: 133
Period size: 38 Copynumber: 2.7 Consensus size: 38
15085246 ACACGTTTTG
*
15085256 AATTAAACAAACCTTAATTTAAATTACCTTAAACCCTAATTTA
1 AATTAAACAAACCTTAATTTAAA--A---AAAACCCTAATTTA
* *
15085299 AATTAAATAAACCTTAATTTAAAAAAAACCTTAATTTA
1 AATTAAACAAACCTTAATTTAAAAAAAACCCTAATTTA
*
15085337 AATTAAACAAACCCTAATTTAAAAAA
1 AATTAAACAAACCTTAATTTAAAAAA
15085363 CCCTAAAACT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
38 36 0.61
41 1 0.02
43 22 0.37
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (38 bp):
AATTAAACAAACCTTAATTTAAAAAAAACCCTAATTTA
Found at i:15085329 original size:17 final size:17
Alignment explanation
Indices: 15085307--15085362 Score: 67
Period size: 17 Copynumber: 3.1 Consensus size: 17
15085297 TAAATTAAAT
15085307 AAACCTTAATTTAAAAA
1 AAACCTTAATTTAAAAA
15085324 AAACCTTAATTTAAATTAAA
1 AAACCTTAATTT-AA--AAA
*
15085344 CAAACCCTAATTTAAAAA
1 -AAACCTTAATTTAAAAA
15085362 A
1 A
15085363 CCCTAAAACT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
17 13 0.38
18 5 0.15
20 5 0.15
21 11 0.32
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (17 bp):
AAACCTTAATTTAAAAA
Found at i:15085363 original size:15 final size:16
Alignment explanation
Indices: 15085339--15085368 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15085329 TTAATTTAAA
15085339 TTAAACAAACCCTAAT
1 TTAAACAAACCCTAAT
15085355 TTAAA-AAACCCTAA
1 TTAAACAAACCCTAA
15085369 AACTAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.23
Consensus pattern (16 bp):
TTAAACAAACCCTAAT
Found at i:15085386 original size:60 final size:58
Alignment explanation
Indices: 15085264--15085387 Score: 137
Period size: 60 Copynumber: 2.1 Consensus size: 58
15085254 TGAATTAAAC
* * *
15085264 AAACCTTAATTTAAATTACCTTAAACCCTAATTTAAATTAAATAAACCTTAATTTAAAAA
1 AAACCTTAATTTAAATTAAC-TAAACCCTAATTTAAA-TAAATAAAACTTAATTAAAAAA
15085324 AAACCTTAATTTAAATTAAAC-AAACCCTAATTTAAA-AAACCCTAAAAC-TAATTAAAATAA
1 AAACCTTAATTTAAATT-AACTAAACCCTAATTTAAATAAA---TAAAACTTAATTAAAA-AA
15085384 AAAC
1 AAAC
15085388 ACCCTAAACC
Statistics
Matches: 56, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
57 3 0.05
59 23 0.41
60 28 0.50
61 2 0.04
ACGTcount: A:0.54, C:0.16, G:0.00, T:0.30
Consensus pattern (58 bp):
AAACCTTAATTTAAATTAACTAAACCCTAATTTAAATAAATAAAACTTAATTAAAAAA
Found at i:15088311 original size:24 final size:24
Alignment explanation
Indices: 15088278--15088329 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
15088268 TTTGTAGGTA
* * *
15088278 AAATAAATTATGCTTATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
15088302 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
15088326 AAAT
1 AAAT
15088330 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:15092080 original size:77 final size:77
Alignment explanation
Indices: 15091986--15092142 Score: 253
Period size: 77 Copynumber: 2.0 Consensus size: 77
15091976 ACATACTAGG
*
15091986 AAAACATAATATATGCATTC-AGACAAGAATAAACATGGTAATGATTAGAACAATACTCAACAAG
1 AAAACAAAATATATGCATTCGA-ACAAGAATAAACATGGTAATGATTAGAACAATACTCAACAAG
15092050 ACAAAACACACAC
65 ACAAAACACACAC
* * *
15092063 AAAACAAAATATATGCATTCGAACAAGAATAAGCATGGTAATGATTAGAACAGTACTTAACAAGA
1 AAAACAAAATATATGCATTCGAACAAGAATAAACATGGTAATGATTAGAACAATACTCAACAAGA
*
15092128 CAGAACACACAC
66 CAAAACACACAC
15092140 AAA
1 AAA
15092143 GACACTTAGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
77 73 0.99
78 1 0.01
ACGTcount: A:0.53, C:0.17, G:0.12, T:0.18
Consensus pattern (77 bp):
AAAACAAAATATATGCATTCGAACAAGAATAAACATGGTAATGATTAGAACAATACTCAACAAGA
CAAAACACACAC
Found at i:15098904 original size:15 final size:15
Alignment explanation
Indices: 15098886--15098920 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
15098876 GCTTGGAAGA
**
15098886 TGCGAGCACTGGTGT
1 TGCGAGCACTCATGT
15098901 TGCGAGCACTCATGT
1 TGCGAGCACTCATGT
15098916 TGCGA
1 TGCGA
15098921 ACACACACAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.17, C:0.23, G:0.34, T:0.26
Consensus pattern (15 bp):
TGCGAGCACTCATGT
Found at i:15103323 original size:157 final size:157
Alignment explanation
Indices: 15103037--15103350 Score: 585
Period size: 157 Copynumber: 2.0 Consensus size: 157
15103027 CTCAAATCAA
*
15103037 TTATATCACTACAGAGAAAGAATTATTGGTTGTAATCTTTTCTTTCGACAAGTTTCGTTCATATC
1 TTATACCACTACAGAGAAAGAATTATTGGTTGTAATCTTTTCTTTCGACAAGTTTCGTTCATATC
15103102 TTGTCGATGCAAAAGTTATCGTATTTACAGATCACTCGATGTTGAGATATCTTTTTGTGAAGAAG
66 TTGTCGATGCAAAAGTTATCGTATTTACAGATCACTCGATGTTGAGATATCTTTTTGTGAAGAAG
15103167 GATGTAAAACCAAGACTGATACACTGG
131 GATGTAAAACCAAGACTGATACACTGG
15103194 TTATACCACTACAGAGAAAGAATTATTGGTTGTAATCTTTTCTTTCGACAAGTTTCGTTCATATC
1 TTATACCACTACAGAGAAAGAATTATTGGTTGTAATCTTTTCTTTCGACAAGTTTCGTTCATATC
**
15103259 TTGTCGATGCAAAAGTTA-CTGTATTTATGGATCACTCGATGTTGAGATATCTTTTTGTGAAGAA
66 TTGTCGATGCAAAAGTTATC-GTATTTACAGATCACTCGATGTTGAGATATCTTTTTGTGAAGAA
15103323 GGATGTAAAACCAAGACTGATACACTGG
130 GGATGTAAAACCAAGACTGATACACTGG
15103351 ATCTTACTGT
Statistics
Matches: 153, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
156 1 0.01
157 152 0.99
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.36
Consensus pattern (157 bp):
TTATACCACTACAGAGAAAGAATTATTGGTTGTAATCTTTTCTTTCGACAAGTTTCGTTCATATC
TTGTCGATGCAAAAGTTATCGTATTTACAGATCACTCGATGTTGAGATATCTTTTTGTGAAGAAG
GATGTAAAACCAAGACTGATACACTGG
Found at i:15113157 original size:9 final size:9
Alignment explanation
Indices: 15113145--15113181 Score: 51
Period size: 8 Copynumber: 4.3 Consensus size: 9
15113135 TTTTCTAATT
15113145 TTTAATTTA
1 TTTAATTTA
15113154 TTTAATTTA
1 TTTAATTTA
*
15113163 -TTAACTT-
1 TTTAATTTA
15113170 TTTAATTTA
1 TTTAATTTA
15113179 TTT
1 TTT
15113182 TAAATTGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
8 12 0.50
9 12 0.50
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTAATTTA
Found at i:15113161 original size:16 final size:16
Alignment explanation
Indices: 15113135--15113180 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
15113125 TAAGAATTTA
*
15113135 TTTTCTAATTT-TTAAT
1 TTTT-TAATTTATTAAC
15113151 TTATTTAATTTATTAAC
1 TT-TTTAATTTATTAAC
15113168 TTTTTAATTTATT
1 TTTTTAATTTATT
15113181 TTAAATTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 19 0.70
17 8 0.30
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTTAATTTATTAAC
Found at i:15113192 original size:26 final size:25
Alignment explanation
Indices: 15113143--15113192 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
15113133 TATTTTCTAA
*
15113143 TTTTTAATTTATTTAATTTATTAAC
1 TTTTTAATTTATTTAAATTATTAAC
*
15113168 TTTTTAATTTATTTTAAATTGTTAA
1 TTTTTAATTTA-TTTAAATTATTAA
15113193 TATTTTATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (25 bp):
TTTTTAATTTATTTAAATTATTAAC
Found at i:15113198 original size:26 final size:24
Alignment explanation
Indices: 15113140--15113199 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
15113130 ATTTATTTTC
*
15113140 TAATTTTTAATTTATTTAATTTAT
1 TAATTTTTAATTTATTTAAATTAT
*
15113164 TAACTTTTTAATTTATTTTAAATTGT
1 TAA-TTTTTAATTTA-TTTAAATTAT
15113190 TAATATTTTA
1 TAAT-TTTTA
15113200 TACTAATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 3 0.10
25 12 0.39
26 16 0.52
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (24 bp):
TAATTTTTAATTTATTTAAATTAT
Found at i:15114093 original size:18 final size:18
Alignment explanation
Indices: 15114070--15114113 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
15114060 GCAAGCTGAA
15114070 GAAGAAGAAGAAGATCCT
1 GAAGAAGAAGAAGATCCT
* * *
15114088 GAAGAAAAAGAGGATCTT
1 GAAGAAGAAGAAGATCCT
*
15114106 GAGGAAGA
1 GAAGAAGA
15114114 TCCTGAAGAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.50, C:0.07, G:0.32, T:0.11
Consensus pattern (18 bp):
GAAGAAGAAGAAGATCCT
Found at i:15116449 original size:3 final size:3
Alignment explanation
Indices: 15116441--15116505 Score: 94
Period size: 3 Copynumber: 21.7 Consensus size: 3
15116431 ATAGCAAGCT
* ***
15116441 GAA GAA GAA GAA GAA GAT CCT GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
15116489 GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GA
15116506 GGATCCTGAA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.62, C:0.03, G:0.32, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:15116516 original size:12 final size:12
Alignment explanation
Indices: 15116501--15116541 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
15116491 AGAAGAAGAA
15116501 GAAGAGGATCCT
1 GAAGAGGATCCT
*
15116513 GAAGAGGATCTT
1 GAAGAGGATCCT
* *
15116525 GAGGAAGATCCT
1 GAAGAGGATCCT
15116537 GAAGA
1 GAAGA
15116542 AGATGAGGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.37, C:0.12, G:0.34, T:0.17
Consensus pattern (12 bp):
GAAGAGGATCCT
Found at i:15123768 original size:20 final size:20
Alignment explanation
Indices: 15123745--15123783 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
15123735 TTTAGGCTTA
15123745 ATTAAT-TCAGTTTACTAATC
1 ATTAATCTCA-TTTACTAATC
*
15123765 ATTAATCTTATTTACTAAT
1 ATTAATCTCATTTACTAAT
15123784 TTTTTAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.13, G:0.03, T:0.49
Consensus pattern (20 bp):
ATTAATCTCATTTACTAATC
Found at i:15124983 original size:19 final size:18
Alignment explanation
Indices: 15124959--15125000 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
15124949 TAAAGTGTGA
15124959 ATATTT-TGAAAATTATATG
1 ATATTTCTG-AAATTATA-G
*
15124978 ATATTTCTGTAATTATAG
1 ATATTTCTGAAATTATAG
15124996 ATATT
1 ATATT
15125001 AGAGGGCTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 13 0.62
20 2 0.10
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (18 bp):
ATATTTCTGAAATTATAG
Found at i:15132218 original size:193 final size:194
Alignment explanation
Indices: 15131873--15132306 Score: 703
Period size: 193 Copynumber: 2.2 Consensus size: 194
15131863 GTATACGATA
* * * *
15131873 CTGCTCATACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGATACGGTATCTG
1 CTGCTCACATGAGCTGTCGAGGACTCGCAACATATGCGGTACCCCAGCCATCGATACGATATCTG
* *
15131938 TGCATATAACTGTTCCTTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCACTTATGCATAA
66 TGCATATAAATGTTCCCTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCACTTATGCATAA
15132003 GTCTCGACCATCATAAGGCCTATAATCCATTCTTGGATTCATTTCTCATTTTTTCGACT-A-ATG
131 GTCTCGACCATCATAAGGCCTATAATCCATTCTTGGATTCATTTCTCA-TTTTTCGACTCACATG
*
15132066 CTGCTCACATGAGCTGTCGAGGACTCGTAACATATGCGGTACCCCAGCCATCGATACGATATCTG
1 CTGCTCACATGAGCTGTCGAGGACTCGCAACATATGCGGTACCCCAGCCATCGATACGATATCTG
*
15132131 TGCATATAAATGTTCCCTAATGATGCTGCTCACACGAGCTGTCGAGAATATGCACTTATGCATAA
66 TGCATATAAATGTTCCCTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCACTTATGCATAA
* * * *
15132196 GTCTC-AGTCATCGTATGGCCTATAATCCATTTTTGGATTCATTTCTCATTTTTCGACTCACGAT
131 GTCTCGA-CCATCATAAGGCCTATAATCCATTCTTGGATTCATTTCTCATTTTTCGACTCAC-AT
15132260 G
194 G
*
15132261 CTGCTCACATGAGCTGTCGAGGACTTGCAACATATGCGGTACCCCA
1 CTGCTCACATGAGCTGTCGAGGACTCGCAACATATGCGGTACCCCA
15132307 CCTATCGTGT
Statistics
Matches: 223, Mismatches: 14, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
192 11 0.05
193 165 0.74
195 47 0.21
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (194 bp):
CTGCTCACATGAGCTGTCGAGGACTCGCAACATATGCGGTACCCCAGCCATCGATACGATATCTG
TGCATATAAATGTTCCCTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCACTTATGCATAA
GTCTCGACCATCATAAGGCCTATAATCCATTCTTGGATTCATTTCTCATTTTTCGACTCACATG
Found at i:15135985 original size:20 final size:20
Alignment explanation
Indices: 15135942--15135988 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
15135932 TATACGTATG
* * *
15135942 TGCTTACTAAGCATTAGTGG
1 TGCTTACTAAGCATCAATGA
*
15135962 TGCTTGCTAAGCATCAATGA
1 TGCTTACTAAGCATCAATGA
15135982 TGCTTAC
1 TGCTTAC
15135989 CCCATTGCTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (20 bp):
TGCTTACTAAGCATCAATGA
Found at i:15147607 original size:16 final size:16
Alignment explanation
Indices: 15147583--15147613 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15147573 TTTTAAATTG
15147583 TATAACAGTATATATA
1 TATAACAGTATATATA
*
15147599 TATATCAGTATATAT
1 TATAACAGTATATAT
15147614 GTAAAAACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (16 bp):
TATAACAGTATATATA
Found at i:15164159 original size:42 final size:42
Alignment explanation
Indices: 15164100--15164212 Score: 127
Period size: 42 Copynumber: 2.7 Consensus size: 42
15164090 CTAGTGGAGT
* * * ** *
15164100 TTCTAATTCTATTGAAGCTTTAGCTTCAATTCTAGGCCCATC
1 TTCTATTTCTAGTGAAGCTTCAGCTTCAAGCCTAGGCCCAGC
* *
15164142 TTCTATTTCTAGTGAAGCTTCAGCTCCAAGCCTAGGCCTAGC
1 TTCTATTTCTAGTGAAGCTTCAGCTTCAAGCCTAGGCCCAGC
* * *
15164184 TCCTATTTCTAGTGGAGCTTCATCTTCAA
1 TTCTATTTCTAGTGAAGCTTCAGCTTCAA
15164213 CTTCGTCTCC
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (42 bp):
TTCTATTTCTAGTGAAGCTTCAGCTTCAAGCCTAGGCCCAGC
Found at i:15166365 original size:28 final size:28
Alignment explanation
Indices: 15166332--15166656 Score: 128
Period size: 28 Copynumber: 11.2 Consensus size: 28
15166322 AAATCGAGGT
*
15166332 TAAAATGGGATCTTGGAAAGTTCGGGGG
1 TAAAATGGGATTTTGGAAAGTTCGGGGG
* *
15166360 TAAAATGGTAATTTTTGGTGAAA--TCGGGGT
1 TAAAATGG-GA-TTTT-G-GAAAGTTCGGGGG
* **
15166390 TAAAATGAGATTTTGGAAAGTTTAGGGG
1 TAAAATGGGATTTTGGAAAGTTCGGGGG
* * * *
15166418 TAAAATGGTAATTTTTGGTAAA-ATCGAGGT
1 TAAAATGG-GA-TTTTGG-AAAGTTCGGGGG
* * *
15166448 TAAAACGAGATTTTGGAAAGTTAGGGGG
1 TAAAATGGGATTTTGGAAAGTTCGGGGG
* * * *
15166476 TAAAATGGTAATTTTTAATGAAA--TCGAGGT
1 TAAAATGG-GA-TTTT--GGAAAGTTCGGGGG
* **
15166506 TAAAAAGGGATTTTGGAAAGTTTAGGGG
1 TAAAATGGGATTTTGGAAAGTTCGGGGG
* *
15166534 TAAAATGGTAATTTTGGGTGAAA-TT-GGGGT
1 TAAAATGG-GATTTT--G-GAAAGTTCGGGGG
* **
15166564 TAAAATGGAATTTTGGAAAGTTTAGGGG
1 TAAAATGGGATTTTGGAAAGTTCGGGGG
* *
15166592 TAAAATGGTAATTTTGGGTGAAA--TCGGGGT
1 TAAAATGG-GATTTT--G-GAAAGTTCGGGGG
* * *
15166622 TAAAAATGGAATTTTGAAAAGTTTGGGGG
1 T-AAAATGGGATTTTGGAAAGTTCGGGGG
*
15166651 TCAAAT
1 TAAAAT
15166657 AGTAATTTTG
Statistics
Matches: 219, Mismatches: 49, Indels: 58
0.67 0.15 0.18
Matches are distributed among these distances:
26 12 0.05
27 10 0.05
28 69 0.32
29 29 0.13
30 68 0.31
31 15 0.07
32 16 0.07
ACGTcount: A:0.34, C:0.02, G:0.31, T:0.32
Consensus pattern (28 bp):
TAAAATGGGATTTTGGAAAGTTCGGGGG
Found at i:15166365 original size:58 final size:58
Alignment explanation
Indices: 15166181--15166707 Score: 553
Period size: 58 Copynumber: 9.0 Consensus size: 58
15166171 TTACTTTTGA
* ** * *
15166181 GGGTAAAAAT-GTAATTTTTGGTGAAAT-TAGGGCCGAAAATGGAATTTTGGAAAG-TTCG
1 GGGT-AAAATGGTAATTTTTGGTGAAATCGA-GG-TTAAAATGGGATTTTGGAAAGTTTAG
* * * * * * * * *
15166239 AGGGTAAAACGGTAATTTTTCGTAAAATTGGGGCTAAAAATAGGG-TTTTAGAAAGTTAAT
1 -GGGTAAAATGGTAATTTTTGGTGAAATCGAGG-TTAAAAT-GGGATTTTGGAAAGTTTAG
* * * **
15166299 GGGTAAAATAGTAATTTTTGATGAAATCGAGGTTAAAATGGGATCTTGGAAAGTTCGG
1 GGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAATGGGATTTTGGAAAGTTTAG
* *
15166357 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAATGAGATTTTGGAAAGTTTAG
1 GGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAATGGGATTTTGGAAAGTTTAG
* * *
15166415 GGGTAAAATGGTAATTTTTGGTAAAATCGAGGTTAAAACGAGATTTTGGAAAG-TTAGG
1 GGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAATGGGATTTTGGAAAGTTTA-G
** *
15166473 GGGTAAAATGGTAATTTTTAATGAAATCGAGGTTAAAAAGGGATTTTGGAAAGTTTAG
1 GGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAATGGGATTTTGGAAAGTTTAG
* * * *
15166531 GGGTAAAATGGTAATTTTGGGTGAAATTGGGGTTAAAATGGAATTTTGGAAAGTTTAG
1 GGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAATGGGATTTTGGAAAGTTTAG
* * * * *
15166589 GGGTAAAATGGTAATTTTGGGTGAAATCGGGGTTAAAAATGGAATTTTGAAAAGTTTGG
1 GGGTAAAATGGTAATTTTTGGTGAAATCGAGGTT-AAAATGGGATTTTGGAAAGTTTAG
* * * * * *
15166648 GGGTCAAATAGTAATTTTGGGTAAAATCG-GGTTAAAAATGGAATTTTAGAAAGTTTAG
1 GGGTAAAATGGTAATTTTTGGTGAAATCGAGGTT-AAAATGGGATTTTGGAAAGTTTAG
15166706 GG
1 GG
15166708 ACGAGAGAGC
Statistics
Matches: 404, Mismatches: 56, Indels: 17
0.85 0.12 0.04
Matches are distributed among these distances:
57 6 0.01
58 283 0.70
59 112 0.28
60 3 0.01
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.32
Consensus pattern (58 bp):
GGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAATGGGATTTTGGAAAGTTTAG
Found at i:15166649 original size:29 final size:28
Alignment explanation
Indices: 15166329--15166703 Score: 161
Period size: 29 Copynumber: 12.9 Consensus size: 28
15166319 ATGAAATCGA
* * *
15166329 GGTTAAAATGGGATCTTGGAAAGTTCGG
1 GGTTAAAATGGAATTTTGGAAAGTTTGG
* *
15166357 GGGTAAAATGGTAATTTTTGGTGAAA--TCGG
1 GGTTAAAATGG-AA-TTTT-G-GAAAGTTTGG
15166387 GGTTAAAAT-GAGATTTTGGAAAGTTTAGG
1 GGTTAAAATGGA-ATTTTGGAAAGTTT-GG
* * *
15166416 GG-TAAAATGGTAATTTTTGGTAAA-ATCGA
1 GGTTAAAATGG-AA-TTTTGG-AAAGTTTGG
* *
15166445 GGTTAAAA-CGAGATTTTGGAAAGTTAGG
1 GGTTAAAATGGA-ATTTTGGAAAGTTTGG
* * * *
15166473 GGGTAAAATGGTAATTTTTAATGAAA--TCGA
1 GGTTAAAATGG-AA-TTTT--GGAAAGTTTGG
* *
15166503 GGTTAAAAAGGGATTTTGGAAAGTTTAGG
1 GGTTAAAATGGAATTTTGGAAAGTTT-GG
15166532 GG-TAAAATGGTAATTTTGGGTGAAA--TTGG
1 GGTTAAAATGG-AATTTT--G-GAAAGTTTGG
15166561 GGTTAAAATGGAATTTTGGAAAGTTTAGG
1 GGTTAAAATGGAATTTTGGAAAGTTT-GG
*
15166590 GG-TAAAATGGTAATTTTGGGTGAAA--TCGG
1 GGTTAAAATGG-AATTTT--G-GAAAGTTTGG
*
15166619 GGTTAAAAATGGAATTTTGAAAAGTTTGG
1 GGTT-AAAATGGAATTTTGGAAAGTTTGG
* * * * *
15166648 GGGTCAAATAGTAATTTTGGGTAAA--ATCG
1 GGTTAAAAT-GGAATTTT-GG-AAAGTTTGG
*
15166677 GGTTAAAAATGGAATTTTAGAAAGTTT
1 GGTT-AAAATGGAATTTTGGAAAGTTT
15166704 AGGGACGAGA
Statistics
Matches: 263, Mismatches: 39, Indels: 89
0.67 0.10 0.23
Matches are distributed among these distances:
26 12 0.05
27 11 0.04
28 66 0.25
29 75 0.29
30 67 0.25
31 16 0.06
32 16 0.06
ACGTcount: A:0.35, C:0.02, G:0.30, T:0.33
Consensus pattern (28 bp):
GGTTAAAATGGAATTTTGGAAAGTTTGG
Found at i:15166683 original size:174 final size:175
Alignment explanation
Indices: 15166181--15166707 Score: 647
Period size: 174 Copynumber: 3.0 Consensus size: 175
15166171 TTACTTTTGA
*** *
15166181 GGGTAAAAAT-GTAATTTTTGGTGAAATTAGGGCCGAAAATGGAATTTTGGAAAG-TTCGAGGGT
1 GGGT-AAAATGGTAATTTTTGGTGAAATT-GGGGTTAAAATGGAATTTTGGAAAGTTTAG-GGGT
* * * * * **
15166244 AAAACGGTAATTTTTCGTAAAATTGGGGCTAAAAATAGG-GTTTT-AGAAAGTTAATGGGTAAAA
63 AAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAAT-GGAATTTTGA-AAAGTTAGGGGGTAAAA
* * **
15166307 TAGTAATTTTTGATGAAATCGAGGTTAAAATGGGATCTTGGAAAGTTCGG
126 TAGTAATTTTTGATGAAATCGAGGTTAAAAAGGGATTTTGGAAAGTTTAG
*
15166357 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAT-GAGATTTTGGAAAGTTTAGGGGTAA
1 GGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAATGGA-ATTTTGGAAAGTTTAGGGGTAA
* * * *
15166421 AATGGTAATTTTTGGTAAAATCGAGGTT-AAAA-CGAGATTTTGGAAAGTTAGGGGGTAAAATGG
65 AATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGA-ATTTTGAAAAGTTAGGGGGTAAAATAG
*
15166484 TAATTTTTAATGAAATCGAGGTTAAAAAGGGATTTTGGAAAGTTTAG
129 TAATTTTTGATGAAATCGAGGTTAAAAAGGGATTTTGGAAAGTTTAG
*
15166531 GGGTAAAATGGTAATTTTGGGTGAAATTGGGGTTAAAATGGAATTTTGGAAAGTTTAGGGGTAAA
1 GGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAATGGAATTTTGGAAAGTTTAGGGGTAAA
* * * *
15166596 ATGGTAATTTTGGGTGAAATCGGGGTTAAAAATGGAATTTTGAAAAGTTTGGGGGTCAAATAGTA
66 ATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGAAAAGTTAGGGGGTAAAATAGTA
* * * * *
15166661 ATTTTGGGTAAAATCG-GGTTAAAAATGGAATTTTAGAAAGTTTAG
131 ATTTTTGATGAAATCGAGGTTAAAAA-GGGATTTTGGAAAGTTTAG
15166706 GG
1 GG
15166708 ACGAGAGAGC
Statistics
Matches: 304, Mismatches: 37, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
172 1 0.00
174 162 0.53
175 115 0.38
176 26 0.09
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.32
Consensus pattern (175 bp):
GGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAATGGAATTTTGGAAAGTTTAGGGGTAAA
ATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGAAAAGTTAGGGGGTAAAATAGTA
ATTTTTGATGAAATCGAGGTTAAAAAGGGATTTTGGAAAGTTTAG
Found at i:15167716 original size:20 final size:20
Alignment explanation
Indices: 15167685--15167736 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
15167675 ATTTCCTGTT
15167685 TTATTAAATATTTATTTATTA-
1 TTATT-AATATTTA-TTATTAG
15167706 TTATTAATATTTATTATTAG
1 TTATTAATATTTATTATTAG
*
15167726 TTATTATTATT
1 TTATTAATATT
15167737 AAATATTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 6 0.21
20 18 0.62
21 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TTATTAATATTTATTATTAG
Found at i:15167744 original size:13 final size:13
Alignment explanation
Indices: 15167701--15167744 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
15167691 AATATTTATT
15167701 TATTATTATT-AA
1 TATTATTATTAAA
**
15167713 TATTTATTATTAGT
1 TA-TTATTATTAAA
15167727 TATTATTATTAAA
1 TATTATTATTAAA
15167740 TATTA
1 TATTA
15167745 ATAGATATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
12 2 0.08
13 22 0.85
14 2 0.08
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (13 bp):
TATTATTATTAAA
Found at i:15168541 original size:17 final size:18
Alignment explanation
Indices: 15168521--15168561 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
15168511 AATTTTATGC
*
15168521 AAATTTAAATTTAAAA-T
1 AAATTTAAACTTAAAACT
15168538 AAATTT-AACTTAAAACT
1 AAATTTAAACTTAAAACT
15168555 AAATTTA
1 AAATTTA
15168562 TATCTCATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATTTAAACTTAAAACT
Found at i:15169275 original size:200 final size:200
Alignment explanation
Indices: 15168932--15169516 Score: 904
Period size: 200 Copynumber: 2.9 Consensus size: 200
15168922 TGACCTGGTC
* * * * * *
15168932 TTCTTCTCTGTGTCTCATCAGGAAGATGACCGCGGTC-ATCTATTTTAATTCGCTTCTCTGGATC
1 TTCTTCTCTGTATCTCATCAGGAAGATGACCGC-CTCGCT-TGTTTTGATTCGCTTCTCTAGATC
* *
15168996 TCCTCAGGAAGATGAATTTTGTCCACTT-TCTGTGTCTCATCAGGAAGCTAACCTTTTTATTGCT
64 TCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTTTATTGCT
* * *
15169060 TCGACTTGCTTCTCAGTATCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTGAGCGTTAA
129 TCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGTGTTGAGCGTTAA
15169125 GCTAGTA
194 GCTAGTA
* *
15169132 TTCTTCTCTGTATCTCATCAAGAAGATGATCGCCTCGCTTGTTTTGATTCGCTTCTCTAGATCTC
1 TTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTGATTCGCTTCTCTAGATCTC
* * * * * *
15169197 CTCAGGAAGGCGAATCTGGTCCACTTCTCTATATCTCATCAGGAAGCTAACCATTTTATTCCTTC
66 CTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTTTATTGCTTC
* * *
15169262 GACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGTGTTGAGCGTTGAGT
131 GACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGTGTTGAGCGTTAAGC
*
15169327 TGGTA
196 TAGTA
15169332 TTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTGATTCGCTTCTCTAGATCTC
1 TTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTGATTCGCTTCTCTAGATCTC
* *
15169397 CTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTTATCAGGAAGCTAACCTTTTTATTGCTTT
66 CTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTTTATTGCTTC
*
15169462 GACCTGCTTCTCAATGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGTGTTG
131 GACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGTGTTG
15169517 CTTCAAGGTG
Statistics
Matches: 348, Mismatches: 35, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
199 47 0.14
200 301 0.86
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.36
Consensus pattern (200 bp):
TTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTGATTCGCTTCTCTAGATCTC
CTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTTTATTGCTTC
GACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGTGTTGAGCGTTAAGC
TAGTA
Found at i:15177612 original size:59 final size:59
Alignment explanation
Indices: 15177535--15178065 Score: 585
Period size: 58 Copynumber: 9.1 Consensus size: 59
15177525 TTGACTTTCG
* *
15177535 GGGGTAAAAT-GTAATTTTTGGTGAAATTAGGGTCTAAAATGGAATTTTGGAAAGTTCA
1 GGGGTAAAATGGTAATTTTTGGTGAAATTCGGGTCTAAAATGGAATTTTGGAAAGTTTA
* * * **
15177593 GGGGTAAAACGGTAATTTTTGGTAAAATT-GGGGCTAAAAATGGGGTTTTGGAAAG-TTA
1 GGGGTAAAATGGTAATTTTTGGTGAAATTCGGGTCT-AAAATGGAATTTTGGAAAGTTTA
* *
15177651 GTGGGTAAAATGGTGATTTTTGGTGAAA-TCGAGGT-TAAAATAGG-ATCTTGGAAAGTTT-
1 G-GGGTAAAATGGTAATTTTTGGTGAAATTCG-GGTCTAAAAT-GGAATTTTGGAAAGTTTA
*
15177709 GAGGGTAAAATGGTAATTTTTGGTGAAA-TCGAGGT-TAAAATGGGATTTTGGAAAGTTTA
1 G-GGGTAAAATGGTAATTTTTGGTGAAATTCG-GGTCTAAAATGGAATTTTGGAAAGTTTA
* * *
15177768 GGGGTAAAATGGTAATTTTTTGTGAAA-TCGAGGT-TAAAATGGGATTTTGGAAAG-TTC
1 GGGGTAAAATGGTAATTTTTGGTGAAATTCG-GGTCTAAAATGGAATTTTGGAAAGTTTA
* *
15177825 GAGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTCAAAAATGGAATTTTGGAAAGTTTA
1 G-GGGTAAAATGGTAATTTTTGGTGAAATTCGGGTCTAAAATGGAATTTTGGAAAGTTTA
* * *
15177885 GGGGTAAAATGGTAATTTTTGGTGAGA-TCGGGGTCAAAAATGGAATTTTGGAAAGTTTG
1 GGGGTAAAATGGTAATTTTTGGTGAAATTC-GGGTCTAAAATGGAATTTTGGAAAGTTTA
* * *
15177944 GGGGTAAAATGGTAATTTTGGGTGAAA-TCGGGGTC-AAAATGGAATTTTGGAAAGAGTGA
1 GGGGTAAAATGGTAATTTTTGGTGAAATTC-GGGTCTAAAATGGAATTTTGGAAAG-TTTA
* * * *
15178003 GGGGTTTAAATGGTAATTTTGGGT-AAAATCGAGGT-TAAAAATGGAATTTTAGAAAGTTT-
1 GGGG-TAAAATGGTAATTTTTGGTGAAATTCG-GGTCT-AAAATGGAATTTTGGAAAGTTTA
15178062 GGGG
1 GGGG
15178066 ATGAGAGAGC
Statistics
Matches: 419, Mismatches: 34, Indels: 39
0.85 0.07 0.08
Matches are distributed among these distances:
57 5 0.01
58 184 0.44
59 183 0.44
60 29 0.07
61 18 0.04
ACGTcount: A:0.33, C:0.03, G:0.31, T:0.33
Consensus pattern (59 bp):
GGGGTAAAATGGTAATTTTTGGTGAAATTCGGGTCTAAAATGGAATTTTGGAAAGTTTA
Found at i:15177704 original size:117 final size:117
Alignment explanation
Indices: 15177535--15178060 Score: 647
Period size: 117 Copynumber: 4.5 Consensus size: 117
15177525 TTGACTTTCG
*
15177535 GGGGTAAAAT-GTAATTTTTGGTGAAAT-TAGGGTCTAAAAT-GGAATTTTGGAAAGTTC-AGGG
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGA-GGT-TAAAATAGGAATTTTGGAAAGTTCGA-GG
* * * **
15177596 GTAAAACGGTAATTTTTGGTAAAATTGGGGCTAAAAATGGGGTTTTGGAAAG-TTA
63 GTAAAATGGTAATTTTTGGTGAAATCGGGG-TAAAAATGGAATTTTGGAAAGTTTA
* * *
15177651 GTGGGTAAAATGGTGATTTTTGGTGAAATCGAGGTTAAAATAGG-ATCTTGGAAAGTTTGAGGGT
1 G-GGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAATAGGAATTTTGGAAAGTTCGAGGGT
* * *
15177715 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAATGGGATTTTGGAAAGTTTA
65 AAAATGGTAATTTTTGGTGAAATCGGGGTAAAAATGGAATTTTGGAAAGTTTA
* *
15177768 GGGGTAAAATGGTAATTTTTTGTGAAATCGAGGTTAAAAT-GGGATTTTGGAAAGTTCGAGGGTA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAATAGGAATTTTGGAAAGTTCGAGGGTA
*
15177832 AAATGGTAATTTTTGGTGAAATTGGGGTCAAAAATGGAATTTTGGAAAGTTTA
66 AAATGGTAATTTTTGGTGAAATCGGGGT-AAAAATGGAATTTTGGAAAGTTTA
* * * * *
15177885 GGGGTAAAATGGTAATTTTTGGTGAGATCGGGGTCAAAA-ATGGAATTTTGGAAAGTTTGGGGGT
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAATA-GGAATTTTGGAAAGTTCGAGGGT
* * * *
15177949 AAAATGGTAATTTTGGGTGAAATCGGGGTCAAAATGGAATTTTGGAAAGAGTGA
65 AAAATGGTAATTTTTGGTGAAATCGGGGTAAAAATGGAATTTTGGAAAG-TTTA
* * * *
15178003 GGGGTTTAAATGGTAATTTTGGGTAAAATCGAGGTTAAAA-ATGGAATTTTAGAAAGTT
1 GGGG-TAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAATA-GGAATTTTGGAAAGTT
15178061 TGGGGATGAG
Statistics
Matches: 361, Mismatches: 37, Indels: 21
0.86 0.09 0.05
Matches are distributed among these distances:
115 2 0.01
116 102 0.28
117 135 0.37
118 75 0.21
119 47 0.13
ACGTcount: A:0.33, C:0.03, G:0.31, T:0.33
Consensus pattern (117 bp):
GGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAATAGGAATTTTGGAAAGTTCGAGGGTA
AAATGGTAATTTTTGGTGAAATCGGGGTAAAAATGGAATTTTGGAAAGTTTA
Found at i:15177873 original size:30 final size:30
Alignment explanation
Indices: 15177535--15177991 Score: 191
Period size: 30 Copynumber: 15.7 Consensus size: 30
15177525 TTGACTTTCG
15177535 GGGGT-AAAAT-GTAATTTTTGGTGAAATT
1 GGGGTCAAAATGGTAATTTTTGGTGAAATT
*
15177563 AGGGTCTAAAATGG-AA-TTTT-G-GAAAGTT
1 GGGGTC-AAAATGGTAATTTTTGGTGAAA-TT
* *
15177591 CAGGGGT-AAAACGGTAATTTTTGGTAAAATT
1 --GGGGTCAAAATGGTAATTTTTGGTGAAATT
* **
15177622 GGGGCTAAAAATGG--GGTTTT-G-GAAAGTT
1 GGGG-TCAAAATGGTAATTTTTGGTGAAA-TT
* *
15177650 AGTGGGT-AAAATGGTGATTTTTGGTGAAATC
1 -G-GGGTCAAAATGGTAATTTTTGGTGAAATT
* * *
15177681 GAGGTTAAAATAGG--A-TCTT-G-GAAAGTTT
1 GGGGTCAAAAT-GGTAATTTTTGGTGAAA--TT
*
15177709 GAGGGT-AAAATGGTAATTTTTGGTGAAATC
1 G-GGGTCAAAATGGTAATTTTTGGTGAAATT
* * *
15177739 GAGGTTAAAATGG-GA-TTTT-G-GAAAGTTT
1 GGGGTCAAAATGGTAATTTTTGGTGAAA--TT
* *
15177767 AGGGGT-AAAATGGTAATTTTTTGTGAAATC
1 -GGGGTCAAAATGGTAATTTTTGGTGAAATT
* * *
15177797 GAGGTTAAAATGG-GA-TTTT-G-GAAAGTT
1 GGGGTCAAAATGGTAATTTTTGGTGAAA-TT
15177824 CGAGGGT-AAAATGGTAATTTTTGGTGAAATT
1 -G-GGGTCAAAATGGTAATTTTTGGTGAAATT
15177855 GGGGTCAAAAATGG-AA-TTTT-G-GAAAGTTT
1 GGGGTC-AAAATGGTAATTTTTGGTGAAA--TT
* *
15177884 AGGGGT-AAAATGGTAATTTTTGGTGAGATC
1 -GGGGTCAAAATGGTAATTTTTGGTGAAATT
15177914 GGGGTCAAAAATGG-AA-TTTT-G-GAAAGTTT
1 GGGGTC-AAAATGGTAATTTTTGGTGAAA--TT
* *
15177943 GGGGGT-AAAATGGTAATTTTGGGTGAAATC
1 -GGGGTCAAAATGGTAATTTTTGGTGAAATT
15177973 GGGGTCAAAATGG-AATTTT
1 GGGGTCAAAATGGTAATTTT
15177992 GGAAAGAGTG
Statistics
Matches: 331, Mismatches: 34, Indels: 127
0.67 0.07 0.26
Matches are distributed among these distances:
26 12 0.04
27 20 0.06
28 73 0.22
29 77 0.23
30 88 0.27
31 35 0.11
32 26 0.08
ACGTcount: A:0.33, C:0.03, G:0.31, T:0.33
Consensus pattern (30 bp):
GGGGTCAAAATGGTAATTTTTGGTGAAATT
Found at i:15179888 original size:17 final size:18
Alignment explanation
Indices: 15179868--15179908 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
15179858 AATTTTATGC
*
15179868 AAATTTAAATTTAAAA-T
1 AAATTTAAACTTAAAACT
*
15179885 AAATCT-AACTTAAAACT
1 AAATTTAAACTTAAAACT
15179902 AAATTTA
1 AAATTTA
15179909 TATCTCATTG
Statistics
Matches: 19, Mismatches: 3, Indels: 3
0.76 0.12 0.12
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATTTAAACTTAAAACT
Found at i:15183704 original size:24 final size:24
Alignment explanation
Indices: 15183657--15183715 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
15183647 TAAAGTAAGT
*
15183657 TATA-TATTATTTTTCTAATATTA
1 TATATTATAATTTTTCTAATATTA
15183680 TATATTATAATTTTTACTAAT-TTA
1 TATATTATAATTTTT-CTAATATTA
*
15183704 TATTTTAATAAT
1 TATATT-ATAAT
15183716 AATTATATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 4 0.13
24 17 0.55
25 10 0.32
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.59
Consensus pattern (24 bp):
TATATTATAATTTTTCTAATATTA
Found at i:15183776 original size:58 final size:59
Alignment explanation
Indices: 15183680--15183844 Score: 201
Period size: 58 Copynumber: 2.8 Consensus size: 59
15183670 TCTAATATTA
* * * * *
15183680 TATATTATAATTTTTACTAATTTATATTTTAATAATAATTATATTAAAAACGTTATTAAAT
1 TATA-TATTATTTTTATTAAATTATA-TTTAATAATAATTATATTAAAAACATAATTAAAT
* * *
15183741 TATATATTA-TTTTATTTAATTATATTTAATAATAATTAT-GTAAAAATATAATTAAAT
1 TATATATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAAACATAATTAAAT
*
15183798 TATTTATTATTTTTATTAAATTATATTTAATAATAATCT-TATTAAAA
1 TATATATTATTTTTATTAAATTATATTTAATAATAAT-TATATTAAAA
15183845 TTTCATAACA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
57 22 0.24
58 42 0.47
59 18 0.20
60 4 0.04
61 4 0.04
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (59 bp):
TATATATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAAACATAATTAAAT
Found at i:15184027 original size:16 final size:16
Alignment explanation
Indices: 15184006--15184075 Score: 61
Period size: 16 Copynumber: 4.4 Consensus size: 16
15183996 TGAATTACTG
15184006 ATTACAGTC-ATATTCC
1 ATTACA-TCTATATTCC
*
15184022 ATTACATCTCTATTCC
1 ATTACATCTATATTCC
* * **
15184038 ATTACAACTCTATTTT
1 ATTACATCTATATTCC
* *
15184054 ATTACAACTCTATTCC
1 ATTACATCTATATTCC
15184070 ATTACA
1 ATTACA
15184076 GCGAACAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
15 2 0.04
16 45 0.96
ACGTcount: A:0.31, C:0.26, G:0.01, T:0.41
Consensus pattern (16 bp):
ATTACATCTATATTCC
Found at i:15191048 original size:56 final size:57
Alignment explanation
Indices: 15190969--15191107 Score: 176
Period size: 56 Copynumber: 2.5 Consensus size: 57
15190959 TTATTTTGGT
*
15190969 TGACGTTTAAAAACGTCAAAAAAATAAAAAATAAAAAGTCACG-AAAAA-AGTTATGG
1 TGACGTTTAAAAACGTCACAAAAATAAAAAAT-AAAAGTCACGAAAAAATAGTTATGG
* * * * * *
15191025 TGACATTTAAAAATGTCACAAAAA-ATACAATAAACGTCACGAAAAAATAGTTTTGG
1 TGACGTTTAAAAACGTCACAAAAATAAAAAATAAAAGTCACGAAAAAATAGTTATGG
15191081 TGACGTTTAAAAACGTCACAAATAATA
1 TGACGTTTAAAAACGTCACAAA-AATA
15191108 TTAGTAAACG
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
54 9 0.13
55 10 0.14
56 48 0.69
57 2 0.03
58 1 0.01
ACGTcount: A:0.53, C:0.12, G:0.13, T:0.23
Consensus pattern (57 bp):
TGACGTTTAAAAACGTCACAAAAATAAAAAATAAAAGTCACGAAAAAATAGTTATGG
Found at i:15198896 original size:2 final size:2
Alignment explanation
Indices: 15198891--15198941 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
15198881 AAAAAAACAA
15198891 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15198933 AT AT AT AT A
1 AT AT AT AT A
15198942 CGTATGTAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15219493 original size:30 final size:30
Alignment explanation
Indices: 15219450--15219507 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
15219440 AATAATTCGA
* * *
15219450 TTAACTGATCGATTAATCGCATTCGATCAG
1 TTAACCGACCGATTAACCGCATTCGATCAG
*
15219480 TTAACCGACCGATTAACCGTATTCGATC
1 TTAACCGACCGATTAACCGCATTCGATC
15219508 GGTGTAGTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (30 bp):
TTAACCGACCGATTAACCGCATTCGATCAG
Found at i:15224209 original size:29 final size:29
Alignment explanation
Indices: 15224176--15224458 Score: 114
Period size: 29 Copynumber: 9.7 Consensus size: 29
15224166 TAAAAGATCT
*
15224176 CTAAACTTTTCCTAAATTACATTTTAACC
1 CTAAACTTTTCCAAAATTACATTTTAACC
* * *
15224205 CTAAAACTTTCCCAAAAATCACATTTTACCC
1 CT-AAACTTTTCC-AAAATTACATTTTAACC
** * * **
15224236 CCGAACTTCTCAAAAATTACATTTTTGCC
1 CTAAACTTTTCCAAAATTACATTTTAACC
* * * *
15224265 GCCAAAC--TTCCAAAAGTCACATTTTTACT
1 -CTAAACTTTTCCAAAA-TTACATTTTAACC
* * * * *
15224294 CTCGAACTTCTCAAAAATCACATTTTTACCC
1 CT-AAACTTTTCCAAAATTACA-TTTTAACC
* * * **
15224325 CT-AACTTCTCAAAAATTATATTTTTGCCC
1 CTAAACTTTTCCAAAATTACA-TTTTAACC
** *
15224354 CCGAAC--TTCCAAAAATTACATTTTTACCC
1 CTAAACTTTTCC-AAAATTACA-TTTTAACC
* * *
15224383 CCAAAC-TTTCAAAAATCACATTTT-ACC
1 CTAAACTTTTCCAAAATTACATTTTAACC
* * * *
15224410 CCAAACCTTCCCAAAATTACATTTTTACC
1 CTAAACTTTTCCAAAATTACATTTTAACC
15224439 CTTAAAC-TTTCCAAAATTAC
1 C-TAAACTTTTCCAAAATTAC
15224459 GTTTGACCCT
Statistics
Matches: 198, Mismatches: 42, Indels: 28
0.74 0.16 0.10
Matches are distributed among these distances:
27 8 0.04
28 28 0.14
29 99 0.50
30 35 0.18
31 28 0.14
ACGTcount: A:0.35, C:0.29, G:0.02, T:0.34
Consensus pattern (29 bp):
CTAAACTTTTCCAAAATTACATTTTAACC
Found at i:15224331 original size:58 final size:56
Alignment explanation
Indices: 15224189--15224454 Score: 273
Period size: 59 Copynumber: 4.5 Consensus size: 56
15224179 AACTTTTCCT
* *
15224189 AAATTACATTTTAACCCTAAAACTTTCCCAAAAATCACATTTTACCCCCGAACTTCTCAA
1 AAATTACATTTTTACCC-CAAAC-TT-CCAAAAATCACATTTTACCCCCGAACTTC-CAA
* * * *
15224249 AAATTACATTTTTGCCGCCAAACTTCCAAAAGTCACATTTTTACTCTCGAACTTCTCAA
1 AAATTACATTTTTACC-CCAAACTTCCAAAAATCACA-TTTTACCCCCGAACTTC-CAA
* * * * *
15224308 AAATCACATTTTTACCCCTAACTTCTCAAAAATTATATTTTTGCCCCCGAACTTCCAA
1 AAATTACATTTTTACCCCAAACTTC-CAAAAATCACA-TTTTACCCCCGAACTTCCAA
* * *
15224366 AAATTACATTTTTACCCCCAAACTTTCAAAAATCACATTTTA-CCCCAAACCTTCCCA
1 AAATTACATTTTTA-CCCCAAACTTCCAAAAATCACATTTTACCCCCGAA-CTTCCAA
*
15224423 AAATTACATTTTTACCCTTAAACTTTCCAAAA
1 AAATTACATTTTTACCC-CAAAC-TTCCAAAA
15224455 TTACGTTTGA
Statistics
Matches: 174, Mismatches: 25, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
56 9 0.05
57 28 0.16
58 51 0.29
59 67 0.39
60 18 0.10
61 1 0.01
ACGTcount: A:0.36, C:0.29, G:0.03, T:0.33
Consensus pattern (56 bp):
AAATTACATTTTTACCCCAAACTTCCAAAAATCACATTTTACCCCCGAACTTCCAA
Found at i:15224332 original size:88 final size:86
Alignment explanation
Indices: 15224189--15224454 Score: 300
Period size: 88 Copynumber: 3.0 Consensus size: 86
15224179 AACTTTTCCT
* * ** *
15224189 AAATTACATTTTAACCCTAAAACTTTCCCAAAAATCACATTTTACCCCCGAACTTCTCAAAAATT
1 AAATCACATTTTTACCCCCAAACTTT--CAAAAATCACATTTTA-CCCCAAACTTCTCAAAAATT
*
15224254 ACATTTTTGCCGCCAAACTTCCAA
63 ACATTTTTGCCCCCAAACTTCCAA
* * * * *
15224278 AAGTCACATTTTTACTCTCGAACTTCTCAAAAATCACATTTTTACCCCTAACTTCTCAAAAATTA
1 AAATCACATTTTTACCCCCAAACTT-TCAAAAATCACA-TTTTACCCCAAACTTCTCAAAAATTA
* *
15224343 TATTTTTGCCCCCGAACTTCCAA
64 CATTTTTGCCCCCAAACTTCCAA
* *
15224366 AAATTACATTTTTACCCCCAAACTTTCAAAAATCACATTTTACCCCAAACCTTC-CCAAAATTAC
1 AAATCACATTTTTACCCCCAAACTTTCAAAAATCACATTTTACCCCAAA-CTTCTCAAAAATTAC
* **
15224430 ATTTTTACCCTTAAACTTTCCAA
65 ATTTTTGCCCCCAAAC-TTCCAA
15224453 AA
1 AA
15224455 TTACGTTTGA
Statistics
Matches: 151, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
86 31 0.21
87 24 0.16
88 71 0.47
89 24 0.16
90 1 0.01
ACGTcount: A:0.36, C:0.29, G:0.03, T:0.33
Consensus pattern (86 bp):
AAATCACATTTTTACCCCCAAACTTTCAAAAATCACATTTTACCCCAAACTTCTCAAAAATTACA
TTTTTGCCCCCAAACTTCCAA
Found at i:15230039 original size:8 final size:8
Alignment explanation
Indices: 15230003--15230142 Score: 87
Period size: 8 Copynumber: 17.4 Consensus size: 8
15229993 TAAAAAAGAA
15230003 AGAAAAA-
1 AGAAAAAG
*
15230010 AGAAGAAG
1 AGAAAAAG
*
15230018 AAGAAAAAT
1 -AGAAAAAG
15230027 A-AAAAAG
1 AGAAAAAG
15230034 AGAAAAAG
1 AGAAAAAG
*
15230042 AGGAAAAG
1 AGAAAAAG
*
15230050 AGGAAAAG
1 AGAAAAAG
15230058 AGGAAAAAG
1 A-GAAAAAG
15230067 -GAAAAAAG
1 AG-AAAAAG
15230075 AAGAAAAAG
1 -AGAAAAAG
15230084 AAGAAAAA-
1 -AGAAAAAG
*
15230092 AGGAAAAAA
1 A-GAAAAAG
15230101 AGGAAAAAG
1 A-GAAAAAG
*
15230110 -GAAATAG
1 AGAAAAAG
15230117 A-AAAAA-
1 AGAAAAAG
*
15230123 ACGAAAAAA
1 A-GAAAAAG
*
15230132 AGAAAAGG
1 AGAAAAAG
15230140 AGA
1 AGA
15230143 GGTCGAGGTG
Statistics
Matches: 109, Mismatches: 11, Indels: 25
0.75 0.08 0.17
Matches are distributed among these distances:
6 1 0.01
7 24 0.22
8 48 0.44
9 35 0.32
10 1 0.01
ACGTcount: A:0.74, C:0.01, G:0.24, T:0.01
Consensus pattern (8 bp):
AGAAAAAG
Found at i:15230098 original size:6 final size:7
Alignment explanation
Indices: 15230037--15230113 Score: 59
Period size: 7 Copynumber: 10.4 Consensus size: 7
15230027 AAAAAAGAGA
15230037 AAAAGAGG
1 AAAA-AGG
15230045 AAAAGAGG
1 AAAA-AGG
15230053 AAAAGAGG
1 AAAA-AGG
15230061 AAAAAGG
1 AAAAAGG
*
15230068 AAAAAAG
1 AAAAAGG
15230075 AAGAAA--
1 AA-AAAGG
* *
15230081 AAGAAGA
1 AAAAAGG
15230088 AAAAAGG
1 AAAAAGG
15230095 AAAAAAAGG
1 --AAAAAGG
15230104 AAAAAGG
1 AAAAAGG
15230111 AAA
1 AAA
15230114 TAGAAAAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
5 2 0.03
6 2 0.03
7 26 0.43
8 23 0.38
9 7 0.12
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (7 bp):
AAAAAGG
Found at i:15231165 original size:50 final size:49
Alignment explanation
Indices: 15231079--15231527 Score: 372
Period size: 50 Copynumber: 9.1 Consensus size: 49
15231069 AGAAAAACAT
* * * *
15231079 GAAGATTTGAAGGGAAAGGTTGAGGCTGCAACGGTGAACGCAGTACCTTA
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAAC-CGGTACCTTA
* * * *
15231129 GAAGATGTGAAGGGAAAGGTTAAGGCCGCAATGGTGAACCCGGTACCAT-
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAA-CCGGTACCTTA
* * *
15231178 GAAGATTTGAAGGG-AAGGATTGAGGCTGCGACGGCGAATCCGGTACCTCT-
1 GAAGATGTGAAGGGAAAGG-TTGAGGCCGCAACGGCGAA-CCGGTACCT-TA
* * * * *
15231228 GAAGATTTGAAGGGAAAGGTTGAGGTCGTAACGGCAAACCCGATACCTTA
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAA-CCGGTACCTTA
* * * * * * *
15231278 AAAGATGT-AACCGAAAAGGTTGAGGCCGCAACGACAAACCCGATACCTCA
1 GAAGATGTGAA-GGGAAAGGTTGAGGCCGCAACGGCGAA-CCGGTACCTTA
* * * * * * *
15231328 AAAGATGTGATGGGAAAGATTGAGGCCGCAATGGTGAATTCGGTACCAT-
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAA-CCGGTACCTTA
* * * * *
15231377 GAA-ATGTGATGAGAAAGGTTGAGGCCGTAATGGCGAACCCGGTACCAT-
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAA-CCGGTACCTTA
* * *
15231425 GAAGATTTTAAGGGAAAGGTTGAGGCCGCAGCGGCGAACCTGGTACCTTA
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACC-GGTACCTTA
* * *
15231475 GAAGATATGAAGGGAAAGGTTGAGGCTGTAACGGCGAACCCGGTACCTTA
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAA-CCGGTACCTTA
15231525 GAA
1 GAA
15231528 AACAAGATGG
Statistics
Matches: 326, Mismatches: 62, Indels: 22
0.80 0.15 0.05
Matches are distributed among these distances:
48 48 0.15
49 74 0.23
50 196 0.60
51 8 0.02
ACGTcount: A:0.32, C:0.17, G:0.32, T:0.18
Consensus pattern (49 bp):
GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCGGTACCTTA
Found at i:15231247 original size:99 final size:98
Alignment explanation
Indices: 15231076--15231522 Score: 389
Period size: 99 Copynumber: 4.5 Consensus size: 98
15231066 CTGAGAAAAA
* * * *
15231076 CATGAAGATTTGAAGGGAAAGGTTGAGGCTGCAACGGTGAACGCAGTACCT-TAGAAGATGTGAA
1 CATGAAGATGTGAAGGG-AAGGTTGAGGCTGCAACGGCGAACCCGGTACCTCT-GAAGATGTGAA
* * *
15231140 GGGAAAGGTTAAGGCCGCAATGGTGAACCCGGTAC
64 GGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * *
15231175 CATGAAGATTTGAAGGGAAGGATTGAGGCTGCGACGGCGAATCCGGTACCTCTGAAGATTTGAAG
1 CATGAAGATGTGAAGGGAAGG-TTGAGGCTGCAACGGCGAACCCGGTACCTCTGAAGATGTGAAG
* * * *
15231240 GGAAAGGTTGAGGTCGTAACGGCAAACCCGATAC
65 GGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * ** * * * * **
15231274 CTTAAAAGATGT-AACCGAAAAGGTTGAGGCCGCAACGACAAACCCGATACCTCAAAAGATGTGA
1 CAT-GAAGATGTGAA--GGGAAGGTTGAGGCTGCAACGGCGAACCCGGTACCTCTGAAGATGTGA
* * * * **
15231338 TGGGAAAGATTGAGGCCGCAATGGTGAATTCGGTAC
63 AGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * * * * * *
15231374 CATGAA-ATGTGATGAGAAAGGTTGAGGCCGTAATGGCGAACCCGGTACC-ATGAAGATTTTAAG
1 CATGAAGATGTGAAG-GGAAGGTTGAGGCTGCAACGGCGAACCCGGTACCTCTGAAGATGTGAAG
* *
15231437 GGAAAGGTTGAGGCCGCAGCGGCGAACCTGGTAC
65 GGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * *
15231471 CTTAGAAGATATGAAGGGAAAGGTTGAGGCTGTAACGGCGAACCCGGTACCT
1 CAT-GAAGATGTGAAGGG-AAGGTTGAGGCTGCAACGGCGAACCCGGTACCT
15231523 TAGAAAACAA
Statistics
Matches: 272, Mismatches: 65, Indels: 21
0.76 0.18 0.06
Matches are distributed among these distances:
97 38 0.14
98 40 0.15
99 122 0.45
100 67 0.25
101 5 0.02
ACGTcount: A:0.32, C:0.17, G:0.32, T:0.19
Consensus pattern (98 bp):
CATGAAGATGTGAAGGGAAGGTTGAGGCTGCAACGGCGAACCCGGTACCTCTGAAGATGTGAAGG
GAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
Found at i:15232478 original size:30 final size:30
Alignment explanation
Indices: 15232444--15232738 Score: 209
Period size: 29 Copynumber: 10.1 Consensus size: 30
15232434 CCTAGAAGAT
* * * * *
15232444 CCCTAAACTTTTCCAAAATTATATTTTGAC
1 CCCTAAACTTCTCAAAAATCACATTTTTAC
*
15232474 CCCTAAAACTTTTCTAAAAATCACATTTTTAC
1 CCCT-AAACTTCTC-AAAAATCACATTTTTAC
15232506 CCC-AAACTTCTCAAAAATCACATTTTTA-
1 CCCTAAACTTCTCAAAAATCACATTTTTAC
*
15232534 CCCTAAACTTCTCAAAAATCTCATTTTTA-
1 CCCTAAACTTCTCAAAAATCACATTTTTAC
* * * * *
15232563 CCCTCGAACTTC-CAGAAATTATATTTTT-G
1 CCCT-AAACTTCTCAAAAATCACATTTTTAC
* * * *
15232592 CCCTCGAACTTC-CAGAAATTACATTTTT-G
1 CCCT-AAACTTCTCAAAAATCACATTTTTAC
*
15232621 CCCTCGAACTTC-CAAAAATCACATTTTTA-
1 CCCT-AAACTTCTCAAAAATCACATTTTTAC
* *
15232650 CCCTAAACTTC-CAAAACTCACATTTTTGC
1 CCCTAAACTTCTCAAAAATCACATTTTTAC
* * * * *
15232679 CTCGAACCTTC-CTAAAATTACATTTTTAC
1 CCCTAAACTTCTCAAAAATCACATTTTTAC
* * * *
15232708 CCTTAAA-TTTTCCAAAATCACATTTTAAC
1 CCCTAAACTTCTCAAAAATCACATTTTTAC
15232737 CC
1 CC
15232739 GAACTCTCCG
Statistics
Matches: 225, Mismatches: 32, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
28 26 0.12
29 156 0.69
30 18 0.08
31 9 0.04
32 16 0.07
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (30 bp):
CCCTAAACTTCTCAAAAATCACATTTTTAC
Found at i:15232527 original size:29 final size:29
Alignment explanation
Indices: 15232489--15232738 Score: 258
Period size: 29 Copynumber: 8.7 Consensus size: 29
15232479 AAACTTTTCT
15232489 AAAAATCACATTTTTACCC-CAAACTTCTC
1 AAAAATCACATTTTTACCCTCAAACTTC-C
15232518 AAAAATCACATTTTTACCCT-AAACTTCTC
1 AAAAATCACATTTTTACCCTCAAACTTC-C
* *
15232547 AAAAATCTCATTTTTACCCTCGAACTTCC
1 AAAAATCACATTTTTACCCTCAAACTTCC
* * * * *
15232576 AGAAATTATATTTTTGCCCTCGAACTTCC
1 AAAAATCACATTTTTACCCTCAAACTTCC
* * * *
15232605 AGAAATTACATTTTTGCCCTCGAACTTCC
1 AAAAATCACATTTTTACCCTCAAACTTCC
15232634 AAAAATCACATTTTTACCCT-AAACTTCC
1 AAAAATCACATTTTTACCCTCAAACTTCC
* * *
15232662 AAAACTCACATTTTT-GCCTCGAACCTTCC
1 AAAAATCACATTTTTACCCTC-AAACTTCC
* * * *
15232691 TAAAATTACATTTTTACCCTTAAATTTTCC
1 AAAAATCACATTTTTACCCTCAAA-CTTCC
*
15232721 -AAAATCACATTTTAACCC
1 AAAAATCACATTTTTACCC
15232739 GAACTCTCCG
Statistics
Matches: 191, Mismatches: 24, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
27 3 0.02
28 21 0.11
29 154 0.81
30 13 0.07
ACGTcount: A:0.34, C:0.28, G:0.04, T:0.35
Consensus pattern (29 bp):
AAAAATCACATTTTTACCCTCAAACTTCC
Found at i:15232698 original size:86 final size:85
Alignment explanation
Indices: 15232491--15232738 Score: 272
Period size: 86 Copynumber: 2.9 Consensus size: 85
15232481 ACTTTTCTAA
* * * *
15232491 AAATCACATTTTTACCC-CAAACTTCTCAAAAATCACATTTTTACCCTAAACTTCTCAAAAATCT
1 AAATCACATTTTTGCCCTCGAACTTC-C-AAAATTACATTTTTACCCTAAACTTC-CAAAAATCA
*
15232555 CATTTTTACCCTCGAACTTCCAG
63 CATTTTTACCCTCAAACTTCCAG
* * * *
15232578 AAATTATATTTTTGCCCTCGAACTTCCAGAAATTACATTTTTGCCCTCGAACTTCCAAAAATCAC
1 AAATCACATTTTTGCCCTCGAACTTCCA-AAATTACATTTTTACCCT-AAACTTCCAAAAATCAC
15232643 ATTTTTACCCT-AAACTTCCA-
64 ATTTTTACCCTCAAACTTCCAG
*
15232663 AAACTCACATTTTTG-CCTCGAACCTTCCTAAAATTACATTTTTACCCTTAAATTTTCC-AAAAT
1 AAA-TCACATTTTTGCCCTCGAA-CTTCC-AAAATTACATTTTTACCC-TAAA-CTTCCAAAAAT
*
15232726 CACATTTTAACCC
61 CACATTTTTACCC
15232739 GAACTCTCCG
Statistics
Matches: 138, Mismatches: 15, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
85 10 0.07
86 58 0.42
87 57 0.41
88 13 0.09
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.35
Consensus pattern (85 bp):
AAATCACATTTTTGCCCTCGAACTTCCAAAATTACATTTTTACCCTAAACTTCCAAAAATCACAT
TTTTACCCTCAAACTTCCAG
Found at i:15232898 original size:14 final size:15
Alignment explanation
Indices: 15232863--15232902 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
15232853 TTATTCATGA
15232863 TTCGTAT-TTTATTT
1 TTCGTATATTTATTT
*
15232877 TTCTTATATTTA-TT
1 TTCGTATATTTATTT
15232891 TTCGTATATTTA
1 TTCGTATATTTA
15232903 CTCATTCGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 19 0.83
15 4 0.17
ACGTcount: A:0.20, C:0.07, G:0.05, T:0.68
Consensus pattern (15 bp):
TTCGTATATTTATTT
Found at i:15238792 original size:23 final size:23
Alignment explanation
Indices: 15238766--15238994 Score: 289
Period size: 23 Copynumber: 9.9 Consensus size: 23
15238756 ATATTTTATG
*
15238766 ATAAATCAAATTAATATTTAAGC
1 ATAAATCACATTAATATTTAAGC
* * *
15238789 ATAAATCATATTAACATTTAAGT
1 ATAAATCACATTAATATTTAAGC
15238812 ATAAATCACATTAATATTTAAGC
1 ATAAATCACATTAATATTTAAGC
* *
15238835 ATAAATCATATTAAAATTTAAGC
1 ATAAATCACATTAATATTTAAGC
*
15238858 ATAAATTACATTAATATTTAAGC
1 ATAAATCACATTAATATTTAAGC
*
15238881 ACAAATCACATTAACT-TTTAAGC
1 ATAAATCACATTAA-TATTTAAGC
* * *
15238904 ATAAAACATATTAATATTTAAAAC
1 ATAAATCACATTAATATTT-AAGC
15238928 ATAAATCACATTAATATTTAAGC
1 ATAAATCACATTAATATTTAAGC
* * *
15238951 ACAAATCAAATTAATATTTATGC
1 ATAAATCACATTAATATTTAAGC
* *
15238974 AAAAATCACAGTAATATTTAA
1 ATAAATCACATTAATATTTAA
15238995 AACATTTAAA
Statistics
Matches: 176, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
22 1 0.01
23 154 0.88
24 21 0.12
ACGTcount: A:0.50, C:0.11, G:0.04, T:0.34
Consensus pattern (23 bp):
ATAAATCACATTAATATTTAAGC
Found at i:15239496 original size:36 final size:36
Alignment explanation
Indices: 15239449--15239638 Score: 183
Period size: 36 Copynumber: 5.4 Consensus size: 36
15239439 TTAGCACAAT
* * *
15239449 ATATTCACTGTCACATGGCATGAATAACACACCCAC
1 ATATTTACTATCACATGGCATGAATAACATACCCAC
* * *
15239485 ATATTTACTGTCTCATGGCATGAATAACATACTCAC
1 ATATTTACTATCACATGGCATGAATAACATACCCAC
* * * * *
15239521 ATATATACTATCTCATGACAGGAATAACATA--CTC
1 ATATTTACTATCACATGGCATGAATAACATACCCAC
* ** * *
15239555 --ATTTACTATCAAATAACATGAATAATATACCCAT
1 ATATTTACTATCACATGGCATGAATAACATACCCAC
*
15239589 ATATTTACTATCACATGGCATGAATAA-ATACCAAC
1 ATATTTACTATCACATGGCATGAATAACATACCCAC
*
15239624 ATATTTACTTTCACA
1 ATATTTACTATCACA
15239639 ACAGTCATCA
Statistics
Matches: 127, Mismatches: 23, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
32 23 0.18
34 3 0.02
35 20 0.16
36 81 0.64
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (36 bp):
ATATTTACTATCACATGGCATGAATAACATACCCAC
Found at i:15241041 original size:36 final size:36
Alignment explanation
Indices: 15241001--15241100 Score: 182
Period size: 36 Copynumber: 2.8 Consensus size: 36
15240991 CGATATTCGA
*
15241001 TTTACTCCCTGTTGACTCAAAGGTCATGATGCTCAT
1 TTTACTCCCTGTTGACCCAAAGGTCATGATGCTCAT
15241037 TTTACTCCCTGTTGACCCAAAGGTCATGATGCTCAT
1 TTTACTCCCTGTTGACCCAAAGGTCATGATGCTCAT
*
15241073 TTTACTCCCTATTGACCCAAAGGTCATG
1 TTTACTCCCTGTTGACCCAAAGGTCATG
15241101 CCTGTTACCA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 62 1.00
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (36 bp):
TTTACTCCCTGTTGACCCAAAGGTCATGATGCTCAT
Found at i:15242898 original size:10 final size:9
Alignment explanation
Indices: 15242868--15242904 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
15242858 TTTGTTAGTG
15242868 TTTAACTTGT
1 TTTAA-TTGT
*
15242878 TTTAATTTT
1 TTTAATTGT
15242887 TTTAATTGT
1 TTTAATTGT
15242896 TTTAATTGT
1 TTTAATTGT
15242905 GGGTAAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 20 0.80
10 5 0.20
ACGTcount: A:0.22, C:0.03, G:0.08, T:0.68
Consensus pattern (9 bp):
TTTAATTGT
Found at i:15243242 original size:23 final size:23
Alignment explanation
Indices: 15243216--15243271 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
15243206 TATGCCTAAC
*
15243216 ATTTAAGCATAAATAACATTAAT
1 ATTTAAGCACAAATAACATTAAT
*
15243239 ATTTAAGCACAAATCACATTAAT
1 ATTTAAGCACAAATAACATTAAT
15243262 ATTTAA-CACA
1 ATTTAAGCACA
15243272 TTTAATGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 4 0.13
23 27 0.87
ACGTcount: A:0.50, C:0.14, G:0.04, T:0.32
Consensus pattern (23 bp):
ATTTAAGCACAAATAACATTAAT
Done.