Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 37 of 228
Found at i:11176814 original size:20 final size:19
Alignment explanation
Indices: 11176765--11176814 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
11176755 AATGTAAATA
*
11176765 TTTTATTGAATAAAGTTTTG
1 TTTTATTG-ATAAAGTTATG
* *
11176785 GTTTAGTGATAAAGTTAATG
1 TTTTATTGATAAAGTT-ATG
11176805 TTTTATTGAT
1 TTTTATTGAT
11176815 GTAAATAGTA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (19 bp):
TTTTATTGATAAAGTTATG
Found at i:11179978 original size:58 final size:57
Alignment explanation
Indices: 11179871--11180062 Score: 181
Period size: 58 Copynumber: 3.3 Consensus size: 57
11179861 TTAATATAAT
* * * *
11179871 ATTTGGTACATGAACTTCACACTTTTTC-TAATTTGGCATCTAAACTTTTTTTGGTCCA
1 ATTTGGTAC-TAAACTTCACACTTTTTCTTAATTTGGTA-CTTAATTTTTTTTGGTCCA
* * *
11179929 ATTTGGTACTCAAACTTTACACTTTTTCTTAAGTTGGTACTTAATTTTTTTGGAGTCCA
1 ATTTGGTACT-AAACTTCACACTTTTTCTTAATTTGGTACTTAATTTTTTTTG-GTCCA
* * * ** * *
11179988 ATTTGGTACTGAACTTGACTA-TTTTTCTTAATTTGGTACCTAATCTTTTTTTTATTCG
1 ATTTGGTACTAAACTTCAC-ACTTTTTCTTAATTTGGTACTTAAT-TTTTTTTGGTCCA
11180046 ATTTGGTACTTAAACTT
1 ATTTGGTAC-TAAACTT
11180063 ATCAAACGTT
Statistics
Matches: 111, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
57 1 0.01
58 74 0.67
59 36 0.32
ACGTcount: A:0.23, C:0.16, G:0.12, T:0.48
Consensus pattern (57 bp):
ATTTGGTACTAAACTTCACACTTTTTCTTAATTTGGTACTTAATTTTTTTTGGTCCA
Found at i:11180037 original size:59 final size:58
Alignment explanation
Indices: 11179871--11180038 Score: 198
Period size: 58 Copynumber: 2.9 Consensus size: 58
11179861 TTAATATAAT
* * * *
11179871 ATTTGGTACATGAACTTCACACTTTTTC-TAATTTGGCATCTAAACTTTTTTTGGTCCA
1 ATTTGGTAC-TGAACTTCACACTTTTTCTTAATTTGGTACCTAATCTTTTTTGGGTCCA
* * * *
11179929 ATTTGGTACTCAAACTTTACACTTTTTCTTAAGTTGGTACTTAAT-TTTTTTGGAGTCCA
1 ATTTGGTACT-GAACTTCACACTTTTTCTTAATTTGGTACCTAATCTTTTTTGG-GTCCA
*
11179988 ATTTGGTACTGAACTTGACTA-TTTTTCTTAATTTGGTACCTAATCTTTTTT
1 ATTTGGTACTGAACTTCAC-ACTTTTTCTTAATTTGGTACCTAATCTTTTTT
11180039 TTATTCGATT
Statistics
Matches: 93, Mismatches: 12, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
57 1 0.01
58 59 0.63
59 33 0.35
ACGTcount: A:0.23, C:0.16, G:0.12, T:0.48
Consensus pattern (58 bp):
ATTTGGTACTGAACTTCACACTTTTTCTTAATTTGGTACCTAATCTTTTTTGGGTCCA
Found at i:11180248 original size:31 final size:32
Alignment explanation
Indices: 11180210--11180279 Score: 106
Period size: 31 Copynumber: 2.2 Consensus size: 32
11180200 TTAATATAAC
*
11180210 ATTTGGTACTTGAACTTGACACTTTTT-CTTA
1 ATTTGGTACTTGAACTTGACACTTTTTCCCTA
* *
11180241 ATTTGGTACTTGAACTTGGCATTTTTTCCCTA
1 ATTTGGTACTTGAACTTGACACTTTTTCCCTA
11180273 ATTTGGT
1 ATTTGGT
11180280 TGCTAAACTT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
31 25 0.71
32 10 0.29
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.49
Consensus pattern (32 bp):
ATTTGGTACTTGAACTTGACACTTTTTCCCTA
Found at i:11196391 original size:20 final size:19
Alignment explanation
Indices: 11196342--11196391 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
11196332 AATGTAAATA
*
11196342 TTTTATTGAATAAAGTTTTG
1 TTTTATTG-ATAAAGTTATG
* *
11196362 GTTTAGTGATAAAGTTAATG
1 TTTTATTGATAAAGTT-ATG
11196382 TTTTATTGAT
1 TTTTATTGAT
11196392 GTAAATAGTA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (19 bp):
TTTTATTGATAAAGTTATG
Found at i:11199577 original size:58 final size:57
Alignment explanation
Indices: 11199478--11199623 Score: 161
Period size: 58 Copynumber: 2.5 Consensus size: 57
11199468 GCATCTAAAC
* *
11199478 TTTTTTTGGTCCAATTTGGTACTCAAACTTTACACTTTTTCTTAAGTTGGTACTTAA
1 TTTTTTTGGTCCAATTTGGTACTCAAACTTGACACTTTTTCTTAAGTTGGTACCTAA
* *
11199535 TTTTTTTGGAGTCCAATTTGGTACT-GAACTTGACTA-TTTTTCTTAATTTGGTACCTAA
1 TTTTTTT-G-GTCCAATTTGGTACTCAAACTTGAC-ACTTTTTCTTAAGTTGGTACCTAA
** * * *
11199593 TCTTTTTTTATTCGATTTGGTACTTAAACTT
1 T-TTTTTTGGTCCAATTTGGTACTCAAACTT
11199624 ATCAAACGTT
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
57 19 0.25
58 34 0.45
59 22 0.29
ACGTcount: A:0.22, C:0.14, G:0.13, T:0.51
Consensus pattern (57 bp):
TTTTTTTGGTCCAATTTGGTACTCAAACTTGACACTTTTTCTTAAGTTGGTACCTAA
Found at i:11200224 original size:57 final size:55
Alignment explanation
Indices: 11200140--11200305 Score: 172
Period size: 57 Copynumber: 2.9 Consensus size: 55
11200130 AATCGAATAA
* *
11200140 AAAAAAGATTAGGTACCAAATTAAGAAAAATAGTCAAGTTCAGTACCAAATTGGACTC
1 AAAAAA-ATTAAGTACCAAATTAAGAAAAAT-GTAAAGTTCAGTACCAAATTGGAC-C
* * * *
11200198 CAAAAAATTAAGTACCAACTTAAGAAAAGTGTAAAGTTTGAGTACCAAATTGGACC
1 AAAAAAATTAAGTACCAAATTAAGAAAAATGTAAAG-TTCAGTACCAAATTGGACC
* * *
11200254 AAAAAAAGTTTAGATGCCAAATT-AGAAAAAGTGTGAAGTTCATGTACCAAAT
1 AAAAAAA-TTAAG-TACCAAATTAAGAAAAA-TGTAAAGTTCA-GTACCAAAT
11200306 ATTATATTAA
Statistics
Matches: 90, Mismatches: 13, Indels: 10
0.80 0.12 0.09
Matches are distributed among these distances:
56 12 0.13
57 51 0.57
58 27 0.30
ACGTcount: A:0.48, C:0.13, G:0.16, T:0.23
Consensus pattern (55 bp):
AAAAAAATTAAGTACCAAATTAAGAAAAATGTAAAGTTCAGTACCAAATTGGACC
Found at i:11204783 original size:14 final size:15
Alignment explanation
Indices: 11204758--11204800 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
11204748 TAGAAAGTGG
11204758 TGTAATTAATTGATA
1 TGTAATTAATTGATA
*
11204773 TGTAA-TAATTGGTA
1 TGTAATTAATTGATA
*
11204787 TGAAATTAAATTGA
1 TGTAATT-AATTGA
11204801 GATATGTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 12 0.52
15 6 0.26
16 5 0.22
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (15 bp):
TGTAATTAATTGATA
Found at i:11208242 original size:20 final size:18
Alignment explanation
Indices: 11208206--11208245 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
11208196 AAAATATTAA
*
11208206 ATTTTTTAAAATTTTTTT
1 ATTTTTTAAAATATTTTT
11208224 ATTTTTTAAAAATAATTTTT
1 ATTTTTT-AAAAT-ATTTTT
11208244 AT
1 AT
11208246 AATTGTCTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 5 0.26
20 7 0.37
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTTTTTAAAATATTTTT
Found at i:11208848 original size:16 final size:16
Alignment explanation
Indices: 11208829--11208863 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
11208819 ACATTGGTAC
11208829 TATTAATAAAT-AATAT
1 TATTAAT-AATGAATAT
11208845 TATTAATAATGAATAT
1 TATTAATAATGAATAT
11208861 TAT
1 TAT
11208864 CATATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (16 bp):
TATTAATAATGAATAT
Found at i:11210156 original size:12 final size:12
Alignment explanation
Indices: 11210139--11210163 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11210129 AGTAATACAT
11210139 TAATATGTATTA
1 TAATATGTATTA
11210151 TAATATGTATTA
1 TAATATGTATTA
11210163 T
1 T
11210164 TAGGGGCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TAATATGTATTA
Found at i:11210392 original size:40 final size:41
Alignment explanation
Indices: 11210335--11210424 Score: 94
Period size: 42 Copynumber: 2.2 Consensus size: 41
11210325 TACTCGTAGG
* * *
11210335 CGCGATTTGTGTCCACGTAAGC-AAATCGCGCTGATGTGGA
1 CGCGATTTGTGTACACGTAACCGAAATCGCGCTGACGTGGA
** *
11210375 CGCGATTTGCTG-ACACGTCCCCTGACATCGCGCTGACGTGGA
1 CGCGATTTG-TGTACACGTAACC-GAAATCGCGCTGACGTGGA
11210417 CGCGATTT
1 CGCGATTT
11210425 CGAGAAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
40 15 0.37
41 2 0.05
42 24 0.59
ACGTcount: A:0.19, C:0.28, G:0.29, T:0.24
Consensus pattern (41 bp):
CGCGATTTGTGTACACGTAACCGAAATCGCGCTGACGTGGA
Found at i:11221395 original size:32 final size:31
Alignment explanation
Indices: 11221350--11221413 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 31
11221340 CAACAATGTA
11221350 CCAGTATTGAGGAATTCAGATATTGATACCT
1 CCAGTATTGAGGAATTCAGATATTGATACCT
11221381 CCAGTATTTGAGGAATTCAGATATTGATACCT
1 CCAGTA-TTGAGGAATTCAGATATTGATACCT
11221413 C
1 C
11221414 AATGTTAGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 6 0.19
32 26 0.81
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (31 bp):
CCAGTATTGAGGAATTCAGATATTGATACCT
Found at i:11222618 original size:41 final size:41
Alignment explanation
Indices: 11222549--11222682 Score: 216
Period size: 41 Copynumber: 3.3 Consensus size: 41
11222539 AATTTAACAT
* *
11222549 ATTCAGATCACC-GCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* * *
11222589 ATTCATATCACCGGCATTTAGCCTACTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
11222630 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
11222671 ATTCAGATCACC
1 ATTCAGATCACC
11222683 AATTCCAAAC
Statistics
Matches: 85, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 11 0.13
41 74 0.87
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
Found at i:11222908 original size:41 final size:41
Alignment explanation
Indices: 11222851--11222946 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
11222841 CTTCGTTCCT
*
11222851 TTGATTCAGATCACCGGCACTTAGCCTGTTAGGCTTATAGC
1 TTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGC
11222892 TTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGC
1 TTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGC
*
11222933 CTGATTCAGATCAC
1 TTGATTCAGATCAC
11222947 AAATTTCAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (41 bp):
TTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGC
Found at i:11238984 original size:27 final size:28
Alignment explanation
Indices: 11238924--11238987 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 28
11238914 AAAATATCAA
* *
11238924 AATAATAAAAAATAAAAATAGCAAGAAC
1 AATAAAAAAAAATAAAAATAACAAGAAC
*
11238952 AA-AAAAAAAAAT-AAAATAATAATG-AC
1 AATAAAAAAAAATAAAAATAACAA-GAAC
11238978 AATAAAAAAA
1 AATAAAAAAA
11238988 TCACAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 12 0.39
27 17 0.55
28 2 0.06
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.14
Consensus pattern (28 bp):
AATAAAAAAAAATAAAAATAACAAGAAC
Found at i:11239040 original size:4 final size:4
Alignment explanation
Indices: 11239020--11239061 Score: 52
Period size: 4 Copynumber: 10.8 Consensus size: 4
11239010 TAGTTTAATG
*
11239020 TAAA TAAA -AAA GT-AA TAAA TAAA TGAA TAAA TAAA TAAA TAA
1 TAAA TAAA TAAA -TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAA
11239062 GGCTTAAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 4 0.12
4 29 0.88
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:11245984 original size:2 final size:2
Alignment explanation
Indices: 11245977--11246024 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
11245967 CATTCTTCAT
*
11245977 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AC AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
11246019 AG AG AG
1 AG AG AG
11246025 CATTATATGA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.02, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11251356 original size:6 final size:6
Alignment explanation
Indices: 11251342--11251375 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
11251332 CACTTTCAAT
*
11251342 TTCAAG TTCAGG TTCAGG TTCAGG TTCAGG TTCA
1 TTCAGG TTCAGG TTCAGG TTCAGG TTCAGG TTCA
11251376 CTGCTAGCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (6 bp):
TTCAGG
Found at i:11251357 original size:18 final size:18
Alignment explanation
Indices: 11251336--11251375 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
11251326 CATGTTCACT
*
11251336 TTCAATTTCAAGTTCAGG
1 TTCAAGTTCAAGTTCAGG
* *
11251354 TTCAGGTTCAGGTTCAGG
1 TTCAAGTTCAAGTTCAGG
11251372 TTCA
1 TTCA
11251376 CTGCTAGCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.38
Consensus pattern (18 bp):
TTCAAGTTCAAGTTCAGG
Found at i:11259967 original size:31 final size:33
Alignment explanation
Indices: 11259910--11259972 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 33
11259900 CTCTCAAAAA
** *
11259910 ATTAGGAGCTAATTTATTCTATCCTAA-AATAC
1 ATTAGGAGCTAAACTATTCTAACCTAAGAATAC
11259942 ATTAGGAG-TAAACTATTCTAACCTAAGAATA
1 ATTAGGAGCTAAACTATTCTAACCTAAGAATA
11259973 TAGTAGAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.33
Consensus pattern (33 bp):
ATTAGGAGCTAAACTATTCTAACCTAAGAATAC
Found at i:11261577 original size:29 final size:29
Alignment explanation
Indices: 11261510--11261577 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
11261500 TTAAAATAAT
11261510 AATAATA-AATAATAAAATTTATAGTTTA
1 AATAATATAATAATAAAATTTATAGTTTA
*
11261538 AATTAAT-TAATAATAATATTT-TA-TTCTCA
1 AA-TAATATAATAATAAAATTTATAGTT-T-A
11261567 AATAATATAAT
1 AATAATATAAT
11261578 TTATTTTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
27 2 0.06
28 9 0.26
29 23 0.68
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (29 bp):
AATAATATAATAATAAAATTTATAGTTTA
Found at i:11261582 original size:20 final size:19
Alignment explanation
Indices: 11261546--11261602 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
11261536 TAAATTAATT
*
11261546 AATAATAATATTTTATTCTCA
1 AATAAT-ATAATTTATT-TCA
*
11261567 AATAATATAATTTATTTTA
1 AATAATATAATTTATTTCA
*
11261586 AATATATATAATATATT
1 AATA-ATATAATTTATT
11261603 AATAGCAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.19
20 20 0.62
21 6 0.19
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (19 bp):
AATAATATAATTTATTTCA
Found at i:11263856 original size:38 final size:39
Alignment explanation
Indices: 11263788--11263922 Score: 188
Period size: 38 Copynumber: 3.5 Consensus size: 39
11263778 AGAACACCCT
*
11263788 AAGA-CAAGA-CTTTAGCGGCTTTCCCACAAACGCCGCTA
1 AAGACCAAGACCTTTAGCGGCTTT-TCACAAACGCCGCTA
11263826 AAGACCAAGACCTTTAGCGGCTTTTC-CAAACGCCGCTA
1 AAGACCAAGACCTTTAGCGGCTTTTCACAAACGCCGCTA
* **
11263864 AAGACCATGACCTTTAGCGGCGCTTCACAAACGCCGCTA
1 AAGACCAAGACCTTTAGCGGCTTTTCACAAACGCCGCTA
*
11263903 AAGAACAA-ACCTTTAGCGGC
1 AAGACCAAGACCTTTAGCGGC
11263923 GCTTCTAGCA
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
38 51 0.58
39 24 0.27
40 13 0.15
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (39 bp):
AAGACCAAGACCTTTAGCGGCTTTTCACAAACGCCGCTA
Found at i:11263906 original size:39 final size:38
Alignment explanation
Indices: 11263812--11263944 Score: 178
Period size: 38 Copynumber: 3.4 Consensus size: 38
11263802 GCGGCTTTCC
**
11263812 CACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCTTTT
1 CACAAACGCCGCTAAAGACC-AGACCTTTAGCGGCGCTT
11263851 C-CAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTT
1 CACAAACGCCGCTAAAGACCA-GACCTTTAGCGGCGCTT
* *
11263889 CACAAACGCCGCTAAAGAACAAACCTTTAGCGGCGCTT
1 CACAAACGCCGCTAAAGACCAGACCTTTAGCGGCGCTT
11263927 CTAGCAAAACGCCGCTAA
1 C-A-C-AAACGCCGCTAA
11263945 GAACATAATC
Statistics
Matches: 85, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
37 1 0.01
38 51 0.60
39 20 0.24
40 1 0.01
41 12 0.14
ACGTcount: A:0.32, C:0.32, G:0.19, T:0.17
Consensus pattern (38 bp):
CACAAACGCCGCTAAAGACCAGACCTTTAGCGGCGCTT
Found at i:11268302 original size:22 final size:22
Alignment explanation
Indices: 11268246--11268304 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
11268236 GTATGTTTGT
* * *
11268246 AAAGTTGGGGGTTTCAAGGGGGG
1 AAAGTTGGGGATTT-TAGGCGGG
*
11268269 AAA-TTAGGGATTTTAGGCGGG
1 AAAGTTGGGGATTTTAGGCGGG
11268290 AAAGTTGGGGATTTT
1 AAAGTTGGGGATTTT
11268305 GGGGGAGGGG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 9 0.30
22 18 0.60
23 3 0.10
ACGTcount: A:0.25, C:0.03, G:0.42, T:0.29
Consensus pattern (22 bp):
AAAGTTGGGGATTTTAGGCGGG
Found at i:11268581 original size:147 final size:142
Alignment explanation
Indices: 11268334--11268604 Score: 427
Period size: 147 Copynumber: 1.9 Consensus size: 142
11268324 AATGGCCTAT
*
11268334 TTTTTTTAAAGTAAATTTTTTGTGGCGTTTTAATAAAAATGCCGCTATTGCTTACCTTTTGCAGC
1 TTTTTTTAAAGTAAATTTTTTGTGGCGTTTTAATAAAAACGCCGCTATTGCTTACCTTTTGCAGC
* *
11268399 GTTTTTATGAAAAACGCCGCAAAAAATTATTTCATTTTGAATAAAACGACACTGTTTTGTTATAT
66 GTTTTTATGAAAAACGCCGCAAAAAATTATTTCATTTGGAATAAAACGACACTATTTTGTTATAT
11268464 AAAATGGAGTTA
131 AAAATGGAGTTA
*
11268476 TTTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGCTTACCTTTT
1 TTTTTTTAAAGT--AA--ATTTTTTGTGGCG-TTTTAATAAAAACGCCGCTATTGCTTACCTTTT
* *
11268541 GCGGCGTTTTTGAT-AAAAACGCCGCAAAAACTTATTTCATTTGGAATAAAACGACACTATTTTG
61 GCAGCGTTTTT-ATGAAAAACGCCGCAAAAAATTATTTCATTTGGAATAAAACGACACTATTTTG
11268605 CTATGCTAAA
Statistics
Matches: 117, Mismatches: 6, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
142 12 0.10
144 2 0.02
146 13 0.11
147 88 0.75
148 2 0.02
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (142 bp):
TTTTTTTAAAGTAAATTTTTTGTGGCGTTTTAATAAAAACGCCGCTATTGCTTACCTTTTGCAGC
GTTTTTATGAAAAACGCCGCAAAAAATTATTTCATTTGGAATAAAACGACACTATTTTGTTATAT
AAAATGGAGTTA
Found at i:11269200 original size:89 final size:89
Alignment explanation
Indices: 11269095--11269271 Score: 282
Period size: 89 Copynumber: 2.0 Consensus size: 89
11269085 TTAATCCCAA
* * * *
11269095 ACCCCAAATCCCTAACCACTAACCCTTACACCTTATTTAATATATAAATTAAAAAATACTAATTA
1 ACCCCAAATCCCTAACCACTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTA
*
11269160 ATCTAAATCATAAACCCTAACCCG
66 ATCTAAACCATAAACCCTAACCCG
* *
11269184 ACCCCAAATCCCTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAATACACTAATTA
1 ACCCCAAATCCCTAACCACTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTA
*
11269249 ATCTAAACCCTAAACCCTAACCC
66 ATCTAAACCATAAACCCTAACCC
11269272 CTAACCTAAC
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 80 1.00
ACGTcount: A:0.44, C:0.30, G:0.01, T:0.26
Consensus pattern (89 bp):
ACCCCAAATCCCTAACCACTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTA
ATCTAAACCATAAACCCTAACCCG
Found at i:11269300 original size:89 final size:88
Alignment explanation
Indices: 11269127--11269302 Score: 219
Period size: 89 Copynumber: 2.0 Consensus size: 88
11269117 CCCTTACACC
* * *
11269127 TTATTTAATATATAAATTAAAAAATACTAATTAATCTAAATCATAAACCCTAACCCGACCCCAAA
1 TTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCATAAACCCTAACCCGAACCCAAA
* * *
11269192 TCCCTAACCCCTAACCCCTAAACA
66 -CCCGAACCCATAAACCCTAAACA
* * * *
11269216 TTATTTAATATATAAATTAAAATACACTAATTAATCTAAACCCTAAACCCTAACCCCTAA-CCTA
1 TTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCATAAACCCTAA-CCCGAACCCAA
*
11269280 ACACCGAATCCATAAACCCTAAA
65 AC-CCGAACCCATAAACCCTAAA
11269303 TCCCTAACTC
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
88 1 0.01
89 69 0.93
90 4 0.05
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.26
Consensus pattern (88 bp):
TTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCATAAACCCTAACCCGAACCCAAA
CCCGAACCCATAAACCCTAAACA
Found at i:11269338 original size:43 final size:41
Alignment explanation
Indices: 11269252--11269347 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 41
11269242 CTAATTAATC
*
11269252 TAAACCCTAAA-CCCTAACCCCTAACCTAACACCGAATCCA
1 TAAACCCTAAATCCCTAACCCCTAACCTAACACCGAACCCA
* * *
11269292 TAAACCCTAAATCCCTAACTCTTAACCTCTAAC-CCTTAACCCA
1 TAAACCCTAAATCCCTAACCCCTAA-C-CTAACACC-GAACCCA
*
11269335 TAAACCATAAATC
1 TAAACCCTAAATC
11269348 ACAACCCTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
40 11 0.23
41 11 0.23
42 3 0.06
43 22 0.47
ACGTcount: A:0.40, C:0.39, G:0.01, T:0.21
Consensus pattern (41 bp):
TAAACCCTAAATCCCTAACCCCTAACCTAACACCGAACCCA
Found at i:11269381 original size:14 final size:15
Alignment explanation
Indices: 11269364--11269397 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
11269354 CTTAAATCAG
11269364 AATCTCTAA-TCCAT
1 AATCTCTAATTCCAT
11269378 AATCTCTAATTCCAT
1 AATCTCTAATTCCAT
11269393 AATCT
1 AATCT
11269398 ATAAACCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.38
Consensus pattern (15 bp):
AATCTCTAATTCCAT
Found at i:11269848 original size:41 final size:41
Alignment explanation
Indices: 11269803--11269996 Score: 264
Period size: 41 Copynumber: 4.7 Consensus size: 41
11269793 AAATGTTTTT
* * *
11269803 GCGGCGCTTTTTTAAAAACGTCGCTAAAG-TCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGAT-CTGAGCATTA
** *
11269844 GCGGCGCTTTCCCAAAAATGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* *
11269885 GCGGCGCTTTTCCAAAAATGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
*
11269926 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGTATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* *
11269967 GCGGCGCTTTTTTTAAAAACGCTGCTAAAG
1 GCGGCGC-TTTTTCAAAAACGCCGCTAAAG
11269997 CCCCGAAAGG
Statistics
Matches: 139, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
41 118 0.85
42 21 0.15
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:11270077 original size:39 final size:38
Alignment explanation
Indices: 11270033--11270185 Score: 119
Period size: 40 Copynumber: 3.8 Consensus size: 38
11270023 TGTGCTTAGG
* *
11270033 TTTTTAGCGGCATTTTCCAAAAAACGCCGCTAATGGTCA
1 TTTTTAGCGGCGTTTT-CAAAAAACGCCGCTAATGCTCA
* * * *
11270072 TTTTTAGTGGCGCTTT-AATAAAAGCGTCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTTCAA-AAAA-CGCCGCTAATGC-TCA
* * * *
11270112 TATTTAGTGGCGTTTTACATAAAGCGCCGCTAATGCTCCA
1 TTTTTAGCGGCGTTTT-CAAAAAACGCCGCTAATGCT-CA
**
11270152 TTTTTAGCGGCGTTTTTTGGAAAAACGCCGCTAA
1 TTTTTAGCGGCG--TTTTCAAAAAACGCCGCTAA
11270186 AAACGCTGCT
Statistics
Matches: 88, Mismatches: 18, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
37 2 0.02
38 4 0.05
39 24 0.27
40 38 0.43
41 15 0.17
42 5 0.06
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (38 bp):
TTTTTAGCGGCGTTTTCAAAAAACGCCGCTAATGCTCA
Found at i:11270158 original size:40 final size:39
Alignment explanation
Indices: 11270033--11270167 Score: 137
Period size: 40 Copynumber: 3.4 Consensus size: 39
11270023 TGTGCTTAGG
* * * * *
11270033 TTTTTAGCGGCATTTTCCAAAAAACGCCGCTAATGGTCA
1 TTTTTAGCGGCGTTTTACATAAAGCGCCGCTAATGCTCA
* * * *
11270072 TTTTTAGTGGCGCTTTA-ATAAAAGCGTCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTTACAT-AAAGCGCCGCTAATGC-TCA
* *
11270112 TATTTAGTGGCGTTTTACATAAAGCGCCGCTAATGCTCCA
1 TTTTTAGCGGCGTTTTACATAAAGCGCCGCTAATGCT-CA
11270152 TTTTTAGCGGCGTTTT
1 TTTTTAGCGGCGTTTT
11270168 TTGGAAAAAC
Statistics
Matches: 77, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
38 1 0.01
39 27 0.35
40 47 0.61
41 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTACATAAAGCGCCGCTAATGCTCA
Found at i:11272695 original size:51 final size:51
Alignment explanation
Indices: 11272624--11272755 Score: 158
Period size: 50 Copynumber: 2.6 Consensus size: 51
11272614 CATGCCAAAA
* ** * * *
11272624 CCATGTCCCAGCCATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATG
1 CCATGTCCCAGACATGGTCTTACATGGGATCCTCTCAGATCGGTGCCAACG
** * *
11272675 CCATGTCCCAGACATGGTCTTACGGGGGA-CCTCTCAGCTTGGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACATGGGATCCTCTCAGATCGGTGCCAACG
*
11272725 CCATGTCCCAAACATGGTCTTACATGGGATC
1 CCATGTCCCAGACATGGTCTTACATGGGATC
11272756 TCTTTACCCA
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
50 40 0.60
51 27 0.40
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (51 bp):
CCATGTCCCAGACATGGTCTTACATGGGATCCTCTCAGATCGGTGCCAACG
Found at i:11273123 original size:29 final size:30
Alignment explanation
Indices: 11273090--11273149 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
11273080 CCTCGACTCT
*
11273090 AACTTTGGCAAAATTATG-ATTTGCCCCAA
1 AACTTTGACAAAATTATGCATTTGCCCCAA
* * *
11273119 AACTTTTACATAATTATGCTTTTGCCCCAA
1 AACTTTGACAAAATTATGCATTTGCCCCAA
11273149 A
1 A
11273150 GTTCAGAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.35
Consensus pattern (30 bp):
AACTTTGACAAAATTATGCATTTGCCCCAA
Found at i:11275499 original size:21 final size:22
Alignment explanation
Indices: 11275461--11275501 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11275451 GGATGGAAAA
*
11275461 TATTTTTTTAATTATATATTAT
1 TATTTATTTAATTATATATTAT
11275483 TATTTATTTAA-TATATATT
1 TATTTATTTAATTATATATT
11275502 TCTAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
TATTTATTTAATTATATATTAT
Found at i:11275510 original size:21 final size:22
Alignment explanation
Indices: 11275467--11275515 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
11275457 AAAATATTTT
*
11275467 TTTAATTATATATTATTATTTA
1 TTTAATTATATATTATTAATTA
11275489 TTTAA-TATATATT-TCTAATTA
1 TTTAATTATATATTAT-TAATTA
11275510 -TTAATT
1 TTTAATT
11275516 CAGGTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 5 0.21
21 14 0.58
22 5 0.21
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTAATTATATATTATTAATTA
Found at i:11276442 original size:13 final size:15
Alignment explanation
Indices: 11276424--11276459 Score: 58
Period size: 13 Copynumber: 2.5 Consensus size: 15
11276414 TAATTTCTAT
11276424 ATATATATT-ATAAA
1 ATATATATTCATAAA
11276438 A-ATATATTCATAAA
1 ATATATATTCATAAA
11276452 ATATATAT
1 ATATATAT
11276460 AGTATTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 7 0.35
14 7 0.35
15 6 0.30
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (15 bp):
ATATATATTCATAAA
Found at i:11283946 original size:31 final size:31
Alignment explanation
Indices: 11283908--11283981 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
11283898 AATTCCCTTT
11283908 TATCATTATATTAAAATATTAAAATATAATC
1 TATCATTATATTAAAATATTAAAATATAATC
* * * * *
11283939 TATCATTATAATAAATTATTTAAATATTATT
1 TATCATTATATTAAAATATTAAAATATAATC
*
11283970 TATTATTATATT
1 TATCATTATATT
11283982 TAAGTTTTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (31 bp):
TATCATTATATTAAAATATTAAAATATAATC
Found at i:11287029 original size:17 final size:17
Alignment explanation
Indices: 11287007--11287039 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
11286997 ATATTTTTTA
11287007 TTTTTAATCAAATATAC
1 TTTTTAATCAAATATAC
11287024 TTTTTAATCAAATATA
1 TTTTTAATCAAATATA
11287040 TATTAAATAT
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:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:11294578 original size:3 final size:3
Alignment explanation
Indices: 11294570--11294630 Score: 81
Period size: 3 Copynumber: 20.7 Consensus size: 3
11294560 CTGCCAAATG
* *
11294570 TAT TAT TAT TAT TAT T-T T-T TGAC AAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT
11294614 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
11294631 AGAAGAGGGT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
2 4 0.08
3 48 0.92
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:11296558 original size:26 final size:27
Alignment explanation
Indices: 11296506--11296558 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
11296496 AAAATATATG
11296506 AATAATATAATATATAAAAAAACACTA
1 AATAATATAATATATAAAAAAACACTA
11296533 AATAATATAATATAT-AAAAAACACTA
1 AATAATATAATATATAAAAAAACACTA
11296559 TCTTAACTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (27 bp):
AATAATATAATATATAAAAAAACACTA
Found at i:11302557 original size:28 final size:31
Alignment explanation
Indices: 11302492--11302559 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
11302482 TATTTTATTA
*
11302492 TGGTACATGTACTTTCATAAATTGTCCAATG
1 TGGTACTTGTACTTTCATAAATTGTCCAATG
** *
11302523 TAATACTTGTACTTTGA-AAA-TGT-CAATG
1 TGGTACTTGTACTTTCATAAATTGTCCAATG
11302551 TGGTACTTG
1 TGGTACTTG
11302560 AACTATCAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
28 12 0.39
29 3 0.10
30 3 0.10
31 13 0.42
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (31 bp):
TGGTACTTGTACTTTCATAAATTGTCCAATG
Found at i:11321319 original size:27 final size:26
Alignment explanation
Indices: 11321289--11321339 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
11321279 ACTAAAGCAT
* *
11321289 ATTGACGATAAAGTTAAAAATAAATAA
1 ATTGA-GAGAAAGTTAAAAAAAAATAA
*
11321316 ATTGAGAGAAATTTAAAAAAAAAT
1 ATTGAGAGAAAGTTAAAAAAAAAT
11321340 TAGAGTCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 16 0.76
27 5 0.24
ACGTcount: A:0.61, C:0.02, G:0.12, T:0.25
Consensus pattern (26 bp):
ATTGAGAGAAAGTTAAAAAAAAATAA
Found at i:11321555 original size:5 final size:6
Alignment explanation
Indices: 11321530--11321554 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
11321520 AATTCTTTTT
11321530 AAGAAA AAGAAA AAGAAA AAGAAA A
1 AAGAAA AAGAAA AAGAAA AAGAAA A
11321555 GCATTCAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:11321870 original size:23 final size:24
Alignment explanation
Indices: 11321842--11321889 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
11321832 GTTTTGGTGC
*
11321842 TGTTATTTTT-CTGCTGTTTTTGT
1 TGTTATTTTTGCTACTGTTTTTGT
*
11321865 TGTTATTTTTGCTATTGTTTTTGT
1 TGTTATTTTTGCTACTGTTTTTGT
11321889 T
1 T
11321890 ATTTGTACTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.06, C:0.06, G:0.17, T:0.71
Consensus pattern (24 bp):
TGTTATTTTTGCTACTGTTTTTGT
Found at i:11321888 original size:21 final size:22
Alignment explanation
Indices: 11321842--11321893 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
11321832 GTTTTGGTGC
*
11321842 TGTTATTTTTCTGCTGTTTTTGT
1 TGTTA-TTTTCTGCTATTTTTGT
11321865 TGTTATTTT-TGCTATTGTTT-T
1 TGTTATTTTCTGCTATT-TTTGT
11321886 TGTTATTT
1 TGTTATTT
11321894 GTACTGGCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 15 0.56
22 7 0.26
23 5 0.19
ACGTcount: A:0.08, C:0.06, G:0.15, T:0.71
Consensus pattern (22 bp):
TGTTATTTTCTGCTATTTTTGT
Found at i:11323181 original size:98 final size:99
Alignment explanation
Indices: 11322998--11323194 Score: 254
Period size: 98 Copynumber: 2.0 Consensus size: 99
11322988 TATTCATTGA
* *
11322998 TTAACTCCGATTGCGTCATTGCTTTAGTTCAGTTCAGAAAACGTGAAAATTAAGGTTACTTTAAG
1 TTAACTCCGATTGCGTCACTGCTTTAGTTCAGTTCAGAAAACGTGAAAATTAAGGTTACTTTAAC
*
11323063 ATTGGAGTATTGATTAATTACTTTATAATTCAAT
66 ATCGGAGTATTGATTAATTACTTTATAATTCAAT
* * * * * * * *
11323097 TTAATTCCGATTGCGTCACTGTTTTGGTTCAGTT-AGAAAATGTGAGAGTT-TGGATTTCTTTAA
1 TTAACTCCGATTGCGTCACTGCTTTAGTTCAGTTCAGAAAACGTGAAAATTAAGG-TTACTTTAA
* *
11323160 CATCGGATTATTTATTAATTACTTTATAATTCAAT
65 CATCGGAGTATTGATTAATTACTTTATAATTCAAT
11323195 AGGTATTTGA
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
97 2 0.02
98 52 0.62
99 30 0.36
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (99 bp):
TTAACTCCGATTGCGTCACTGCTTTAGTTCAGTTCAGAAAACGTGAAAATTAAGGTTACTTTAAC
ATCGGAGTATTGATTAATTACTTTATAATTCAAT
Found at i:11327649 original size:15 final size:15
Alignment explanation
Indices: 11327626--11327665 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
11327616 TGAGCAATCA
* *
11327626 AATTGGTTCGAGATT
1 AATTTGTTCAAGATT
11327641 AATTTGTTCAAGATT
1 AATTTGTTCAAGATT
11327656 AATTTGTTCA
1 AATTTGTTCA
11327666 GTTTGGCACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.45
Consensus pattern (15 bp):
AATTTGTTCAAGATT
Found at i:11341808 original size:21 final size:21
Alignment explanation
Indices: 11341753--11341823 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
11341743 TCAGCTCTCT
* * *
11341753 TGAGCTTCAGTTTAACCCTTT
1 TGAGCTTCCGTTCAACCCTTA
* * * *
11341774 TGGGTTTTCGTTCAACTCTTA
1 TGAGCTTCCGTTCAACCCTTA
11341795 TGAGCTTCCGTTCAACCCTTA
1 TGAGCTTCCGTTCAACCCTTA
*
11341816 TGGGCTTC
1 TGAGCTTC
11341824 TGTTTAGCAC
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.15, C:0.25, G:0.18, T:0.41
Consensus pattern (21 bp):
TGAGCTTCCGTTCAACCCTTA
Found at i:11341814 original size:42 final size:42
Alignment explanation
Indices: 11341695--11341819 Score: 137
Period size: 42 Copynumber: 3.0 Consensus size: 42
11341685 TTTTGTGAAC
* * * * *
11341695 TTTCGTGTTAACTCATATGAGTTTCAGTTTAACCCTATT-AGT
1 TTTCGT-TCAACTCTTATGAGCTTCAGTTTAACCCTTTTGGGT
*
11341737 TTTCGTTCAGCTCTCT-TGAGCTTCAGTTTAACCCTTTTGGGT
1 TTTCGTTCAACTCT-TATGAGCTTCAGTTTAACCCTTTTGGGT
* * *
11341779 TTTCGTTCAACTCTTATGAGCTTCCGTTCAACCCTTATGGG
1 TTTCGTTCAACTCTTATGAGCTTCAGTTTAACCCTTTTGGG
11341820 CTTCTGTTTA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 26 0.37
42 44 0.63
ACGTcount: A:0.18, C:0.22, G:0.17, T:0.43
Consensus pattern (42 bp):
TTTCGTTCAACTCTTATGAGCTTCAGTTTAACCCTTTTGGGT
Found at i:11349385 original size:42 final size:42
Alignment explanation
Indices: 11349304--11349438 Score: 166
Period size: 42 Copynumber: 3.2 Consensus size: 42
11349294 TGTTAACTCA
* * **
11349304 TATGAGTTTCAGTTTAACCC-TATTGGTTTCCATTCAGCTC-
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTCTGTTCAGCTCT
11349344 TATTGAGCTTCAGTTTAACCCTTATGGGTTTCTGTTCAGCTCT
1 TA-TGAGCTTCAGTTTAACCCTTATGGGTTTCTGTTCAGCTCT
* * * *
11349387 TATGAGCTTCCGTTCAACCCTTATGGGTTTCTGTTTAGCACT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTCTGTTCAGCTCT
*
11349429 TATGTGCTTC
1 TATGAGCTTC
11349439 TGTGCAGCCT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
40 2 0.02
41 17 0.20
42 62 0.75
43 2 0.02
ACGTcount: A:0.17, C:0.22, G:0.18, T:0.43
Consensus pattern (42 bp):
TATGAGCTTCAGTTTAACCCTTATGGGTTTCTGTTCAGCTCT
Found at i:11349390 original size:21 final size:21
Alignment explanation
Indices: 11349364--11349446 Score: 76
Period size: 21 Copynumber: 4.0 Consensus size: 21
11349354 CAGTTTAACC
* *
11349364 CTTATGGGTTTCTGTTCAGCT
1 CTTATGGGCTTCTGTTCAGCA
* * * *
11349385 CTTATGAGCTTCCGTTCAACC
1 CTTATGGGCTTCTGTTCAGCA
* *
11349406 CTTATGGGTTTCTGTTTAGCA
1 CTTATGGGCTTCTGTTCAGCA
* *
11349427 CTTATGTGCTTCTGTGCAGC
1 CTTATGGGCTTCTGTTCAGC
11349447 CTTCGAGCTT
Statistics
Matches: 47, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.13, C:0.23, G:0.22, T:0.42
Consensus pattern (21 bp):
CTTATGGGCTTCTGTTCAGCA
Found at i:11350535 original size:42 final size:42
Alignment explanation
Indices: 11350442--11350541 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
11350432 ACGGCCTATG
* * *
11350442 ACACTGACGTGTCTCCTGGCCATGTGAGCCACACTACCGGCC
1 ACACTGGCGTGTGTCCTGGCCATGTGAGCCACACTACCGACC
* * * * *
11350484 ACACGGGCGTGTGTCCTGGCCGTGTGAGCCATAC-AGGCGACT
1 ACACTGGCGTGTGTCCTGGCCATGTGAGCCACACTA-CCGACC
11350526 ACACTGGCGTGTGTCC
1 ACACTGGCGTGTGTCC
11350542 CCTGTTCTTA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
41 1 0.02
42 47 0.98
ACGTcount: A:0.17, C:0.33, G:0.30, T:0.20
Consensus pattern (42 bp):
ACACTGGCGTGTGTCCTGGCCATGTGAGCCACACTACCGACC
Found at i:11353053 original size:16 final size:16
Alignment explanation
Indices: 11353004--11353054 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
11352994 GTTTGAGCTA
*
11353004 TATGTTGTATTATA-T
1 TATGTTGTATAATATT
* *
11353019 AATGTTTTGATAGATATT
1 TATGTTGT-ATA-ATATT
11353037 TATGTTGTATAATATT
1 TATGTTGTATAATATT
11353053 TA
1 TA
11353055 GAAGTGATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
15 6 0.21
16 9 0.32
17 6 0.21
18 7 0.25
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (16 bp):
TATGTTGTATAATATT
Found at i:11362950 original size:25 final size:24
Alignment explanation
Indices: 11362900--11362951 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
11362890 TTGTCTTGAC
** * *
11362900 TATGTATTTGGTTTATGTTTGGGT
1 TATGTATTTGGACTATGTTAGCGT
11362924 TATGTAATTTGGACTATGTTAGCGT
1 TATGT-ATTTGGACTATGTTAGCGT
11362949 TAT
1 TAT
11362952 ATTTGACTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.19, C:0.04, G:0.25, T:0.52
Consensus pattern (24 bp):
TATGTATTTGGACTATGTTAGCGT
Found at i:11367682 original size:24 final size:24
Alignment explanation
Indices: 11367655--11367737 Score: 69
Period size: 24 Copynumber: 3.4 Consensus size: 24
11367645 GCCATTAACA
* *
11367655 GGAAGCTCATGTGAGCCAATATCT-
1 GGAAGCTCAAGCGAGCCAATAT-TG
* *
11367679 GGAAGGTTAAGCGAGCCAATATTG
1 GGAAGCTCAAGCGAGCCAATATTG
* * *
11367703 GGAAGCTCTAGAGAGCCAATTAATTA
1 GGAAGCTCAAGCGAGCCAA-T-ATTG
11367729 GGAAGCTCA
1 GGAAGCTCA
11367738 TGAAAAAGCC
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
23 1 0.02
24 33 0.72
25 1 0.02
26 11 0.24
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.22
Consensus pattern (24 bp):
GGAAGCTCAAGCGAGCCAATATTG
Found at i:11370163 original size:20 final size:19
Alignment explanation
Indices: 11370140--11370247 Score: 81
Period size: 20 Copynumber: 5.4 Consensus size: 19
11370130 AGCATGGATA
11370140 TGCTATCAAGAGCACCGTAG
1 TGCTATCAAGAGCA-CGTAG
* * *
11370160 TGCTAACAAGAGTACGAAAG
1 TGCTATCAAGAGCACG-TAG
*
11370180 TGCTATCAAGAGCATTGTAG
1 TGCTATCAAGAGCA-CGTAG
* * * *
11370200 TGCTATTAGGAGTACGAAAG
1 TGCTATCAAGAGCACG-TAG
* *
11370220 TACTGTCAAGAGCACCGTAG
1 TGCTATCAAGAGCA-CGTAG
11370240 TGCTATCA
1 TGCTATCA
11370248 GGAATACGAA
Statistics
Matches: 64, Mismatches: 20, Indels: 8
0.70 0.22 0.09
Matches are distributed among these distances:
19 3 0.05
20 58 0.91
21 3 0.05
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (19 bp):
TGCTATCAAGAGCACGTAG
Found at i:11370325 original size:40 final size:40
Alignment explanation
Indices: 11370145--11370330 Score: 239
Period size: 40 Copynumber: 4.7 Consensus size: 40
11370135 GGATATGCTA
* * * *
11370145 TCAAGAGCACCGTAGTGCTAACAAGAGTACGAAAGTGCTA
1 TCAAGAGCACCGTAGTGCTATCAGGAGTACGAAAGTACTG
** *
11370185 TCAAGAGCATTGTAGTGCTATTAGGAGTACGAAAGTACTG
1 TCAAGAGCACCGTAGTGCTATCAGGAGTACGAAAGTACTG
*
11370225 TCAAGAGCACCGTAGTGCTATCAGGAATACGAAAGTACTG
1 TCAAGAGCACCGTAGTGCTATCAGGAGTACGAAAGTACTG
*
11370265 TCAAGAGCACCATTA-TGCTATCAGGAGTACGAAAGTACTG
1 TCAAGAGCACC-GTAGTGCTATCAGGAGTACGAAAGTACTG
* * * *
11370305 TTAGGAGCACCATAGTGCTATTAGGA
1 TCAAGAGCACCGTAGTGCTATCAGGA
11370331 TCACTTATTC
Statistics
Matches: 127, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 2 0.02
40 123 0.97
41 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (40 bp):
TCAAGAGCACCGTAGTGCTATCAGGAGTACGAAAGTACTG
Found at i:11370328 original size:20 final size:20
Alignment explanation
Indices: 11370269--11370330 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
11370259 GTACTGTCAA
*
11370269 GAGCACCATTA-TGCTATCAG
1 GAGCACCA-TAGTGCTATTAG
* * * * *
11370289 GAGTACGAAAGTACTGTTAG
1 GAGCACCATAGTGCTATTAG
11370309 GAGCACCATAGTGCTATTAG
1 GAGCACCATAGTGCTATTAG
11370329 GA
1 GA
11370331 TCACTTATTC
Statistics
Matches: 30, Mismatches: 11, Indels: 2
0.70 0.26 0.05
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (20 bp):
GAGCACCATAGTGCTATTAG
Found at i:11378625 original size:414 final size:414
Alignment explanation
Indices: 11377855--11378685 Score: 1662
Period size: 414 Copynumber: 2.0 Consensus size: 414
11377845 TGCAGAATTA
11377855 GTTGCTGTTATCTGTGAACTATTAGAGATTAGTGAAACCCTTAAAACAAGGTTGTAATGTGCAAG
1 GTTGCTGTTATCTGTGAACTATTAGAGATTAGTGAAACCCTTAAAACAAGGTTGTAATGTGCAAG
11377920 GATACTTAAATAATAGGTGTAGATGAGTTGAGGTTTCTTGCATCTCACTATTATAGCTTTTGCTT
66 GATACTTAAATAATAGGTGTAGATGAGTTGAGGTTTCTTGCATCTCACTATTATAGCTTTTGCTT
11377985 CAAGATCTTTTCTTACCCTTGGATTTTAGCAACTTTTATTTCCTCTCGGTTAGAATGCTAAGACT
131 CAAGATCTTTTCTTACCCTTGGATTTTAGCAACTTTTATTTCCTCTCGGTTAGAATGCTAAGACT
11378050 GGTTTCATTTATTTCTATTATAGGGGACTATCAAAGCTTACAAAACCTAGTTCTGGAGTATTGTA
196 GGTTTCATTTATTTCTATTATAGGGGACTATCAAAGCTTACAAAACCTAGTTCTGGAGTATTGTA
11378115 TTTTCTTATATCTGAACTGCAAATTTGTAAATTGACCAGGAGAGAAACATTTAATCATCTAGCAA
261 TTTTCTTATATCTGAACTGCAAATTTGTAAATTGACCAGGAGAGAAACATTTAATCATCTAGCAA
11378180 GTTGGTTGGAGGATGCACGACAACATGCAAATCCAAACATGACAATCATGCTCATTGGGAACAAA
326 GTTGGTTGGAGGATGCACGACAACATGCAAATCCAAACATGACAATCATGCTCATTGGGAACAAA
11378245 AGTGATCTTTCTCACAGGAGGGCT
391 AGTGATCTTTCTCACAGGAGGGCT
11378269 GTTGCTGTTATCTGTGAACTATTAGAGATTAGTGAAACCCTTAAAACAAGGTTGTAATGTGCAAG
1 GTTGCTGTTATCTGTGAACTATTAGAGATTAGTGAAACCCTTAAAACAAGGTTGTAATGTGCAAG
11378334 GATACTTAAATAATAGGTGTAGATGAGTTGAGGTTTCTTGCATCTCACTATTATAGCTTTTGCTT
66 GATACTTAAATAATAGGTGTAGATGAGTTGAGGTTTCTTGCATCTCACTATTATAGCTTTTGCTT
11378399 CAAGATCTTTTCTTACCCTTGGATTTTAGCAACTTTTATTTCCTCTCGGTTAGAATGCTAAGACT
131 CAAGATCTTTTCTTACCCTTGGATTTTAGCAACTTTTATTTCCTCTCGGTTAGAATGCTAAGACT
11378464 GGTTTCATTTATTTCTATTATAGGGGACTATCAAAGCTTACAAAACCTAGTTCTGGAGTATTGTA
196 GGTTTCATTTATTTCTATTATAGGGGACTATCAAAGCTTACAAAACCTAGTTCTGGAGTATTGTA
11378529 TTTTCTTATATCTGAACTGCAAATTTGTAAATTGACCAGGAGAGAAACATTTAATCATCTAGCAA
261 TTTTCTTATATCTGAACTGCAAATTTGTAAATTGACCAGGAGAGAAACATTTAATCATCTAGCAA
11378594 GTTGGTTGGAGGATGCACGACAACATGCAAATCCAAACATGACAATCATGCTCATTGGGAACAAA
326 GTTGGTTGGAGGATGCACGACAACATGCAAATCCAAACATGACAATCATGCTCATTGGGAACAAA
11378659 AGTGATCTTTCTCACAGGAGGGCT
391 AGTGATCTTTCTCACAGGAGGGCT
11378683 GTT
1 GTT
11378686 AGCAAAGAAG
Statistics
Matches: 417, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
414 417 1.00
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (414 bp):
GTTGCTGTTATCTGTGAACTATTAGAGATTAGTGAAACCCTTAAAACAAGGTTGTAATGTGCAAG
GATACTTAAATAATAGGTGTAGATGAGTTGAGGTTTCTTGCATCTCACTATTATAGCTTTTGCTT
CAAGATCTTTTCTTACCCTTGGATTTTAGCAACTTTTATTTCCTCTCGGTTAGAATGCTAAGACT
GGTTTCATTTATTTCTATTATAGGGGACTATCAAAGCTTACAAAACCTAGTTCTGGAGTATTGTA
TTTTCTTATATCTGAACTGCAAATTTGTAAATTGACCAGGAGAGAAACATTTAATCATCTAGCAA
GTTGGTTGGAGGATGCACGACAACATGCAAATCCAAACATGACAATCATGCTCATTGGGAACAAA
AGTGATCTTTCTCACAGGAGGGCT
Found at i:11398431 original size:18 final size:18
Alignment explanation
Indices: 11398398--11398450 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
11398388 ATTCACCTAA
*
11398398 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
11398417 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
11398435 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
11398451 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:11398568 original size:9 final size:9
Alignment explanation
Indices: 11398554--11398602 Score: 71
Period size: 9 Copynumber: 5.4 Consensus size: 9
11398544 GTAGTGATTC
11398554 AATTCGGTT
1 AATTCGGTT
*
11398563 AATTCGGGT
1 AATTCGGTT
*
11398572 AATCCGGTT
1 AATTCGGTT
11398581 AATTCGGTT
1 AATTCGGTT
*
11398590 AATTCGATT
1 AATTCGGTT
11398599 AATT
1 AATT
11398603 TTTAACCAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:11399302 original size:18 final size:18
Alignment explanation
Indices: 11399279--11399321 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
11399269 ACCCAATCTA
**
11399279 AACCCAAGTATTCAACCC
1 AACCCAAGTACCCAACCC
*
11399297 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
11399315 AACCCAA
1 AACCCAA
11399322 TCATAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:11399444 original size:9 final size:9
Alignment explanation
Indices: 11399430--11399496 Score: 98
Period size: 9 Copynumber: 7.4 Consensus size: 9
11399420 GTAGTGATTC
*
11399430 AATTTGGTT
1 AATTCGGTT
*
11399439 AATTTGGTT
1 AATTCGGTT
*
11399448 AATTCGGGT
1 AATTCGGTT
11399457 AATTCGGTT
1 AATTCGGTT
*
11399466 AATTCGGGT
1 AATTCGGTT
11399475 AATTCGGTT
1 AATTCGGTT
11399484 AATTCGGTT
1 AATTCGGTT
11399493 AATT
1 AATT
11399497 TTTAACCAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:11400074 original size:5 final size:5
Alignment explanation
Indices: 11400064--11400102 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
11400054 CCTTGACCCC
* *
11400064 CTTTT CTTTT CTTTT CTTTT CTTTT -TTTC CCTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
11400103 TCACATTCCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
4 3 0.10
5 26 0.90
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (5 bp):
CTTTT
Found at i:11400084 original size:15 final size:14
Alignment explanation
Indices: 11400063--11400139 Score: 57
Period size: 14 Copynumber: 5.1 Consensus size: 14
11400053 GCCTTGACCC
11400063 CCTTTTCTTTTCTTT
1 CCTTTTCTTTT-TTT
*
11400078 TCTTTTCTTTTTTT
1 CCTTTTCTTTTTTT
*
11400092 CCCTTTCTTTTTCACATT
1 CCTTTTCTTTTT----TT
*
11400110 CCTTTT-TTTTGTT
1 CCTTTTCTTTTTTT
11400123 CTCTTTCTCTTTTTTT
1 C-CTTT-TCTTTTTTT
11400139 C
1 C
11400140 TTTCTCCCTT
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
13 3 0.06
14 17 0.35
15 11 0.22
16 7 0.14
17 4 0.08
18 7 0.14
ACGTcount: A:0.03, C:0.25, G:0.01, T:0.71
Consensus pattern (14 bp):
CCTTTTCTTTTTTT
Found at i:11408740 original size:59 final size:59
Alignment explanation
Indices: 11408673--11408790 Score: 218
Period size: 59 Copynumber: 2.0 Consensus size: 59
11408663 ATCAAACTCC
*
11408673 TTACCTCTCAACCAAACAAATGTAGGTTTCAACTTAAAATTTTCAATATTAAGTAATAA
1 TTACCTCTCAACCAAACAAATGTAGGTTTCAACTTAAAATTTTCAAAATTAAGTAATAA
*
11408732 TTACCTCTCAACCAAACGAATGTAGGTTTCAACTTAAAATTTTCAAAATTAAGTAATAA
1 TTACCTCTCAACCAAACAAATGTAGGTTTCAACTTAAAATTTTCAAAATTAAGTAATAA
11408791 GTAACTAACT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (59 bp):
TTACCTCTCAACCAAACAAATGTAGGTTTCAACTTAAAATTTTCAAAATTAAGTAATAA
Found at i:11422592 original size:25 final size:25
Alignment explanation
Indices: 11422558--11422611 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
11422548 TCGGGATTAC
11422558 CATTATCACCGAAGAAGAAAGATGT
1 CATTATCACCGAAGAAGAAAGATGT
11422583 CATTATCACCGAAGAAGAAAGATGT
1 CATTATCACCGAAGAAGAAAGATGT
11422608 CATT
1 CATT
11422612 TGGGTGATCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.22
Consensus pattern (25 bp):
CATTATCACCGAAGAAGAAAGATGT
Found at i:11435444 original size:26 final size:26
Alignment explanation
Indices: 11435390--11435462 Score: 96
Period size: 26 Copynumber: 2.9 Consensus size: 26
11435380 AAAAATAAAA
* **
11435390 ATTTACCAAAATAT-T-ATAACTTTT
1 ATTTACCAAAATATATAAAAAAATTT
*
11435414 TTTTACCAAAATATATAAAAAAATTT
1 ATTTACCAAAATATATAAAAAAATTT
11435440 ATTTACCAAAATATATAAAAAAA
1 ATTTACCAAAATATATAAAAAAA
11435463 CCAAAAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
24 13 0.31
25 1 0.02
26 28 0.67
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (26 bp):
ATTTACCAAAATATATAAAAAAATTT
Found at i:11435444 original size:50 final size:51
Alignment explanation
Indices: 11435359--11435457 Score: 132
Period size: 50 Copynumber: 1.9 Consensus size: 51
11435349 TAATATGAGG
11435359 TTTTTTACAATAATATTATAAAAAAATAAAAATTTACCAAAATATTATAACTT
1 TTTTTTACAATAATATTATAAAAAAAT-AAAATTTACCAAAATA-TATAACTT
**
11435412 TTTTTTACCAA-AATA-TATAAAAAAAT-TTATTTACCAAAATATATAA
1 TTTTTTA-CAATAATATTATAAAAAAATAAAATTTACCAAAATATATAA
11435458 AAAAACCAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
49 5 0.12
50 13 0.30
52 11 0.26
53 11 0.26
54 3 0.07
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (51 bp):
TTTTTTACAATAATATTATAAAAAAATAAAATTTACCAAAATATATAACTT
Found at i:11435659 original size:11 final size:11
Alignment explanation
Indices: 11435643--11435679 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
11435633 GTTGGCGCGG
11435643 AAAAGAAGAGA
1 AAAAGAAGAGA
11435654 AAAAG-AGAGA
1 AAAAGAAGAGA
*
11435664 AAAAGAGGAGA
1 AAAAGAAGAGA
11435675 AAAAG
1 AAAAG
11435680 GAGGTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (11 bp):
AAAAGAAGAGA
Found at i:11435744 original size:19 final size:21
Alignment explanation
Indices: 11435706--11435744 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
11435696 AATAATTGAT
*
11435706 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
11435727 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
11435745 TTTTTGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:11435823 original size:3 final size:3
Alignment explanation
Indices: 11435817--11435842 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
11435807 ATTATTATTA
11435817 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
11435843 AGTATTAAGA
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:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:11436048 original size:36 final size:36
Alignment explanation
Indices: 11436004--11436103 Score: 112
Period size: 36 Copynumber: 3.1 Consensus size: 36
11435994 ATTATTTTTA
11436004 ATAAAATTAATAATTTTAGTGTGTATTATTTTGAGT
1 ATAAAATTAATAATTTTAGTGTGTATTATTTTGAGT
*
11436040 ATAAAA-T--T-A--TTA----ATATTATTTTGAGT
1 ATAAAATTAATAATTTTAGTGTGTATTATTTTGAGT
*
11436066 ATAAAATTAATAATTTTAGTGTGTATTATTTTGTGT
1 ATAAAATTAATAATTTTAGTGTGTATTATTTTGAGT
11436102 AT
1 AT
11436104 TATTTTGAGT
Statistics
Matches: 51, Mismatches: 3, Indels: 20
0.69 0.04 0.27
Matches are distributed among these distances:
26 19 0.37
27 1 0.02
29 1 0.02
30 4 0.08
32 4 0.08
33 1 0.02
35 1 0.02
36 20 0.39
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (36 bp):
ATAAAATTAATAATTTTAGTGTGTATTATTTTGAGT
Found at i:11436056 original size:26 final size:26
Alignment explanation
Indices: 11436027--11436079 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
11436017 TTTTAGTGTG
*
11436027 TATTATTTTGAGTATAAAATTATTAA
1 TATTATTTTGAGTATAAAATTAATAA
11436053 TATTATTTTGAGTATAAAATTAATAA
1 TATTATTTTGAGTATAAAATTAATAA
11436079 T
1 T
11436080 TTTAGTGTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (26 bp):
TATTATTTTGAGTATAAAATTAATAA
Found at i:11436102 original size:12 final size:12
Alignment explanation
Indices: 11436085--11436115 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11436075 ATAATTTTAG
11436085 TGTGTATTATTT
1 TGTGTATTATTT
11436097 TGTGTATTATTT
1 TGTGTATTATTT
*
11436109 TGAGTAT
1 TGTGTAT
11436116 AAATTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.61
Consensus pattern (12 bp):
TGTGTATTATTT
Found at i:11438884 original size:29 final size:29
Alignment explanation
Indices: 11438818--11438968 Score: 74
Period size: 27 Copynumber: 5.4 Consensus size: 29
11438808 AATAAAATTA
* *
11438818 CCTTTTT-TTTCTTTTTT-TCCT-TCCTTC
1 CCTTTTTCTTT-TTTTTTCTCTTCTCCTTT
11438845 CCTCTTCTTCTTTTTTTTTCTCTTCTCCTTT
1 CCT-TT-TTCTTTTTTTTTCTCTTCTCCTTT
*
11438876 CCTTTTTCTTTCCTTCTTTCT-TTCT--TTT
1 CCTTTTTCTTT--TTTTTTCTCTTCTCCTTT
* ** *
11438904 --TTCTTCTCTTTTCCTTCTCTTCTTC-TT
1 CCTTTTTCT-TTTTTTTTCTCTTCTCCTTT
*
11438931 -CTTTCTT-TCTTTTTTTCTCTTCTCCTTT
1 CCTTT-TTCTTTTTTTTTCTCTTCTCCTTT
*
11438959 CC-CTTTCTTT
1 CCTTTTTCTTT
11438969 CCTTCTTTTT
Statistics
Matches: 96, Mismatches: 12, Indels: 31
0.69 0.09 0.22
Matches are distributed among these distances:
25 7 0.07
26 10 0.10
27 22 0.23
28 13 0.14
29 17 0.18
30 12 0.12
31 15 0.16
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (29 bp):
CCTTTTTCTTTTTTTTTCTCTTCTCCTTT
Found at i:11438892 original size:40 final size:41
Alignment explanation
Indices: 11438848--11439042 Score: 178
Period size: 40 Copynumber: 4.8 Consensus size: 41
11438838 TTCCTTCCCT
11438848 CTTC-TTCTTTTTTTTTCTCTTCTCCTTTCCTTTTTCTTTC
1 CTTCTTTCTTTTTTTTTCTCTTCTCCTTTCCTTTTTCTTTC
* *
11438888 CTTCTTTCTTTCTTTTT-TCTTCTCTTTTCCTTCTCTTC-TT-
1 CTTCTTTCTTTTTTTTTCTCTTCTCCTTTCCTT-T-TTCTTTC
*
11438928 CTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCC-CTTTCTTTC
1 CTTCTTTC-TT-TTTTTTTCTCTTCTCCTTTCCTTTTTCTTTC
* *
11438970 CTTCTTT-TTCTTTCTTCTC-TCTCCTTT-CTTCCTTTCTTT-
1 CTTCTTTCTTTTTTTTTCTCTTCTCCTTTCCTT--TTTCTTTC
*
11439009 CTCTCTTTCTTTCTTTCTTTCT-TTC-CCTCTCCTT
1 CT-TCTTTCTTT-TTT-TTTCTCTTCTCCTTTCCTT
11439043 CTGCCCCCCA
Statistics
Matches: 127, Mismatches: 11, Indels: 31
0.75 0.07 0.18
Matches are distributed among these distances:
37 1 0.01
38 8 0.06
39 10 0.08
40 43 0.34
41 21 0.17
42 23 0.18
43 21 0.17
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (41 bp):
CTTCTTTCTTTTTTTTTCTCTTCTCCTTTCCTTTTTCTTTC
Found at i:11438896 original size:4 final size:4
Alignment explanation
Indices: 11438852--11439033 Score: 123
Period size: 4 Copynumber: 45.8 Consensus size: 4
11438842 TTCCCTCTTC
* * *
11438852 TTCT TT-T TT-T TTCT CTTC- TCCT TTCC TT-T TTCT TTCC TTCT TTCT
1 TTCT TTCT TTCT TTCT -TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT
* *
11438897 TTCT TT-T TTCT TCTCTT TTCC TTCT CTTC- TTC- TTCT TTCT TTCT TTTT
1 TTCT TTCT TTCT T-TC-T TTCT TTCT -TTCT TTCT TTCT TTCT TTCT TTCT
* *
11438945 TTCT CTTC- TCCT TTCCCT TTCT TTCC TTC- TT-T TTCT TTCT TCTCT
1 TTCT -TTCT TTCT TT--CT TTCT TTCT TTCT TTCT TTCT TTCT T-TCT
* * *
11438990 CTCCT TTCT TCCT TTCT TTCT CTCT TTCT TTCT TTCT TTCT TTC
1 -TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTC
11439034 CCTCTCCTTC
Statistics
Matches: 142, Mismatches: 19, Indels: 34
0.73 0.10 0.17
Matches are distributed among these distances:
3 25 0.18
4 92 0.65
5 18 0.13
6 7 0.05
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (4 bp):
TTCT
Found at i:11438915 original size:11 final size:11
Alignment explanation
Indices: 11438849--11438954 Score: 64
Period size: 11 Copynumber: 9.7 Consensus size: 11
11438839 TCCTTCCCTC
11438849 TTCTTCT-TTT
1 TTCTTCTCTTT
* *
11438859 TTTTTCTCTTC
1 TTCTTCTCTTT
*
11438870 TCCTT-TCCTTT
1 TTCTTCT-CTTT
11438881 TTCTT-TCCTTCT
1 TTCTTCT-CTT-T
11438893 TTCTT-TCTTTT
1 TTCTTCTC-TTT
11438904 TTCTTCTCTTT
1 TTCTTCTCTTT
* *
11438915 TCCTTCTCTTC
1 TTCTTCTCTTT
11438926 TTCTTCT-TTCT
1 TTCTTCTCTT-T
11438937 TTCTT-T-TTT
1 TTCTTCTCTTT
11438946 TCTCTTCTC
1 T-TCTTCTC
11438955 CTTTCCCTTT
Statistics
Matches: 77, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
9 2 0.03
10 16 0.21
11 48 0.62
12 11 0.14
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (11 bp):
TTCTTCTCTTT
Found at i:11438941 original size:48 final size:45
Alignment explanation
Indices: 11438852--11439033 Score: 146
Period size: 45 Copynumber: 4.1 Consensus size: 45
11438842 TTCCCTCTTC
* * * * *
11438852 TTCTTTTTTTTTCTCTTCTCCTTTC-CTTTTTCTTTCCTTCTTTCT
1 TTCTCTTTTCTTC-CTTTTCCTTTCTCTTCTTCTTTCTTTCTTTCT
* *
11438897 TTCTTTTTTCTTCTCTTTTCCTTCTCTTCTTCTTCTTTCTTTCTTTTT
1 TTCTCTTTTCTTC-CTTTTCCTT-TC-TCTTCTTCTTTCTTTCTTTCT
* *
11438945 TTCTCTTCTCCTTTCCCTTT-CTTTC-CTTCTT-TTTCTTTC-TTCT
1 TTCTCTT-TTC-TTCCTTTTCCTTTCTCTTCTTCTTTCTTTCTTTCT
* *
11438988 CTCTCCTTTCTTCC-TTT-CTTTCTC-TCTTTCTTTCTTTCTTTCT
1 TTCTCTTTTCTTCCTTTTCCTTTCTCTTC-TTCTTTCTTTCTTTCT
11439031 TTC
1 TTC
11439034 CCTCTCCTTC
Statistics
Matches: 115, Mismatches: 13, Indels: 20
0.78 0.09 0.14
Matches are distributed among these distances:
40 10 0.09
41 7 0.06
42 10 0.09
43 14 0.12
44 8 0.07
45 27 0.23
46 2 0.02
47 2 0.02
48 26 0.23
49 6 0.05
50 3 0.03
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (45 bp):
TTCTCTTTTCTTCCTTTTCCTTTCTCTTCTTCTTTCTTTCTTTCT
Found at i:11438965 original size:18 final size:17
Alignment explanation
Indices: 11438944--11439036 Score: 55
Period size: 18 Copynumber: 5.1 Consensus size: 17
11438934 TCTTTCTTTT
11438944 TTTCTCTTCTCCTTTCCC
1 TTTCT-TTCTCCTTTCCC
* **
11438962 TTTCTTTCCTTCTTTTTC
1 TTTCTTT-CTCCTTTCCC
11438980 TTTCTTCTCTCTCCTTTCTTCC
1 TTTC-T-T-TCTCCTTTC--CC
11439002 TTTCTTTCTCTCTTT--C
1 TTTCTTTCTC-CTTTCCC
*
11439018 TTTCTTTCTTTCTTTCCC
1 TTTCTTTC-TCCTTTCCC
11439036 T
1 T
11439037 CTCCTTCTGC
Statistics
Matches: 58, Mismatches: 7, Indels: 20
0.68 0.08 0.24
Matches are distributed among these distances:
16 13 0.22
17 3 0.05
18 18 0.31
19 5 0.09
20 12 0.21
21 2 0.03
22 5 0.09
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTCTTTCTCCTTTCCC
Found at i:11438978 original size:74 final size:74
Alignment explanation
Indices: 11438861--11439036 Score: 185
Period size: 74 Copynumber: 2.3 Consensus size: 74
11438851 CTTCTTTTTT
* *
11438861 TTTCTCTTC-TCCTTTCCTTTTTCTTTCCTTCTTTCTTTCTTTTTTCTTCTCTTTTCCTTCTCTT
1 TTTCT-TTCTTCCTTTCC-CTTTCTTTCCTTC-TT-TTTC---TTTCTTCTC-TCTCCTT-TCTT
* * *
11438925 CTTCTTCTTTCTTTCTTTT
57 CCT-TTCTTTCTCTCTTTC
11438944 TTTCTCTTC-TCCTTTCCCTTTCTTTCCTTCTTTTTCTTTCTTCTCTCTCCTTTCTTCCTTTCTT
1 TTTCT-TTCTTCCTTTCCCTTTCTTTCCTTCTTTTTCTTTCTTCTCTCTCCTTTCTTCCTTTCTT
11439008 TCTCTCTTTC
65 TCTCTCTTTC
*
11439018 TTTCTTTCTTTCTTTCCCT
1 TTTCTTTCTTCCTTTCCCT
11439037 CTCCTTCTGC
Statistics
Matches: 86, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
73 3 0.03
74 27 0.31
75 6 0.07
76 6 0.07
77 9 0.10
80 4 0.05
81 2 0.02
82 12 0.14
83 17 0.20
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (74 bp):
TTTCTTTCTTCCTTTCCCTTTCTTTCCTTCTTTTTCTTTCTTCTCTCTCCTTTCTTCCTTTCTTT
CTCTCTTTC
Found at i:11439107 original size:27 final size:27
Alignment explanation
Indices: 11439077--11439152 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 27
11439067 TATTATTAAC
11439077 TGGTGCCGCCAATGGTATTGGCACCAT
1 TGGTGCCGCCAATGGTATTGGCACCAT
* *
11439104 TGGTGCCGCCAATGGTTTTGGCACCTT
1 TGGTGCCGCCAATGGTATTGGCACCAT
**
11439131 TGGTGCCGCCAATCCTATTGGC
1 TGGTGCCGCCAATGGTATTGGC
11439153 GTGACCAGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.14, C:0.28, G:0.29, T:0.29
Consensus pattern (27 bp):
TGGTGCCGCCAATGGTATTGGCACCAT
Found at i:11439228 original size:26 final size:27
Alignment explanation
Indices: 11439198--11439269 Score: 128
Period size: 26 Copynumber: 2.7 Consensus size: 27
11439188 TTTTATTTTT
11439198 TTATATATTTTGGTAAATAAAAAAAA-
1 TTATATATTTTGGTAAATAAAAAAAAG
11439224 TTATATATTTTGGTAAATAAAAAAAAG
1 TTATATATTTTGGTAAATAAAAAAAAG
11439251 TTATAATATTTTGGTAAAT
1 TTAT-ATATTTTGGTAAAT
11439270 TTTTATTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
26 26 0.59
27 4 0.09
28 14 0.32
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.42
Consensus pattern (27 bp):
TTATATATTTTGGTAAATAAAAAAAAG
Found at i:11440772 original size:19 final size:19
Alignment explanation
Indices: 11440744--11440800 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 19
11440734 ACTTTATACT
*
11440744 ATTTTTTAATAA-TTTT-A
1 ATTTTTTTATAATTTTTGA
11440761 A-TTTTTTATAATTTTTGA
1 ATTTTTTTATAATTTTTGA
* *
11440779 ATTTTTTTATAAATTTTAA
1 ATTTTTTTATAATTTTTGA
11440798 ATT
1 ATT
11440801 ATTTATTGAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
16 9 0.26
17 5 0.15
18 2 0.06
19 18 0.53
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
ATTTTTTTATAATTTTTGA
Found at i:11451171 original size:3 final size:3
Alignment explanation
Indices: 11451165--11451190 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
11451155 AAAACTAAAA
11451165 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
11451191 ACAATCATTT
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:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:11456966 original size:13 final size:13
Alignment explanation
Indices: 11456944--11456982 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
11456934 AGTGATTTAA
* *
11456944 AAAAAATAAATTT
1 AAAAATTAAATAT
11456957 AAAAATTAAAATAT
1 AAAAATT-AAATAT
11456971 AAAAATTAAATA
1 AAAAATTAAATA
11456983 GAATGCTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAAATTAAATAT
Found at i:11461056 original size:23 final size:21
Alignment explanation
Indices: 11461021--11461063 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 21
11461011 TTCTGTCACA
*
11461021 ATTTATCATAATAATTTATTTTG
1 ATTTATCAAAAT-A-TTATTTTG
*
11461044 ATTTATTAAAATATTATTTT
1 ATTTATCAAAATATTATTTT
11461064 TAATTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 1 0.06
23 10 0.56
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTTATCAAAATATTATTTTG
Found at i:11462143 original size:12 final size:13
Alignment explanation
Indices: 11462113--11462138 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11462103 AAAAAAGAAG
11462113 CATTAATTAAAAA
1 CATTAATTAAAAA
11462126 CATTAATTAAAAA
1 CATTAATTAAAAA
11462139 TTTAAAAAAA
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:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
CATTAATTAAAAA
Found at i:11465477 original size:17 final size:17
Alignment explanation
Indices: 11465456--11465501 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
11465446 ATTTAAAAAA
11465456 ATAAATATATTAATTTAT
1 ATAAATATATT-ATTTAT
11465474 -TAAATATAATTATTTAT
1 ATAAATAT-ATTATTTAT
11465491 ATATAATATAT
1 ATA-AATATAT
11465502 AAACGTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 13 0.52
18 7 0.28
19 5 0.20
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATAAATATATTATTTAT
Found at i:11465581 original size:30 final size:29
Alignment explanation
Indices: 11465547--11465612 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 29
11465537 ATAATTTACA
11465547 AAAATTAGATC-AAATCAAAATTTCATATAT
1 AAAATTAGA-CAAAATCAAAATTT-ATATAT
*
11465577 AAAATTATACAAAATCAAAATTTATATAT
1 AAAATTAGACAAAATCAAAATTTATATAT
*
11465606 ACAATTA
1 AAAATTA
11465613 CACATTAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 13 0.39
30 20 0.61
ACGTcount: A:0.56, C:0.09, G:0.02, T:0.33
Consensus pattern (29 bp):
AAAATTAGACAAAATCAAAATTTATATAT
Found at i:11476026 original size:20 final size:20
Alignment explanation
Indices: 11476001--11476043 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
11475991 TTACAGAATT
*
11476001 ATCACTTAATTAGACTTTGA
1 ATCACTTAATTAGACTTTAA
*
11476021 ATCACTTAATTTGACTTTAA
1 ATCACTTAATTAGACTTTAA
11476041 ATC
1 ATC
11476044 TATATTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.42
Consensus pattern (20 bp):
ATCACTTAATTAGACTTTAA
Found at i:11477207 original size:9 final size:9
Alignment explanation
Indices: 11477193--11477259 Score: 107
Period size: 9 Copynumber: 7.4 Consensus size: 9
11477183 TTTGTTTAAA
11477193 AATTAACCG
1 AATTAACCG
11477202 AATTAACCG
1 AATTAACCG
11477211 AATTAACCG
1 AATTAACCG
11477220 AATTAACCG
1 AATTAACCG
*
11477229 AATTACCCG
1 AATTAACCG
*
11477238 AATTACCCG
1 AATTAACCG
*
11477247 AATTATCCG
1 AATTAACCG
11477256 AATT
1 AATT
11477260 GAATCACTAC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 56 1.00
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:11477299 original size:37 final size:37
Alignment explanation
Indices: 11477258--11477332 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
11477248 ATTATCCGAA
* *
11477258 TTGAATCACTACATAATTAAAAATATTACATAAGTCT
1 TTGAACCACTACATAATTAAAAACATTACATAAGTCT
* *
11477295 TTGAACCACTACATAATTAAAAACATTGCATAATTCT
1 TTGAACCACTACATAATTAAAAACATTACATAAGTCT
11477332 T
1 T
11477333 GAAATTAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.35
Consensus pattern (37 bp):
TTGAACCACTACATAATTAAAAACATTACATAAGTCT
Found at i:11477548 original size:39 final size:38
Alignment explanation
Indices: 11477458--11477564 Score: 178
Period size: 39 Copynumber: 2.8 Consensus size: 38
11477448 ACTTAAGGGT
*
11477458 TAGACTTTAGTTTTATTTTTATTGGGTTGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGTAATTGGG
11477496 TAGACTTTAGTTTTAGTTTTATTGGGTTAGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTT-GGTAATTGGG
* *
11477535 TAGATTTTTGTTTTAGTTTTATTGGGTTGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGG
11477565 GTTGGTAATT
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
38 29 0.45
39 36 0.55
ACGTcount: A:0.18, C:0.02, G:0.27, T:0.53
Consensus pattern (38 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGTAATTGGG
Found at i:11477577 original size:17 final size:18
Alignment explanation
Indices: 11477555--11477592 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
11477545 TTTTAGTTTT
11477555 ATTGGGTTGGGTTGG-TA
1 ATTGGGTTGGGTTGGATA
11477572 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGGATA
11477590 ATT
1 ATT
11477593 TTTGTAATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.16, C:0.00, G:0.42, T:0.42
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGATA
Found at i:11480065 original size:36 final size:36
Alignment explanation
Indices: 11480025--11480297 Score: 276
Period size: 36 Copynumber: 7.0 Consensus size: 36
11480015 GGTAGCTTTA
*
11480025 GCTACACTTATCTGATCAAATGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* * * *
11480061 GCTACACTTATCTTATCAAGAGACAAAGTGGTAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGT-G--A-T--AAG---T
11480106 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
11480143 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
11480188 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
11480225 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
11480261 GCTACACTTATCTGACCAAGTGAGAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
11480297 G
1 G
11480298 GTAGCCTTAG
Statistics
Matches: 200, Mismatches: 17, Indels: 40
0.78 0.07 0.16
Matches are distributed among these distances:
36 124 0.62
37 4 0.02
39 1 0.00
40 5 0.03
42 5 0.03
43 1 0.00
45 4 0.02
46 56 0.28
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:11480097 original size:82 final size:82
Alignment explanation
Indices: 11479989--11480367 Score: 502
Period size: 82 Copynumber: 4.6 Consensus size: 82
11479979 TTTGAGTACT
* *
11479989 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAATGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
11480054 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
* *
11480071 TCTTATCAAGAGACAAAGTGGTAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
11480136 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
11480153 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
11480218 GATAAGTGCTATACTTA
66 GATAAGTGCTACACTTA
* * * * * ** ** *
11480235 TCTGATCAAGTGAAAAAGTGATAAGTGCTA-CACTTATCTGAC-C--AAGTGAGAAAGTG-ATAA
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGC-TTTAGCT-ACACTTATCTGATCAAGTGAAAAA
*
11480295 GTGGT-AGCCTTAGCTACACTTA
64 GTGATAAG---T-GCTACACTTA
*
11480317 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGAT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
11480368 TAGGGACAAG
Statistics
Matches: 262, Mismatches: 25, Indels: 19
0.86 0.08 0.06
Matches are distributed among these distances:
78 2 0.01
79 7 0.03
80 11 0.04
81 8 0.03
82 227 0.87
83 7 0.03
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.29
Consensus pattern (82 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCTACACTTA
Found at i:11480234 original size:118 final size:118
Alignment explanation
Indices: 11480107--11480343 Score: 420
Period size: 118 Copynumber: 2.0 Consensus size: 118
11480097 GGTAGCTTTA
*
11480107 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGACCAAGAGACAAAGT
*
11480172 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
66 GATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* * *
11480225 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGACCAAGTGAGAAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGACCAAGAGACAAAGT
*
11480290 GATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
66 GATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
11480343 G
1 G
11480344 GTAGCTTAGC
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
118 113 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (118 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGACCAAGAGACAAAGT
GATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:11480367 original size:45 final size:46
Alignment explanation
Indices: 11480261--11480386 Score: 195
Period size: 46 Copynumber: 2.8 Consensus size: 46
11480251 AGTGATAAGT
* *
11480261 GCTACACTTATCTGACCAAGTGAGAAAGTGATAAGTGGTAGCCTTA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTA
11480307 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTA
* *
11480352 GCTACACTTATCTGAT-TAGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
11480387 ATCATACGTA
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
43 12 0.16
44 5 0.07
45 20 0.26
46 39 0.51
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.28
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTA
Found at i:11482260 original size:16 final size:16
Alignment explanation
Indices: 11482239--11482274 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
11482229 AAAGCACTTA
11482239 TAATGGAATAGAGGCG
1 TAATGGAATAGAGGCG
11482255 TAATGGAATAGAGGCG
1 TAATGGAATAGAGGCG
11482271 TAAT
1 TAAT
11482275 AGCAATTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.22
Consensus pattern (16 bp):
TAATGGAATAGAGGCG
Found at i:11482318 original size:45 final size:44
Alignment explanation
Indices: 11482254--11482350 Score: 142
Period size: 44 Copynumber: 2.2 Consensus size: 44
11482244 GAATAGAGGC
11482254 GTAATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAG-AATTC-ATGTGTTTGGTTGAAT
* *
11482299 GTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
*
11482343 GGAATGGA
1 GTAATGGA
11482351 GGTGTAATAG
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 24 0.50
45 23 0.48
ACGTcount: A:0.31, C:0.05, G:0.30, T:0.34
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
Found at i:11482528 original size:18 final size:17
Alignment explanation
Indices: 11482505--11482541 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
11482495 AATTATTATT
11482505 AAATATAT-A-TTAATTA
1 AAATATATAATTTAA-TA
11482521 AAATATATAATTTAATA
1 AAATATATAATTTAATA
11482538 AAAT
1 AAAT
11482542 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 7 0.37
18 4 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATATAATTTAATA
Found at i:11482535 original size:14 final size:15
Alignment explanation
Indices: 11482498--11482537 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
11482488 TTAACATAAT
11482498 TATT-ATTAAATATA
1 TATTAATTAAATATA
11482512 TATTAATTAAA-ATA
1 TATTAATTAAATATA
*
11482526 TA-TAATTTAATA
1 TATTAATTAAATA
11482538 AAATTCTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 7 0.30
14 10 0.43
15 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTAATTAAATATA
Found at i:11482639 original size:102 final size:102
Alignment explanation
Indices: 11482525--11482744 Score: 404
Period size: 102 Copynumber: 2.2 Consensus size: 102
11482515 TAATTAAAAT
*
11482525 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTATTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
* * *
11482590 AATACTATAAAATATAATTTAAAGTTATTATTATTAA
66 AATAATATAAAATATAATTTAAAATAATTATTATTAA
11482627 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
11482692 AATAATATAAAATATAATTTAAAATAATTATTATTAA
66 AATAATATAAAATATAATTTAAAATAATTATTATTAA
11482729 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
11482745 ATATATAATT
Statistics
Matches: 114, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 114 1.00
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (102 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
AATAATATAAAATATAATTTAAAATAATTATTATTAA
Found at i:11482876 original size:61 final size:59
Alignment explanation
Indices: 11482685--11482876 Score: 156
Period size: 59 Copynumber: 3.3 Consensus size: 59
11482675 CTAAAATCAT
11482685 AATATATAA--TAATAT-AAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAA
1 AATATATAATTTAATATAAAAATATAATTT--AA-AATTATTATTAAATATAATTTAATAAA
* * * *
11482744 AATATATAATTT-A-ATAAAATTCTTAATATT-AAA-TATTCTT--ATATGAATTTACT-AA
1 AATATATAATTTAATATAAAAAT-ATAAT-TTAAAATTATTATTAAATAT-AATTTAATAAA
*
11482799 AATCATA-ATATATAATACTACAAAATATAATTTAAAATTATTATTAAATATAA-TTAGATAAA
1 AAT-ATATA-ATTTAATA-TA-AAAATATAATTTAAAATTATTATTAAATATAATTTA-ATAAA
11482861 AATATATAATTTAATA
1 AATATATAATTTAATA
11482877 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:11482903 original size:117 final size:119
Alignment explanation
Indices: 11482627--11482935 Score: 543
Period size: 117 Copynumber: 2.6 Consensus size: 119
11482617 TTATTATTAA
11482627 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
* *
11482692 AATAATATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAT
66 AATACTACAAAATATAATTT-AAATAATTATTATTAAATATAATTTAATAAAAAT
11482747 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
11482812 AATACTACAAAATATAATTT-AA-AATTATTATTAAATATAA-TTAGATAAAAAT
66 AATACTACAAAATATAATTTAAATAATTATTATTAAATATAATTTA-ATAAAAAT
* *
11482864 ATATAATTTAATAAAATTTTTAATATTAAATATTTTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
11482929 AATACTA
66 AATACTA
11482936 AAATCATAAT
Statistics
Matches: 184, Mismatches: 4, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
116 3 0.02
117 96 0.52
118 2 0.01
120 83 0.45
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (119 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
AATACTACAAAATATAATTTAAATAATTATTATTAAATATAATTTAATAAAAAT
Found at i:11482932 original size:56 final size:56
Alignment explanation
Indices: 11482755--11482932 Score: 159
Period size: 56 Copynumber: 3.1 Consensus size: 56
11482745 ATATATAATT
* *
11482755 TAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATA
1 TAATAAAATTTTTAATATTAAATATTTTTATATGAATTTACTAAAATCATAATATA
** * * *
11482811 TAATACTACAAAATATAAT-TTAAAATTATTATTAAATAT-AA-TTAGATAAAA--ATATATAAT
1 TAATA--A-AATTTTTAATATT-AAA-TATT-TT-TATATGAATTTA-CTAAAATCATA-AT-AT
*
11482871 T
56 A
11482872 TAATAAAATTTTTAATATTAAATATTTTTATATGAATTTACTAAAATCATAATATA
1 TAATAAAATTTTTAATATTAAATATTTTTATATGAATTTACTAAAATCATAATATA
11482928 TAATA
1 TAATA
11482933 CTAAAATCAT
Statistics
Matches: 93, Mismatches: 14, Indels: 30
0.68 0.10 0.22
Matches are distributed among these distances:
55 4 0.04
56 21 0.23
57 9 0.10
58 16 0.17
59 15 0.16
60 9 0.10
61 15 0.16
62 4 0.04
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (56 bp):
TAATAAAATTTTTAATATTAAATATTTTTATATGAATTTACTAAAATCATAATATA
Found at i:11482954 original size:23 final size:21
Alignment explanation
Indices: 11482910--11482950 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
11482900 TATATGAATT
11482910 TACTAAAATCATAATATATAA
1 TACTAAAATCATAATATATAA
11482931 TACTAAAATCATAATATATA
1 TACTAAAATCATAATATATA
11482951 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:11487217 original size:21 final size:21
Alignment explanation
Indices: 11487191--11487246 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
11487181 AATAGCGGTG
* *
11487191 GCGGTGAGATTAGTTATTGTA
1 GCGGTGAGATTAGATACTGTA
*
11487212 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
11487233 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
11487247 AACAACGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.25, C:0.07, G:0.38, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:11487480 original size:15 final size:15
Alignment explanation
Indices: 11487460--11487515 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
11487450 ATTTACTAAA
*
11487460 ATTATAATATATAAT
1 ATTATAAAATATAAT
11487475 ATTATAAAATAT-A-
1 ATTATAAAATATAAT
*
11487488 ATT-TAAAATA-ATT
1 ATTATAAAATATAAT
*
11487501 ATTATTAAATATAAT
1 ATTATAAAATATAAT
11487516 TTAACAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 7 0.21
13 6 0.18
14 7 0.21
15 13 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATAAAATATAAT
Found at i:11487510 original size:26 final size:25
Alignment explanation
Indices: 11487470--11487532 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 25
11487460 ATTATAATAT
11487470 ATAATATTATAAAATATAATTTAAA
1 ATAATATTATAAAATATAATTTAAA
*
11487495 ATAATTATTATTAAATATAATTTAACA
1 ATAA-TATTATAAAATATAATTTAA-A
*
11487522 AAAATA-TATAA
1 ATAATATTATAA
11487533 TTTAATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 8 0.24
26 21 0.64
27 4 0.12
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (25 bp):
ATAATATTATAAAATATAATTTAAA
Found at i:11487528 original size:59 final size:59
Alignment explanation
Indices: 11487465--11487663 Score: 201
Period size: 59 Copynumber: 3.3 Consensus size: 59
11487455 CTAAAATTAT
11487465 AATATATAATATT-ATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
1 AATATATAAT-TTAATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
* * * * * * ** *
11487524 AATATATAATTTAATAAAATTCTTAGTATT-AAAT-ATTCTTATATGAATTTACTAAAATC-AT
1 AATATATAATTTAATAAAA-T-ATAAT-TTAAAATAATTATTAT-TAAATATAATTTAA-CAAA
* *
11487585 AATATATAATACT-ATAAAATATAATTTAAAATAATTATGATTAAATATAATTTAACAAA
1 AATATATAAT-TTAATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
11487644 AATATATAATTTAATAAAAT
1 AATATATAATTTAATAAAAT
11487664 TCTTAGTATT
Statistics
Matches: 108, Mismatches: 21, Indels: 22
0.72 0.14 0.15
Matches are distributed among these distances:
58 6 0.06
59 50 0.46
60 15 0.14
61 33 0.31
62 4 0.04
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (59 bp):
AATATATAATTTAATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
Found at i:11487576 original size:120 final size:120
Alignment explanation
Indices: 11487443--11487682 Score: 453
Period size: 120 Copynumber: 2.0 Consensus size: 120
11487433 TTTAATAGAA
* * *
11487443 TATATGAATTTACTAAAATTATAATATATAATATTATAAAATATAATTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATGATTA
11487508 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
11487563 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATGATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATGATTA
11487628 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
11487683 AATGATTGTA
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
120 117 1.00
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (120 bp):
TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATGATTA
AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
Found at i:11500398 original size:21 final size:23
Alignment explanation
Indices: 11500374--11500453 Score: 76
Period size: 23 Copynumber: 3.5 Consensus size: 23
11500364 GGCCCGACCC
11500374 ATATTAAATATATATAAAAATAT
1 ATATTAAATATATATAAAAATAT
* *
11500397 ATATTTAATATATATTAATATATAT
1 ATATTAAATATATA-TAA-AAATAT
*
11500422 TTGATTAAA-A-ATA-AAAAATAT
1 AT-ATTAAATATATATAAAAATAT
*
11500443 ATATTTAATAT
1 ATATTAAATAT
11500454 GTAATTCGGG
Statistics
Matches: 45, Mismatches: 7, Indels: 11
0.71 0.11 0.17
Matches are distributed among these distances:
20 5 0.11
21 7 0.16
22 2 0.04
23 13 0.29
24 6 0.13
25 7 0.16
26 5 0.11
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (23 bp):
ATATTAAATATATATAAAAATAT
Found at i:11500414 original size:10 final size:10
Alignment explanation
Indices: 11500392--11500422 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
11500382 TATATATAAA
11500392 AATATATATTT
1 AATATATA-TT
11500403 AATATATATT
1 AATATATATT
11500413 AATATATATT
1 AATATATATT
11500423 TGATTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.60
11 8 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
AATATATATT
Found at i:11500705 original size:17 final size:17
Alignment explanation
Indices: 11500683--11500721 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
11500673 TATGTTTATA
11500683 ATTTAAAAAAAATACTC
1 ATTTAAAAAAAATACTC
* *
11500700 ATTTAAAGAAAATACTT
1 ATTTAAAAAAAATACTC
11500717 ATTTA
1 ATTTA
11500722 TGTTTATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.36
Consensus pattern (17 bp):
ATTTAAAAAAAATACTC
Done.