Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 174 of 352
Found at i:56830187 original size:25 final size:25
Alignment explanation
Indices: 56830140--56830187 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
56830130 AATGGTTAAA
*
56830140 ACTCTATATGATGCTATTGTTTATT
1 ACTCTATATGATGCGATTGTTTATT
*
56830165 ACTCTATTTGATG-GATTGATTTA
1 ACTCTATATGATGCGATTG-TTTA
56830188 ATGATTGCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (25 bp):
ACTCTATATGATGCGATTGTTTATT
Found at i:56832789 original size:23 final size:24
Alignment explanation
Indices: 56832733--56832790 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 24
56832723 AATTTGTTAG
* *
56832733 ATATTTATAAATATTTTTATATAC
1 ATATTAATAAATATTTTTATATAA
*
56832757 ATA-TATTAAATATTTTTCA-A-AA
1 ATATTAATAAATATTTTT-ATATAA
56832779 ATATTAATAAAT
1 ATATTAATAAAT
56832791 TTGAAAATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
22 4 0.14
23 20 0.71
24 4 0.14
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (24 bp):
ATATTAATAAATATTTTTATATAA
Found at i:56835135 original size:97 final size:95
Alignment explanation
Indices: 56835004--56835199 Score: 293
Period size: 97 Copynumber: 2.0 Consensus size: 95
56834994 AAGGCCCAAA
*
56835004 CTCTAAAAAATCCAAAAATTAGAACTTTACCCTAGACCCAAAACTGAAAACAAGCCTTCAGAACA
1 CTCTAAAAAATCAAAAAATTAGAACTTTACCCTAGACCCAAAACTGAAAACAAGCCTTCAGAACA
** * * *
56835069 CAAGTTTTATTAATAGCTTTCTTCATCACT
66 CAAGCATTATCAATAGCTTACATCATCACT
*
56835099 CTCTAAAAAAATTCAAAAAATTAGAACTTTACCCTAGACCCAAAACTGAAAACAAGCGTTCAGAA
1 CTCT-AAAAAA-TCAAAAAATTAGAACTTTACCCTAGACCCAAAACTGAAAACAAGCCTTCAGAA
* *
56835164 CACAGGCATTATCAATAGCTTACATCATCATT
64 CACAAGCATTATCAATAGCTTACATCATCACT
56835196 CTCT
1 CTCT
56835200 TCCATTTCAA
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
95 4 0.04
96 6 0.07
97 80 0.89
ACGTcount: A:0.42, C:0.24, G:0.08, T:0.26
Consensus pattern (95 bp):
CTCTAAAAAATCAAAAAATTAGAACTTTACCCTAGACCCAAAACTGAAAACAAGCCTTCAGAACA
CAAGCATTATCAATAGCTTACATCATCACT
Found at i:56844028 original size:21 final size:21
Alignment explanation
Indices: 56843999--56844057 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 21
56843989 TAGTTTTTGT
*
56843999 TTTAGATAGTAAATTTAATTA
1 TTTATATAGTAAATTTAATTA
* *
56844020 TTTATATAGTAACTTT-A-TG
1 TTTATATAGTAAATTTAATTA
56844039 TTTATATA-TAAAATTTAAT
1 TTTATATAGT-AAATTTAAT
56844058 AGATAATACA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
18 1 0.03
19 14 0.45
20 2 0.06
21 14 0.45
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.51
Consensus pattern (21 bp):
TTTATATAGTAAATTTAATTA
Found at i:56844116 original size:21 final size:21
Alignment explanation
Indices: 56844092--56844136 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
56844082 TATATTATAT
56844092 TTAT-ATTAATTATATTAACTA
1 TTATGATTAATT-TATTAACTA
* *
56844113 TTATGGTTAATTTATTAATTA
1 TTATGATTAATTTATTAACTA
56844134 TTA
1 TTA
56844137 AGAAAAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (21 bp):
TTATGATTAATTTATTAACTA
Found at i:56852539 original size:19 final size:19
Alignment explanation
Indices: 56852508--56852564 Score: 73
Period size: 18 Copynumber: 3.1 Consensus size: 19
56852498 TCTTTTAAAA
56852508 TATAAAT-TTTAGAATTTT
1 TATAAATATTTAGAATTTT
56852526 TATAAATATTTAG-ATTTT
1 TATAAATATTTAGAATTTT
* *
56852544 TAAAAATTATTTTGAATTTT
1 TATAAA-TATTTAGAATTTT
56852564 T
1 T
56852565 TTATAATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 17 0.50
19 11 0.32
20 6 0.18
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
TATAAATATTTAGAATTTT
Found at i:56856246 original size:38 final size:39
Alignment explanation
Indices: 56856183--56856324 Score: 173
Period size: 38 Copynumber: 3.7 Consensus size: 39
56856173 TTCAGTGATG
*
56856183 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCACAGGCTATGTGCTGGAAT
56856222 TATATCCGGAC-TAAGGTCCACAGGCTATGTGCT-GAAT
1 TATATCCGGACTTAAGGTCCACAGGCTATGTGCTGGAAT
* ** * *
56856259 TATAACCGGACTTAAGGTCTGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCACAGGCTATGTGCTGGAAT
* * *
56856298 TATGTCCGGGC-TAAAGTCCCACAGGCT
1 TATATCCGGACTTAAGGT-CCACAGGCT
56856325 TCGAGCTGGT
Statistics
Matches: 88, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
37 14 0.16
38 45 0.51
39 29 0.33
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCACAGGCTATGTGCTGGAAT
Found at i:56856277 original size:76 final size:77
Alignment explanation
Indices: 56856183--56856324 Score: 214
Period size: 76 Copynumber: 1.9 Consensus size: 77
56856173 TTCAGTGATG
* * * *
56856183 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTAAGGT-CCACAGGC
1 TATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTAAAGTCCCACAGGC
56856247 TATGTGCTGAAT
66 TATGTGCTGAAT
* * *
56856259 TATAACCGGACTTAAGGTCTGCAGGCTACGTGCTGGAAATATGTCCGGGCTAAAGTCCCACAGGC
1 TATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTAAAGTCCCACAGGC
56856324 T
66 T
56856325 TCGAGCTGGT
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
76 49 0.84
77 9 0.16
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (77 bp):
TATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTAAAGTCCCACAGGC
TATGTGCTGAAT
Found at i:56856324 original size:39 final size:38
Alignment explanation
Indices: 56856183--56856344 Score: 166
Period size: 38 Copynumber: 4.2 Consensus size: 38
56856173 TTCAGTGATG
* *
56856183 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGAC-TAAGGTCCACAGGCTACGTGCTGGAAT
*
56856222 TATATCCGGACTAAGGTCCACAGGCTATGTGCT-GAAT
1 TATATCCGGACTAAGGTCCACAGGCTACGTGCTGGAAT
* ** *
56856259 TATAACCGGACTTAAGGTCTGCAGGCTACGTGCTGGAAA
1 TATATCCGGAC-TAAGGTCCACAGGCTACGTGCTGGAAT
* * * * * *
56856298 TATGTCCGGGCTAAAGTCCCACAGGCTTCGAGCTGGTAT
1 TATATCCGGACTAAGGT-CCACAGGCTACGTGCTGGAAT
56856337 TATA-CCGG
1 TATATCCGG
56856345 TTTAAATTCC
Statistics
Matches: 103, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
37 14 0.14
38 49 0.48
39 40 0.39
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (38 bp):
TATATCCGGACTAAGGTCCACAGGCTACGTGCTGGAAT
Found at i:56856946 original size:43 final size:43
Alignment explanation
Indices: 56856898--56856984 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
56856888 TAAGTCTGTT
56856898 TAAATGAATGTTTCAATTTTCGATAAGTCTTAATTGTTTGTGA
1 TAAATGAATGTTTCAATTTTCGATAAGTCTTAATTGTTTGTGA
*
56856941 TAAATGAATGTTTCAATTTTCGGTAAGTCTTAATTGTTTGTGA
1 TAAATGAATGTTTCAATTTTCGATAAGTCTTAATTGTTTGTGA
56856984 T
1 T
56856985 GCTTAAAACT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.47
Consensus pattern (43 bp):
TAAATGAATGTTTCAATTTTCGATAAGTCTTAATTGTTTGTGA
Found at i:56864229 original size:39 final size:39
Alignment explanation
Indices: 56864174--56864299 Score: 171
Period size: 39 Copynumber: 3.2 Consensus size: 39
56864164 TTCAGTGATG
56864174 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * *
56864213 TATATCCGGACCTAAGGTCCACAGGCTATGTGCTAGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * * * *
56864252 TATAACCGGACTTAAGGTCTGTAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
*
56864291 TATGTCCGG
1 TATATCCGG
56864300 GATAAAGTCC
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Found at i:56864313 original size:78 final size:77
Alignment explanation
Indices: 56864174--56864317 Score: 191
Period size: 78 Copynumber: 1.8 Consensus size: 77
56864164 TTCAGTGATG
* * * *
56864174 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACCTAAGGTCCACAGGC
1 TATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGA-CTAAAGTCCACAGGC
56864239 TATGTGCTAGAAT
65 TATGTGCTAGAAT
* * *
56864252 TATAACCGGACTTAAGGTCTGTAGGCTACGTGCTGGAAATATGTCCGGGA-TAAAGTCCCACAGG
1 TATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCC-GGACTAAAGT-CCACAGG
56864316 CT
64 CT
56864318 TCGAGCTGGT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
77 5 0.09
78 49 0.86
79 3 0.05
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (77 bp):
TATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTAAAGTCCACAGGCT
ATGTGCTAGAAT
Found at i:56866589 original size:22 final size:24
Alignment explanation
Indices: 56866564--56866620 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
56866554 TACTTTTCTT
56866564 TTTTTTTTTCTTTC-T-TCCTAAA
1 TTTTTTTTTCTTTCTTCTCCTAAA
*
56866586 TTTTTTTGTTC-TTCTTCTCCTATA
1 TTTTTTT-TTCTTTCTTCTCCTAAA
*
56866610 TTTTGTTTTCT
1 TTTTTTTTTCT
56866621 CAATCAAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 10 0.34
23 7 0.24
24 12 0.41
ACGTcount: A:0.09, C:0.18, G:0.04, T:0.70
Consensus pattern (24 bp):
TTTTTTTTTCTTTCTTCTCCTAAA
Found at i:56866620 original size:23 final size:24
Alignment explanation
Indices: 56866562--56866620 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 24
56866552 GATACTTTTC
*
56866562 TTTTTTTTTTTCTTTCTTCCTAAA
1 TTTTTTTTCTTCTTTCTTCCTAAA
*
56866586 TTTTTTTGTTCTTC-TTC-TCCTATA
1 -TTTTTT-TTCTTCTTTCTTCCTAAA
56866610 TTTTGTTTTCT
1 TTTT-TTTTCT
56866621 CAATCAAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
23 8 0.27
24 8 0.27
25 9 0.30
26 5 0.17
ACGTcount: A:0.08, C:0.17, G:0.03, T:0.71
Consensus pattern (24 bp):
TTTTTTTTCTTCTTTCTTCCTAAA
Found at i:56869714 original size:11 final size:11
Alignment explanation
Indices: 56869698--56869727 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
56869688 TATATATATT
56869698 TAAAAATTATA
1 TAAAAATTATA
*
56869709 TAAAAATAATA
1 TAAAAATTATA
56869720 TAAAAATT
1 TAAAAATT
56869728 TAATACTGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:56870776 original size:48 final size:47
Alignment explanation
Indices: 56870713--56870825 Score: 140
Period size: 48 Copynumber: 2.4 Consensus size: 47
56870703 GCTTTTTTTT
* *
56870713 ACAATGCACT-GAAAATAATGCACTAAACCTATCTCAATGTTCGAAA
1 ACAATGCACTGGAAAATAATACACTAAACCTATCTAAATGTTCGAAA
* * * *
56870759 ATAATGCACTGGAAAAATAATACATTGAAGCTATCTAAATGTTCGAAA
1 ACAATGCACTGG-AAAATAATACACTAAACCTATCTAAATGTTCGAAA
*
56870807 ACAATGCACT-GTAAATAAT
1 ACAATGCACTGGAAAATAAT
56870826 GATTAAAACT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
46 16 0.28
47 2 0.04
48 39 0.68
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.26
Consensus pattern (47 bp):
ACAATGCACTGGAAAATAATACACTAAACCTATCTAAATGTTCGAAA
Found at i:56872944 original size:33 final size:33
Alignment explanation
Indices: 56872907--56873047 Score: 99
Period size: 33 Copynumber: 4.2 Consensus size: 33
56872897 GCCCAACCAC
* *
56872907 GGTCTTACATTC-GTTGTGCCATAACCCAGTTAT
1 GGTCTTACATTCAG-AGTGCCATAACCCAGCTAT
*
56872940 GGTCTTATCA-TCAGAGTGCCATAGCCCAGCTAT
1 GGTCTTA-CATTCAGAGTGCCATAACCCAGCTAT
* * * *** * *
56872973 GGTCTTACATGTAAACATTGCCATGGTCCAACCAT
1 GGTCTTACAT-T-CAGAGTGCCATAACCCAGCTAT
* *
56873008 GGTCTTACATTC-GTAGTGCCACAACCCAGTTAT
1 GGTCTTACATTCAG-AGTGCCATAACCCAGCTAT
56873041 GGTCTTA
1 GGTCTTA
56873048 TCCGTCAATT
Statistics
Matches: 82, Mismatches: 20, Indels: 12
0.72 0.18 0.11
Matches are distributed among these distances:
32 2 0.02
33 50 0.61
34 5 0.06
35 25 0.30
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (33 bp):
GGTCTTACATTCAGAGTGCCATAACCCAGCTAT
Found at i:56878863 original size:15 final size:15
Alignment explanation
Indices: 56878843--56878871 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
56878833 GTATTGTTGC
56878843 TTGATAACACGATGA
1 TTGATAACACGATGA
56878858 TTGATAACACGATG
1 TTGATAACACGATG
56878872 TGTGAGGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (15 bp):
TTGATAACACGATGA
Found at i:56881370 original size:19 final size:19
Alignment explanation
Indices: 56881311--56881370 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
56881301 AATCCTTTAA
*
56881311 AAATTAACAAAATACTATT
1 AAATTAACAAATTACTATT
*
56881330 AAGA-TAATC-ACTTACATATT
1 AA-ATTAA-CAAATTAC-TATT
56881350 AAATTAACAAATTACTATT
1 AAATTAACAAATTACTATT
56881369 AA
1 AA
56881371 GATAAGTATC
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.33
Consensus pattern (19 bp):
AAATTAACAAATTACTATT
Found at i:56882600 original size:16 final size:16
Alignment explanation
Indices: 56882579--56882611 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
56882569 TTCGTTGTAT
*
56882579 TGGAATAGAGGCGTAA
1 TGGAATAGAGACGTAA
56882595 TGGAATAGAGACGTAA
1 TGGAATAGAGACGTAA
56882611 T
1 T
56882612 AGCAATTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGACGTAA
Found at i:56882655 original size:45 final size:44
Alignment explanation
Indices: 56882591--56882687 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 44
56882581 GAATAGAGGC
56882591 GTAATGGAATAGAGACGTAATAGCAATTCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGACGTAATAG-AATTC-ATGTGTTTGGTTGAAT
* * *
56882636 GTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGACGTAATAGAATTCATGTGTTTGGTTGAAT
*
56882680 GGAATGGA
1 GTAATGGA
56882688 GGTGTAATAG
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
43 1 0.02
44 24 0.51
45 22 0.47
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (44 bp):
GTAATGGAATAGAGACGTAATAGAATTCATGTGTTTGGTTGAAT
Found at i:56882865 original size:18 final size:17
Alignment explanation
Indices: 56882842--56882878 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
56882832 AATTATTATT
56882842 AAATATAT-ATT-AATTA
1 AAATATATAATTGAA-TA
56882858 AAATATATAATTGAATA
1 AAATATATAATTGAATA
56882875 AAAT
1 AAAT
56882879 TCTTAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 9 0.47
18 2 0.11
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
AAATATATAATTGAATA
Found at i:56882977 original size:102 final size:102
Alignment explanation
Indices: 56882862--56883081 Score: 395
Period size: 102 Copynumber: 2.2 Consensus size: 102
56882852 TAATTAAAAT
* *
56882862 ATATAATTGAATAAAATTCTTAATATTAAATATTCTTATATGAATTTATTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
* * *
56882927 AATACTATAAAATATAATTTAAAGTTATTATTATTAA
66 AATAATATAAAATATAATTTAAAATAATTATTATTAA
56882964 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
56883029 AATAATATAAAATATAATTTAAAATAATTATTATTAA
66 AATAATATAAAATATAATTTAAAATAATTATTATTAA
56883066 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
56883082 ATATATAATT
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 113 1.00
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (102 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
AATAATATAAAATATAATTTAAAATAATTATTATTAA
Found at i:56883213 original size:61 final size:59
Alignment explanation
Indices: 56883022--56883213 Score: 156
Period size: 59 Copynumber: 3.3 Consensus size: 59
56883012 CTAAAATCAT
56883022 AATATATAA--TAATAT-AAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAA
1 AATATATAATTTAATATAAAAATATAATTT--AA-AATTATTATTAAATATAATTTAATAAA
* * * *
56883081 AATATATAATTT-A-ATAAAATTCTTAATATT-AAA-TATTCTT--ATATGAATTTACT-AA
1 AATATATAATTTAATATAAAAAT-ATAAT-TTAAAATTATTATTAAATAT-AATTTAATAAA
*
56883136 AATCATA-ATATATAATACTACAAAATATAATTTAAAATTATTATTAAATATAA-TTAGATAAA
1 AAT-ATATA-ATTTAATA-TA-AAAATATAATTTAAAATTATTATTAAATATAATTTA-ATAAA
56883198 AATATATAATTTAATA
1 AATATATAATTTAATA
56883214 AAATTTTTAA
Statistics
Matches: 104, Mismatches: 10, Indels: 36
0.69 0.07 0.24
Matches are distributed among these distances:
55 10 0.10
56 13 0.12
57 7 0.07
58 5 0.05
59 21 0.20
60 18 0.17
61 18 0.17
62 12 0.12
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (59 bp):
AATATATAATTTAATATAAAAATATAATTTAAAATTATTATTAAATATAATTTAATAAA
Found at i:56883236 original size:117 final size:119
Alignment explanation
Indices: 56882964--56883272 Score: 552
Period size: 117 Copynumber: 2.6 Consensus size: 119
56882954 TTATTATTAA
56882964 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
* *
56883029 AATAATATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAT
66 AATACTACAAAATATAATTT-AAATAATTATTATTAAATATAATTTAATAAAAAT
56883084 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
56883149 AATACTACAAAATATAATTT-AA-AATTATTATTAAATATAA-TTAGATAAAAAT
66 AATACTACAAAATATAATTTAAATAATTATTATTAAATATAATTTA-ATAAAAAT
*
56883201 ATATAATTTAATAAAATTTTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
56883266 AATACTA
66 AATACTA
56883273 AAATCATAAT
Statistics
Matches: 185, Mismatches: 3, Indels: 5
0.96 0.02 0.03
Matches are distributed among these distances:
116 3 0.02
117 97 0.52
118 2 0.01
120 83 0.45
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (119 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
AATACTACAAAATATAATTTAAATAATTATTATTAAATATAATTTAATAAAAAT
Found at i:56883291 original size:23 final size:21
Alignment explanation
Indices: 56883247--56883287 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
56883237 TATATGAATT
56883247 TACTAAAATCATAATATATAA
1 TACTAAAATCATAATATATAA
56883268 TACTAAAATCATAATATATA
1 TACTAAAATCATAATATATA
56883288 TAATTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (21 bp):
TACTAAAATCATAATATATAA
Found at i:56890720 original size:25 final size:25
Alignment explanation
Indices: 56890667--56890721 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
56890657 AACCCCAAAG
*
56890667 TTTTAATCATTTTTAATTTTAATCC
1 TTTTAATCATTTTTAATTTTAATCA
* *
56890692 TTTTATAT-ATTTTTAATTTTATTTA
1 TTTTA-ATCATTTTTAATTTTAATCA
56890717 TTTTA
1 TTTTA
56890722 GATACCATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 24 0.92
26 2 0.08
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.67
Consensus pattern (25 bp):
TTTTAATCATTTTTAATTTTAATCA
Found at i:56890810 original size:5 final size:5
Alignment explanation
Indices: 56890786--56890887 Score: 57
Period size: 5 Copynumber: 20.0 Consensus size: 5
56890776 TATTTCCAAG
* * * *
56890786 TATA- TATAT TATTTT TATAT TATAT TA-ACA TATAT TATTT TATAT TTTAT
1 TATAT TATAT TA-TAT TATAT TATAT TATA-T TATAT TATAT TATAT TATAT
* * * * *
56890836 TAAAT GT-TAT ATATAT TATAT TATTT TATGT TTTAA TATAT ATATAT
1 TATAT -TATAT -TATAT TATAT TATAT TATAT TATAT TATAT -TATAT
56890883 TATAT
1 TATAT
56890888 ATTAGGATAT
Statistics
Matches: 73, Mismatches: 18, Indels: 13
0.70 0.17 0.12
Matches are distributed among these distances:
4 5 0.07
5 54 0.74
6 14 0.19
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:56890826 original size:25 final size:26
Alignment explanation
Indices: 56890789--56890838 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
56890779 TTCCAAGTAT
56890789 ATATATTATTTTTATATTATATTAAC
1 ATATATTATTTTTATATTATATTAAC
*
56890815 ATATATTA-TTTTATATTTTATTAA
1 ATATATTATTTTTATATTATATTAA
56890839 ATGTTATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (26 bp):
ATATATTATTTTTATATTATATTAAC
Found at i:56890856 original size:36 final size:37
Alignment explanation
Indices: 56890816--56890926 Score: 136
Period size: 38 Copynumber: 3.0 Consensus size: 37
56890806 TATATTAACA
* *
56890816 TATATTATTTTATATTTTATTAAATGTTA-TATATAT
1 TATATTATTTTATATTTTATTATATATTATTATATAT
* *
56890852 TATATTATTTTATGTTTTAATATATATATATTATATAT
1 TATATTATTTTATATTTTATTATATAT-TATTATATAT
* *
56890890 TAGGA-TATTTCATATTTTATTATATATTATTATATAT
1 TA-TATTATTTTATATTTTATTATATATTATTATATAT
56890927 AATTTTGAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
36 23 0.36
37 12 0.19
38 28 0.44
39 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (37 bp):
TATATTATTTTATATTTTATTATATATTATTATATAT
Found at i:56890886 original size:7 final size:7
Alignment explanation
Indices: 56890788--56890963 Score: 55
Period size: 7 Copynumber: 26.7 Consensus size: 7
56890778 TTTCCAAGTA
56890788 TATATAT
1 TATATAT
56890795 TAT-T-T
1 TATATAT
56890800 T-TATAT
1 TATATAT
56890806 TATAT-T
1 TATATAT
* *
56890812 AACATA-
1 TATATAT
56890818 TAT-TAT
1 TATATAT
*
56890824 TTTATAT
1 TATATAT
56890831 T-T-TAT
1 TATATAT
* *
56890836 TAAATGT
1 TATATAT
56890843 TATATA-
1 TATATAT
56890849 TATTATAT
1 TA-TATAT
56890857 TAT-T-T
1 TATATAT
* *
56890862 TATGTTT
1 TATATAT
56890869 TA-ATAT
1 TATATAT
56890875 ATATATAT
1 -TATATAT
56890883 TATATAT
1 TATATAT
*
56890890 TAGGATAT
1 TA-TATAT
56890898 T-TCATAT
1 TAT-ATAT
56890905 T-T-TAT
1 TATATAT
56890910 TATATAT
1 TATATAT
56890917 TAT-TA-
1 TATATAT
56890922 TATATAAT
1 TATAT-AT
* *
56890930 TTTGAAATT
1 TAT-ATA-T
*
56890939 TATAAAT
1 TATATAT
56890946 TAT-TAT
1 TATATAT
*
56890952 TAAATAT
1 TATATAT
56890959 TATAT
1 TATAT
56890964 TTTTATTCAA
Statistics
Matches: 126, Mismatches: 19, Indels: 48
0.65 0.10 0.25
Matches are distributed among these distances:
4 1 0.01
5 20 0.16
6 25 0.20
7 59 0.47
8 17 0.13
9 4 0.03
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (7 bp):
TATATAT
Found at i:56891054 original size:29 final size:29
Alignment explanation
Indices: 56890987--56891065 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 29
56890977 TTTAAACCTC
*
56890987 ATTTTATA-ATCTATATTATTACTTTATT
1 ATTTTATATATATATATTATTACTTTATT
* *
56891015 -CTTTATA-ATATATATTCTATTATTTTATT
1 ATTTTATATATATATA-T-TATTACTTTATT
*
56891044 ATTTTATATATATCTATTATTA
1 ATTTTATATATATATATTATTA
56891066 TGCATAATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
27 12 0.29
28 1 0.02
29 16 0.38
30 7 0.17
31 6 0.14
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (29 bp):
ATTTTATATATATATATTATTACTTTATT
Found at i:56894511 original size:25 final size:23
Alignment explanation
Indices: 56894459--56894513 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
56894449 TATAAATAGT
56894459 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
56894482 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
56894507 AATAGTG
1 AATAGTG
56894514 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:56894611 original size:25 final size:25
Alignment explanation
Indices: 56894565--56894721 Score: 113
Period size: 25 Copynumber: 6.2 Consensus size: 25
56894555 TATGTATGAA
*
56894565 ATAGATATAAAAAATATGTACATAAT
1 ATAG-TATAAAAAATATATACATAAT
* *
56894591 ATAGTGTAAAAAATACATACATAAT
1 ATAGTATAAAAAATATATACATAAT
*
56894616 ATA--AT-TAAAATATATACATAAGAT
1 ATAGTATAAAAAATATATACAT-A-AT
* * * *
56894640 AACATGTAGAAAAAAAAATATAAATAAT
1 -ATA-GTA-TAAAAAATATATACATAAT
* * *
56894668 ATAGTATTAAAGATATATACATAAA
1 ATAGTATAAAAAATATATACATAAT
* * *
56894693 ATAGTATAATATATATATACGTAAT
1 ATAGTATAAAAAATATATACATAAT
56894718 ATAG
1 ATAG
56894722 AATTTAGAAT
Statistics
Matches: 100, Mismatches: 23, Indels: 17
0.71 0.16 0.12
Matches are distributed among these distances:
22 12 0.12
23 2 0.02
24 2 0.02
25 60 0.60
26 7 0.07
27 2 0.02
28 3 0.03
29 1 0.01
30 11 0.11
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.31
Consensus pattern (25 bp):
ATAGTATAAAAAATATATACATAAT
Found at i:56894751 original size:19 final size:19
Alignment explanation
Indices: 56894727--56894763 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
56894717 TATAGAATTT
*
56894727 AGAATATACCTAATATAAA
1 AGAATATACATAATATAAA
*
56894746 AGAATATATATAATATAA
1 AGAATATACATAATATAA
56894764 TATTAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (19 bp):
AGAATATACATAATATAAA
Found at i:56894766 original size:24 final size:23
Alignment explanation
Indices: 56894737--56894783 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
56894727 AGAATATACC
56894737 TAATA-TAAAAGAATATATATAATA
1 TAATATTAAAA-AATATA-ATAATA
56894761 TAATATTAAAAAATATAATAATA
1 TAATATTAAAAAATATAATAATA
56894784 ACAAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.27
24 11 0.50
25 5 0.23
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (23 bp):
TAATATTAAAAAATATAATAATA
Found at i:56895108 original size:16 final size:16
Alignment explanation
Indices: 56895070--56895108 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
56895060 CCAAAAAAAA
*
56895070 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
56895086 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
56895102 AATAACT
1 AAAAACT
56895109 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:56895361 original size:30 final size:30
Alignment explanation
Indices: 56895271--56895369 Score: 153
Period size: 30 Copynumber: 3.3 Consensus size: 30
56895261 TAGGTACAAG
56895271 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* * *
56895301 AGGTAGTGAAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
56895331 TGTTGGTGGAGCAATTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
56895361 TGGTGGTGG
1 TGGTGGTGG
56895370 CAAAGGCTAG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 60 1.00
ACGTcount: A:0.18, C:0.06, G:0.47, T:0.28
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:56896381 original size:86 final size:88
Alignment explanation
Indices: 56896239--56896491 Score: 356
Period size: 90 Copynumber: 2.9 Consensus size: 88
56896229 GAAAATATTG
56896239 AATTGAAAATACCTT-GCGT-TCCTGAGGCTCAACTCA--TCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTTAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
56896300 AAAATATAAA-TG-AAAAACAGA
66 AAAATATAAATTGAAAAAACAGA
*
56896321 AATTGAAAATACCTTAGCGTGTCCTGAGGCTAAACTCACCTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTTAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
56896386 AAAATATAAATTGAAAAAAACAGA
66 AAAATATAAATTG-AAAAAACAGA
* * * * * *
56896410 ACTTGAAAAGCACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTG
1 AATTGAAAA-TACCTTAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* * *
56896475 ACAAACAGAAATTGAAA
65 AAAAATATAAATTGAAA
56896492 TTACCTCAGC
Statistics
Matches: 152, Mismatches: 11, Indels: 9
0.88 0.06 0.05
Matches are distributed among these distances:
82 15 0.10
83 4 0.03
84 16 0.11
86 35 0.23
87 2 0.01
89 20 0.13
90 60 0.39
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (88 bp):
AATTGAAAATACCTTAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
AAAATATAAATTGAAAAAACAGA
Found at i:56896674 original size:73 final size:73
Alignment explanation
Indices: 56896403--56896840 Score: 675
Period size: 72 Copynumber: 6.1 Consensus size: 73
56896393 AAATTGAAAA
* ** * *
56896403 AAACAGAACTTGAAAAGCACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTG
1 AAACAGAAATTG-AAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
56896468 ATTTTTGAC
65 ATTTTTGAC
56896477 AAACAGAAATTGAAATTACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTT--
1 AAACAGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
56896539 TGTTTTGA-
66 T-TTTTGAC
56896547 AAACA-AAATTGAAATTACCTCA--GTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
56896609 TTTTTGAC
66 TTTTTGAC
*
56896617 AAACAGAAATTGAAATTACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-
1 AAACAGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
56896681 TTTTTGAC
66 TTTTTGAC
*
56896689 AAACAGAAATTGAAATTACCTCAGTGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
56896754 TTTTTGAC
66 TTTTTGAC
* **
56896762 AAACAGAAATTGAAATTACCTCA-CGTG-TCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
56896825 -TTTTGA-
66 TTTTTGAC
*
56896831 AAATAGAAAT
1 AAACAGAAAT
56896841 AAAAACATCA
Statistics
Matches: 342, Mismatches: 13, Indels: 23
0.90 0.03 0.06
Matches are distributed among these distances:
67 3 0.01
68 34 0.10
69 32 0.09
70 18 0.05
71 56 0.16
72 106 0.31
73 82 0.24
74 11 0.03
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (73 bp):
AAACAGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTGAC
Found at i:56896682 original size:140 final size:141
Alignment explanation
Indices: 56896402--56896840 Score: 704
Period size: 140 Copynumber: 3.1 Consensus size: 141
56896392 TAAATTGAAA
* ** *
56896402 AAAACAGAACTTGAAAAGCACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGTAATATGAGTT
1 AAAACAGAAATTG-AAATTACCTCAG--TGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
56896467 GATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAAT
63 GATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAAT
56896532 ATGAGTTTG-TTTTG
128 ATGAG-TTGATTTTG
56896546 AAAACA-AAATTGAAATTACCTCAGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AAAACAGAAATTGAAATTACCTCAGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
56896610 TTTTGACAAACAGAAATTGAAATTACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
66 TTTTGACAAACAGAAATTGAAATTACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATAT
*
56896675 GAGTTGTTTTTG
130 GAGTTGATTTTG
56896687 ACAAACAGAAATTGAAATTACCTCAGTGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAATTACCTCA--GTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* **
56896752 GATTTTTGACAAACAGAAATTGAAATTACCTCA-CGTGTCTGAGGCTCAACTCATTTCTCGCAAT
63 GATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAAT
56896816 ATGAGTTGATTTTG
128 ATGAGTTGATTTTG
*
56896830 AAAATAGAAAT
1 AAAACAGAAAT
56896841 AAAAACATCA
Statistics
Matches: 280, Mismatches: 9, Indels: 14
0.92 0.03 0.05
Matches are distributed among these distances:
140 77 0.28
141 38 0.14
142 24 0.09
143 60 0.21
144 10 0.04
145 71 0.25
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (141 bp):
AAAACAGAAATTGAAATTACCTCAGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTGACAAACAGAAATTGAAATTACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTG
Found at i:56908750 original size:25 final size:23
Alignment explanation
Indices: 56908698--56908752 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
56908688 TATAAATAGT
56908698 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
56908721 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
56908746 AATAGTG
1 AATAGTG
56908753 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:56908832 original size:26 final size:26
Alignment explanation
Indices: 56908803--56908858 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
56908793 ATATGTATGA
**
56908803 AATAGA-TATAAAAAAAATATGTACAT
1 AATAGAGTAT-AAAAAAATACATACAT
* *
56908829 AATATAGTGTAAAAAAATACATACAT
1 AATAGAGTATAAAAAAATACATACAT
56908855 AATA
1 AATA
56908859 TAATTAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (26 bp):
AATAGAGTATAAAAAAATACATACAT
Found at i:56908833 original size:22 final size:22
Alignment explanation
Indices: 56908808--56908883 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 22
56908798 TATGAAATAG
*
56908808 ATATAAAAAAAATATGTACATA
1 ATATAAAAAAAATATATACATA
*
56908830 ATATAGTGTAAAAAAATACATACATA
1 ATATA----AAAAAAATATATACATA
**
56908856 ATATAATTAAAATATATACATA
1 ATATAAAAAAAATATATACATA
*
56908878 AGATAA
1 ATATAA
56908884 TATGTAGAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
22 24 0.55
26 20 0.45
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (22 bp):
ATATAAAAAAAATATATACATA
Found at i:56908859 original size:26 final size:25
Alignment explanation
Indices: 56908813--56908886 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 25
56908803 AATAGATATA
** *
56908813 AAAAAAATATGTACATAATATAGTGT
1 AAAAAAATACATACATAATATAAT-T
56908839 AAAAAAATACATACATAATATAATT
1 AAAAAAATACATACATAATATAATT
* *
56908864 AAAATATATACATAAGATAATAT
1 AAAA-AAATACAT-ACATAATAT
56908887 GTAGAAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
25 5 0.12
26 28 0.68
27 8 0.20
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (25 bp):
AAAAAAATACATACATAATATAATT
Found at i:56908930 original size:25 final size:25
Alignment explanation
Indices: 56908902--56909032 Score: 100
Period size: 23 Copynumber: 5.6 Consensus size: 25
56908892 AAAAATATAT
*
56908902 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
56908927 ATATATACATAAAATAGTA-T-AAT
1 ATATATACATAATATAGTATTAAAG
* * *
56908950 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
56908974 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
56908996 AATATATATATAATATAATATTAAA-
1 -ATATATACATAATATAGTATTAAAG
56909021 A-ATATA-ATAATA
1 ATATATACATAATA
56909033 ACAAAAAAAA
Statistics
Matches: 85, Mismatches: 15, Indels: 15
0.74 0.13 0.13
Matches are distributed among these distances:
21 1 0.01
22 8 0.09
23 37 0.44
24 17 0.20
25 18 0.21
26 4 0.05
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:56908931 original size:31 final size:29
Alignment explanation
Indices: 56908827--56908947 Score: 101
Period size: 30 Copynumber: 4.3 Consensus size: 29
56908817 AAATATGTAC
* * *
56908827 ATAATATAGT-GTAAAA-AAATACAT-AC
1 ATAATATAGTATTAAAATATATACATAAA
*
56908853 ATAATATA--ATTAAAATATATACATAAG
1 ATAATATAGTATTAAAATATATACATAAA
** *
56908880 ATAATAT-GTAGAAAAAATATATATATATAA
1 ATAATATAGTA-TTAAAATATATACATA-AA
56908910 ATAATATAGTATTAAAGATATATACATAAA
1 ATAATATAGTATTAAA-ATATATACATAAA
*
56908940 ATAGTATA
1 ATAATATA
56908948 ATATATATAC
Statistics
Matches: 75, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
25 5 0.07
26 15 0.20
27 8 0.11
28 1 0.01
29 13 0.17
30 20 0.27
31 13 0.17
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.32
Consensus pattern (29 bp):
ATAATATAGTATTAAAATATATACATAAA
Found at i:56909140 original size:32 final size:29
Alignment explanation
Indices: 56909075--56909140 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
56909065 CGGCCACAAG
* *
56909075 GCCGGCCACCGTCCGGTCACCGGACCGCC
1 GCCGGCCACCGTCCGGTCACCGCACCGCA
56909104 GCCGGCCACCGT-CGGTGCCACCGTACACCGCA
1 GCCGGCCACCGTCCGGT--CACCG--CACCGCA
56909136 GCCGG
1 GCCGG
56909141 ACCTCAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 4 0.13
29 12 0.39
30 5 0.16
32 10 0.32
ACGTcount: A:0.12, C:0.48, G:0.32, T:0.08
Consensus pattern (29 bp):
GCCGGCCACCGTCCGGTCACCGCACCGCA
Found at i:56909558 original size:30 final size:30
Alignment explanation
Indices: 56909512--56909610 Score: 153
Period size: 30 Copynumber: 3.3 Consensus size: 30
56909502 TAGGTACAAG
*
56909512 TGGTGGTGGAGAAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
56909542 AGGTAGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
56909572 TGTTGGTGGAGCAATTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
56909602 TGGTGGTGG
1 TGGTGGTGG
56909611 CAAAGGCTAG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.18, C:0.05, G:0.48, T:0.28
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:56909600 original size:18 final size:18
Alignment explanation
Indices: 56909545--56909600 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
56909535 GTGGAGTAGG
*
56909545 TAGTGGAGCAAGTGTGGC
1 TAGTGGAGCAATTGTGGC
56909563 TAGTGGAG---TTGT---
1 TAGTGGAGCAATTGTGGC
*
56909575 TGGTGGAGCAATTGTGGC
1 TAGTGGAGCAATTGTGGC
56909593 TAGTGGAG
1 TAGTGGAG
56909601 TTGGTGGTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 12
0.66 0.07 0.27
Matches are distributed among these distances:
12 7 0.24
15 7 0.24
18 15 0.52
ACGTcount: A:0.20, C:0.07, G:0.45, T:0.29
Consensus pattern (18 bp):
TAGTGGAGCAATTGTGGC
Found at i:56911699 original size:56 final size:56
Alignment explanation
Indices: 56911608--56911759 Score: 189
Period size: 56 Copynumber: 2.7 Consensus size: 56
56911598 GAATATGTGG
* *
56911608 CATCGATATGTGACTT-TGATATATGTGTGCAAGTAAGACCACGTTTAATACGTTGA
1 CATCGATATGTGA-TTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACATTGA
* * * * *
56911664 CATTGATATGTGATTCTGATATATGTGTGCGAGTAAGTCCATGTTTCATACATTGG
1 CATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACATTGA
* * * *
56911720 CATCGATATGTGATTCTGATTTGTGTTTACGAGTAAGACC
1 CATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACC
56911760 CTGCCTGGGA
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
55 2 0.02
56 80 0.98
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (56 bp):
CATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACATTGA
Found at i:56919095 original size:12 final size:12
Alignment explanation
Indices: 56919027--56919096 Score: 58
Period size: 12 Copynumber: 5.8 Consensus size: 12
56919017 TACTTTAATA
56919027 TTAA-ATTAAA-
1 TTAATATTAAAT
*
56919037 TTAATATTTAAT
1 TTAATATTAAAT
56919049 TTAATATTAAAT
1 TTAATATTAAAT
*
56919061 CT--TATTAAAT
1 TTAATATTAAAT
56919071 TAATAAGATATTAAAT
1 T--T-A-ATATTAAAT
56919087 TTAATATTAA
1 TTAATATTAA
56919097 GATAATCACT
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
10 12 0.25
11 5 0.10
12 20 0.42
13 1 0.02
14 1 0.02
16 9 0.19
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (12 bp):
TTAATATTAAAT
Found at i:56925164 original size:34 final size:35
Alignment explanation
Indices: 56925121--56925187 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
56925111 GTATTATCTT
*
56925121 AATTACTTATTAT-ATTTTTTTTAAGGTTAACTCA
1 AATTACTTATTATAAATTTTTTTAAGGTTAACTCA
56925155 AATTACTTATTATAAATTTTTTTAAGGTTAACT
1 AATTACTTATTATAAATTTTTTTAAGGTTAACT
56925188 TAACACTCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 13 0.42
35 18 0.58
ACGTcount: A:0.34, C:0.07, G:0.06, T:0.52
Consensus pattern (35 bp):
AATTACTTATTATAAATTTTTTTAAGGTTAACTCA
Found at i:56925850 original size:59 final size:59
Alignment explanation
Indices: 56925757--56925960 Score: 336
Period size: 59 Copynumber: 3.4 Consensus size: 59
56925747 CATAGTCAAT
* **
56925757 AATATATTTGTACAAAAGTATTCAAAAGAACTTCTATTTTATTAAATGAGGCAATATTAA
1 AATA-ATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATTAA
* *
56925817 AATAATTTGTACAAAATTATTCAAAAGAACTTCTATTGTATTAAATGAAACAATATTAA
1 AATAATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATTAA
* *
56925876 AATAATTTGTACAAAAATATTTAAAAGAACTTCTATTTTATTAAATGAAACAATATAAA
1 AATAATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATTAA
56925935 AATAATTTGTACAAAAATATTCAAAA
1 AATAATTTGTACAAAAATATTCAAAA
56925961 ATAAAACAAT
Statistics
Matches: 135, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
59 131 0.97
60 4 0.03
ACGTcount: A:0.50, C:0.08, G:0.07, T:0.35
Consensus pattern (59 bp):
AATAATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATTAA
Found at i:56929701 original size:25 final size:27
Alignment explanation
Indices: 56929673--56929729 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
56929663 CTAATTATCA
56929673 CATAAG-GA-CCTCCACTTTAATATTT
1 CATAAGCGATCCTCCACTTTAATATTT
*
56929698 CAT-AGCTATTTCCTCCACTTTAATATTT
1 CATAAGCGA--TCCTCCACTTTAATATTT
56929726 CATA
1 CATA
56929730 GCTATTAGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 2 0.08
25 4 0.15
28 20 0.77
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (27 bp):
CATAAGCGATCCTCCACTTTAATATTT
Found at i:56929712 original size:28 final size:28
Alignment explanation
Indices: 56929681--56929735 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
56929671 CACATAAGGA
56929681 CCTCCACTTTAATATTTCATAGCTATTT
1 CCTCCACTTTAATATTTCATAGCTATTT
56929709 CCTCCACTTTAATATTTCATAGCTATT
1 CCTCCACTTTAATATTTCATAGCTATT
56929736 AGACACTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.25, G:0.04, T:0.45
Consensus pattern (28 bp):
CCTCCACTTTAATATTTCATAGCTATTT
Found at i:56933440 original size:2 final size:2
Alignment explanation
Indices: 56933435--56933468 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
56933425 TTATATACAT
56933435 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
56933469 TATATATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:56934680 original size:28 final size:29
Alignment explanation
Indices: 56934616--56934680 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 29
56934606 TTCACATTTA
* *
56934616 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCTCAATTTAACCCCTCAATTGACACT
* * *
56934645 TTTCTCAATTTAA-TCCTTAATTGACATT
1 TTTCTCAATTTAACCCCTCAATTGACACT
*
56934673 TTTGTCAA
1 TTTCTCAA
56934681 AAATCACTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 18 0.60
29 12 0.40
ACGTcount: A:0.29, C:0.23, G:0.03, T:0.45
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTCAATTGACACT
Found at i:56945153 original size:28 final size:29
Alignment explanation
Indices: 56945088--56945153 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
56945078 ATAGCCTATA
* *
56945088 TTTTCACAATTTAACCTCTCAATTTACAC
1 TTTTCTCAATTTAACCTCTCAATTGACAC
*
56945117 TTTTCTCAATTTAATCCT-T-AATTGACAT
1 TTTTCTCAATTTAA-CCTCTCAATTGACAC
*
56945145 TTTTGTCAA
1 TTTTCTCAA
56945154 AAATCACTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 15 0.47
29 14 0.44
30 3 0.09
ACGTcount: A:0.29, C:0.21, G:0.03, T:0.47
Consensus pattern (29 bp):
TTTTCTCAATTTAACCTCTCAATTGACAC
Found at i:56954609 original size:8 final size:8
Alignment explanation
Indices: 56954596--56954625 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
56954586 AGATCGGCAC
56954596 AAGCCGAA
1 AAGCCGAA
56954604 AAGCCGAA
1 AAGCCGAA
*
56954612 ATGCCGAA
1 AAGCCGAA
56954620 AAGCCG
1 AAGCCG
56954626 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:56955055 original size:27 final size:27
Alignment explanation
Indices: 56955015--56955155 Score: 173
Period size: 27 Copynumber: 5.2 Consensus size: 27
56955005 AGGAAGCGTC
*
56955015 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
56955042 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
56955068 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
* *
56955096 CTGGTGGCTCTGTCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
56955123 TTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
56955150 CTGGTG
1 CTGGTG
56955156 ACTTCGTCAC
Statistics
Matches: 98, Mismatches: 9, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
26 11 0.11
27 83 0.85
28 4 0.04
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:56955165 original size:54 final size:54
Alignment explanation
Indices: 56955012--56955173 Score: 240
Period size: 54 Copynumber: 3.0 Consensus size: 54
56955002 TGGAGGAAGC
*
56955012 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGTCACATATATCT
56955066 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGTCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGTCACATATATCT
** * *
56955120 GTTTTGGTGGCTCTGCCACAA-TATCTGTATCTGGTGACT-TCGTCACA-ATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCT-GTCACATATATCT
56955173 G
1 G
56955174 GCAGCCTCGC
Statistics
Matches: 101, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
53 14 0.14
54 87 0.86
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGTCACATATATCT
Found at i:56955166 original size:27 final size:27
Alignment explanation
Indices: 56955015--56955173 Score: 157
Period size: 27 Copynumber: 5.9 Consensus size: 27
56955005 AGGAAGCGTC
* *
56955015 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGTCACAA-TATCTGTAT
* *
56955042 CTGGTGGCTCTGCCACATATATCTGT-C
1 CTGGTGGCTCTGTCACA-ATATCTGTAT
* *
56955069 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGTCACAA-TATCTGTAT
56955096 CTGGTGGCTCTGTCACATATATCTGT-T
1 CTGGTGGCTCTGTCACA-ATATCTGTAT
* *
56955123 TTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGTCACAATATCTGTAT
*
56955150 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GTCACAATATCTG
56955174 GCAGCCTCGC
Statistics
Matches: 113, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
26 10 0.09
27 101 0.89
28 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGTCACAATATCTGTAT
Found at i:56955167 original size:81 final size:80
Alignment explanation
Indices: 56955015--56955173 Score: 198
Period size: 81 Copynumber: 2.0 Consensus size: 80
56955005 AGGAAGCGTC
*
56955015 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
56955080 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * * * *
56955096 CTGGTGGCTCTGTCAC-ATATATCTGTTTTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
*
56955159 -TCGTCACAATATCTG
64 AT-GCCACAATATCTG
56955174 GCAGCCTCGC
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
80 17 0.25
81 51 0.75
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTGAT
Found at i:56957142 original size:49 final size:49
Alignment explanation
Indices: 56957081--56957181 Score: 193
Period size: 49 Copynumber: 2.1 Consensus size: 49
56957071 TTGTCAAAAG
*
56957081 TCACTTTACAAATGTTGTTTATCTAACAACAAGCATACATTTTCTATTA
1 TCACTTTACAAATGTTGTTTATCTAACAACAAGCATACATTTTCTATCA
56957130 TCACTTTACAAATGTTGTTTATCTAACAACAAGCATACATTTTCTATCA
1 TCACTTTACAAATGTTGTTTATCTAACAACAAGCATACATTTTCTATCA
56957179 TCA
1 TCA
56957182 AACATCAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.40
Consensus pattern (49 bp):
TCACTTTACAAATGTTGTTTATCTAACAACAAGCATACATTTTCTATCA
Found at i:56958025 original size:31 final size:31
Alignment explanation
Indices: 56957967--56958031 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
56957957 AAAAAAATTT
* *
56957967 ATAAAAATTATTAATTAAATTAGAAAAATGAA
1 ATAAAAA-TATTAAATAAATTAAAAAAATGAA
56957999 ATAAAAA-ATTAAATAATATTAAAAAAATGAA
1 ATAAAAATATTAAATAA-ATTAAAAAAATGAA
56958030 AT
1 AT
56958032 TAACCCTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 8 0.27
31 15 0.50
32 7 0.23
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (31 bp):
ATAAAAATATTAAATAAATTAAAAAAATGAA
Found at i:56958785 original size:16 final size:17
Alignment explanation
Indices: 56958759--56958794 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
56958749 TATCCAATTA
56958759 TTTTGAATTTTTTGATG
1 TTTTGAATTTTTTGATG
*
56958776 TTTT-AATTTTTTGGTG
1 TTTTGAATTTTTTGATG
56958792 TTT
1 TTT
56958795 CTATTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.14, C:0.00, G:0.17, T:0.69
Consensus pattern (17 bp):
TTTTGAATTTTTTGATG
Found at i:56961577 original size:22 final size:22
Alignment explanation
Indices: 56961552--56961595 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
56961542 TAGTCATATA
56961552 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
56961574 ATAATTTATTACTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
56961596 TAATTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:56961633 original size:13 final size:14
Alignment explanation
Indices: 56961615--56961656 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
56961605 TTTCAATTTT
56961615 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
56961628 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
56961643 ATTTTAAATAATAT
1 ATTTT-AATAATAT
56961657 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:56961641 original size:16 final size:16
Alignment explanation
Indices: 56961619--56961655 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
56961609 AATTTTATTT
56961619 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
56961636 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
56961651 TAATA
1 TAATA
56961656 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:56961708 original size:15 final size:15
Alignment explanation
Indices: 56961688--56961744 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
56961678 ATTCAATATT
56961688 AATATTTTAATAATA
1 AATATTTTAATAATA
*
56961703 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
56961722 AATATATTAATAATA
1 AATATTTTAATAATA
*
56961737 AATGTTTT
1 AATATTTT
56961745 GTATATAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:56962120 original size:28 final size:28
Alignment explanation
Indices: 56962089--56962151 Score: 81
Period size: 30 Copynumber: 2.2 Consensus size: 28
56962079 AATGTATGTT
**
56962089 TATTTAATTGAAAAAAACTTTTATAAAA
1 TATTTAAGGGAAAAAAACTTTTATAAAA
*
56962117 TATTTTTAAGGGAAAATAACTTTTATAAAA
1 TA--TTTAAGGGAAAAAAACTTTTATAAAA
56962147 TATTT
1 TATTT
56962152 TTAAGAAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 5 0.17
30 25 0.83
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (28 bp):
TATTTAAGGGAAAAAAACTTTTATAAAA
Found at i:56962125 original size:30 final size:30
Alignment explanation
Indices: 56962098--56962156 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
56962088 TTATTTAATT
56962098 GAAAAAAACTTTTATAAAATATTTTTAAGG
1 GAAAAAAACTTTTATAAAATATTTTTAAGG
*
56962128 GAAAATAACTTTTATAAAATATTTTTAAG
1 GAAAAAAACTTTTATAAAATATTTTTAAG
56962157 AAATCTACCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.39
Consensus pattern (30 bp):
GAAAAAAACTTTTATAAAATATTTTTAAGG
Found at i:56962252 original size:14 final size:14
Alignment explanation
Indices: 56962233--56962271 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
56962223 CCAGAAAAGT
56962233 AAATCA-TTTTCTAA
1 AAATCATTTTTC-AA
56962247 AAATCATTTTTCAA
1 AAATCATTTTTCAA
56962261 AAATCATTTTT
1 AAATCATTTTT
56962272 AGTGAAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 19 0.79
15 5 0.21
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (14 bp):
AAATCATTTTTCAA
Found at i:56964129 original size:27 final size:27
Alignment explanation
Indices: 56964098--56964151 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
56964088 AACAGAAAGG
56964098 CTAAAACTAACTAATCATGAAGAAGTT
1 CTAAAACTAACTAATCATGAAGAAGTT
56964125 CTAAAACTAACTAATCATGAAGAAGTT
1 CTAAAACTAACTAATCATGAAGAAGTT
56964152 AAGTATAGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (27 bp):
CTAAAACTAACTAATCATGAAGAAGTT
Found at i:56965582 original size:15 final size:15
Alignment explanation
Indices: 56965562--56965591 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
56965552 AAAATTTGAT
*
56965562 TCGAGTTGAATTAAA
1 TCGAGTTAAATTAAA
56965577 TCGAGTTAAATTAAA
1 TCGAGTTAAATTAAA
56965592 ATAATTAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (15 bp):
TCGAGTTAAATTAAA
Found at i:56966420 original size:17 final size:17
Alignment explanation
Indices: 56966394--56966428 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
56966384 CCTAATTGTA
56966394 AAAAACTAAAAATATAT
1 AAAAACTAAAAATATAT
* *
56966411 AAAAATTAAAATTATAT
1 AAAAACTAAAAATATAT
56966428 A
1 A
56966429 TTTAAATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAACTAAAAATATAT
Found at i:56966916 original size:16 final size:16
Alignment explanation
Indices: 56966895--56966929 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
56966885 TATTAGCAAT
56966895 AATCTCCAAAATAAAA
1 AATCTCCAAAATAAAA
56966911 AATCTCCAAAATAAAA
1 AATCTCCAAAATAAAA
56966927 AAT
1 AAT
56966930 GCTAAGATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.63, C:0.17, G:0.00, T:0.20
Consensus pattern (16 bp):
AATCTCCAAAATAAAA
Found at i:56970174 original size:20 final size:20
Alignment explanation
Indices: 56970149--56970192 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
56970139 AATGACTAAA
* *
56970149 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
56970169 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
56970189 ATGA
1 ATGA
56970193 TTACATTTGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.02, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:56973871 original size:22 final size:22
Alignment explanation
Indices: 56973846--56973899 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
56973836 TATAAGTAAA
*
56973846 TATTATTTTATTATT-AAATTGT
1 TATTATATTA-TATTAAAATTGT
*
56973868 TATTATATTATATTAAAATTTT
1 TATTATATTATATTAAAATTGT
56973890 TATTATATTA
1 TATTATATTA
56973900 ATATAAGGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 4 0.14
22 25 0.86
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
TATTATATTATATTAAAATTGT
Found at i:56973994 original size:13 final size:13
Alignment explanation
Indices: 56973976--56974000 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56973966 AAAGAGTCAG
56973976 ATATTAATATATA
1 ATATTAATATATA
56973989 ATATTAATATAT
1 ATATTAATATAT
56974001 GGAAAATATA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATATTAATATATA
Found at i:56976591 original size:25 final size:25
Alignment explanation
Indices: 56976562--56976613 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
56976552 ATGATAAAAG
** *
56976562 GTTATTGCTTTTTGATTAACTTGAT
1 GTTATTGCCATTTGATGAACTTGAT
*
56976587 GTTATTGCCATTTGATGAATTTGAT
1 GTTATTGCCATTTGATGAACTTGAT
56976612 GT
1 GT
56976614 GATCTTGAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.21, C:0.08, G:0.19, T:0.52
Consensus pattern (25 bp):
GTTATTGCCATTTGATGAACTTGAT
Found at i:56980344 original size:38 final size:38
Alignment explanation
Indices: 56980302--56980378 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
56980292 TTATCAAGGT
*
56980302 ATGAAAATAGGCCATAGATTTATCATGCTTGAAATTAG
1 ATGAAAATAGGCCATAGATTTATCATGCTCGAAATTAG
* *
56980340 ATGAAAATAGGCCATGGATTTATTATGCTCGAAATTAG
1 ATGAAAATAGGCCATAGATTTATCATGCTCGAAATTAG
56980378 A
1 A
56980379 AATTTATAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.31
Consensus pattern (38 bp):
ATGAAAATAGGCCATAGATTTATCATGCTCGAAATTAG
Found at i:56991495 original size:40 final size:40
Alignment explanation
Indices: 56991397--56991699 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
56991387 TCCTCGTTCA
* * * * *
56991397 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
56991436 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
56991476 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
56991516 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
56991556 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
56991596 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
56991636 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
56991676 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
56991700 CAGCATTCAA
Statistics
Matches: 238, Mismatches: 22, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 37 0.16
40 193 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:56999475 original size:40 final size:40
Alignment explanation
Indices: 56999377--56999679 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
56999367 TCCTCGTTCA
* * * * *
56999377 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
56999416 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
56999456 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
56999496 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
56999536 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
56999576 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
56999616 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
56999656 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
56999680 CAGCATTCAA
Statistics
Matches: 238, Mismatches: 22, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 37 0.16
40 193 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:57001683 original size:15 final size:14
Alignment explanation
Indices: 57001659--57001689 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
57001649 GGAGAAATTA
57001659 TTTTTAATATTATT
1 TTTTTAATATTATT
57001673 TTTTTATATATTATT
1 TTTTTA-ATATTATT
57001688 TT
1 TT
57001690 ATGTGTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTAATATTATT
Found at i:57002887 original size:48 final size:46
Alignment explanation
Indices: 57002813--57002941 Score: 163
Period size: 48 Copynumber: 2.7 Consensus size: 46
57002803 TGATATGTGT
57002813 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATT-ATG-AGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCG---ACATTGA-GAAGA
* * *
57002861 GCTAGTGTAAGACCATGTTTGAGACATGGCATCGGCATTGAGACAAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAG--AAGA
57002909 GCTAGTGTAAGACCATGTCTGGGACATGGCATC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC
57002942 CAGACATGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
45 5 0.07
46 1 0.01
48 66 0.92
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGAAGA
Found at i:57002977 original size:61 final size:61
Alignment explanation
Indices: 57002882--57003002 Score: 224
Period size: 61 Copynumber: 2.0 Consensus size: 61
57002872 ACCATGTTTG
57002882 AGACATGGCATCGGCATTGAGACAAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCC
1 AGACATGGCATCGGCATTGAGACAAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCC
* *
57002943 AGACATGGCATCGGCATTGAGACTAGAGCTAGTGTAAGACCATGTCTGTGACATGGCATC
1 AGACATGGCATCGGCATTGAGACAAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
57003003 GGCCTCGACA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (61 bp):
AGACATGGCATCGGCATTGAGACAAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCC
Found at i:57003025 original size:48 final size:48
Alignment explanation
Indices: 57002944--57003199 Score: 309
Period size: 48 Copynumber: 5.3 Consensus size: 48
57002934 ATGGCATCCA
* * *
57002944 GACATGGCATCGGCATTGAGACT-AGAGCTAGTGTAAGACCATGTCTGT
1 GACATGGCATCGGCATCGACA-TGAGAGCTAGTGTAAGACCATGTCTGG
* * * *
57002992 GACATGGCATCGGCCTCGACATGTGAGCCAGTGTAAGACCATGTTTGG
1 GACATGGCATCGGCATCGACATGAGAGCTAGTGTAAGACCATGTCTGG
* * * * *
57003040 GACATGGCATTGGCATTGAGATAAGAGCTAGTGTAAGACCATGTCTAGT
1 GACATGGCATCGGCATCGACATGAGAGCTAGTGTAAGACCATGTCT-GG
* * * *
57003089 TA-ATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACCATGTCTGG
1 GACATGGCATCGGCATCGACATGAGAGCTAGTGTAAGACCATGTCTGG
* * *
57003136 GACATGGCATCGGCCTCGACATGTGAGCCAGTGTAAGACCATGTCTGG
1 GACATGGCATCGGCATCGACATGAGAGCTAGTGTAAGACCATGTCTGG
57003184 GACATGGCATCGGCAT
1 GACATGGCATCGGCAT
57003200 TTTACCCTCT
Statistics
Matches: 176, Mismatches: 29, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
47 3 0.02
48 171 0.97
49 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.23
Consensus pattern (48 bp):
GACATGGCATCGGCATCGACATGAGAGCTAGTGTAAGACCATGTCTGG
Found at i:57011646 original size:2 final size:2
Alignment explanation
Indices: 57011639--57011663 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
57011629 TTAGTTGGTA
57011639 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
57011664 ACTTAGGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:57014239 original size:94 final size:94
Alignment explanation
Indices: 57014078--57014248 Score: 225
Period size: 94 Copynumber: 1.8 Consensus size: 94
57014068 ATACTGACGC
** * * * *
57014078 CATGTCCCAGACACGTCTTACACTGGCTTGTATATCGCGAGGGCGATGTATGTCCCAAACATGTC
1 CATGTCCCAGACACGTCTTACACTGGCTTAAATATCGCGAGGCCGACGCATGTCCCAAACATATC
57014143 TTACACTAGCTCTCGTCTCAATGCCGATG
66 TTACACTAGCTCTCGTCTCAATGCCGATG
* * * * *
57014172 CATGTCCCAGACATGTCTTATACTGGCTTAAATATCTCGAGGCCGACGCATGTCCGAGACATATC
1 CATGTCCCAGACACGTCTTACACTGGCTTAAATATCGCGAGGCCGACGCATGTCCCAAACATATC
* *
57014237 TTATACTGGCTC
66 TTACACTAGCTC
57014249 CTATACTGTG
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
94 64 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (94 bp):
CATGTCCCAGACACGTCTTACACTGGCTTAAATATCGCGAGGCCGACGCATGTCCCAAACATATC
TTACACTAGCTCTCGTCTCAATGCCGATG
Found at i:57014285 original size:46 final size:48
Alignment explanation
Indices: 57014078--57014285 Score: 156
Period size: 48 Copynumber: 4.4 Consensus size: 48
57014068 ATACTGACGC
* * *** * *
57014078 CATGTCCCAGACACGTCTTACACTGGCTTGTATATCGCGAGGGCGATG
1 CATGTCCCAGACATGTCTTATACTGGCTCAAATATCTCGAGGCCGATG
* * * * * * *
57014126 TATGTCCCAAACATGTCTTACACTAGCTC---TCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTATACTGGCTCAAAT-ATCTCGAGGCCGATG
* *
57014172 CATGTCCCAGACATGTCTTATACTGGCTTAAATATCTCGAGGCCGACG
1 CATGTCCCAGACATGTCTTATACTGGCTCAAATATCTCGAGGCCGATG
* * ** * *
57014220 CATGTCCGAGACATATCTTATACTGGCTCCTATA-CT-GTGGCTGATG
1 CATGTCCCAGACATGTCTTATACTGGCTCAAATATCTCGAGGCCGATG
* *
57014266 CATGTCCTAGCCATGTCTTA
1 CATGTCCCAGACATGTCTTA
57014286 CACTAGCACA
Statistics
Matches: 126, Mismatches: 30, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
45 1 0.01
46 58 0.46
47 2 0.02
48 64 0.51
49 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTATACTGGCTCAAATATCTCGAGGCCGATG
Found at i:57020532 original size:21 final size:20
Alignment explanation
Indices: 57020503--57020541 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
57020493 TCCTGTAACA
57020503 GGGCACATGCCCGTGTGGAT
1 GGGCACATGCCCGTGTGGAT
57020523 GGGCAACATGCCCGTGTGG
1 GGGC-ACATGCCCGTGTGG
57020542 TCATTACAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.15, C:0.26, G:0.41, T:0.18
Consensus pattern (20 bp):
GGGCACATGCCCGTGTGGAT
Found at i:57021834 original size:48 final size:48
Alignment explanation
Indices: 57021772--57021945 Score: 172
Period size: 48 Copynumber: 3.6 Consensus size: 48
57021762 ACAACAAGCT
* ** *
57021772 GACGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGTC
1 GACG-CATGTCCCAGACATGTCTTACACTAGCTTAAATATCTCGAGGCC
* * *
57021821 GATGCATGTCCCAGACATGTCTTATACTGGCTTAAATATCTCGAGGCC
1 GACGCATGTCCCAGACATGTCTTACACTAGCTTAAATATCTCGAGGCC
* * * *** * *
57021869 GACGCATGTCCCAGACTTGTCTTACACTGGATCCCATA-CT-GTGGCT
1 GACGCATGTCCCAGACATGTCTTACACTAGCTTAAATATCTCGAGGCC
* *
57021915 AATGCATGTCCCAGACATGTCTTACACTAGC
1 GACGCATGTCCCAGACATGTCTTACACTAGC
57021946 ACACACCCCA
Statistics
Matches: 104, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
46 30 0.29
47 2 0.02
48 69 0.66
49 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (48 bp):
GACGCATGTCCCAGACATGTCTTACACTAGCTTAAATATCTCGAGGCC
Found at i:57023481 original size:48 final size:48
Alignment explanation
Indices: 57023419--57023514 Score: 122
Period size: 48 Copynumber: 2.0 Consensus size: 48
57023409 TAAAATGTGG
* * *
57023419 CAGAAAAAGATAAAAAAAATT-TAAATTAATAAAAATTATTAAAAAATA
1 CAGAAAAAGAT-AAAAAAATTAAAAATTAAGAAAAAATATTAAAAAATA
* * *
57023467 CAGAAAAATATAAAAATATTAAAAATTTAGAAAAAATATTAAAAAATA
1 CAGAAAAAGATAAAAAAATTAAAAATTAAGAAAAAATATTAAAAAATA
57023515 AAATATATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
47 8 0.20
48 33 0.80
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (48 bp):
CAGAAAAAGATAAAAAAATTAAAAATTAAGAAAAAATATTAAAAAATA
Found at i:57023527 original size:10 final size:10
Alignment explanation
Indices: 57023447--57023528 Score: 54
Period size: 10 Copynumber: 8.8 Consensus size: 10
57023437 ATTTAAATTA
57023447 ATAAAAAT-T
1 ATAAAAATAT
57023456 ATTAAAAA-AT
1 A-TAAAAATAT
*
57023466 ACAGAAAA-AT
1 ATA-AAAATAT
57023476 ATAAAAATAT
1 ATAAAAATAT
*
57023486 -TAAAAATTT
1 ATAAAAATAT
*
57023495 AGAAAAA-AT
1 ATAAAAATAT
*
57023504 ATTAAAA-A-
1 ATAAAAATAT
57023512 AT-AAAATAT
1 ATAAAAATAT
57023521 ATAAAAAT
1 ATAAAAAT
57023529 GTAGAAAGTT
Statistics
Matches: 58, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
7 4 0.07
8 3 0.05
9 23 0.40
10 28 0.48
ACGTcount: A:0.70, C:0.01, G:0.02, T:0.27
Consensus pattern (10 bp):
ATAAAAATAT
Found at i:57023698 original size:11 final size:12
Alignment explanation
Indices: 57023675--57023706 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
57023665 ACATAGGGAA
57023675 ATATAAAAA-TT
1 ATATAAAAATTT
57023686 AT-TAAAAATTT
1 ATATAAAAATTT
57023697 ATATAAAAAT
1 ATATAAAAAT
57023707 ATAGAAAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 6 0.32
11 6 0.32
12 7 0.37
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
ATATAAAAATTT
Found at i:57023869 original size:9 final size:9
Alignment explanation
Indices: 57023855--57023989 Score: 65
Period size: 9 Copynumber: 14.0 Consensus size: 9
57023845 GTTTTTAGTA
57023855 AATTTTTAT
1 AATTTTTAT
57023864 AATTTTTAT
1 AATTTTTAT
* *
57023873 ACTTTTAAT
1 AATTTTTAT
*
57023882 AATTTATAT
1 AATTTTTAT
57023891 -ATTTTTAAT
1 AATTTTT-AT
*
57023900 AACTTTTAT
1 AATTTTTAT
* *
57023909 ATTTTTTTCT
1 A-ATTTTTAT
* *
57023919 AAAATTTTAG
1 -AATTTTTAT
57023929 ATATTTTTAT
1 A-ATTTTTAT
*
57023939 AAATATTTAAT
1 -AAT-TTTTAT
*
57023950 AATTTATAT
1 AATTTTTAT
*
57023959 ATTTTTCCTAT
1 AATTTT--TAT
*
57023970 ATCTTTTTTAT
1 A--ATTTTTAT
57023981 AATTTTTAT
1 AATTTTTAT
57023990 CGCCTTTTAT
Statistics
Matches: 93, Mismatches: 22, Indels: 22
0.68 0.16 0.16
Matches are distributed among these distances:
8 5 0.05
9 43 0.46
10 25 0.27
11 15 0.16
13 5 0.05
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (9 bp):
AATTTTTAT
Found at i:57023909 original size:20 final size:19
Alignment explanation
Indices: 57023856--57023937 Score: 82
Period size: 18 Copynumber: 4.4 Consensus size: 19
57023846 TTTTTAGTAA
57023856 ATTTTT-ATAATTTT-TAT
1 ATTTTTAATAATTTTATAT
*
57023873 ACTTTTAATAA-TTTATAT
1 ATTTTTAATAATTTTATAT
57023891 ATTTTTAATAACTTTTATATT
1 ATTTTTAATAA-TTTTATA-T
* *
57023912 TTTTTCTAA-AATTTTAGAT
1 ATTTT-TAATAATTTTATAT
57023931 ATTTTTA
1 ATTTTTA
57023938 TAAATATTTA
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
17 8 0.15
18 19 0.35
19 5 0.09
20 12 0.22
21 7 0.13
22 3 0.06
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (19 bp):
ATTTTTAATAATTTTATAT
Found at i:57023941 original size:20 final size:20
Alignment explanation
Indices: 57023856--57023959 Score: 69
Period size: 20 Copynumber: 5.5 Consensus size: 20
57023846 TTTTTAGTAA
57023856 ATTTTTAT--AATTTT-TAT
1 ATTTTTATAAAATTTTATAT
* *
57023873 ACTTTTA-ATAA-TTTATAT
1 ATTTTTATAAAATTTTATAT
*
57023891 ATTTTTA-ATAACTTTTATAT
1 ATTTTTATA-AAATTTTATAT
* * *
57023911 TTTTTTCTAAAATTTTAGAT
1 ATTTTTATAAAATTTTATAT
*
57023931 ATTTTTATAAATATTTAATA-
1 ATTTTTATAAA-ATTTTATAT
*
57023951 ATTTATATA
1 ATTTTTATA
57023960 TTTTTCCTAT
Statistics
Matches: 67, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
17 9 0.13
18 12 0.18
19 1 0.01
20 38 0.57
21 7 0.10
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.60
Consensus pattern (20 bp):
ATTTTTATAAAATTTTATAT
Found at i:57028165 original size:3 final size:3
Alignment explanation
Indices: 57028157--57028182 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
57028147 TTGAATTATG
57028157 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
57028183 TGTAAAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:57036402 original size:41 final size:41
Alignment explanation
Indices: 57036353--57036538 Score: 203
Period size: 41 Copynumber: 4.5 Consensus size: 41
57036343 AAATGTAAAC
** *
57036353 AGGGGCATGTATATGTTATTCAAGGGTACCGAAGTACAAAT
1 AGGGGCATGTATATGCAATTCAAGGGTACCAAAGTACAAAT
* * * *
57036394 AGGTGCATGTATATGCAATTTAAGGGTACAAAAGTACAAAC
1 AGGGGCATGTATATGCAATTCAAGGGTACCAAAGTACAAAT
* * *
57036435 AGGGGCATGTATGTGCAATACAGGGGTACCAAAGTACAAAT
1 AGGGGCATGTATATGCAATTCAAGGGTACCAAAGTACAAAT
* * * *
57036476 AGGGGCACGTATGTGCAATTTAAGGGTACTGAAA-TACAAAT
1 AGGGGCATGTATATGCAATTCAAGGGTAC-CAAAGTACAAAT
** *
57036517 AGGGGCACATATGTGCAATTCA
1 AGGGGCATGTATATGCAATTCA
57036539 GGCTATAATT
Statistics
Matches: 123, Mismatches: 21, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
41 120 0.98
42 3 0.02
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (41 bp):
AGGGGCATGTATATGCAATTCAAGGGTACCAAAGTACAAAT
Found at i:57036470 original size:82 final size:82
Alignment explanation
Indices: 57036349--57036540 Score: 251
Period size: 82 Copynumber: 2.3 Consensus size: 82
57036339 ATCAAAATGT
* ** * * * *
57036349 AAACAGGGGCATGTATATGTTATTCAAGGGTACCGAAGTACAAATAGGTGCATGTATATGCAATT
1 AAACAGGGGCATGTATGTGCAATTCAGGGGTACCAAAGTACAAATAGGGGCACGTATATGCAATT
57036414 TAAGGGTAC-AAAAGTAC
66 TAAGGGTACTAAAA-TAC
* *
57036431 AAACAGGGGCATGTATGTGCAATACAGGGGTACCAAAGTACAAATAGGGGCACGTATGTGCAATT
1 AAACAGGGGCATGTATGTGCAATTCAGGGGTACCAAAGTACAAATAGGGGCACGTATATGCAATT
*
57036496 TAAGGGTACTGAAATAC
66 TAAGGGTACTAAAATAC
* **
57036513 AAATAGGGGCACATATGTGCAATTCAGG
1 AAACAGGGGCATGTATGTGCAATTCAGG
57036541 CTATAATTAA
Statistics
Matches: 95, Mismatches: 14, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
82 92 0.97
83 3 0.03
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.23
Consensus pattern (82 bp):
AAACAGGGGCATGTATGTGCAATTCAGGGGTACCAAAGTACAAATAGGGGCACGTATATGCAATT
TAAGGGTACTAAAATAC
Found at i:57047749 original size:20 final size:20
Alignment explanation
Indices: 57047707--57047753 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
57047697 TAGGGACATA
* *
57047707 GGCGTGTCCCAAGCCATATG
1 GGCGTGTCCCAAGCCACACG
* *
57047727 GGCGTGTTCCAAGCCGCACG
1 GGCGTGTCCCAAGCCACACG
57047747 GGCGTGT
1 GGCGTGT
57047754 GACCCCTGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.15, C:0.30, G:0.36, T:0.19
Consensus pattern (20 bp):
GGCGTGTCCCAAGCCACACG
Found at i:57051083 original size:26 final size:26
Alignment explanation
Indices: 57051046--57051116 Score: 126
Period size: 26 Copynumber: 2.8 Consensus size: 26
57051036 TTGAAAATAA
*
57051046 ATAT-TATACATATATATATATGCAT
1 ATATATATGCATATATATATATGCAT
57051071 ATATATATGCATATATATATATGCAT
1 ATATATATGCATATATATATATGCAT
57051097 ATATATATGCATATATATAT
1 ATATATATGCATATATATAT
57051117 GCATACATAT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
25 4 0.09
26 40 0.91
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.44
Consensus pattern (26 bp):
ATATATATGCATATATATATATGCAT
Found at i:57051126 original size:14 final size:12
Alignment explanation
Indices: 57051057--57051126 Score: 113
Period size: 12 Copynumber: 5.7 Consensus size: 12
57051047 TATTATACAT
57051057 ATATATATATGC
1 ATATATATATGC
57051069 ATATATATATGC
1 ATATATATATGC
57051081 ATATATATATATGC
1 --ATATATATATGC
57051095 ATATATATATGC
1 ATATATATATGC
57051107 ATATATATATGC
1 ATATATATATGC
*
57051119 ATACATAT
1 ATATATAT
57051127 GTGTGATGAC
Statistics
Matches: 55, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
12 43 0.78
14 12 0.22
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (12 bp):
ATATATATATGC
Found at i:57051126 original size:26 final size:25
Alignment explanation
Indices: 57051057--57051126 Score: 115
Period size: 26 Copynumber: 2.8 Consensus size: 25
57051047 TATTATACAT
57051057 ATATATATATGCATATATATATGCA
1 ATATATATATGCATATATATATGCA
57051082 TATATATATATGCATATATATATGC-
1 -ATATATATATGCATATATATATGCA
*
57051107 ATATATATATGCATACATAT
1 ATATATATATGCATATATAT
57051127 GTGTGATGAC
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
24 19 0.44
26 24 0.56
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (25 bp):
ATATATATATGCATATATATATGCA
Found at i:57054247 original size:16 final size:16
Alignment explanation
Indices: 57054216--57054260 Score: 58
Period size: 14 Copynumber: 2.9 Consensus size: 16
57054206 AAATATCGTA
57054216 AATTAATTT-T-AATT
1 AATTAATTTCTCAATT
57054230 AATTAATTTCTCAATT
1 AATTAATTTCTCAATT
*
57054246 AAATAATTTTCTCAA
1 AATTAA-TTTCTCAA
57054261 CTTGATTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 9 0.33
15 1 0.04
16 9 0.33
17 8 0.30
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (16 bp):
AATTAATTTCTCAATT
Found at i:57054258 original size:17 final size:16
Alignment explanation
Indices: 57054214--57054260 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
57054204 ATAAATATCG
57054214 TAAATTAATTT-T-AAT
1 TAAA-TAATTTCTCAAT
*
57054229 TAATTAATTTCTCAAT
1 TAAATAATTTCTCAAT
57054245 TAAATAATTTTCTCAA
1 TAAATAA-TTTCTCAA
57054261 CTTGATTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 6 0.22
15 4 0.15
16 9 0.33
17 8 0.30
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (16 bp):
TAAATAATTTCTCAAT
Found at i:57069601 original size:18 final size:18
Alignment explanation
Indices: 57069578--57069619 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
57069568 AGGTATTTTT
57069578 GAAAGTTTCTCCGCGGAG
1 GAAAGTTTCTCCGCGGAG
*
57069596 GAAAGTTTCTCCGTGGAG
1 GAAAGTTTCTCCGCGGAG
57069614 GAAAGT
1 GAAAGT
57069620 CCTCAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.24
Consensus pattern (18 bp):
GAAAGTTTCTCCGCGGAG
Found at i:57071261 original size:46 final size:47
Alignment explanation
Indices: 57071203--57071372 Score: 158
Period size: 46 Copynumber: 3.6 Consensus size: 47
57071193 TCACTTGTGT
*
57071203 GAGCTAGTGTAAGACATGTCTGGGACATGTATCAGCCACATT-ATGA-
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGA-GAC
* * *
57071249 GAGCCAGTGTAAGACCATGTCCGGGACATGGCATC-G--GCATTGAGAC
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCACATTGAGAC
* *
57071295 GAGTGCTAGTGTAAGACATGTCTGGGACATGCATCAG-C-C-TCGAGAT
1 GA--GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGAGAC
*
57071341 GTATGCTAGTGTAATACATGTCTGGGACATGC
1 G-A-GCTAGTGTAAGACATGTCTGGGACATGC
57071373 TTCGGCTACG
Statistics
Matches: 106, Mismatches: 9, Indels: 18
0.80 0.07 0.14
Matches are distributed among these distances:
45 6 0.06
46 55 0.52
47 30 0.28
48 15 0.14
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (47 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGAGAC
Found at i:57071385 original size:46 final size:45
Alignment explanation
Indices: 57071205--57071471 Score: 193
Period size: 47 Copynumber: 5.7 Consensus size: 45
57071195 ACTTGTGTGA
* * * *
57071205 GCTAGTGTAAGACATGTCTGGGACATGTATCAGCCAC-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA-GATGA-T
* * * * * *
57071251 GCCAGTGTAAGACCATGTCCGGGACATGGCATCGGCATTGAGACGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGATGA-T
57071299 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTAT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATG-AT
* * *
57071345 GCTAGTGTAATACATGTCTGGGACATGCTTC-GGCTACGAGATGAT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGATGAT
* * *
57071390 AG-TCAGAGTAAGACCATGTCTGGGACATGGCATC-GACTTGAGAT-AT
1 -GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGATGAT
* * *
57071436 GAGTCAGTGTAAGACCATGTTTAGGACATGGCATCA
1 G-CT-AGTGTAAGA-CATGTCTGGGACAT-GCATCA
57071472 AAACCTTTCC
Statistics
Matches: 182, Mismatches: 27, Indels: 22
0.79 0.12 0.10
Matches are distributed among these distances:
45 7 0.04
46 71 0.39
47 75 0.41
48 28 0.15
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGAT
Found at i:57071463 original size:140 final size:141
Alignment explanation
Indices: 57071205--57071471 Score: 339
Period size: 140 Copynumber: 1.9 Consensus size: 141
57071195 ACTTGTGTGA
* *
57071205 GCTAGTGTAAGACATGTCTGGGACATGTATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGTATCAGCCACATGATGAGAGCCAGAGTAAGACCATGTC
* *
57071270 CGGGACATGGCATCGGCATTGAGACGAGTGCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCC
66 CGGGACATGGCATCGACATTGAGACGAGTGCTAGTGTAAGACATGTCTAGGACATGGCATCAGCC
57071334 TCGAGATGTAT
131 TCGAGATGTAT
* * * * *
57071345 GCTAGTGTAATACATGTCTGGGACATGCT-TCGGCTACGA-GATGATAGTCAGAGTAAGACCATG
1 GCTAGTGTAAGACATGTCTGGGACATG-TATCAGCCAC-ATGATGAGAGCCAGAGTAAGACCATG
* * *
57071408 TCTGGGACATGGCATCGAC-TTGAGATATGAGT-C-AGTGTAAGACCATGTTTAGGACATGGCAT
64 TCCGGGACATGGCATCGACATTGAG--ACGAGTGCTAGTGTAAGA-CATGTCTAGGACATGGCAT
57071470 CA
126 CA
57071472 AAACCTTTCC
Statistics
Matches: 109, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
139 14 0.13
140 82 0.75
141 13 0.12
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (141 bp):
GCTAGTGTAAGACATGTCTGGGACATGTATCAGCCACATGATGAGAGCCAGAGTAAGACCATGTC
CGGGACATGGCATCGACATTGAGACGAGTGCTAGTGTAAGACATGTCTAGGACATGGCATCAGCC
TCGAGATGTAT
Found at i:57073520 original size:37 final size:37
Alignment explanation
Indices: 57073456--57073529 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
57073446 TTACAAGCCA
57073456 AAATCATTATAAGCCACATCTCATGGCTACAT-ACAAC
1 AAATCATTATAAGCCACATCTCATGGCTA-ATCACAAC
*
57073493 AAATCATTATAAGCCA-ATACAT-TTGGCTAATCACAAC
1 AAATCATTATAAGCCACAT-C-TCATGGCTAATCACAAC
57073530 GACATCGATC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
36 4 0.12
37 28 0.85
38 1 0.03
ACGTcount: A:0.42, C:0.24, G:0.08, T:0.26
Consensus pattern (37 bp):
AAATCATTATAAGCCACATCTCATGGCTAATCACAAC
Found at i:57080632 original size:13 final size:14
Alignment explanation
Indices: 57080604--57080635 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
57080594 AGTGTATTTC
57080604 ATTT-ATTAAATGA
1 ATTTAATTAAATGA
57080617 ATTTAATTAAAT-A
1 ATTTAATTAAATGA
57080630 ATTTAA
1 ATTTAA
57080636 AGTAATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (14 bp):
ATTTAATTAAATGA
Found at i:57080818 original size:23 final size:22
Alignment explanation
Indices: 57080768--57080818 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 22
57080758 TAGAATTTGA
57080768 ATTTTATATTTTTATTTTTAGG
1 ATTTTATATTTTTATTTTTAGG
*
57080790 AATTTAGT-TTTTCTATTGTTTA-G
1 ATTTTA-TATTTT-TATT-TTTAGG
57080813 ATTTTA
1 ATTTTA
57080819 AAATTCAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
22 9 0.38
23 11 0.46
24 4 0.17
ACGTcount: A:0.24, C:0.02, G:0.10, T:0.65
Consensus pattern (22 bp):
ATTTTATATTTTTATTTTTAGG
Found at i:57081360 original size:19 final size:19
Alignment explanation
Indices: 57081345--57081389 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
57081335 ATTAAATTAT
57081345 TAAAAAAAATAAAAATATA
1 TAAAAAAAATAAAAATATA
* *
57081364 TAATAACAATAAAAA-ATA
1 TAAAAAAAATAAAAATATA
57081382 -AAAAAAAA
1 TAAAAAAAA
57081390 ACTTTTGCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 6 0.27
18 3 0.14
19 13 0.59
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (19 bp):
TAAAAAAAATAAAAATATA
Found at i:57081368 original size:13 final size:13
Alignment explanation
Indices: 57081348--57081390 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
57081338 AAATTATTAA
57081348 AAAAAATAAAAAT
1 AAAAAATAAAAAT
* * *
57081361 ATATAATAACAAT
1 AAAAAATAAAAAT
57081374 AAAAAATAAAAA-
1 AAAAAATAAAAAT
57081386 AAAAA
1 AAAAA
57081391 CTTTTGCTTA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
12 5 0.21
13 19 0.79
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:57081890 original size:13 final size:13
Alignment explanation
Indices: 57081872--57081899 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
57081862 TATAAGTTCC
57081872 ATTATTAATATAT
1 ATTATTAATATAT
57081885 ATTATTAATATAT
1 ATTATTAATATAT
57081898 AT
1 AT
57081900 AACTATTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTATTAATATAT
Found at i:57088571 original size:26 final size:26
Alignment explanation
Indices: 57088540--57088647 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
57088530 TGAAATGCCC
*
57088540 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
57088566 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
57088592 ATCATAGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
57088618 ATCATGGAACATTTTCCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
57088644 ATCA
1 ATCA
57088648 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Done.