Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 98 of 170
Found at i:30588094 original size:44 final size:44
Alignment explanation
Indices: 30587966--30588094 Score: 145
Period size: 45 Copynumber: 2.9 Consensus size: 44
30587956 TGTTACCTTT
** * **
30587966 GATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTTC
1 GATCTACTTCACGCCAACACATGAGGACAAGATCTGCTTTCTTC
* * *
30588010 GATCTAC-TC-CACCACCAGTATGGAGAGACAAGATCTGCTTTCTTC
1 GATCTACTTCACGCCAACA-CAT-GAG-GACAAGATCTGCTTTCTTC
30588055 GATCTACTTCACGCCAACACATGAGGACAAGATCTGCTTT
1 GATCTACTTCACGCCAACACATGAGGACAAGATCTGCTTT
30588095 TTCAATCAAT
Statistics
Matches: 70, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
42 5 0.07
43 4 0.06
44 24 0.34
45 27 0.39
46 4 0.06
47 6 0.09
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (44 bp):
GATCTACTTCACGCCAACACATGAGGACAAGATCTGCTTTCTTC
Found at i:30588408 original size:100 final size:100
Alignment explanation
Indices: 30588242--30588439 Score: 301
Period size: 100 Copynumber: 2.0 Consensus size: 100
30588232 TTTGCTCAAC
* * * *
30588242 TGCAATGTCGGGGAAACCAGATCCGCCGTCGTGGCTTCAATCTATTCCACCGCACCATTAGAGAA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTATTCCACCGCACCATAAGAGAA
*
30588307 GTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* *
30588342 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGC-TAAG-G
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTATTCCACCGCAC--CATAAGAG
30588405 AAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTA
64 AAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTA
30588440 CTTTTCAACC
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
100 85 0.96
101 3 0.03
102 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (100 bp):
TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTATTCCACCGCACCATAAGAGAA
GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
Found at i:30600327 original size:19 final size:18
Alignment explanation
Indices: 30600299--30600337 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
30600289 GTTAGAAAAG
30600299 TAAAAATATATATATATA
1 TAAAAATATATATATATA
*
30600317 TAAAAAGTATATATATGTA
1 TAAAAA-TATATATATATA
30600336 TA
1 TA
30600338 TTATTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (18 bp):
TAAAAATATATATATATA
Found at i:30601764 original size:20 final size:22
Alignment explanation
Indices: 30601724--30601765 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
30601714 AAATTTAATA
*
30601724 TAATAAATATAATTTATTATTT
1 TAATAAATATAATTTAATATTT
30601746 TAATAAAT-T-ATTTAATATTT
1 TAATAAATATAATTTAATATTT
30601766 AAATTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 1 0.05
22 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATAAATATAATTTAATATTT
Found at i:30601805 original size:15 final size:16
Alignment explanation
Indices: 30601778--30601808 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
30601768 ATTTTATTTT
30601778 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
30601794 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
30601809 GTTACTCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:30601842 original size:15 final size:15
Alignment explanation
Indices: 30601822--30601878 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
30601812 ACTCAATATC
30601822 AATATTTTAATAATA
1 AATATTTTAATAATA
*
30601837 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
30601856 AATATATTAATAATA
1 AATATTTTAATAATA
*
30601871 AATGTTTT
1 AATATTTT
30601879 TAGTATAAAG
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:30602940 original size:96 final size:96
Alignment explanation
Indices: 30602736--30602952 Score: 249
Period size: 96 Copynumber: 2.3 Consensus size: 96
30602726 GGTCATGGCC
* * * * * *
30602736 AGACTACCCAATGCCACAGCCAAACTGGAAGCCATCACACCCATGGGCAGACTGTTCAATGCCAT
1 AGACTGCCCAATGCCATAGCCAAACGGGAACCCACCACACCCATGGGCAGACTGTCCAATGCCAT
* * *
30602801 GGCCAAACAGGAACCCTCCACGCCTATGGGC
66 GGCCAAACAGGAACCCACCACCCCTATGGGA
* ** *
30602832 AGATTGTTCAATGCCATAGCCAAACGGGAACCCACCACACTCATGGGCAGACTG-CCAAATGCCA
1 AGACTGCCCAATGCCATAGCCAAACGGGAACCCACCACACCCATGGGCAGACTGTCC-AATGCCA
* * **
30602896 TGGTCAAACCGGAAGTCACCACACCCT-TGGGA
65 TGGCCAAACAGGAACCCACCAC-CCCTATGGGA
30602928 AGACTGCCCAATGCCATAGCCAAAC
1 AGACTGCCCAATGCCATAGCCAAAC
30602953 CCCAGGACAC
Statistics
Matches: 99, Mismatches: 20, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
95 1 0.01
96 95 0.96
97 3 0.03
ACGTcount: A:0.31, C:0.34, G:0.21, T:0.14
Consensus pattern (96 bp):
AGACTGCCCAATGCCATAGCCAAACGGGAACCCACCACACCCATGGGCAGACTGTCCAATGCCAT
GGCCAAACAGGAACCCACCACCCCTATGGGA
Found at i:30602953 original size:48 final size:48
Alignment explanation
Indices: 30602729--30602953 Score: 225
Period size: 48 Copynumber: 4.7 Consensus size: 48
30602719 CTGTAAAGGT
* * * * * *
30602729 CATGGCCAGACTACCCAATGCCACAGCCAAACTGGAAGCCATCACACC
1 CATGGGCAGACTGCCCAATGCCATAGCCAAACCGGAACCCACCACACC
** * * * *
30602777 CATGGGCAGACTGTTCAATGCCATGGCCAAACAGGAACCCTCCACGCC
1 CATGGGCAGACTGCCCAATGCCATAGCCAAACCGGAACCCACCACACC
* * ** * *
30602825 TATGGGCAGATTGTTCAATGCCATAGCCAAACGGGAACCCACCACACT
1 CATGGGCAGACTGCCCAATGCCATAGCCAAACCGGAACCCACCACACC
* * * **
30602873 CATGGGCAGACTGCCAAATGCCATGGTCAAACCGGAAGTCACCACACC
1 CATGGGCAGACTGCCCAATGCCATAGCCAAACCGGAACCCACCACACC
* *
30602921 CTTGGGAAGACTGCCCAATGCCATAGCCAAACC
1 CATGGGCAGACTGCCCAATGCCATAGCCAAACC
30602954 CCAGGACACT
Statistics
Matches: 143, Mismatches: 34, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 143 1.00
ACGTcount: A:0.31, C:0.34, G:0.21, T:0.14
Consensus pattern (48 bp):
CATGGGCAGACTGCCCAATGCCATAGCCAAACCGGAACCCACCACACC
Found at i:30608583 original size:18 final size:18
Alignment explanation
Indices: 30608547--30608585 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
30608537 CAATCAATTC
30608547 AATTTTATAATTTAACAAT
1 AATTTTAT-ATTTAACAAT
30608566 AATTTTAT-TTTCAACAAT
1 AATTTTATATTT-AACAAT
30608584 AA
1 AA
30608586 ATATGAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.16
18 8 0.42
19 8 0.42
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (18 bp):
AATTTTATATTTAACAAT
Found at i:30610371 original size:13 final size:13
Alignment explanation
Indices: 30610353--30610378 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30610343 CATTGGTAGC
30610353 ATGAAAAGATGAA
1 ATGAAAAGATGAA
30610366 ATGAAAAGATGAA
1 ATGAAAAGATGAA
30610379 GAGAATTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (13 bp):
ATGAAAAGATGAA
Found at i:30611224 original size:29 final size:28
Alignment explanation
Indices: 30611163--30611228 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 28
30611153 AATGCATCTA
30611163 ATTTATATTACAAAGTTTGTATTTTTGC
1 ATTTATATTACAAAGTTTGTATTTTTGC
* * * *
30611191 ATTTATATTATAAATTTTTTTATTTTTTC
1 ATTTATATTACAAA-GTTTGTATTTTTGC
30611220 ATTTATATT
1 ATTTATATT
30611229 TTTGCATGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
28 13 0.39
29 20 0.61
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (28 bp):
ATTTATATTACAAAGTTTGTATTTTTGC
Found at i:30613560 original size:17 final size:16
Alignment explanation
Indices: 30613529--30613562 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
30613519 AATGTAATAC
*
30613529 AAATAAGTATTACAAT
1 AAATAAGTATAACAAT
30613545 AAATATAGTATAACAAT
1 AAATA-AGTATAACAAT
30613562 A
1 A
30613563 TCATTACAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (16 bp):
AAATAAGTATAACAAT
Found at i:30614117 original size:31 final size:31
Alignment explanation
Indices: 30614077--30614155 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
30614067 TCTTTTTTTA
*
30614077 AACCCTAAACAAAA-CTCTCTAATCCTTTTCT
1 AACCCTAAACAAAATC-CCCTAATCCTTTTCT
* *
30614108 AACCTTAAACAAAATCCCCTAATCCTTTTTTT
1 AACCCTAAACAAAATCCCCTAATCC-TTTTCT
30614140 ATACCCTAATACAAAA
1 A-ACCCTAA-ACAAAA
30614156 CTTTTAAGCT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
31 21 0.52
32 7 0.17
33 6 0.15
34 6 0.15
ACGTcount: A:0.39, C:0.29, G:0.00, T:0.32
Consensus pattern (31 bp):
AACCCTAAACAAAATCCCCTAATCCTTTTCT
Found at i:30624822 original size:69 final size:69
Alignment explanation
Indices: 30624744--30624996 Score: 217
Period size: 69 Copynumber: 3.7 Consensus size: 69
30624734 AAGGGTCGGG
* * * *
30624744 AAGAGTCACATGTTGAAGCCGGAGGAAAGACCGATAGTGGAGAAGGTGATAATGTGCAAAAGGCT
1 AAGAATCACATGTTGAAGCCGGAGGAAAGACAGATAGTGGAAAAGGTGATAATGAGCAAAAGGCT
30624809 AAGC
66 AAGC
* * * * * *
30624813 AAGAATCACATTTTGATGCCGGAGGAAAGGCAGATGGTGGAAAAGGTGATAATGAGCACAAGGGT
1 AAGAATCACATGTTGAAGCCGGAGGAAAGACAGATAGTGGAAAAGGTGATAATGAGCAAAAGGCT
*
30624878 AAGG
66 AAGC
* * * ** * ** *
30624882 ACGAATCGC-GGTTTGAAGCCGGAGGAAA-AGTGGACAGTACAAAAGGTGATAACGAGCAAAAGG
1 AAGAATCACATG-TTGAAGCCGGAGGAAAGA-CAGATAGTGGAAAAGGTGATAATGAGCAAAAGG
* *
30624945 GTAAGG
64 CTAAGC
* * *
30624951 AAGAATCGCA-GTTTGAAGCCAGG-GGAAAGGCAGATGGTGGAAAAGG
1 AAGAATCACATG-TTGAAGCC-GGAGGAAAGACAGATAGTGGAAAAGG
30624997 CGCTAAGGAG
Statistics
Matches: 146, Mismatches: 33, Indels: 10
0.77 0.17 0.05
Matches are distributed among these distances:
69 144 0.99
70 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.35, T:0.15
Consensus pattern (69 bp):
AAGAATCACATGTTGAAGCCGGAGGAAAGACAGATAGTGGAAAAGGTGATAATGAGCAAAAGGCT
AAGC
Found at i:30627227 original size:16 final size:16
Alignment explanation
Indices: 30627196--30627229 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
30627186 AATTTAAATA
30627196 TAAAATATTTATTCTT
1 TAAAATATTTATTCTT
30627212 TAAAGATATTTA-TCTT
1 TAAA-ATATTTATTCTT
30627228 TA
1 TA
30627230 TATGACAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (16 bp):
TAAAATATTTATTCTT
Found at i:30632182 original size:19 final size:18
Alignment explanation
Indices: 30632160--30632195 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
30632150 TATAAATGCA
30632160 AAATTAAATAATCGAAATT
1 AAATTAAATAATC-AAATT
*
30632179 AAATTAGATAATCAAAT
1 AAATTAAATAATCAAAT
30632196 GTGCAAATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.31
Consensus pattern (18 bp):
AAATTAAATAATCAAATT
Found at i:30640431 original size:21 final size:22
Alignment explanation
Indices: 30640407--30640447 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
30640397 CCACTTCACT
30640407 TTCAAATTCTTT-ATTATTTCA
1 TTCAAATTCTTTAATTATTTCA
30640428 TTCAAATTCTTTAATTATTT
1 TTCAAATTCTTTAATTATTT
30640448 TAATATACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (22 bp):
TTCAAATTCTTTAATTATTTCA
Found at i:30641377 original size:26 final size:26
Alignment explanation
Indices: 30641341--30641394 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
30641331 AAAACTAAAA
30641341 ATTTTCAATACAGAAGTCAGACGGCC
1 ATTTTCAATACAGAAGTCAGACGGCC
* *
30641367 ATTTTCAATACAGAGGTTAGACGGCC
1 ATTTTCAATACAGAAGTCAGACGGCC
30641393 AT
1 AT
30641395 GTGTCCAGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.26
Consensus pattern (26 bp):
ATTTTCAATACAGAAGTCAGACGGCC
Found at i:30647684 original size:71 final size:72
Alignment explanation
Indices: 30647597--30647740 Score: 209
Period size: 74 Copynumber: 2.0 Consensus size: 72
30647587 CTGTCGTATT
* * *
30647597 TTGGACTTTTGCTTATGTTTTTTTCTTATAATC-TTGTTATGTTGTTGTTTACTTCAACTCATGT
1 TTGGACTTTTGATTATGTTATTTTATTATAATCTTTGTTATGTTGTTGTTTACTTCAACTCATGT
30647661 TGTTTAC
66 TGTTTAC
* **
30647668 TTGGACTTTTGATTATGTTATTTTATTATAATCTTGTTGTTTTGTTGTTGTTTACTTGGACTCAT
1 TTGGACTTTTGATTATGTTATTTTATTATAATC-T-TTGTTATGTTGTTGTTTACTTCAACTCAT
30647733 GTTGTTTA
64 GTTGTTTA
30647741 TTTAGAGTGA
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 30 0.47
74 34 0.53
ACGTcount: A:0.16, C:0.10, G:0.16, T:0.58
Consensus pattern (72 bp):
TTGGACTTTTGATTATGTTATTTTATTATAATCTTTGTTATGTTGTTGTTTACTTCAACTCATGT
TGTTTAC
Found at i:30648625 original size:19 final size:19
Alignment explanation
Indices: 30648587--30648626 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
30648577 TTAGTTGTTC
*
30648587 TTTATTTTATTGTTTATAT
1 TTTATTTTATTGTTCATAT
30648606 TTTATTTTATT-TTCATTAT
1 TTTATTTTATTGTTCA-TAT
30648625 TT
1 TT
30648627 GTTATATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.75
Consensus pattern (19 bp):
TTTATTTTATTGTTCATAT
Found at i:30661884 original size:41 final size:43
Alignment explanation
Indices: 30661836--30662186 Score: 284
Period size: 44 Copynumber: 8.3 Consensus size: 43
30661826 TGAATATTAG
30661836 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGCA-TCA
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGCAGTCA
* * * * * * *
30661878 AG-TCTTATCTTCCTGAGGTTACAGTGGAACAAATTGTAGCCAA
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGCAGTC-A
30661921 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGCA-TCA
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGCAGTCA
* * *
30661963 AG-TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCA-TC-
1 AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGCAGTCA
* * * *
30662003 AGGTCTTATCTCCC------TACAGTGGAGTAGACCGAAGAATTTC-
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGCAG----TCA
* * * * *
30662043 AGATCTTATCTCCATGAGGTTACAGTGGAGCAGATTGGAGCCAA
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGCAGTC-A
** * * * *
30662087 AGATCTTATCTCGATGAGGTTACAGTGGAGCAGATTGAAGCCGA
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGCAGTC-A
*
30662131 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCTCA-TCA
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGCAGTCA
30662173 AG-TCTTATCTCCCT
1 AGATCTTATCTCCCT
30662187 AAGCAGTAGT
Statistics
Matches: 253, Mismatches: 38, Indels: 37
0.77 0.12 0.11
Matches are distributed among these distances:
35 16 0.06
40 17 0.07
41 85 0.34
42 10 0.04
43 5 0.02
44 104 0.41
46 16 0.06
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (43 bp):
AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGCAGTCA
Found at i:30662225 original size:44 final size:44
Alignment explanation
Indices: 30662169--30662253 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
30662159 AGCAGATCTC
30662169 ATCAAGTCTTATCTCCCTAAGCAGTAGTGGAACAGACAGAAGAA
1 ATCAAGTCTTATCTCCCTAAGCAGTAGTGGAACAGACAGAAGAA
* * * *
30662213 ATCAAGTTTTATCTTCCTAAGTAGTAGTGGAGCAGACAGAA
1 ATCAAGTCTTATCTCCCTAAGCAGTAGTGGAACAGACAGAA
30662254 CCAATCTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (44 bp):
ATCAAGTCTTATCTCCCTAAGCAGTAGTGGAACAGACAGAAGAA
Found at i:30670986 original size:18 final size:19
Alignment explanation
Indices: 30670963--30670999 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
30670953 TGGTTTAAGT
30670963 CTAAATT-TTTAATTTCTC
1 CTAAATTATTTAATTTCTC
*
30670981 CTAAATTATTTACTTTCTC
1 CTAAATTATTTAATTTCTC
30671000 TTCTACAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.27, C:0.19, G:0.00, T:0.54
Consensus pattern (19 bp):
CTAAATTATTTAATTTCTC
Found at i:30673078 original size:22 final size:22
Alignment explanation
Indices: 30673053--30673095 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
30673043 TAATTTTAAG
30673053 TTTA-AATTTGTACTAACTATTC
1 TTTATAATTTGT-CTAACTATTC
**
30673075 TTTATTTTTTGTCTAACTATT
1 TTTATAATTTGTCTAACTATT
30673096 GTAATACATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.26, C:0.12, G:0.05, T:0.58
Consensus pattern (22 bp):
TTTATAATTTGTCTAACTATTC
Found at i:30674024 original size:15 final size:15
Alignment explanation
Indices: 30674004--30674055 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
30673994 GCTGCAAAAC
30674004 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
30674019 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
30674038 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
30674053 ATT
1 ATT
30674056 AATATGTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:30674139 original size:17 final size:18
Alignment explanation
Indices: 30674091--30674141 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
30674081 TTATTATTTG
30674091 TAAAATTTATTAT-TAAAA
1 TAAAA-TTATTATATAAAA
* **
30674109 TAAAATCAAAATATAAAA
1 TAAAATTATTATATAAAA
30674127 T-AAATTATTATATAA
1 TAAAATTATTATATAA
30674142 CTAAATATGT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
TAAAATTATTATATAAAA
Found at i:30678896 original size:26 final size:25
Alignment explanation
Indices: 30678866--30678933 Score: 79
Period size: 26 Copynumber: 2.8 Consensus size: 25
30678856 AAATTTTTAG
30678866 TATATTATTAATTATTTTAAAAATAA
1 TATATTATTAATTATTTTAAAAAT-A
*
30678892 TATATTATTATATT-TCTTAAAAATA
1 TATATTATTA-ATTATTTTAAAAATA
*
30678917 T-TAAT-TTAATTATTTTA
1 TATATTATTAATTATTTTA
30678934 GAAACAATTC
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
22 3 0.08
23 7 0.19
24 3 0.08
25 2 0.05
26 19 0.51
27 3 0.08
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (25 bp):
TATATTATTAATTATTTTAAAAATA
Found at i:30682733 original size:3 final size:3
Alignment explanation
Indices: 30682725--30682751 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
30682715 ACAATGTAAG
30682725 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
30682752 TTTAAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:30688494 original size:9 final size:9
Alignment explanation
Indices: 30688480--30688537 Score: 62
Period size: 9 Copynumber: 6.4 Consensus size: 9
30688470 TTTGGTTAAA
30688480 AATTAACCG
1 AATTAACCG
*
30688489 AATTAATCG
1 AATTAACCG
30688498 AATTAACCG
1 AATTAACCG
* * *
30688507 GATTACCCA
1 AATTAACCG
*
30688516 AATTACCCG
1 AATTAACCG
*
30688525 AATTACCCG
1 AATTAACCG
30688534 AATT
1 AATT
30688538 GAATCACTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:30688733 original size:27 final size:27
Alignment explanation
Indices: 30688702--30688756 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
30688692 CCTAAAAACA
30688702 AAATGTGTAATTGGGTAGATACTTAAG
1 AAATGTGTAATTGGGTAGATACTTAAG
*
30688729 AAATGTGTAATTGGGTAGATATTTAAG
1 AAATGTGTAATTGGGTAGATACTTAAG
30688756 A
1 A
30688757 GTTAGACTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.02, G:0.25, T:0.35
Consensus pattern (27 bp):
AAATGTGTAATTGGGTAGATACTTAAG
Found at i:30688803 original size:38 final size:39
Alignment explanation
Indices: 30688759--30688836 Score: 140
Period size: 38 Copynumber: 2.0 Consensus size: 39
30688749 ATTTAAGAGT
*
30688759 TAGACTTTAGTTTTATTTTTATTGGGTT-GGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
30688797 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
30688836 T
1 T
30688837 TGGGTTGGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 27 0.71
39 11 0.29
ACGTcount: A:0.18, C:0.03, G:0.28, T:0.51
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
Found at i:30688835 original size:13 final size:13
Alignment explanation
Indices: 30688817--30688841 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30688807 TTTTAGTTTT
30688817 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
30688830 ATTGGGTTGGGT
1 ATTGGGTTGGGT
30688842 TGGATAATTT
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:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:30690005 original size:32 final size:32
Alignment explanation
Indices: 30689960--30690024 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
30689950 ATCACAAGTT
* *
30689960 GGATTTTCGTTCTCAGCTACGTACATTTTTGG
1 GGATTTTCATTCTCAGCTACGCACATTTTTGG
*
30689992 GGATTTTCATTCTCAGCTATGCACATTTTTGG
1 GGATTTTCATTCTCAGCTACGCACATTTTTGG
30690024 G
1 G
30690025 ATATAGTTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.17, C:0.18, G:0.22, T:0.43
Consensus pattern (32 bp):
GGATTTTCATTCTCAGCTACGCACATTTTTGG
Found at i:30691431 original size:19 final size:19
Alignment explanation
Indices: 30691403--30691466 Score: 101
Period size: 19 Copynumber: 3.3 Consensus size: 19
30691393 AATTTTCGAG
*
30691403 GATATACAATCTTAGATAT
1 GATATGCAATCTTAGATAT
30691422 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
30691441 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
30691462 GATAT
1 GATAT
30691467 ATACAATCTT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 23 0.55
21 19 0.45
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:30691485 original size:19 final size:21
Alignment explanation
Indices: 30691404--30691479 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
30691394 ATTTTCGAGG
30691404 ATATACAATCTTAGATATG--
1 ATATACAATCTTAGATATGAT
*
30691423 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
*
30691444 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
30691465 ATATACAATCTTAGA
1 ATATACAATCTTAGA
30691480 AGATATGATT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
19 18 0.34
21 35 0.66
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.37
Consensus pattern (21 bp):
ATATACAATCTTAGATATGAT
Found at i:30691515 original size:21 final size:23
Alignment explanation
Indices: 30691471--30691515 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
30691461 TGATATATAC
*
30691471 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATATGAATTTGT
*
30691494 AATCTTA-AAGAT-TTAATTTGT
1 AATCTTAGAAGATATGAATTTGT
30691515 A
1 A
30691516 GATACCCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 5 0.25
23 7 0.35
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.44
Consensus pattern (23 bp):
AATCTTAGAAGATATGAATTTGT
Found at i:30691696 original size:19 final size:21
Alignment explanation
Indices: 30691672--30691710 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
30691662 GGCTTACTGT
*
30691672 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
30691691 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
30691711 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:30691937 original size:3 final size:3
Alignment explanation
Indices: 30691916--30691968 Score: 58
Period size: 3 Copynumber: 18.0 Consensus size: 3
30691906 GTTTTTAGTC
*
30691916 TAT T-T TAT TAAT T-T TAT TAT TAT TAT TTT TAT TAT TA- TAT TAT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
30691959 ATAT TAT TAT
1 -TAT TAT TAT
30691969 ACCTACATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
2 6 0.14
3 31 0.72
4 6 0.14
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:30692340 original size:51 final size:50
Alignment explanation
Indices: 30692227--30692341 Score: 128
Period size: 51 Copynumber: 2.3 Consensus size: 50
30692217 ATTTTCCACG
**
30692227 TTTTATATTATA-ATTATATATTTCATTTTTTTGTAAATGCATGAATATA
1 TTTTATATTATATATTATATATTTCATTTTTTCATAAATGCATGAATATA
* * *
30692276 TTTTATATGTATATATT-TATATTTTCCTTGTTTTCATAAATGCAT-TATGTA
1 TTTTATAT-TATATATTATATA-TTTCATT-TTTTCATAAATGCATGAATATA
30692327 TTTTATATATATATA
1 TTTTATAT-TATATA
30692342 AGTTTTATAA
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
49 8 0.14
50 8 0.14
51 27 0.48
52 13 0.23
ACGTcount: A:0.32, C:0.05, G:0.06, T:0.57
Consensus pattern (50 bp):
TTTTATATTATATATTATATATTTCATTTTTTCATAAATGCATGAATATA
Found at i:30698599 original size:17 final size:17
Alignment explanation
Indices: 30698577--30698616 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
30698567 ACTTTGAGTC
**
30698577 GAAAAAAATGACGAAAT
1 GAAAAAAATGAAAAAAT
30698594 GAAAAAAATGAAAAAAT
1 GAAAAAAATGAAAAAAT
30698611 GAAAAA
1 GAAAAA
30698617 TGAAAAAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.72, C:0.03, G:0.15, T:0.10
Consensus pattern (17 bp):
GAAAAAAATGAAAAAAT
Found at i:30698607 original size:8 final size:8
Alignment explanation
Indices: 30698579--30698623 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
30698569 TTTGAGTCGA
30698579 AAAAAATG
1 AAAAAATG
**
30698587 ACGAAATG
1 AAAAAATG
30698595 AAAAAAATG
1 -AAAAAATG
30698604 AAAAAATG
1 AAAAAATG
30698612 -AAAAATG
1 AAAAAATG
30698619 AAAAA
1 AAAAA
30698624 GTAAAATGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
7 7 0.23
8 18 0.58
9 6 0.19
ACGTcount: A:0.73, C:0.02, G:0.13, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:30700104 original size:44 final size:44
Alignment explanation
Indices: 30700056--30700250 Score: 112
Period size: 44 Copynumber: 4.4 Consensus size: 44
30700046 GAGTAGGTTG
*
30700056 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA
1 AAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA
* * * * **
30700100 AAGATGGCAAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAAATTT
1 AAGATTGCAGATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCA
** * * * * * * * **
30700144 AAG-TCACCA-AGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTG
1 AAGAT-TGCAGA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA
*
30700188 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA
1 AAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA
** *
30700232 AAGACGGCAAATCTTATCT
1 AAGATTGCAGATCTTATCT
30700251 TTCCAAGATA
Statistics
Matches: 106, Mismatches: 35, Indels: 20
0.66 0.22 0.12
Matches are distributed among these distances:
42 4 0.04
43 8 0.08
44 84 0.79
45 8 0.08
46 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (44 bp):
AAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA
Found at i:30700342 original size:132 final size:132
Alignment explanation
Indices: 30699889--30700286 Score: 665
Period size: 132 Copynumber: 3.0 Consensus size: 132
30699879 GTGATACACT
* * * *
30699889 AAGCCTTGTCTCCCTGAGCAACAGCGAAGTAGGTTGAGGATCGTAGATCTTATCTCCCT-AGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * * *
30699953 TAGTGGAGTAGATCGAGGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGAAGATTTAAGCCA
66 TAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGAAGATTTAAGCCA
30700018 CC
131 CC
30700020 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* *
30700085 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAA-ATTTAAGTC
66 TAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAG-AAGATTTAAGCC
30700149 ACC
130 ACC
30700152 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
*
30700217 TAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGAGAAGAAGATTTAAGCCA
66 TAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGAAGATTTAAGCCA
*
30700282 GC
131 CC
30700284 AAG
1 AAG
30700287 TCTTATCCTC
Statistics
Matches: 250, Mismatches: 14, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
131 57 0.23
132 191 0.76
133 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.25
Consensus pattern (132 bp):
AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
TAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGAAGATTTAAGCCA
CC
Found at i:30700597 original size:21 final size:21
Alignment explanation
Indices: 30700572--30700628 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
30700562 ATTTTCGAGG
*
30700572 ATATGCAATCTTAGGTATGAT
1 ATATGCAATCTTAGATATGAT
*
30700593 ATATGGAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
* *
30700614 ATATACAATATTAGA
1 ATATGCAATCTTAGA
30700629 AGATATGATT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:30700846 original size:19 final size:21
Alignment explanation
Indices: 30700822--30700860 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
30700812 GGCTTACTAT
*
30700822 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
30700841 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
30700861 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:30701091 original size:3 final size:3
Alignment explanation
Indices: 30701083--30701128 Score: 67
Period size: 3 Copynumber: 15.3 Consensus size: 3
30701073 ATTAATTTTG
*
30701083 TTA TTA TTA TTT TTA TTA TTA -TA TTA TATA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
30701128 T
1 T
30701129 ACCTACATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.05
3 34 0.87
4 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:30701091 original size:15 final size:15
Alignment explanation
Indices: 30701067--30701124 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
30701057 GTTTTTAGTC
30701067 TATT-TTATTAATTT
1 TATTATTATTAATTT
* *
30701081 TGTTATTATTATTTT
1 TATTATTATTAATTT
*
30701096 TATTATTATATTATATAT
1 TATTA-T-TATTA-ATTT
30701114 TATTATTATTA
1 TATTATTATTA
30701125 TTATACCTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
14 3 0.09
15 13 0.37
16 6 0.17
17 6 0.17
18 7 0.20
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
TATTATTATTAATTT
Found at i:30701501 original size:51 final size:52
Alignment explanation
Indices: 30701391--30701502 Score: 131
Period size: 51 Copynumber: 2.2 Consensus size: 52
30701381 TTCCATGTTT
**
30701391 TATAT-TATACTTATATATTTCATTTTTTTGTAAATGCATGAATATATTTTA
1 TATATATATACTTATATATTTCATTTTTTCATAAATGCATGAATATATTTTA
* * * * *
30701442 TATGTATATATTTATAT-TTTCCTTGTTTTCATAAATGCAT-TATGTATTTTA
1 TATATATATACTTATATATTTCATT-TTTTCATAAATGCATGAATATATTTTA
30701493 TATATATATA
1 TATATATATA
30701503 AGTTTTATAA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
51 28 0.55
52 23 0.45
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (52 bp):
TATATATATACTTATATATTTCATTTTTTCATAAATGCATGAATATATTTTA
Found at i:30709729 original size:39 final size:43
Alignment explanation
Indices: 30709628--30709736 Score: 136
Period size: 45 Copynumber: 2.6 Consensus size: 43
30709618 GATTAGAGGC
30709628 GTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAAT
1 GTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--AT
* ***
30709673 GTAATGGAATAGAGGTGTAATAG-TAATCTTGTGTTTGG-T-T
1 GTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTAT
30709713 G-AATGGAATAGAGGTGTAATAGCA
1 GTAATGGAATAGAGGTGTAATAGCA
30709737 TAATAGAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
39 21 0.36
40 2 0.03
43 1 0.02
44 11 0.19
45 23 0.40
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (43 bp):
GTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTAT
Found at i:30709910 original size:14 final size:15
Alignment explanation
Indices: 30709871--30709912 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
30709861 TTTTAACAGA
*
30709871 ATTATTATTAAATAT
1 ATTATAATTAAATAT
30709886 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
30709900 A-TATAATTTAATA
1 ATTATAATTAAATA
30709913 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:30710088 original size:47 final size:46
Alignment explanation
Indices: 30710019--30710277 Score: 184
Period size: 47 Copynumber: 5.7 Consensus size: 46
30710009 TTAATTAAAA
*
30710019 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTTTCT
* * **
30710066 TATATGAATTTGTATAATTTAAAATAATTATTATTAATTATAA-TTTAA
1 TATATGAATTTATATAATTTAAAATAATTA-TAATAA-TA-AATTTTCT
* * *
30710114 TA-AT-AA--TATATTATTTCATAA-AATTATTGATAATAAATTTTCT
1 TATATGAATTTATATAATTT-AAAATAATTA-TAATAATAAATTTTCT
* * *
30710157 TATATGAATTTATATAATTTAAAATAA-T-CAATATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* * * *
30710202 TA-AT-AATGATATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
30710248 TATATGAATTTATATAATTTAAAATAATTA
1 TATATGAATTTATATAATTTAAAATAATTA
30710278 ATATTAAATA
Statistics
Matches: 163, Mismatches: 27, Indels: 45
0.69 0.11 0.19
Matches are distributed among these distances:
42 2 0.01
43 10 0.06
44 42 0.26
45 14 0.09
46 14 0.09
47 63 0.39
48 16 0.10
49 2 0.01
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTTTCT
Found at i:30710134 original size:26 final size:25
Alignment explanation
Indices: 30710079--30710134 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
30710069 ATGAATTTGT
*
30710079 ATAATTTAAAATAATTATTATTAATT
1 ATAATTTAAAATAATTATTATT-ATC
30710105 ATAATTTAATAATAATATATTATT-TC
1 ATAATTTAA-AATAAT-TATTATTATC
30710131 ATAA
1 ATAA
30710135 AATTATTGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 14 0.52
27 6 0.22
28 7 0.26
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
ATAATTTAAAATAATTATTATTATC
Found at i:30710148 original size:91 final size:91
Alignment explanation
Indices: 30710053--30710298 Score: 429
Period size: 91 Copynumber: 2.7 Consensus size: 91
30710043 TAATTATAAC
* * *
30710053 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAATTATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
30710118 AATATATTATTTCATAAAATTATTGA
66 AATATATAATTTCATAAAATTATTGA
*
30710144 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATCAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
* *
30710209 GATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTATTGA
30710235 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAA
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAA
30710299 CGAACGATCA
Statistics
Matches: 147, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 147 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTATTGA
Found at i:30711693 original size:23 final size:23
Alignment explanation
Indices: 30711663--30711723 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
30711653 TGGACAAATG
30711663 AAGGCCATGTTCCTGTTTTTATT
1 AAGGCCATGTTCCTGTTTTTATT
30711686 AAGGCCATGTTCCTGTTTTTATT
1 AAGGCCATGTTCCTGTTTTTATT
**
30711709 GTGGCCATGTTCCTG
1 AAGGCCATGTTCCTG
30711724 AGTTGAACAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.15, C:0.20, G:0.21, T:0.44
Consensus pattern (23 bp):
AAGGCCATGTTCCTGTTTTTATT
Found at i:30716008 original size:21 final size:21
Alignment explanation
Indices: 30715984--30716037 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
30715974 TAATACCAGA
* **
30715984 AAATGTATCGATAATTTTTTT
1 AAATTTATCGATAATTCATTT
30716005 AAATTTATCGAT-ATTCATTT
1 AAATTTATCGATAATTCATTT
30716025 AAATTTATCGATA
1 AAATTTATCGATA
30716038 CTTGGCAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (21 bp):
AAATTTATCGATAATTCATTT
Found at i:30716937 original size:41 final size:41
Alignment explanation
Indices: 30716892--30717030 Score: 197
Period size: 41 Copynumber: 3.4 Consensus size: 41
30716882 CAACGACACT
* *
30716892 TAGCCTGCTAGACTTATAGCCTGATTTAGATCACCGGCACG
1 TAGCCTGCTAGACTTATAACCTGATTCAGATCACCGGCACG
**
30716933 TAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGGCACG
1 TAGCCTGCTAGACTTATAACCTGATTCAGATCACCGGCACG
** * **
30716974 TAGCCTGCTAGGTTTATAACCTAATTCAGATCACCGGCAAT
1 TAGCCTGCTAGACTTATAACCTGATTCAGATCACCGGCACG
30717015 TAGCCTGCTAGACTTA
1 TAGCCTGCTAGACTTA
30717031 AAGTCTGAAA
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 89 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (41 bp):
TAGCCTGCTAGACTTATAACCTGATTCAGATCACCGGCACG
Found at i:30724611 original size:41 final size:41
Alignment explanation
Indices: 30724557--30724670 Score: 147
Period size: 41 Copynumber: 2.8 Consensus size: 41
30724547 TTAATTAAAA
* *
30724557 CAGATTCAACGGCACTTAGCCTGCTAGACTTATAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGACTTATAACCTGATT
* * **
30724599 TAGATCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGACTTATAACCTGATT
* *
30724640 CAGATTACCGGCAATTAGCCTGCTAGACTTA
1 CAGATCACCGGCACTTAGCCTGCTAGACTTA
30724671 AAGTCTGAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
41 57 0.95
42 3 0.05
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.28
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGACTTATAACCTGATT
Found at i:30725558 original size:114 final size:114
Alignment explanation
Indices: 30725356--30725647 Score: 512
Period size: 114 Copynumber: 2.6 Consensus size: 114
30725346 ATACATTCGC
30725356 TTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAA
1 TTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAA
**
30725421 CCTAAGCCCAACAACGCCGTTTTCTGAGCTTTCAGAGATTTAGCGGCGT
66 CCTAAGCCCAACAACGCAATTTTCTGAGCTTTCAGAGATTTAGCGGCGT
30725470 TTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAA
1 TTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAA
* * * *
30725535 CCTAAGCCCAACGATGCAATTTTCTGAGCTTTCGGGGATTTAGCGGCGT
66 CCTAAGCCCAACAACGCAATTTTCTGAGCTTTCAGAGATTTAGCGGCGT
* *
30725584 TTTTAAGAAAGCGCCGCTAATGCTTAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAAA
1 TTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAA
30725648 TATTTTATCT
Statistics
Matches: 170, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
114 170 1.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (114 bp):
TTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAA
CCTAAGCCCAACAACGCAATTTTCTGAGCTTTCAGAGATTTAGCGGCGT
Found at i:30725964 original size:15 final size:15
Alignment explanation
Indices: 30725939--30725977 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
30725929 GTTGAGATTT
30725939 AGGGTTTAGGGGTTAA
1 AGGG-TTAGGGGTTAA
*
30725955 AGGGTTAGGGGTTTA
1 AGGGTTAGGGGTTAA
30725970 AGGGTTAG
1 AGGGTTAG
30725978 ACGTGCTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 18 0.82
16 4 0.18
ACGTcount: A:0.23, C:0.00, G:0.46, T:0.31
Consensus pattern (15 bp):
AGGGTTAGGGGTTAA
Found at i:30726208 original size:15 final size:15
Alignment explanation
Indices: 30726180--30726230 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 15
30726170 TTTAAGGTTA
* *
30726180 ATTTAGGGAGTATGG
1 ATTTAAGGATTATGG
30726195 ATTTAAGGATTAT-G
1 ATTTAAGGATTATGG
* *
30726209 AATTAGGGATTATGG
1 ATTTAAGGATTATGG
30726224 -TTTAAGG
1 ATTTAAGG
30726231 GTTGAGATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.37
Consensus pattern (15 bp):
ATTTAAGGATTATGG
Found at i:30726271 original size:14 final size:14
Alignment explanation
Indices: 30726246--30726286 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
30726236 GATTTAAGGT
*
30726246 TTAAGGGTTAGGGG
1 TTAAGAGTTAGGGG
30726260 TT-AGATGTTAGGGG
1 TTAAGA-GTTAGGGG
30726274 TTAAGAGTTAGGG
1 TTAAGAGTTAGGG
30726287 ATTTAAGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 2 0.08
14 19 0.79
15 3 0.12
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.32
Consensus pattern (14 bp):
TTAAGAGTTAGGGG
Found at i:30727155 original size:241 final size:241
Alignment explanation
Indices: 30726565--30727848 Score: 2145
Period size: 240 Copynumber: 5.3 Consensus size: 241
30726555 TTAATTTTAT
* **
30726565 AAAA-AAATCAATTTATAAAAAA-AAATAAAAAAAATTTTAGCATAGCAAAATAGCGTCATTTTG
1 AAAATAAATCAATTTATAAAAAATAAA-ATAAAAAATTTTAGCATAGCAAAACGGCGTCATTTTG
* * *
30726628 TTCAAAATGAAATAATATTTTGCGGCATTTTT-ATGAAAAACACCGCAAATAATAAATCAATTAA
65 TTCAAAATG--A-AATA----GCGGCGTTTTTGAT-AAAAACGCCGCAAAAAATAAATCAATTAA
* ***
30726692 TAAAAACCAAAATAGCAAAACGGCGTCATTTTGTTCAAAATGAAAAAAAATTTTGTGGCGTTTTT
122 TAAAAACCAAAATAGCAAAACGGCGTCATTTTGTTCAAAATG-GAAACTTTTTTGTGGCGTTTTT
*
30726757 AATAAAAACGCCGCAAAAGATAAGCAATAGCGGCGTTTTTATAAAAAGCACCACAA
186 AATAAAAACGCCGCAAAAGATAAGCAATAGCGGCGTTTTTATAAAAAGCGCCACAA
*
30726813 AAAATAAATCAATTTATAAAAAATAAAATAAAAAATTTTAGCATAGCAAAACGACGTCATTTTGT
1 AAAATAAATCAATTTATAAAAAATAAAATAAAAAATTTTAGCATAGCAAAACGGCGTCATTTTGT
**
30726878 TCAAAATGAAATAGAAGCGTTTTTGAT-AAAACGCCGCAAAAAATAAATCAATTAATAAAAACCA
66 TCAAAATGAAATAGCGGCGTTTTTGATAAAAACGCCGCAAAAAATAAATCAATTAATAAAAACCA
30726942 AAATAGCAAAACGGCGTCATTTTGTTCAAAATGGAAACTTTTTTGTGGCGTTTTTAATAAAAACG
131 AAATAGCAAAACGGCGTCATTTTGTTCAAAATGGAAACTTTTTTGTGGCGTTTTTAATAAAAACG
*
30727007 CCGCAAAAGATAAGCAATAGCGGCGTTTTTATAAAAAGCGCCGCAA
196 CCGCAAAAGATAAGCAATAGCGGCGTTTTTATAAAAAGCGCCACAA
* *
30727053 AAAATAAATCAATTTATAAAAACTAAAATAAAAAATTTTAGCATAGCAAAACGGCGTCATTTTAT
1 AAAATAAATCAATTTATAAAAAATAAAATAAAAAATTTTAGCATAGCAAAACGGCGTCATTTTGT
*
30727118 TCAAAATGAAATAGCGGCGTTTTTGATAAAAACGCCGCAAAAAATAAATCAATTAATAAAAACTA
66 TCAAAATGAAATAGCGGCGTTTTTGATAAAAACGCCGCAAAAAATAAATCAATTAATAAAAACCA
30727183 AAATAGCAAAACGGCGTCATTTTGTTCAAAATGGAAACTTTTTTGTGGCG-TTTTAATAAAAACG
131 AAATAGCAAAACGGCGTCATTTTGTTCAAAATGGAAACTTTTTTGTGGCGTTTTTAATAAAAACG
30727247 CCGCAAAAGATAAGCAATAGCGGCGTTTTTATAAAAAGCGCCACAA
196 CCGCAAAAGATAAGCAATAGCGGCGTTTTTATAAAAAGCGCCACAA
*
30727293 AAAATAAATCAATTTATAAAAAAATAAAATAAAAAATTTTAGCATAGCAAAACGGCATCATTTTG
1 AAAATAAATCAATTTAT-AAAAAATAAAATAAAAAATTTTAGCATAGCAAAACGGCGTCATTTTG
* *
30727358 TTCAAAATGAAATAGCGGCATTTTTGAT-AAAATGCCGCAAAAAATAAATCAATTAATAAAAACC
65 TTCAAAATGAAATAGCGGCGTTTTTGATAAAAACGCCGCAAAAAATAAATCAATTAATAAAAACC
*
30727422 AAAATAGCAAAACGGCGTCATTTTGTTCAAAATAGAAACTTTTTTGTGGCGTTTTTAATAAAAAC
130 AAAATAGCAAAACGGCGTCATTTTGTTCAAAATGGAAACTTTTTTGTGGCGTTTTTAATAAAAAC
30727487 GCCGCAAAAGATAAGCAATAGCGGCGTTTTTAT-AAAAGCGCCACAA
195 GCCGCAAAAGATAAGCAATAGCGGCGTTTTTATAAAAAGCGCCACAA
*
30727533 AAAATAAATCAATTTATAAAAAATAAAATAAAAAATTTTAGCATAGCAAAACGGCGTCATTTTAT
1 AAAATAAATCAATTTATAAAAAATAAAATAAAAAATTTTAGCATAGCAAAACGGCGTCATTTTGT
30727598 TCAAAATGAAATAGCGGCG-TTTT-ATCAAAAACGCCGCAAAAAATAAATCAATTAATAAAAACC
66 TCAAAATGAAATAGCGGCGTTTTTGAT-AAAAACGCCGCAAAAAATAAATCAATTAATAAAAACC
*
30727661 AAAATAGCAAAACGGCGTCATTTTGTTCAAAATAGAAACTTTTTTGTGGCGTTTTTAATAAAAAC
130 AAAATAGCAAAACGGCGTCATTTTGTTCAAAATGGAAACTTTTTTGTGGCGTTTTTAATAAAAAC
* *
30727726 GCCGTAAAAGATAAGCAATAGCGGCGTTTTTATAAAAAGCGCCGCAA
195 GCCGCAAAAGATAAGCAATAGCGGCGTTTTTATAAAAAGCGCCACAA
30727773 AAAATAAATCAATTTATAAAAAAATAAAATAAAAAATTTTTAGCATAGCAAAACGGCGTCATTTT
1 AAAATAAATCAATTTAT-AAAAAATAAAATAAAAAA-TTTTAGCATAGCAAAACGGCGTCATTTT
30727838 GTTCAAAATGA
64 GTTCAAAATGA
30727849 TGGAATTTAA
Statistics
Matches: 989, Mismatches: 36, Indels: 28
0.94 0.03 0.03
Matches are distributed among these distances:
237 2 0.00
238 4 0.00
239 196 0.20
240 378 0.38
241 289 0.29
242 46 0.05
243 2 0.00
246 4 0.00
247 1 0.00
248 4 0.00
249 60 0.06
250 3 0.00
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (241 bp):
AAAATAAATCAATTTATAAAAAATAAAATAAAAAATTTTAGCATAGCAAAACGGCGTCATTTTGT
TCAAAATGAAATAGCGGCGTTTTTGATAAAAACGCCGCAAAAAATAAATCAATTAATAAAAACCA
AAATAGCAAAACGGCGTCATTTTGTTCAAAATGGAAACTTTTTTGTGGCGTTTTTAATAAAAACG
CCGCAAAAGATAAGCAATAGCGGCGTTTTTATAAAAAGCGCCACAA
Found at i:30730158 original size:94 final size:94
Alignment explanation
Indices: 30729976--30730165 Score: 254
Period size: 95 Copynumber: 2.0 Consensus size: 94
30729966 TTAGCCTGAG
* * *
30729976 TGCTTCCTCTTTCATTGCCTCTACGCGCTTCCCTTTTTGTTTTTGAATTTTTAAAGCTGGCAATA
1 TGCTTCCTCTTTCATTGCCTCTACGCGCTTCCCTTTTTGTTTTTAAAGTTCTAAAGCTGGCAATA
* * *
30730041 CCATTCTTGCAGTAGGTACCTTTTTCTCA
66 CCATTATTGCAGCACGTACCTTTTTCTCA
* * * **
30730070 TGCTTCCTCTTTCATTGCCTCTATGCGCTTCCCTTTTTTGTTTTTAAAGTTCTAGAGTTGGTGAT
1 TGCTTCCTCTTTCATTGCCTCTACGCGCTTCCC-TTTTTGTTTTTAAAGTTCTAAAGCTGGCAAT
*
30730135 ACCATTATTGCAGCACGTACTTTTTTTCTCA
65 ACCATTATTGCAGCACGTAC-CTTTTTCTCA
30730166 ATTATTATAA
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
94 32 0.39
95 41 0.50
96 9 0.11
ACGTcount: A:0.16, C:0.24, G:0.14, T:0.46
Consensus pattern (94 bp):
TGCTTCCTCTTTCATTGCCTCTACGCGCTTCCCTTTTTGTTTTTAAAGTTCTAAAGCTGGCAATA
CCATTATTGCAGCACGTACCTTTTTCTCA
Found at i:30731726 original size:43 final size:44
Alignment explanation
Indices: 30731487--30731757 Score: 306
Period size: 43 Copynumber: 6.3 Consensus size: 44
30731477 GAATCGTACT
* * ** *
30731487 TTTAGCGGCGTTTATGATAAAAGTG-CCACTAAAGAGCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGACTGCTAAAGATCATGTTC
*
30731530 TTTAGCGGCGTTTGTGATAAAAACG-CTGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGACTGCTAAAGATCATGTTC
*
30731573 TTTAGCGGCGTTTGTGATAAAAAC-ACTGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGACTGCTAAAGATCATGTTC
*
30731616 TTTAGTGGCGTTTGTGATAAAAGC-ACTGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGACTGCTAAAGATCATGTTC
* * * *
30731659 TTTAGCGGCGTTTATAGGT-AAAGCGTC-GCTAAAGAACATGTTC
1 TTTAGCGGCGTTTGT-GATAAAAGCGACTGCTAAAGATCATGTTC
** * * **
30731702 TTTAGCGGCGTTT-TGATTTTAAGCG-CCGCTAAAGAACATGACC
1 TTTAGCGGCGTTTGTGA-TAAAAGCGACTGCTAAAGATCATGTTC
30731745 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
30731758 ATTTCTGTAA
Statistics
Matches: 205, Mismatches: 17, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
41 1 0.00
42 3 0.01
43 198 0.97
44 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (44 bp):
TTTAGCGGCGTTTGTGATAAAAGCGACTGCTAAAGATCATGTTC
Found at i:30731891 original size:22 final size:22
Alignment explanation
Indices: 30731848--30731891 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
30731838 TAGTGGCGCT
* **
30731848 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAACGCCGCTAAAAACCTA
30731870 AAAAAACGCCGCTAAAAACCTA
1 AAAAAACGCCGCTAAAAACCTA
30731892 TTTTGGTGTA
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:0.48, C:0.27, G:0.16, T:0.09
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAACCTA
Found at i:30743692 original size:17 final size:17
Alignment explanation
Indices: 30743672--30743707 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
30743662 AACTCTTCAA
30743672 ATTTTTAACATGCTTTT
1 ATTTTTAACATGCTTTT
30743689 ATTTTTAACATGCTTTT
1 ATTTTTAACATGCTTTT
30743706 AT
1 AT
30743708 AAATCTTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.25, C:0.11, G:0.06, T:0.58
Consensus pattern (17 bp):
ATTTTTAACATGCTTTT
Found at i:30745433 original size:45 final size:45
Alignment explanation
Indices: 30745364--30745457 Score: 134
Period size: 45 Copynumber: 2.1 Consensus size: 45
30745354 AAGAGATACT
* * *
30745364 CGGTGGATTCAACACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAACACATAGAAACCACCTTACTAATCAATGATGTC
* * *
30745409 CGGTGGAATCAGCACATAGAAACCATCTTACTAATCAATGATGTT
1 CGGTGGAATCAACACATAGAAACCACCTTACTAATCAATGATGTC
30745454 CGGT
1 CGGT
30745458 TCACATAGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAACACATAGAAACCACCTTACTAATCAATGATGTC
Found at i:30745569 original size:51 final size:51
Alignment explanation
Indices: 30745459--30745580 Score: 154
Period size: 51 Copynumber: 2.4 Consensus size: 51
30745449 ATGTTCGGTT
* * ** *
30745459 CACATAGTAGCCTACACATAGTACTACACATGTGACCATTACCATCTGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCATCCGATA
* * * *
30745510 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCAAAACTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCATCCGATA
*
30745561 CGCATAGTAGCCTGCACATA
1 CACATAGTAGCCTGCACATA
30745581 ATCCGTGCCA
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.23
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCATCCGATA
Found at i:30749097 original size:18 final size:18
Alignment explanation
Indices: 30749074--30749109 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
30749064 AAAATTAAAC
*
30749074 GGAAAAACTAAGACTTAA
1 GGAAAAACTAACACTTAA
*
30749092 GGAAAAATTAACACTTAA
1 GGAAAAACTAACACTTAA
30749110 TCACTGAACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.11, G:0.14, T:0.19
Consensus pattern (18 bp):
GGAAAAACTAACACTTAA
Found at i:30751300 original size:19 final size:19
Alignment explanation
Indices: 30751249--30751300 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
30751239 AAAAATATAA
*
30751249 ATTTTGGAATTTTTATAAAT
1 ATTTT-GAATTTTTAAAAAT
*
30751269 ATTTTGAAATTTTAAAAATT
1 ATTTTGAATTTTTAAAAA-T
30751289 ATTTT-AATTTTT
1 ATTTTGAATTTTT
30751301 TTTAATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.58
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAAAT
Found at i:30758996 original size:30 final size:29
Alignment explanation
Indices: 30758962--30759034 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 29
30758952 CAAATATTAC
* *
30758962 TTTTTATTTTATTTTATTATTTATCAGTT
1 TTTTTTTTTTATTTTATTATTTATCAATT
* *
30758991 TTTTTTTGTATT-TTTTCTTATTTCTCAATT
1 TTTTTTT-T-TTATTTTATTATTTATCAATT
*
30759021 TTTTTTTTATATTT
1 TTTTTTTTTTATTT
30759035 GGACTTCGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
28 1 0.03
29 10 0.28
30 23 0.64
31 2 0.06
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.75
Consensus pattern (29 bp):
TTTTTTTTTTATTTTATTATTTATCAATT
Found at i:30759704 original size:108 final size:107
Alignment explanation
Indices: 30759540--30759870 Score: 456
Period size: 108 Copynumber: 3.1 Consensus size: 107
30759530 ATGACATGGA
* * *
30759540 TTGAAATTTAAG-AGGATA-TTTGGCTATTTGGTTC-AACGAGAAATCGAAACCCAGCACGTTAG
1 TTGAAATTTTAGAAGGATATTTTAGCTATTTGG-TCGAACGAAAAATCGAAACCCAGCACGTTAG
*
30759602 AGCACGTTTTCTCGAATTTCCAAACTCAAAATATTGCCTTATT
65 GGCACGTTTTCTCGAATTTCCAAACTCAAAATATTGCCTTATT
* *
30759645 TTGAAATTTTAGAAGGATATTTTAGCTATTTGGTCGAATGAAAAAATCGAAACCTAGCACGTTAG
1 TTGAAATTTTAGAAGGATATTTTAGCTATTTGGTCGAACG-AAAAATCGAAACCCAGCACGTTAG
* * * * *
30759710 GGCGCGCTTTCTCGAACTTCTAAA-TGTAAAATATTGCCTTATT
65 GGCACGTTTTCTCGAATTTCCAAACT-CAAAATATTGCCTTATT
* *
30759753 TTAAAATTTTAAAAGGATATTTTTAGCTATTTGGTCGAACGAAAAATCGAAACCCAGCACGTTAG
1 TTGAAATTTTAGAAGGATA-TTTTAGCTATTTGGTCGAACGAAAAATCGAAACCCAGCACGTTAG
*
30759818 GGCACGTTTTCTCGAACTTT-CAAACGCAAAATATTGCCTTATT
65 GGCACGTTTTCTCGAA-TTTCCAAACTCAAAATATTGCCTTATT
30759861 TTGAAATTTT
1 TTGAAATTTT
30759871 TATTTGGATA
Statistics
Matches: 196, Mismatches: 22, Indels: 13
0.85 0.10 0.06
Matches are distributed among these distances:
105 11 0.06
106 8 0.04
107 16 0.08
108 139 0.71
109 22 0.11
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (107 bp):
TTGAAATTTTAGAAGGATATTTTAGCTATTTGGTCGAACGAAAAATCGAAACCCAGCACGTTAGG
GCACGTTTTCTCGAATTTCCAAACTCAAAATATTGCCTTATT
Found at i:30760121 original size:15 final size:15
Alignment explanation
Indices: 30760091--30760124 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
30760081 GATTAATGAT
30760091 ATAAATAACAATATA
1 ATAAATAACAATATA
30760106 ATAAA-AACAATAATA
1 ATAAATAACAAT-ATA
30760121 ATAA
1 ATAA
30760125 TCAACGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (15 bp):
ATAAATAACAATATA
Found at i:30760275 original size:5 final size:5
Alignment explanation
Indices: 30760261--30760301 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
30760251 AATAATAAGC
*
30760261 AAAT- AAATA AAATA AAATA AAATG AAAT- AAAT- AAATA AAAT
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAAT
30760302 GTAAACTTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
4 12 0.35
5 22 0.65
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (5 bp):
AAATA
Found at i:30761386 original size:15 final size:16
Alignment explanation
Indices: 30761366--30761399 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
30761356 TTGTTTCGAC
30761366 TTTCTTTTT-TTGTTT
1 TTTCTTTTTGTTGTTT
30761381 TTTCTTTTTGTTGTTT
1 TTTCTTTTTGTTGTTT
30761397 TTT
1 TTT
30761400 GTTTGCGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.00, C:0.06, G:0.09, T:0.85
Consensus pattern (16 bp):
TTTCTTTTTGTTGTTT
Found at i:30770155 original size:13 final size:13
Alignment explanation
Indices: 30770116--30770155 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
30770106 TTTAAACTAA
*
30770116 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
* *
30770129 ACTTTTCCATAGC
1 ACTTTTCAAAAGC
30770142 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
30770155 A
1 A
30770156 TTGCCAAATT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:30774560 original size:16 final size:17
Alignment explanation
Indices: 30774533--30774570 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
30774523 CTAAAAATAG
*
30774533 ATTGAGAAAATTATTTA
1 ATTGAGAAAATTAATTA
30774550 ATTGA-AAAATTAATTA
1 ATTGAGAAAATTAATTA
30774566 ATTGA
1 ATTGA
30774571 TTAAATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (17 bp):
ATTGAGAAAATTAATTA
Found at i:30776996 original size:17 final size:17
Alignment explanation
Indices: 30776974--30777008 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
30776964 ACCCAACAAG
30776974 GACAATCTAGAATTGTT
1 GACAATCTAGAATTGTT
30776991 GACAATCTAGAATTGTT
1 GACAATCTAGAATTGTT
30777008 G
1 G
30777009 TACACATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.34
Consensus pattern (17 bp):
GACAATCTAGAATTGTT
Found at i:30781448 original size:4 final size:4
Alignment explanation
Indices: 30781433--30781463 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
30781423 TTGTGGTGAG
30781433 ATTT ATTT -TTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
30781464 TAATACTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
ATTT
Found at i:30782067 original size:16 final size:16
Alignment explanation
Indices: 30782048--30782106 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
30782038 GAGAGGAGAT
30782048 AAATGAAAATGAAAA-A
1 AAATGAAAA-GAAAAGA
*
30782064 AAATTAAAAGAAAAGA
1 AAATGAAAAGAAAAGA
*
30782080 AAAGGAAAAGGAAAAGGA
1 AAATGAAAA-GAAAA-GA
*
30782098 AAAAGAAAA
1 AAATGAAAA
30782107 AGAGAAAAGC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
15 5 0.14
16 16 0.44
17 5 0.14
18 10 0.28
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.07
Consensus pattern (16 bp):
AAATGAAAAGAAAAGA
Found at i:30782072 original size:10 final size:11
Alignment explanation
Indices: 30782052--30782106 Score: 51
Period size: 12 Copynumber: 5.0 Consensus size: 11
30782042 GGAGATAAAT
30782052 GAAAATGAAAA
1 GAAAATGAAAA
*
30782063 -AAAATTAAAA
1 GAAAATGAAAA
30782073 GAAAA-GAAAA
1 GAAAATGAAAA
*
30782083 GGAAAAGGAAAA
1 -GAAAATGAAAA
*
30782095 GGAAAAAGAAAA
1 -GAAAATGAAAA
30782107 AGAGAAAAGC
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
10 13 0.34
11 9 0.24
12 16 0.42
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.05
Consensus pattern (11 bp):
GAAAATGAAAA
Found at i:30782087 original size:6 final size:6
Alignment explanation
Indices: 30782069--30782106 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
30782059 AAAAAAAATT
*
30782069 AAAA-G AAAA-G AAAAGG AAAAGG AAAAGG AAAAAG AAAA
1 AAAAGG AAAAGG AAAAGG AAAAGG AAAAGG AAAAGG AAAA
30782107 AGAGAAAAGC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
5 9 0.29
6 22 0.71
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (6 bp):
AAAAGG
Found at i:30782107 original size:6 final size:6
Alignment explanation
Indices: 30782069--30782115 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
30782059 AAAAAAAATT
* * *
30782069 AAAAG- AAAAGA AAAGGA AAAGGA AAAGGA AAAAGA AAAAGA GAAAAG
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA -AAAAG
30782116 CGAGAGAGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 5 0.13
6 28 0.74
7 5 0.13
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:30782186 original size:33 final size:32
Alignment explanation
Indices: 30782149--30782246 Score: 142
Period size: 33 Copynumber: 2.9 Consensus size: 32
30782139 TGAATGAAAC
30782149 GAGTGCAAAAGAAAGAGAGCTTGAAAAGAAAAT
1 GAGTG-AAAAGAAAGAGAGCTTGAAAAGAAAAT
30782182 GAGTGAAAAAGAAAGAGAGCTTGAAAAGAAAAT
1 GAGTG-AAAAGAAAGAGAGCTTGAAAAGAAAAT
* *
30782215 AAGTGAAAGAGAGAGAGAGCTTGAAAAAGAAA
1 GAGTGAAA-AGAAAGAGAGCTTG-AAAAGAAA
30782247 CGTGTGAAGA
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
32 3 0.05
33 49 0.82
34 8 0.13
ACGTcount: A:0.56, C:0.04, G:0.29, T:0.11
Consensus pattern (32 bp):
GAGTGAAAAGAAAGAGAGCTTGAAAAGAAAAT
Found at i:30782190 original size:15 final size:15
Alignment explanation
Indices: 30782170--30782222 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 15
30782160 AAAGAGAGCT
30782170 TGAAAAGAAAATGAG
1 TGAAAAGAAAATGAG
30782185 TGAAAAAGAAAGA-GAG
1 TG-AAAAGAAA-ATGAG
*
30782201 CTTGAAAAGAAAATAAG
1 --TGAAAAGAAAATGAG
30782218 TGAAA
1 TGAAA
30782223 GAGAGAGAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
15 7 0.22
16 12 0.38
17 11 0.34
18 2 0.06
ACGTcount: A:0.60, C:0.02, G:0.25, T:0.13
Consensus pattern (15 bp):
TGAAAAGAAAATGAG
Found at i:30782254 original size:33 final size:31
Alignment explanation
Indices: 30782144--30782265 Score: 129
Period size: 33 Copynumber: 3.7 Consensus size: 31
30782134 AAATATGAAT
30782144 GAAACGAGTGCAAAAGAAAGAGAGCTTGAAAA
1 GAAACGAGTG-AAAAGAAAGAGAGCTTGAAAA
*
30782176 GAAAATGAGTGAAAAAGAAAGAGAGCTTGAAAA
1 G-AAACGAGTG-AAAAGAAAGAGAGCTTGAAAA
** *
30782209 GAAAATAAGTGAAAGAGAGAGAGAGCTTGAAAAA
1 G-AAACGAGTGAAA-AGAAAGAGAGCTTG-AAAA
*
30782243 GAAACGTGTGAAGAAG-AAGAGAG
1 GAAACGAGTGAA-AAGAAAGAGAG
30782266 TGCTCAAACA
Statistics
Matches: 78, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
32 10 0.13
33 62 0.79
34 6 0.08
ACGTcount: A:0.54, C:0.05, G:0.30, T:0.11
Consensus pattern (31 bp):
GAAACGAGTGAAAAGAAAGAGAGCTTGAAAA
Found at i:30786265 original size:24 final size:24
Alignment explanation
Indices: 30786216--30786275 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
30786206 ATCATTAATA
* *
30786216 AATAAACGAG-TCATAAAAAAGTC
1 AATAAACGAGCTTATAAAAAAGCC
**
30786239 AATAAACGAGCTTATAAACGAGCC
1 AATAAACGAGCTTATAAAAAAGCC
*
30786263 AATAAACAAGCTT
1 AATAAACGAGCTT
30786276 TTCATTGTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
23 10 0.32
24 21 0.68
ACGTcount: A:0.52, C:0.17, G:0.13, T:0.18
Consensus pattern (24 bp):
AATAAACGAGCTTATAAAAAAGCC
Found at i:30793584 original size:30 final size:30
Alignment explanation
Indices: 30793548--30793607 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
30793538 CGAAATATCG
*
30793548 GTCATAAGCCCAATCCTATCTGCCCCATCA
1 GTCATAAACCCAATCCTATCTGCCCCATCA
* *
30793578 GTCATAAACTCAATCTTATCTGCCCCATCA
1 GTCATAAACCCAATCCTATCTGCCCCATCA
30793608 TTATCTGTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.37, G:0.08, T:0.27
Consensus pattern (30 bp):
GTCATAAACCCAATCCTATCTGCCCCATCA
Found at i:30804222 original size:27 final size:27
Alignment explanation
Indices: 30804192--30804243 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
30804182 TATTGAAGGA
30804192 GTTAGTACTGATTTATTTATTTATTGG
1 GTTAGTACTGATTTATTTATTTATTGG
30804219 GTTAGTACTGATTTATTTATTTATT
1 GTTAGTACTGATTTATTTATTTATT
30804244 TATTTTTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.23, C:0.04, G:0.15, T:0.58
Consensus pattern (27 bp):
GTTAGTACTGATTTATTTATTTATTGG
Found at i:30805558 original size:16 final size:16
Alignment explanation
Indices: 30805539--30805579 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
30805529 ATTACAGCTT
30805539 TATTCCATTATAGCCC
1 TATTCCATTATAGCCC
30805555 TATTCCATTATAGCCC
1 TATTCCATTATAGCCC
30805571 TATTCCATT
1 TATTCCATT
30805580 TCAATGAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.24, C:0.29, G:0.05, T:0.41
Consensus pattern (16 bp):
TATTCCATTATAGCCC
Found at i:30807434 original size:17 final size:17
Alignment explanation
Indices: 30807412--30807455 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
30807402 CCTTTAGAAC
*
30807412 TTTTTTTAGAATTTTTA
1 TTTTTTTAGAATTTATA
30807429 TTTTTTTA-AATTTATA
1 TTTTTTTAGAATTTATA
*
30807445 ATTTTTTAGAA
1 TTTTTTTAGAA
30807456 AATATAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (17 bp):
TTTTTTTAGAATTTATA
Found at i:30808493 original size:28 final size:28
Alignment explanation
Indices: 30808437--30808493 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
30808427 AAGTAAAAAC
* * ** *
30808437 AGAAACGTTAAAATAATTTTTTTTTTAT
1 AGAAACATTAAAAGAATTTTAATTATAT
30808465 AGAAACATTAAAAGAATTTTAATTATAT
1 AGAAACATTAAAAGAATTTTAATTATAT
30808493 A
1 A
30808494 TGATCTAAAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (28 bp):
AGAAACATTAAAAGAATTTTAATTATAT
Found at i:30810532 original size:18 final size:18
Alignment explanation
Indices: 30810505--30810597 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
30810495 TACGACCGTT
30810505 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
30810523 TACGGCACTATTTACGTA
1 TACGGTACTATTCACGTA
30810541 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
30810559 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
30810577 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
30810595 TAC
1 TAC
30810598 AGTAGTTGGG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:30810552 original size:36 final size:36
Alignment explanation
Indices: 30810505--30810597 Score: 168
Period size: 36 Copynumber: 2.6 Consensus size: 36
30810495 TACGACCGTT
*
30810505 TACGGTACTATTCACGTATACGGCACTATTTACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
30810541 TACGGTACTATTCACGTATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
*
30810577 TACGGTACTGTTCACGTATAC
1 TACGGTACTATTCACGTATAC
30810598 AGTAGTTGGG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGGCACTATTCACGTA
Found at i:30819399 original size:14 final size:13
Alignment explanation
Indices: 30819378--30819417 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
30819368 AAATTATATC
*
30819378 AAATTAAATTATA
1 AAATTAAATCATA
30819391 AATATTAAATCATA
1 AA-ATTAAATCATA
30819405 AAATTAAA-CATA
1 AAATTAAATCATA
30819417 A
1 A
30819418 TAGAGGGGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 5 0.20
13 8 0.32
14 12 0.48
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (13 bp):
AAATTAAATCATA
Found at i:30822936 original size:38 final size:39
Alignment explanation
Indices: 30822861--30822937 Score: 102
Period size: 38 Copynumber: 2.0 Consensus size: 39
30822851 TAGGATATGG
* * *
30822861 AGGATGATCAGTTGGGGCATGATAACCCAATGTAGCAAC
1 AGGATCATCAGTTGGAGCATGATAACCCAATGAAGCAAC
* *
30822900 AGGATCATCAGTT-GAGCATGATGACCCCATGAAGCAAC
1 AGGATCATCAGTTGGAGCATGATAACCCAATGAAGCAAC
30822938 GACAACAACA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
38 21 0.64
39 12 0.36
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (39 bp):
AGGATCATCAGTTGGAGCATGATAACCCAATGAAGCAAC
Found at i:30823123 original size:398 final size:399
Alignment explanation
Indices: 30822218--30823231 Score: 1662
Period size: 398 Copynumber: 2.6 Consensus size: 399
30822208 AAAATCAAGA
30822218 GGAAGAGATAGCAGCTCC-ACACAAGAGCATGATGGGGAAATAGGTAAGTTGA-TTTT-TT-TTT
1 GGAAGAGATAGCAGCTCCAACACAAGAGCATGATGGGGAAATAGGTAAGTTGATTTTTCTTCTTT
30822279 ACATAACCTTAACATGGGGATTGTGTCTAAATGAGAGACATGGGGACTCTCATTACAACTTGCTC
66 ACATAACCTTAACATGGGGATTGTGTCTAAATGAGAGACATGGGGACTCTCATTACAACTTGCTC
* * *
30822344 TCTCATTTTGATAATGTTTGATAGATATTTTCCAAACCAAATTCACTATCTAATATTACTTGTTA
131 TCTCATTTTGATAATGTTCGTTAGATATTTTCCAAACCAAATTCACTATCTAATATTACTTATTA
* * *
30822409 GATTTAAGTTATTTAAATTTCTATAGAGAACTTAGATCAGCTCTGGGATATGGAGGATGATCAAT
196 GATTTAAGTTATTTAAATTTTTGTAGAGAACTTAGATCAGCTCTAGGATATGGAGGATGATCAAT
*
30822474 TAGGGCATGATAACCCAATGCAGCAACAGGATCACCAGTTGGGGCATGATGACCCCATGAAGCAA
261 TAGGGCATGATAACCCAATGCAGCAACAGGATCACCAGTTGGAGCATGATGACCCCATGAAGCAA
*
30822539 CAGCAACAACAACAACAGATGGATCATGAAGATCCGTTGGGGCATGATGACCCCATGAAGCAAGA
326 CAGCAACAACAACAACAGATGGATCATGAAGATCCATTGGGGCATGATGACCCCATGAAGCAAGA
30822604 GCAGCTGAT
391 GCAGCTGAT
* *
30822613 GGAAGAGATAGCAGCTCCAACATAAGAGCATGATGGAGAAATAGGTAAGTTGATTTTTCTTCTTT
1 GGAAGAGATAGCAGCTCCAACACAAGAGCATGATGGGGAAATAGGTAAGTTGATTTTTCTTCTTT
*
30822678 ACATAACCTTAACATGGGGATTGTGTCTAAATAAGAGACATGGGGACTCTCATTACAACTTGCTC
66 ACATAACCTTAACATGGGGATTGTGTCTAAATGAGAGACATGGGGACTCTCATTACAACTTGCTC
* *
30822743 TCTCATTTTGATAATGTTCGTTAGATATTTTCTAAACCAAATTTACTATCTAATATTACTTATTA
131 TCTCATTTTGATAATGTTCGTTAGATATTTTCCAAACCAAATTCACTATCTAATATTACTTATTA
* * *
30822808 GATTTAAGTTATTTAAATTTTTGTAGAGAACTTATATCAGTTCTAGGATATGGAGGATGATCAGT
196 GATTTAAGTTATTTAAATTTTTGTAGAGAACTTAGATCAGCTCTAGGATATGGAGGATGATCAAT
* * *
30822873 TGGGGCATGATAACCCAATGTAGCAACAGGATCATCAGTT-GAGCATGATGACCCCATGAAGCAA
261 TAGGGCATGATAACCCAATGCAGCAACAGGATCACCAGTTGGAGCATGATGACCCCATGAAGCAA
* * * *
30822937 C-GACAACAACAACAACAGATGGATCATGATGATTCATTGGGGCATGATGACCCCATGAAGTAGG
326 CAG-CAACAACAACAACAGATGGATCATGAAGATCCATTGGGGCATGATGACCCCATGAAGCAAG
*
30823001 AGCAGTTGAT
390 AGCAGCTGAT
* *
30823011 GGAAGAAATAACAGCTCCAACACAAGAGCATGATGGGGAAATAGGTAAGTTGATTTTTCTTCTTT
1 GGAAGAGATAGCAGCTCCAACACAAGAGCATGATGGGGAAATAGGTAAGTTGATTTTTCTTCTTT
* * * * * *
30823076 ACATAACCTTAACAAGGGGATTATGTCTTAATGAGAGACATGGGGACTCTTAATACAACTTGCTT
66 ACATAACCTTAACATGGGGATTGTGTCTAAATGAGAGACATGGGGACTCTCATTACAACTTGCTC
* * *
30823141 TCTCATTTTGATAATGTTCGTTAGCTATTTTCCAAACCGAATTCATTATCTAATATTACTTATTA
131 TCTCATTTTGATAATGTTCGTTAGATATTTTCCAAACCAAATTCACTATCTAATATTACTTATTA
30823206 GATTTAAGTTATTTAAATTTTTGTAG
196 GATTTAAGTTATTTAAATTTTTGTAG
30823232 TTTACAAACT
Statistics
Matches: 574, Mismatches: 40, Indels: 7
0.92 0.06 0.01
Matches are distributed among these distances:
395 18 0.03
396 32 0.06
397 5 0.01
398 296 0.52
399 223 0.39
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (399 bp):
GGAAGAGATAGCAGCTCCAACACAAGAGCATGATGGGGAAATAGGTAAGTTGATTTTTCTTCTTT
ACATAACCTTAACATGGGGATTGTGTCTAAATGAGAGACATGGGGACTCTCATTACAACTTGCTC
TCTCATTTTGATAATGTTCGTTAGATATTTTCCAAACCAAATTCACTATCTAATATTACTTATTA
GATTTAAGTTATTTAAATTTTTGTAGAGAACTTAGATCAGCTCTAGGATATGGAGGATGATCAAT
TAGGGCATGATAACCCAATGCAGCAACAGGATCACCAGTTGGAGCATGATGACCCCATGAAGCAA
CAGCAACAACAACAACAGATGGATCATGAAGATCCATTGGGGCATGATGACCCCATGAAGCAAGA
GCAGCTGAT
Found at i:30835605 original size:17 final size:16
Alignment explanation
Indices: 30835578--30835609 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
30835568 AATTTTTATA
30835578 TTAATTATATATAATT
1 TTAATTATATATAATT
30835594 TTAATATATATATAAT
1 TTAAT-TATATATAAT
30835610 ACATCAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAATTATATATAATT
Found at i:30835746 original size:21 final size:21
Alignment explanation
Indices: 30835720--30835764 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
30835710 CTTAACAAGA
*
30835720 AAATGTCTCTAAAATGATAAC
1 AAATGTCTCTAAAATAATAAC
*
30835741 AAATGTCTTTAAAATAATAAC
1 AAATGTCTCTAAAATAATAAC
30835762 AAA
1 AAA
30835765 ATTAACAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.53, C:0.11, G:0.07, T:0.29
Consensus pattern (21 bp):
AAATGTCTCTAAAATAATAAC
Found at i:30841159 original size:10 final size:10
Alignment explanation
Indices: 30841144--30841168 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
30841134 AGTAGTTATT
30841144 TTTCTGTTAC
1 TTTCTGTTAC
30841154 TTTCTGTTAC
1 TTTCTGTTAC
30841164 TTTCT
1 TTTCT
30841169 TTCCTTGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.20, G:0.08, T:0.64
Consensus pattern (10 bp):
TTTCTGTTAC
Found at i:30847262 original size:17 final size:17
Alignment explanation
Indices: 30847240--30847273 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
30847230 TATTATATAT
*
30847240 GTTGTTGTTGGTAGTGG
1 GTTGTTGGTGGTAGTGG
30847257 GTTGTTGGTGGTAGTGG
1 GTTGTTGGTGGTAGTGG
30847274 ATTAGTGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.00, G:0.50, T:0.44
Consensus pattern (17 bp):
GTTGTTGGTGGTAGTGG
Found at i:30851882 original size:20 final size:20
Alignment explanation
Indices: 30851857--30851906 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
30851847 TGGCTTAAAA
30851857 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
30851877 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
30851894 GTGGTAGTGGATT
1 TTGGTAGTGGATT
30851907 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:30853790 original size:14 final size:14
Alignment explanation
Indices: 30853771--30853806 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
30853761 CTTAATTACA
30853771 AAAGAAAATTAAAT
1 AAAGAAAATTAAAT
30853785 AAAGAAAATTAAAT
1 AAAGAAAATTAAAT
*
30853799 AGAGAAAA
1 AAAGAAAA
30853807 AAAGCCTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (14 bp):
AAAGAAAATTAAAT
Found at i:30854173 original size:17 final size:17
Alignment explanation
Indices: 30854151--30854183 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
30854141 TGAGTTTGTT
30854151 TAAAT-ATTATTAAATAA
1 TAAATAATTA-TAAATAA
30854168 TAAATAATTATAAATA
1 TAAATAATTATAAATA
30854184 CATACTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAATAATTATAAATAA
Found at i:30854752 original size:13 final size:12
Alignment explanation
Indices: 30854732--30854771 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
30854722 TTAATGTATA
30854732 ATTTTAATATTT
1 ATTTTAATATTT
30854744 ATTTCTAATATTT
1 ATTT-TAATATTT
*
30854757 ATTTATAATAATT
1 ATTT-TAATATTT
30854770 AT
1 AT
30854772 AATTAAGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 4 0.16
13 21 0.84
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (12 bp):
ATTTTAATATTT
Found at i:30855568 original size:17 final size:17
Alignment explanation
Indices: 30855546--30855578 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
30855536 ATATTTAATA
30855546 TATATTTGATTAAAAAG
1 TATATTTGATTAAAAAG
30855563 TATATTTGATTAAAAA
1 TATATTTGATTAAAAA
30855579 TAAAACATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
TATATTTGATTAAAAAG
Found at i:30860949 original size:20 final size:20
Alignment explanation
Indices: 30860926--30860976 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
30860916 AATCAAGTGC
30860926 AAATGATTTTAACCAAGTCA
1 AAATGATTTTAACCAAGTCA
* * *
30860946 AAATGA-TTCAATCAAGTTA
1 AAATGATTTTAACCAAGTCA
*
30860965 AAATCATTTTAA
1 AAATGATTTTAA
30860977 AATGATTTTC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.33
Consensus pattern (20 bp):
AAATGATTTTAACCAAGTCA
Found at i:30860961 original size:19 final size:20
Alignment explanation
Indices: 30860916--30860973 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 20
30860906 ACAATTTTAA
*
30860916 AATCAAGTGC-AAATGATTTT
1 AATCAAGT-CAAAATGATTTC
*
30860936 AACCAAGTCAAAATGA-TTC
1 AATCAAGTCAAAATGATTTC
* *
30860955 AATCAAGTTAAAATCATTT
1 AATCAAGTCAAAATGATTT
30860974 TAAAATGATT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (20 bp):
AATCAAGTCAAAATGATTTC
Found at i:30868980 original size:20 final size:20
Alignment explanation
Indices: 30868957--30869008 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 20
30868947 AATCAAGTGC
*
30868957 AAATGATTTTAACCAAGTCA
1 AAATAATTTTAACCAAGTCA
* * **
30868977 AAATAATTTCAATCAAGTTT
1 AAATAATTTTAACCAAGTCA
*
30868997 AAATCATTTTAA
1 AAATAATTTTAA
30869009 AATGATTTTC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.37
Consensus pattern (20 bp):
AAATAATTTTAACCAAGTCA
Found at i:30869195 original size:20 final size:22
Alignment explanation
Indices: 30869172--30869215 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
30869162 TGTTTTCGGT
*
30869172 ATCGATAC-TTT-TTGAAAATA
1 ATCGATACATTTCTTAAAAATA
30869192 ATCGATACATTTCTTAAAAATA
1 ATCGATACATTTCTTAAAAATA
30869214 AT
1 AT
30869216 ACAAAAATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 3 0.14
22 10 0.48
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (22 bp):
ATCGATACATTTCTTAAAAATA
Found at i:30881356 original size:87 final size:87
Alignment explanation
Indices: 30881182--30881345 Score: 233
Period size: 87 Copynumber: 1.9 Consensus size: 87
30881172 AAATTTAAAT
*
30881182 TCGGTGAATTCATCAAGTCCGTCTCAATATGACCACCCAAACTCTGGGATATGAACTCATTAAGA
1 TCGGTGAATTCATCAAGTCCGTCTCAATAGGACCACCCAAACTCTGGGATATGAACTCATTAAGA
30881247 GTAATAAACTCAACCTCACATG
66 GTAATAAACTCAACCTCACATG
* * * * * **
30881269 TCGGTGAATTCGTCAAGTCTGTCTCAATAGGACCACCCAATC-CTGTGATATGAATTTGTTAAGA
1 TCGGTGAATTCATCAAGTCCGTCTCAATAGGACCACCCAAACTCTGGGATATGAACTCATTAAGA
*
30881333 GTGAT-AACTCAAC
66 GTAATAAACTCAAC
30881346 ATTATACATG
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
85 8 0.12
86 22 0.32
87 38 0.56
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.27
Consensus pattern (87 bp):
TCGGTGAATTCATCAAGTCCGTCTCAATAGGACCACCCAAACTCTGGGATATGAACTCATTAAGA
GTAATAAACTCAACCTCACATG
Found at i:30886350 original size:44 final size:43
Alignment explanation
Indices: 30886297--30886386 Score: 128
Period size: 44 Copynumber: 2.1 Consensus size: 43
30886287 TTGCTTTAAC
*
30886297 TTTCCCACTTAAACTCTT-TTAAGTATAAGTTATTTTAATATTTG
1 TTTCCCACTTAAAATCTTATT-AGTATAAGTTATTTTAATA-TTG
* *
30886341 TTTCTCACTTAAAATCTTATTAGTGTAAGTTATTTTAATATTG
1 TTTCCCACTTAAAATCTTATTAGTATAAGTTATTTTAATATTG
30886384 TTT
1 TTT
30886387 GACCTACAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 6 0.14
44 34 0.81
45 2 0.05
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.52
Consensus pattern (43 bp):
TTTCCCACTTAAAATCTTATTAGTATAAGTTATTTTAATATTG
Found at i:30890910 original size:24 final size:24
Alignment explanation
Indices: 30890883--30890932 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
30890873 CGGGCTTAAG
30890883 GACTAAGTTGTGAAAATGTTAAAA
1 GACTAAGTTGTGAAAATGTTAAAA
30890907 GACTAAGTTGTGAAAATGTTAAAA
1 GACTAAGTTGTGAAAATGTTAAAA
30890931 GA
1 GA
30890933 GATGTAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.46, C:0.04, G:0.22, T:0.28
Consensus pattern (24 bp):
GACTAAGTTGTGAAAATGTTAAAA
Found at i:30899123 original size:2 final size:2
Alignment explanation
Indices: 30899116--30899144 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
30899106 CGTTAAAAAC
30899116 AT AT 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 AT AT A
30899145 GTTGCATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30901037 original size:79 final size:79
Alignment explanation
Indices: 30900948--30901107 Score: 320
Period size: 79 Copynumber: 2.0 Consensus size: 79
30900938 CTTGGTAGAG
30900948 TTGAAAAATAATAGGAAAGAAAATTATTTTAGTTCAAAATTATGTATTTTTCAAAATTTTCATTT
1 TTGAAAAATAATAGGAAAGAAAATTATTTTAGTTCAAAATTATGTATTTTTCAAAATTTTCATTT
30901013 TATTTCTTTTTTTT
66 TATTTCTTTTTTTT
30901027 TTGAAAAATAATAGGAAAGAAAATTATTTTAGTTCAAAATTATGTATTTTTCAAAATTTTCATTT
1 TTGAAAAATAATAGGAAAGAAAATTATTTTAGTTCAAAATTATGTATTTTTCAAAATTTTCATTT
30901092 TATTTCTTTTTTTT
66 TATTTCTTTTTTTT
30901106 TT
1 TT
30901108 TAAGTTTACC
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 81 1.00
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.51
Consensus pattern (79 bp):
TTGAAAAATAATAGGAAAGAAAATTATTTTAGTTCAAAATTATGTATTTTTCAAAATTTTCATTT
TATTTCTTTTTTTT
Found at i:30902682 original size:17 final size:17
Alignment explanation
Indices: 30902660--30902695 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
30902650 CGATTGCATG
30902660 TTTCTATTGCTGTTTAT
1 TTTCTATTGCTGTTTAT
30902677 TTTCTATTGCTGTTTAT
1 TTTCTATTGCTGTTTAT
30902694 TT
1 TT
30902696 CCCTTTGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.11, T:0.67
Consensus pattern (17 bp):
TTTCTATTGCTGTTTAT
Found at i:30903158 original size:32 final size:34
Alignment explanation
Indices: 30903095--30903158 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
30903085 TCTAATAATT
* *
30903095 TCACTATTATAAAACTATTTTCCTTAAAAGAATG
1 TCACTATTATAAAACCATTCTCCTTAAAAGAATG
30903129 TCAC-ATTATAAAACCATTCT-CTTAAAAGAA
1 TCACTATTATAAAACCATTCTCCTTAAAAGAA
30903159 AATCGAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 10 0.36
33 14 0.50
34 4 0.14
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (34 bp):
TCACTATTATAAAACCATTCTCCTTAAAAGAATG
Found at i:30903997 original size:23 final size:23
Alignment explanation
Indices: 30903926--30904000 Score: 72
Period size: 23 Copynumber: 3.4 Consensus size: 23
30903916 GTGGTTTGTT
*
30903926 CTGGAAATTGTTTTGATAGTCTG
1 CTGGAAATTGTTTTGATTGTCTG
*
30903949 TTGGACAA-TGTTATTGA-T-T-TG
1 CTGGA-AATTGTT-TTGATTGTCTG
30903970 -T-GAAATTGTTTTGATTGTCTG
1 CTGGAAATTGTTTTGATTGTCTG
30903991 CTGGAAATTG
1 CTGGAAATTG
30904001 AATTTGTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 16
0.70 0.03 0.27
Matches are distributed among these distances:
18 6 0.14
19 7 0.17
20 2 0.05
21 4 0.10
22 2 0.05
23 15 0.36
24 6 0.14
ACGTcount: A:0.23, C:0.07, G:0.25, T:0.45
Consensus pattern (23 bp):
CTGGAAATTGTTTTGATTGTCTG
Found at i:30904012 original size:42 final size:41
Alignment explanation
Indices: 30903920--30904012 Score: 100
Period size: 42 Copynumber: 2.2 Consensus size: 41
30903910 CGATTGGTGG
* * *
30903920 TTTGTTCTG-GAAATTGTTTTGATAGTCTGTTGGACAATGT
1 TTTGTTTTGTGAAATTGTTTTGATAGTCTGCTGGACAATGA
* *
30903960 TATTGATTTGTGAAATTGTTTTGATTGTCTGCTGGA-AATTGAA
1 T-TTGTTTTGTGAAATTGTTTTGATAGTCTGCTGGACAA-TG-A
30904003 TTTGTTTTGT
1 TTTGTTTTGT
30904013 TAGTCAGTAG
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
40 1 0.02
41 8 0.19
42 33 0.77
43 1 0.02
ACGTcount: A:0.20, C:0.05, G:0.24, T:0.51
Consensus pattern (41 bp):
TTTGTTTTGTGAAATTGTTTTGATAGTCTGCTGGACAATGA
Found at i:30908373 original size:92 final size:91
Alignment explanation
Indices: 30908216--30908424 Score: 278
Period size: 92 Copynumber: 2.3 Consensus size: 91
30908206 TTGATTTTAG
* * *
30908216 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
30908281 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
30908308 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
30908372 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
30908400 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
30908425 GTTATAATTA
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 71 0.68
93 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Done.