Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 45 of 210
Found at i:15892208 original size:10 final size:10
Alignment explanation
Indices: 15892193--15892222 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
15892183 ACGCTTATTC
15892193 GATACATATA
1 GATACATATA
15892203 GATACATATA
1 GATACATATA
15892213 GATACATATA
1 GATACATATA
15892223 TAATTATTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (10 bp):
GATACATATA
Found at i:15896571 original size:19 final size:17
Alignment explanation
Indices: 15896538--15896577 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
15896528 AATACATATA
15896538 TCATTTCTCATTCAATT
1 TCATTTCTCATTCAATT
15896555 TCATATTCTCAATTCAA-T
1 TCAT-TTCTC-ATTCAATT
15896573 TCATT
1 TCATT
15896578 ATCAATTCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 5 0.24
18 10 0.48
19 6 0.29
ACGTcount: A:0.28, C:0.23, G:0.00, T:0.50
Consensus pattern (17 bp):
TCATTTCTCATTCAATT
Found at i:15909818 original size:49 final size:49
Alignment explanation
Indices: 15909748--15909945 Score: 387
Period size: 49 Copynumber: 4.0 Consensus size: 49
15909738 TTTCTGAATC
15909748 TTCTTTTCTCTCGCATAGAAATTCCACTTTCTGGATTCACTATCCTTTT
1 TTCTTTTCTCTCGCATAGAAATTCCACTTTCTGGATTCACTATCCTTTT
15909797 TTCTTTTCTCTCGCATAGAAATTCCACTTTCTGGATTCACTATCCTTTT
1 TTCTTTTCTCTCGCATAGAAATTCCACTTTCTGGATTCACTATCCTTTT
15909846 TTCTTTTCTCTCGCATAGAAATTCCACTTTCTGGATTCACTATCCTTTT
1 TTCTTTTCTCTCGCATAGAAATTCCACTTTCTGGATTCACTATCCTTTT
*
15909895 TTCTTTTCTCTCGCATAGAAATTCCACTTTCTGGATTCACTATCTTTTT
1 TTCTTTTCTCTCGCATAGAAATTCCACTTTCTGGATTCACTATCCTTTT
15909944 TT
1 TT
15909946 TTCTTTTTCT
Statistics
Matches: 148, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
49 148 1.00
ACGTcount: A:0.18, C:0.26, G:0.08, T:0.48
Consensus pattern (49 bp):
TTCTTTTCTCTCGCATAGAAATTCCACTTTCTGGATTCACTATCCTTTT
Found at i:15911968 original size:50 final size:50
Alignment explanation
Indices: 15911891--15912081 Score: 168
Period size: 50 Copynumber: 3.7 Consensus size: 50
15911881 TCCTGTACTA
* ** *
15911891 CCAATGCCATATCCCAGA-TATGGTCTTACATGGGAGTTCTCATATTGGTG
1 CCAATGCCATGTCCCAGACT-TGGTCTTACATGGGACCTCTCATATCGGTG
* * ** * *
15911941 CCCATGCCATGTCCCAGACTTGATCTTACGGGGGACCTCACATCTCGGTG
1 CCAATGCCATGTCCCAGACTTGGTCTTACATGGGACCTCTCATATCGGTG
* * * **
15911991 CCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATAACCTCAATAATG
1 CCAATGCCATGTCCCAGACTTGGTCTTACATGGGACCTCTCAT-A--TC---GGTG
*
15912047 CCAATGCCATTTCCCAGACTTGGTCTTACATGGGA
1 CCAATGCCATGTCCCAGACTTGGTCTTACATGGGA
15912082 TCTCATTCCC
Statistics
Matches: 109, Mismatches: 25, Indels: 8
0.77 0.18 0.06
Matches are distributed among these distances:
50 73 0.67
51 1 0.01
53 2 0.02
56 33 0.30
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACTTGGTCTTACATGGGACCTCTCATATCGGTG
Found at i:15915018 original size:17 final size:18
Alignment explanation
Indices: 15914995--15915042 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
15914985 AACAGATTTG
*
15914995 TATTTTTTTTATACTCGA
1 TATTTTTTTTATAATCGA
15915013 -ATTTTTTCTT-TAATCGA
1 TATTTTTT-TTATAATCGA
*
15915030 TATTATTTTTATA
1 TATTTTTTTTATA
15915043 TTCTTCAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.62
Consensus pattern (18 bp):
TATTTTTTTTATAATCGA
Found at i:15920667 original size:65 final size:65
Alignment explanation
Indices: 15920563--15920815 Score: 479
Period size: 65 Copynumber: 3.9 Consensus size: 65
15920553 GTTGATTGGC
*
15920563 TTCTATTTCTTATTTCATTGAGATTCGATAATTTTGTATGGAGGGTTGTGGCTAAATTTGCTTTA
1 TTCTATTCCTTATTTCATTGAGATTCGATAATTTTGTATGGAGGGTTGTGGCTAAATTTGCTTTA
15920628 TTCTATTCCTTATTTCATTGAGATTCGATAATTTTGTATGGAGGGTTGTGGCTAAATTTGCTTTA
1 TTCTATTCCTTATTTCATTGAGATTCGATAATTTTGTATGGAGGGTTGTGGCTAAATTTGCTTTA
15920693 TTCTATTCCTTATTTCATTGAGATTCGATAATTTTGTATGGAGGGTTGTGGCTAAATTTGCTTTA
1 TTCTATTCCTTATTTCATTGAGATTCGATAATTTTGTATGGAGGGTTGTGGCTAAATTTGCTTTA
* *
15920758 TTCTATTCCTTATTTCATTGAGATTCGATAATTTTTTATGGAGAGTTGTGGCTAAATT
1 TTCTATTCCTTATTTCATTGAGATTCGATAATTTTGTATGGAGGGTTGTGGCTAAATT
15920816 AATTATTGCT
Statistics
Matches: 185, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 185 1.00
ACGTcount: A:0.22, C:0.10, G:0.19, T:0.48
Consensus pattern (65 bp):
TTCTATTCCTTATTTCATTGAGATTCGATAATTTTGTATGGAGGGTTGTGGCTAAATTTGCTTTA
Found at i:15924554 original size:43 final size:41
Alignment explanation
Indices: 15924497--15924602 Score: 113
Period size: 43 Copynumber: 2.5 Consensus size: 41
15924487 TGATACGGGA
* * * * *
15924497 AATCAGTACATAGCAACCCCTTTAACAATCAAGGATATGATGG
1 AATCAGCACTTAGCAACCCCTTT-ACAATCAAGAAT-TCAGGG
* *
15924540 AATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCAGGG
1 AATCAGCACTTAGCAACC-CCTTTACAATCAAGAATTCAGGG
*
15924582 AATCAACACTTAGCAACCCCT
1 AATCAGCACTTAGCAACCCCT
15924603 CGGGGAATCT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
41 3 0.06
42 21 0.39
43 25 0.46
44 5 0.09
ACGTcount: A:0.39, C:0.25, G:0.13, T:0.23
Consensus pattern (41 bp):
AATCAGCACTTAGCAACCCCTTTACAATCAAGAATTCAGGG
Found at i:15924608 original size:26 final size:26
Alignment explanation
Indices: 15924579--15924628 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
15924569 CAATAATTCA
15924579 GGGAATCAACACTTAGCAACCCCTCG
1 GGGAATCAACACTTAGCAACCCCTCG
**
15924605 GGGAATCTGCACTTAGCAACCCCT
1 GGGAATCAACACTTAGCAACCCCT
15924629 TTTTGATCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.28, C:0.34, G:0.20, T:0.18
Consensus pattern (26 bp):
GGGAATCAACACTTAGCAACCCCTCG
Found at i:15924661 original size:67 final size:68
Alignment explanation
Indices: 15924538--15924669 Score: 178
Period size: 67 Copynumber: 2.0 Consensus size: 68
15924528 AGGATATGAT
15924538 GGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCAGGGAATCAACACTTAGCAACCCCT
1 GGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCAGGGAATCAACACTTAGCAACCCCT
15924603 CGG
66 CGG
* * * * * **
15924606 GGAATCTGCACTTAGCAACC-CCTTTTTG-ATCAGTGATTCGGGGAATCTGCACTTAGCAACCCC
1 GGAATCAGCACTTAGCAACCACC-TTTAGAATCAATAATTCAGGGAATCAACACTTAGCAACCCC
15924669 T
65 T
15924670 TACATTCAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
67 33 0.59
68 23 0.41
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (68 bp):
GGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCAGGGAATCAACACTTAGCAACCCCT
CGG
Found at i:15930232 original size:42 final size:42
Alignment explanation
Indices: 15930185--15930278 Score: 136
Period size: 42 Copynumber: 2.2 Consensus size: 42
15930175 GGTATCGCAG
*
15930185 ACTTAGTGCCCGTTACTCGACATCGTCATTTT-TGTTTCACAC
1 ACTTAGTGCCCGTTACTCAACATCGTCATTTTAT-TTTCACAC
* *
15930227 ACTTAGTGCCCGTTATTCAACATCGTCATTTTATTTTCGCAC
1 ACTTAGTGCCCGTTACTCAACATCGTCATTTTATTTTCACAC
*
15930269 ACTCAGTGCC
1 ACTTAGTGCC
15930279 ATTCGTATAG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
42 46 0.98
43 1 0.02
ACGTcount: A:0.20, C:0.29, G:0.14, T:0.37
Consensus pattern (42 bp):
ACTTAGTGCCCGTTACTCAACATCGTCATTTTATTTTCACAC
Found at i:15934866 original size:21 final size:21
Alignment explanation
Indices: 15934840--15934881 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
15934830 ATGAAAAGAG
15934840 TAAACACCAAAAATACAATAT
1 TAAACACCAAAAATACAATAT
15934861 TAAACACCAAAAATACAATAT
1 TAAACACCAAAAATACAATAT
15934882 AACCACTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.62, C:0.19, G:0.00, T:0.19
Consensus pattern (21 bp):
TAAACACCAAAAATACAATAT
Found at i:15935755 original size:88 final size:88
Alignment explanation
Indices: 15935592--15935755 Score: 215
Period size: 88 Copynumber: 1.9 Consensus size: 88
15935582 TGACTCCATC
* * * * *
15935592 GTTCCTAGTACTGACATTTCGTGCAAACTTTAGGCTTGCTGGACACGTGTTTCACTCTGGGTTGC
1 GTTCCTAGTACTGACATCTCGTGCAAACTTCAGGCTTGCTGGACACATGTTTCACTCTAGATTGC
* *
15935657 TTCTGTAGCACTCAGTCATTTCT
66 TGCTGAAGCACTCAGTCATTTCT
* *
15935680 GTTCCTAGTACTGACAATCT-GTGCAAGCTTCAGGCTTGCTGGACATATGTTTCACTCTAGATTG
1 GTTCCTAGTACTGAC-ATCTCGTGCAAACTTCAGGCTTGCTGGACACATGTTTCACTCTAGATTG
15935744 CGTGC-GAAGCAC
65 C-TGCTGAAGCAC
15935756 GCGGTCCACC
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
88 60 0.92
89 5 0.08
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.34
Consensus pattern (88 bp):
GTTCCTAGTACTGACATCTCGTGCAAACTTCAGGCTTGCTGGACACATGTTTCACTCTAGATTGC
TGCTGAAGCACTCAGTCATTTCT
Found at i:15939072 original size:71 final size:71
Alignment explanation
Indices: 15938963--15939571 Score: 585
Period size: 71 Copynumber: 8.6 Consensus size: 71
15938953 AGGCTCCCAA
* * * * * ** *
15938963 GTTTAAGACTGCAACTCCTCAAATAGTTAGCGAAAGTTAAAAACTCCCAGGTGTCA-TATTAAGG
1 GTTTAAGACCGCAGCCCCCCAAATAGTTAGCGAGAGTTAAAAACTCCCAACTATCACT-TTAAGG
15939027 CTCATAG
65 CTCATAG
* * * * * *
15939034 GTTTAATACCGTAGCCCCCCAAATAGTTAGCGTGAGTTAAAAGCTCCCAACTGTCACTTTAAGAC
1 GTTTAAGACCGCAGCCCCCCAAATAGTTAGCGAGAGTTAAAAACTCCCAACTATCACTTTAAGGC
*
15939099 TCACAG
66 TCATAG
* * *
15939105 GTTTAAGACCGTAGCCCCCCAAATAGTAAGTGAGAGTTAAAAACTCCCAACTATCACTTTAAGGC
1 GTTTAAGACCGCAGCCCCCCAAATAGTTAGCGAGAGTTAAAAACTCCCAACTATCACTTTAAGGC
*
15939170 TCAAAG
66 TCATAG
* * ** * * * *
15939176 GTTTAAGACCGCAACCGCCCAAGCAGTTAGCAAGAGTTAAAAACTCCAAACTGTCACTTTAATGC
1 GTTTAAGACCGCAGCCCCCCAAATAGTTAGCGAGAGTTAAAAACTCCCAACTATCACTTTAAGGC
*
15939241 TCGTAG
66 TCATAG
* * * * * * *
15939247 GTCTAAGACTGCAGCCCCCCAAATAGTTAGTGAGAGTTAAAAGCTCTCGATTATCACTTTAAGGC
1 GTTTAAGACCGCAGCCCCCCAAATAGTTAGCGAGAGTTAAAAACTCCCAACTATCACTTTAAGGC
* *
15939312 TCAAAA
66 TCATAG
* ** *
15939318 GTTTAAGACCGCAGCCCCCCAAATAATTAGTAAGAGTTAAAAACTCCTAACTATCACTTTAAGGC
1 GTTTAAGACCGCAGCCCCCCAAATAGTTAGCGAGAGTTAAAAACTCCCAACTATCACTTTAAGGC
***
15939383 TTGCAG
66 TCATAG
* * ** *
15939389 GTTTAAAACCACA-CCCCCCAAATAGTTAAAGAGAGTTAAAAGCTCCCAACTATCACTTTAAGGC
1 GTTTAAGACCGCAGCCCCCCAAATAGTTAGCGAGAGTTAAAAACTCCCAACTATCACTTTAAGGC
*
15939453 TCGA-AA
66 TC-ATAG
* * * * * * * * *
15939459 GTTTAAGACTGCAACCCTCCAAACAGTTAGCAACAGTTAAAAACTCCCAATTGTCACTTTAAAGC
1 GTTTAAGACCGCAGCCCCCCAAATAGTTAGCGAGAGTTAAAAACTCCCAACTATCACTTTAAGGC
*
15939524 TTATAG
66 TCATAG
* * * * * *
15939530 GTTTAAGGCTGTAGCTCCCCAAACAATTAGCGAGAGTTAAAA
1 GTTTAAGACCGCAGCCCCCCAAATAGTTAGCGAGAGTTAAAA
15939572 GCTTTCAGTT
Statistics
Matches: 435, Mismatches: 99, Indels: 8
0.80 0.18 0.01
Matches are distributed among these distances:
70 58 0.13
71 376 0.86
72 1 0.00
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (71 bp):
GTTTAAGACCGCAGCCCCCCAAATAGTTAGCGAGAGTTAAAAACTCCCAACTATCACTTTAAGGC
TCATAG
Found at i:15939324 original size:213 final size:212
Alignment explanation
Indices: 15938982--15939571 Score: 664
Period size: 213 Copynumber: 2.8 Consensus size: 212
15938972 TGCAACTCCT
* ** * * *
15938982 CAAATAGTTAGCGAA-AGTTAAAAACTCCCAGGTGTCA-TATTAAGGCTCATAGGTTTAATACCG
1 CAAACAGTTAGC-AAGAGTTAAAAACTCCCAACTGTCACT-TTAAGGCTCGTAGGTTTAAGACTG
* * * * *
15939045 TAGCCCCCCAAATAGTTAGCGTGAGTTAAAAGCTCCCAACTGTCACTTTAAGACTCACAGGTTTA
64 CAGCCCCCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAATTGTCACTTTAAGGCTCAAAGGTTTA
* *
15939110 AGACCGTAGCCCCCCAAATAGTAAGTGAGAGTTAAAAACTCCCAACTATCACTTTAAGGCTCAAA
129 AGACCGTAGCCCCCCAAATAATTAGTGAGAGTTAAAAACTCCCAACTATCACTTTAAGGCTCAAA
* * *
15939175 GGTTTAAGACCGCAACCGCC
194 GGTTTAAAACCAC-ACCCCC
* * * *
15939195 CAAGCAGTTAGCAAGAGTTAAAAACTCCAAACTGTCACTTTAATGCTCGTAGGTCTAAGACTGCA
1 CAAACAGTTAGCAAGAGTTAAAAACTCCCAACTGTCACTTTAAGGCTCGTAGGTTTAAGACTGCA
* * * * *
15939260 GCCCCCCAAATAGTTAGTGAGAGTTAAAAGCTCTCGATTATCACTTTAAGGCTCAAAAGTTTAAG
66 GCCCCCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAATTGTCACTTTAAGGCTCAAAGGTTTAAG
* * * ***
15939325 ACCGCAGCCCCCCAAATAATTAGTAAGAGTTAAAAACTCCTAACTATCACTTTAAGGCTTGCAGG
131 ACCGTAGCCCCCCAAATAATTAGTGAGAGTTAAAAACTCCCAACTATCACTTTAAGGCTCAAAGG
15939390 TTTAAAACCACACCCCC
196 TTTAAAACCACACCCCC
* * * * * *
15939407 CAAATAGTTA-AAGAGAGTTAAAAGCTCCCAACTATCACTTTAAGGCTCGAAAGTTTAAGACTGC
1 CAAACAGTTAGCA-AGAGTTAAAAACTCCCAACTGTCACTTTAAGGCTCGTAGGTTTAAGACTGC
* * * * * * * * *
15939471 AACCCTCCAAACAGTTAGCAACAGTTAAAAACTCCCAATTGTCACTTTAAAGCTTATAGGTTTAA
65 AGCCCCCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAATTGTCACTTTAAGGCTCAAAGGTTTAA
* * * * *
15939536 GGCTGTAGCTCCCCAAACAATTAGCGAGAGTTAAAA
130 GACCGTAGCCCCCCAAATAATTAGTGAGAGTTAAAA
15939572 GCTTTCAGTT
Statistics
Matches: 312, Mismatches: 62, Indels: 7
0.82 0.16 0.02
Matches are distributed among these distances:
211 1 0.00
212 139 0.45
213 171 0.55
214 1 0.00
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.24
Consensus pattern (212 bp):
CAAACAGTTAGCAAGAGTTAAAAACTCCCAACTGTCACTTTAAGGCTCGTAGGTTTAAGACTGCA
GCCCCCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAATTGTCACTTTAAGGCTCAAAGGTTTAAG
ACCGTAGCCCCCCAAATAATTAGTGAGAGTTAAAAACTCCCAACTATCACTTTAAGGCTCAAAGG
TTTAAAACCACACCCCC
Found at i:15939505 original size:283 final size:284
Alignment explanation
Indices: 15939021--15939574 Score: 747
Period size: 283 Copynumber: 2.0 Consensus size: 284
15939011 AGGTGTCATA
* * * * * ** *
15939021 TTAAGGCTCATAGGTTTAATACCGTAGCCCCCCAAATAGTTAGCGTGAGTTAAAAGCTCCCAACT
1 TTAAGGCTCAAAAGTTTAAGACCGCAGCCCCCCAAATAATTAGCAAGAGTTAAAAACTCCCAACT
* * ** *
15939086 GTCACTTTAAGACTCACAGGTTTAAGACCGTAGCCCCCCAAATAGTAAGTGAGAGTTAAAAACTC
66 ATCACTTTAAGACTCACAGGTTTAAAACCACAGCCCCCCAAATAGTAAGAGAGAGTTAAAAACTC
* *
15939151 CCAACTATCACTTTAAGGCTCAAAGGTTTAAGACCGCAACCGCCCAAGCAGTTAGCAAGAGTTAA
131 CCAACTATCACTTTAAGGCTCAAAGGTTTAAGACCGCAACCGCCCAAACAGTTAGCAACAGTTAA
* * * * *
15939216 AAACTCCAAACTGTCACTTTAATGCTCGTAGGTCTAAGACTGCAGCCCCCCAAATAGTTAGTGAG
196 AAACTCCAAACTGTCACTTTAAAGCTCATAGGTCTAAGACTGCAGCCCCCCAAACAATTAGCGAG
15939281 AGTTAAAAGCTCTCGATTATCACT
261 AGTTAAAAGCTCTCGATTATCACT
* *
15939305 TTAAGGCTCAAAAGTTTAAGACCGCAGCCCCCCAAATAATTAGTAAGAGTTAAAAACTCCTAACT
1 TTAAGGCTCAAAAGTTTAAGACCGCAGCCCCCCAAATAATTAGCAAGAGTTAAAAACTCCCAACT
* ** *
15939370 ATCACTTTAAGGCTTGCAGGTTTAAAACCACA-CCCCCCAAATAGTTAA-AGAGAGTTAAAAGCT
66 ATCACTTTAAGACTCACAGGTTTAAAACCACAGCCCCCCAAATAG-TAAGAGAGAGTTAAAAACT
*
15939433 CCCAACTATCACTTTAAGGCTCGAAA-GTTTAAGACTGCAACC-CTCCAAACAGTTAGCAACAGT
130 CCCAACTATCACTTTAAGGCTC-AAAGGTTTAAGACCGCAACCGC-CCAAACAGTTAGCAACAGT
* * * * * * *
15939496 TAAAAACTCCCAATTGTCACTTTAAAGCTTATAGGTTTAAGGCTGTAGCTCCCCAAACAATTAGC
193 TAAAAACTCCAAACTGTCACTTTAAAGCTCATAGGTCTAAGACTGCAGCCCCCCAAACAATTAGC
15939561 GAGAGTTAAAAGCT
258 GAGAGTTAAAAGCT
15939575 TTCAGTTGTT
Statistics
Matches: 233, Mismatches: 34, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
282 1 0.00
283 146 0.63
284 86 0.37
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (284 bp):
TTAAGGCTCAAAAGTTTAAGACCGCAGCCCCCCAAATAATTAGCAAGAGTTAAAAACTCCCAACT
ATCACTTTAAGACTCACAGGTTTAAAACCACAGCCCCCCAAATAGTAAGAGAGAGTTAAAAACTC
CCAACTATCACTTTAAGGCTCAAAGGTTTAAGACCGCAACCGCCCAAACAGTTAGCAACAGTTAA
AAACTCCAAACTGTCACTTTAAAGCTCATAGGTCTAAGACTGCAGCCCCCCAAACAATTAGCGAG
AGTTAAAAGCTCTCGATTATCACT
Found at i:15939749 original size:71 final size:71
Alignment explanation
Indices: 15939587--15939757 Score: 182
Period size: 71 Copynumber: 2.4 Consensus size: 71
15939577 CAGTTGTTCT
* * *
15939587 CCAAACAATTAACGAGAGTTAAAAAATCCTAGCGGTCATATTAAGGCTCACAAGTTCAATATCTC
1 CCAAACAATTAACGAGAGTTAAAAACTCCTAGCGGCCATATTAAGGCTCACAAGTTCAAGATCTC
*
15939652 AGTCCC
66 AGCCCC
* * * ** * * * * * *
15939658 CAAAATAGTTATGGACAGTTAAAAACTCTTAGCTGCCATTTTAAGGCTCACAGGTTTAAGA-CTG
1 CCAAACAATTAACGAGAGTTAAAAACTCCTAGCGGCCATATTAAGGCTCACAAGTTCAAGATCT-
15939722 CAGCCCC
65 CAGCCCC
*
15939729 CCAAACATTTAACGAGAGTTAAAAACTCC
1 CCAAACAATTAACGAGAGTTAAAAACTCC
15939758 CAACTATCCT
Statistics
Matches: 77, Mismatches: 22, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
70 2 0.03
71 75 0.97
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (71 bp):
CCAAACAATTAACGAGAGTTAAAAACTCCTAGCGGCCATATTAAGGCTCACAAGTTCAAGATCTC
AGCCCC
Found at i:15943469 original size:24 final size:24
Alignment explanation
Indices: 15943442--15943488 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
15943432 AATTTTTAGT
15943442 GAAATAAATTCAAAAAATA-AAAAG
1 GAAA-AAATTCAAAAAATAGAAAAG
**
15943466 GAAAATTTTCAAAAAATAGAAAA
1 GAAAAAATTCAAAAAATAGAAAA
15943489 TTTTAAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.68, C:0.04, G:0.09, T:0.19
Consensus pattern (24 bp):
GAAAAAATTCAAAAAATAGAAAAG
Found at i:15943502 original size:23 final size:23
Alignment explanation
Indices: 15943476--15943523 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
15943466 GAAAATTTTC
* *
15943476 AAAAAATAGAAAATTTTAAAACA
1 AAAAAACAGAAAATTCTAAAACA
* *
15943499 AAAATACATAAAATTCTAAAACA
1 AAAAAACAGAAAATTCTAAAACA
15943522 AA
1 AA
15943524 GCCAAAAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.69, C:0.08, G:0.02, T:0.21
Consensus pattern (23 bp):
AAAAAACAGAAAATTCTAAAACA
Found at i:15943923 original size:17 final size:18
Alignment explanation
Indices: 15943901--15943939 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
15943891 TGATATATGG
* *
15943901 ATTTTTTTATATTTTAAA
1 ATTTTCTTATATTTAAAA
15943919 ATTTTCTTATATTTAAAA
1 ATTTTCTTATATTTAAAA
15943937 ATT
1 ATT
15943940 GTGATTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTCTTATATTTAAAA
Found at i:15943952 original size:19 final size:21
Alignment explanation
Indices: 15943928--15943968 Score: 68
Period size: 19 Copynumber: 2.0 Consensus size: 21
15943918 AATTTTCTTA
15943928 TATTTAAAA-ATTGTGA-TTT
1 TATTTAAAACATTGTGACTTT
15943947 TATTTAAAACATTGTGACTTT
1 TATTTAAAACATTGTGACTTT
15943968 T
1 T
15943969 GAAAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 9 0.45
20 7 0.35
21 4 0.20
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (21 bp):
TATTTAAAACATTGTGACTTT
Found at i:15949425 original size:53 final size:53
Alignment explanation
Indices: 15949367--15949471 Score: 126
Period size: 53 Copynumber: 2.0 Consensus size: 53
15949357 TCCGATTCAA
15949367 AAAAATCAAAAATCAAAAT-AAAATAAGAAAAAAAAGAGAA-G-AAAAAGAAAAAG
1 AAAAAT-AAAAATCAAAATGAAAAT-A-AAAAAAAAGAGAAGGAAAAAAGAAAAAG
* * **
15949420 AAAAATTAAAGTCAAAATGAAAATAAAAAAGGAGAGAAGGAAAAAAGAAAAA
1 AAAAATAAAAATCAAAATGAAAATAAAAAAAAAGAGAAGGAAAAAAGAAAAA
15949472 AGGAAAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
51 11 0.24
52 12 0.27
53 22 0.49
ACGTcount: A:0.74, C:0.03, G:0.14, T:0.09
Consensus pattern (53 bp):
AAAAATAAAAATCAAAATGAAAATAAAAAAAAAGAGAAGGAAAAAAGAAAAAG
Found at i:15950343 original size:7 final size:7
Alignment explanation
Indices: 15950321--15950367 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
15950311 AAAAAAAGGG
15950321 AAAATG-
1 AAAATGA
15950327 AAAATG-
1 AAAATGA
15950333 AAAATGA
1 AAAATGA
15950340 AAAATGGA
1 AAAAT-GA
15950348 AAAATGA
1 AAAATGA
15950355 AAAA-GTA
1 AAAATG-A
15950362 AAAATG
1 AAAATG
15950368 GAAAGGCTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
6 13 0.35
7 16 0.43
8 8 0.22
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (7 bp):
AAAATGA
Found at i:15950364 original size:22 final size:21
Alignment explanation
Indices: 15950327--15950371 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
15950317 AGGGAAAATG
*
15950327 AAAATGAAAATGAAAAATGGA
1 AAAATGAAAAAGAAAAATGGA
15950348 AAAATGAAAAAGTAAAAATGGA
1 AAAATGAAAAAG-AAAAATGGA
15950370 AA
1 AA
15950372 GGCTAAGGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.69, C:0.00, G:0.18, T:0.13
Consensus pattern (21 bp):
AAAATGAAAAAGAAAAATGGA
Found at i:15950371 original size:15 final size:15
Alignment explanation
Indices: 15950321--15950367 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
15950311 AAAAAAAGGG
15950321 AAAATG-AAAAT-G-
1 AAAATGAAAAATGGA
15950333 AAAATGAAAAATGGA
1 AAAATGAAAAATGGA
*
15950348 AAAATGAAAAA-GTA
1 AAAATGAAAAATGGA
15950362 AAAATG
1 AAAATG
15950368 GAAAGGCTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 6 0.19
13 5 0.16
14 9 0.29
15 11 0.35
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (15 bp):
AAAATGAAAAATGGA
Found at i:15951861 original size:44 final size:44
Alignment explanation
Indices: 15951810--15952312 Score: 210
Period size: 44 Copynumber: 10.8 Consensus size: 44
15951800 AGAAAACAAG
* *
15951810 TCTTATCTCCCTGAGATTACAGCGGAGCAGATGGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGAGGAGCAGATTGAAGCTAGTAA
* * * * * ** *
15951854 TCCTATCTCCCTGAAATTACAGTGGACCGGATT-AAAATAAAG-GA
1 TCTTATCTCCCTGAGATTACAGAGGAGCAGATTGAAGCT--AGTAA
** * * *
15951898 TCTTATCTCTTTGAGGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAGAAA
1 TCTTATCTCCCTGAGATTACAG-AG-G-AG-------CAGATTGAAGCTAGTAA
* * *
15951952 TCTTATCTCCCTGAGATTACAGCGGAGCAGGTGGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGAGGAGCAGATTGAAGCTAGTAA
* * ** *
15951996 TCCTT-TCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAG-GA
1 T-CTTATCTCCCTGAGATTACAGAGGAGCAGATTGAAGCT--AGTAA
* * * *
15952040 TCTTATCTCTCTGAGGTTACAGTAGAGTAGATCACATTAGATTGCAGCTAGAAA
1 TCTTATCTCCCTGAGATTACAG-AG-G-AG----C---AGATTGAAGCTAGTAA
* *
15952094 TCTTATCTCCTTGAGATTACAGAGGAGCAGATGGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGAGGAGCAGATTGAAGCTAGTAA
* * * * ** *
15952138 TCCTATCTCCATGAGATTACAGTGGAGCGGATT-AAAATACAG-GA
1 TCTTATCTCCCTGAGATTACAGAGGAGCAGATTGAAGCT--AGTAA
* * * *
15952182 TCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAA
1 TCTTATCTCCCTGAGATTAC---AGAG--GA--G---CAGATTGAAGCTAGTAA
* *
15952236 TCTTATCTCCCTGAGATTACAGCGGAGAAGATTGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGAGGAGCAGATTGAAGCTAGTAA
* * * *
15952280 TCCTATCTCCCTGAGATTATAGTGGAGCGGATT
1 TCTTATCTCCCTGAGATTACAGAGGAGCAGATT
15952313 AAAATAAAGG
Statistics
Matches: 336, Mismatches: 79, Indels: 88
0.67 0.16 0.17
Matches are distributed among these distances:
43 12 0.04
44 200 0.60
45 11 0.03
46 2 0.01
47 8 0.02
49 4 0.01
51 9 0.03
52 2 0.01
53 9 0.03
54 73 0.22
55 6 0.02
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGAGGAGCAGATTGAAGCTAGTAA
Found at i:15952066 original size:142 final size:142
Alignment explanation
Indices: 15951810--15952363 Score: 946
Period size: 142 Copynumber: 3.9 Consensus size: 142
15951800 AGAAAACAAG
*
15951810 TCTTATCTCCCTGAGATTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAAATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGATTACA
* *
15951875 GTGGACCGGATTAAAATAAAGGATCTTATCTCTTTGAGGTTACAGTAGAGTAGATCACATCAGAT
66 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCACATCAGAT
15951940 TGAAGCCAGAAA
131 TGAAGCCAGAAA
* *
15951952 TCTTATCTCCCTGAGATTACAGCGGAGCAGGTGGAAGCTAGTAATCCTTTCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGATTACA
*
15952017 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCACATTAGAT
66 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCACATCAGAT
* *
15952082 TGCAGCTAGAAA
131 TGAAGCCAGAAA
* * *
15952094 TCTTATCTCCTTGAGATTACAGAGGAGCAGATGGAAGCTAGTAATCCTATCTCCATGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGATTACA
* *
15952159 GTGGAGCGGATTAAAATACAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAGAT
66 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCACATCAGAT
15952224 TGAAGCCAGAAA
131 TGAAGCCAGAAA
* * *
15952236 TCTTATCTCCCTGAGATTACAGCGGAGAAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTATA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGATTACA
* *
15952301 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
66 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCACATCAG
15952364 GTCTTATCCC
Statistics
Matches: 386, Mismatches: 26, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
142 386 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (142 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGATTACA
GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCACATCAGAT
TGAAGCCAGAAA
Found at i:15952491 original size:50 final size:50
Alignment explanation
Indices: 15952437--15952675 Score: 178
Period size: 50 Copynumber: 4.8 Consensus size: 50
15952427 GCAGTGGAAC
*
15952437 AGATTAAAGCTGCATCGGTGAATCTTGCTTCCCCGACATTGCAGTTCAAA
1 AGATTAAAGCTACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTCAAA
* * * * * * ** * ** *
15952487 AGATTAAAGCTACAACAGCGAATCTTACCTCCCAGGTGA-TGCAATGGAAC
1 AGATTAAAGCTACATCGGTGAATCTTGCTTCCC-CGACATTGCAGTTCAAA
* * *
15952537 AGATTAAGGCCACATCGGTGAATCTTGCTTCCCCGACATTGTAGTTCAAA
1 AGATTAAAGCTACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTCAAA
* * * * * * ** ** *
15952587 AGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
1 AGATTAAAGCTACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTCAAA
*
15952637 AGATTAAAGCCATA-AT-GGCGAATCTTGCTTCCCCGACAT
1 AGATTAAAG-C-TACATCGGTGAATCTTGCTTCCCCGACAT
15952676 CACAGTTAAG
Statistics
Matches: 136, Mismatches: 49, Indels: 8
0.70 0.25 0.04
Matches are distributed among these distances:
49 2 0.01
50 128 0.94
51 4 0.03
52 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (50 bp):
AGATTAAAGCTACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTCAAA
Found at i:15952583 original size:100 final size:100
Alignment explanation
Indices: 15952419--15952675 Score: 399
Period size: 100 Copynumber: 2.6 Consensus size: 100
15952409 TCTTATCCCT
**
15952419 CAGGTGATGCAGTGGAACAGATTAAAGCTGCATCGGTGAATCTTGCTTCCCCGACATTGCAGTTC
1 CAGGTGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTC
15952484 AAAAGATTAAAGCTACAACAGCGAATCTTACCTCC
66 AAAAGATTAAAGCTACAACAGCGAATCTTACCTCC
* * *
15952519 CAGGTGATGCAATGGAACAGATTAAGGCCACATCGGTGAATCTTGCTTCCCCGACATTGTAGTTC
1 CAGGTGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTC
*
15952584 AAAAGATTAAAGCTACAACAGCGAATCTTACTTCC
66 AAAAGATTAAAGCTACAACAGCGAATCTTACCTCC
* * * * *
15952619 CTGGCGGTGCAGTGGAACAGATTAAAGCCATAAT-GGCGAATCTTGCTTCCCCGACAT
1 CAGGTGATGCAGTGGAACAGATTAAAGCCA-CATCGGTGAATCTTGCTTCCCCGACAT
15952676 CACAGTTAAG
Statistics
Matches: 143, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
100 141 0.99
101 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (100 bp):
CAGGTGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTC
AAAAGATTAAAGCTACAACAGCGAATCTTACCTCC
Found at i:15953431 original size:5 final size:5
Alignment explanation
Indices: 15953421--15953454 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
15953411 GTCGTTTTTA
*
15953421 TTATT TTATT TTATT TTATTT TTATT TTGTT TTA
1 TTATT TTATT TTATT TTA-TT TTATT TTATT TTA
15953455 CGAATCTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:15953445 original size:16 final size:16
Alignment explanation
Indices: 15953424--15953454 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15953414 GTTTTTATTA
15953424 TTTTATTTTATTTTAT
1 TTTTATTTTATTTTAT
*
15953440 TTTTATTTTGTTTTA
1 TTTTATTTTATTTTA
15953455 CGAATCTGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTTATTTTATTTTAT
Found at i:15956271 original size:18 final size:18
Alignment explanation
Indices: 15956245--15956280 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
15956235 CCATAGATCC
*
15956245 CAAACATGAACAGTAAAA
1 CAAACATGAAAAGTAAAA
*
15956263 CAAATATGAAAAGTAAAA
1 CAAACATGAAAAGTAAAA
15956281 AAAAAAATCA
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:0.64, C:0.11, G:0.11, T:0.14
Consensus pattern (18 bp):
CAAACATGAAAAGTAAAA
Found at i:15958936 original size:53 final size:53
Alignment explanation
Indices: 15958856--15958996 Score: 264
Period size: 53 Copynumber: 2.7 Consensus size: 53
15958846 GGGGGATTGT
15958856 ATTTATTTATTATTTAGATAGAATTCTTTTTCTAACAATGAACACCCACTTCA
1 ATTTATTTATTATTTAGATAGAATTCTTTTTCTAACAATGAACACCCACTTCA
* *
15958909 ATTTATTTATTATTTAGATAGAATTCTTTTTCTAATAATGAACACCCACTTGA
1 ATTTATTTATTATTTAGATAGAATTCTTTTTCTAACAATGAACACCCACTTCA
15958962 ATTTATTTATTATTTAGATAGAATTCTTTTTCTAA
1 ATTTATTTATTATTTAGATAGAATTCTTTTTCTAA
15958997 ATAGAAAAAG
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 86 1.00
ACGTcount: A:0.33, C:0.13, G:0.06, T:0.48
Consensus pattern (53 bp):
ATTTATTTATTATTTAGATAGAATTCTTTTTCTAACAATGAACACCCACTTCA
Found at i:15961382 original size:23 final size:23
Alignment explanation
Indices: 15961335--15961382 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
15961325 TCTAGTATAA
*
15961335 AAATATGAATATTTTAATTATAT
1 AAATATGAATATTTTAATTAAAT
* **
15961358 AAATATGAGTATTTTTTTTAAAT
1 AAATATGAATATTTTAATTAAAT
15961381 AA
1 AA
15961383 TGTTTAGTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (23 bp):
AAATATGAATATTTTAATTAAAT
Found at i:15961810 original size:19 final size:18
Alignment explanation
Indices: 15961786--15961834 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 18
15961776 CGAACACCAA
15961786 AAAATATTAATTTTTTCAT
1 AAAATATTAATTTTTTC-T
15961805 AAAATA--AATTATTTTCT
1 AAAATATTAATT-TTTTCT
15961822 AAAA-ATT-ATTTTT
1 AAAATATTAATTTTT
15961835 CAAAAGTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
16 4 0.15
17 12 0.44
18 5 0.19
19 6 0.22
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (18 bp):
AAAATATTAATTTTTTCT
Found at i:15961971 original size:57 final size:58
Alignment explanation
Indices: 15961882--15961998 Score: 227
Period size: 57 Copynumber: 2.0 Consensus size: 58
15961872 CAGAAAGTCA
15961882 CAATGGAAAACATAAAGAATTCAAAAGTTAAAATCTTAAAATTTCTTTTCTATTTATG
1 CAATGGAAAACATAAAGAATTCAAAAGTTAAAATCTTAAAATTTCTTTTCTATTTATG
15961940 CAATGGAAAACA-AAAGAATTCAAAAGTTAAAATCTTAAAATTTCTTTTCTATTTATG
1 CAATGGAAAACATAAAGAATTCAAAAGTTAAAATCTTAAAATTTCTTTTCTATTTATG
15961997 CA
1 CA
15961999 TGGGTTATGT
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
57 47 0.80
58 12 0.20
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.35
Consensus pattern (58 bp):
CAATGGAAAACATAAAGAATTCAAAAGTTAAAATCTTAAAATTTCTTTTCTATTTATG
Found at i:15962023 original size:10 final size:10
Alignment explanation
Indices: 15962008--15962041 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
15961998 ATGGGTTATG
*
15962008 TATACTATAC
1 TATACTATAA
15962018 TATACTATAA
1 TATACTATAA
*
15962028 TATAATATAA
1 TATACTATAA
15962038 TATA
1 TATA
15962042 TAAAGTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (10 bp):
TATACTATAA
Found at i:15963194 original size:144 final size:145
Alignment explanation
Indices: 15963019--15963307 Score: 571
Period size: 144 Copynumber: 2.0 Consensus size: 145
15963009 TAAACATAAA
15963019 TAAATTTAATAAAAATTTAAAGCAGAATATTGAAAAAAAAGAAACATTTGATCGTTCTCTATTTT
1 TAAATTTAATAAAAATTTAAAGCAGAATATTGAAAAAAAAGAAACATTTGATCGTTCTCTATTTT
15963084 AATTTTTTATTTAAAATAATGACATTATAATATTAACTAATTTGGTGGAATAATTTTAAGAACAT
66 AATTTTTTATTTAAAATAATGACATTATAATATTAACTAATTTGGTGGAATAATTTTAAGAACAT
15963149 AAAATTACTGATTGT
131 AAAATTACTGATTGT
15963164 TAAATTTAAT-AAAATTTAAAGCAGAATATTGAAAAAAAAGAAACATTTGATCGTTCTCTATTTT
1 TAAATTTAATAAAAATTTAAAGCAGAATATTGAAAAAAAAGAAACATTTGATCGTTCTCTATTTT
15963228 AATTTTTTATTTAAAATAATGACATTATAATATTAACTAATTTGGTGGAATAATTTTAAGAACAT
66 AATTTTTTATTTAAAATAATGACATTATAATATTAACTAATTTGGTGGAATAATTTTAAGAACAT
15963293 AAAATTACTGATTGT
131 AAAATTACTGATTGT
15963308 AAGTTAATCT
Statistics
Matches: 144, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
144 134 0.93
145 10 0.07
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (145 bp):
TAAATTTAATAAAAATTTAAAGCAGAATATTGAAAAAAAAGAAACATTTGATCGTTCTCTATTTT
AATTTTTTATTTAAAATAATGACATTATAATATTAACTAATTTGGTGGAATAATTTTAAGAACAT
AAAATTACTGATTGT
Found at i:15964955 original size:18 final size:18
Alignment explanation
Indices: 15964929--15964963 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15964919 CATCACAGAA
*
15964929 ACAATATCACAATTTCAC
1 ACAACATCACAATTTCAC
*
15964947 ACAACATCACAGTTTCA
1 ACAACATCACAATTTCA
15964964 TAAATTGGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.29, G:0.03, T:0.26
Consensus pattern (18 bp):
ACAACATCACAATTTCAC
Found at i:15967330 original size:21 final size:21
Alignment explanation
Indices: 15967306--15967346 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
15967296 AAAATAAGTT
*
15967306 ATTGTTGCTGGTAAATTGTAA
1 ATTGTTGCTAGTAAATTGTAA
15967327 ATTGTTGCTAGTAAATTGTA
1 ATTGTTGCTAGTAAATTGTA
15967347 TAAATACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.05, G:0.22, T:0.44
Consensus pattern (21 bp):
ATTGTTGCTAGTAAATTGTAA
Found at i:15967613 original size:20 final size:20
Alignment explanation
Indices: 15967564--15967614 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
15967554 ATTTGCATTT
* *
15967564 CGGTGCCCTTGTATACACTT
1 CGGTGCCCCTGTATACACTA
*
15967584 CGGTGTCCCTGT-TCACACTA
1 CGGTGCCCCTGTAT-ACACTA
15967604 CGGTGCCCCTG
1 CGGTGCCCCTG
15967615 CTTGCACATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.12, C:0.35, G:0.24, T:0.29
Consensus pattern (20 bp):
CGGTGCCCCTGTATACACTA
Found at i:15972819 original size:8 final size:8
Alignment explanation
Indices: 15972808--15972844 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
15972798 GCCACCAAAC
15972808 CACCACCT
1 CACCACCT
15972816 CACCACCT
1 CACCACCT
15972824 CACCACCT
1 CACCACCT
*
15972832 CACTACCAT
1 CACCACC-T
15972841 CACC
1 CACC
15972845 GTCGTCTCCG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 22 0.85
9 4 0.15
ACGTcount: A:0.27, C:0.59, G:0.00, T:0.14
Consensus pattern (8 bp):
CACCACCT
Found at i:15975135 original size:24 final size:25
Alignment explanation
Indices: 15975099--15975146 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
15975089 GGAACATAAG
**
15975099 AATTAAATTTTAAA-ATAAAAATCT
1 AATTAAAACTTAAATATAAAAATCT
*
15975123 AATTAAAACTTAAATTTAAAAATC
1 AATTAAAACTTAAATATAAAAATC
15975147 AAAGATTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (25 bp):
AATTAAAACTTAAATATAAAAATCT
Found at i:15975136 original size:31 final size:33
Alignment explanation
Indices: 15975101--15975177 Score: 86
Period size: 34 Copynumber: 2.4 Consensus size: 33
15975091 AACATAAGAA
*
15975101 TTAAATTTTAAAAT-AAAAATCTAA-TTAAAAC
1 TTAAATTTAAAAATCAAAAATCTAATTTAAAAC
* * *
15975132 TTAAATTTAAAAATCAAAGATTTAATTTAAAAAA
1 TTAAATTTAAAAATCAAAAATCTAATTT-AAAAC
*
15975166 TGAAATTTAAAA
1 TTAAATTTAAAA
15975178 GTAACCTAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
31 13 0.34
32 8 0.21
33 2 0.05
34 15 0.39
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.35
Consensus pattern (33 bp):
TTAAATTTAAAAATCAAAAATCTAATTTAAAAC
Found at i:15978034 original size:13 final size:13
Alignment explanation
Indices: 15978016--15978040 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15978006 ATTTGCATAT
15978016 TGTCTTCAACAGA
1 TGTCTTCAACAGA
15978029 TGTCTTCAACAG
1 TGTCTTCAACAG
15978041 GCTCGCACTT
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:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTCTTCAACAGA
Found at i:15980845 original size:69 final size:69
Alignment explanation
Indices: 15980741--15980875 Score: 243
Period size: 69 Copynumber: 2.0 Consensus size: 69
15980731 GAGACTTACA
*
15980741 CAATTGATCGTTAAATTGCACACTTCTACAAATGGAATACGATTCCAAGATTTTTGAATGGCACT
1 CAATTGATCGTCAAATTGCACACTTCTACAAATGGAATACGATTCCAAGATTTTTGAATGGCACT
15980806 TATG
66 TATG
* *
15980810 CAATTGATCGTCAAATTGCACACTTTTACAAATGGAATACGATTCCAGGATTTTTGAATGGCACT
1 CAATTGATCGTCAAATTGCACACTTCTACAAATGGAATACGATTCCAAGATTTTTGAATGGCACT
15980875 T
66 T
15980876 TATGAAGGTA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (69 bp):
CAATTGATCGTCAAATTGCACACTTCTACAAATGGAATACGATTCCAAGATTTTTGAATGGCACT
TATG
Found at i:15988042 original size:24 final size:24
Alignment explanation
Indices: 15988009--15988104 Score: 104
Period size: 24 Copynumber: 4.0 Consensus size: 24
15987999 ACAGTACCTA
*
15988009 CTAAACACACCGGCAT-GAAGCCTG
1 CTAAATACACCGGC-TCGAAGCCTG
*
15988033 CTAAATACACCAGCTCGAAGCCTG
1 CTAAATACACCGGCTCGAAGCCTG
* * *
15988057 CTAAATACACCGGCTCAAATCCTA
1 CTAAATACACCGGCTCGAAGCCTG
** *
15988081 CTAAATACAGAGACTCGAAGCCTG
1 CTAAATACACCGGCTCGAAGCCTG
15988105 GTACTTAGTT
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
23 1 0.02
24 58 0.98
ACGTcount: A:0.35, C:0.31, G:0.17, T:0.17
Consensus pattern (24 bp):
CTAAATACACCGGCTCGAAGCCTG
Found at i:15998115 original size:32 final size:30
Alignment explanation
Indices: 15998005--15998115 Score: 96
Period size: 32 Copynumber: 3.5 Consensus size: 30
15997995 TACCCCTCTT
* * *
15998005 ACATCACCCTCCCCTACAATTTTACCCTTTCC
1 ACATCACCCTCCCATA-AATTCTACCCTTT-A
* * *
15998037 AGATCACCTTCACCATTAAATTCTACCCTTCA
1 ACATCACCCTC-CCA-TAAATTCTACCCTTTA
*
15998069 TCATCACCCTTCCCATAAACTTCTACCCATTTA
1 ACATCACCC-TCCCATAAA-TTCTACCC-TTTA
15998102 ACATCACCCTCCCA
1 ACATCACCCTCCCA
15998116 AGCAGTCAAC
Statistics
Matches: 63, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
31 4 0.06
32 31 0.49
33 26 0.41
34 2 0.03
ACGTcount: A:0.27, C:0.42, G:0.01, T:0.30
Consensus pattern (30 bp):
ACATCACCCTCCCATAAATTCTACCCTTTA
Found at i:15998839 original size:117 final size:116
Alignment explanation
Indices: 15998620--15998944 Score: 508
Period size: 117 Copynumber: 2.8 Consensus size: 116
15998610 GGTAACAGTA
* * * *
15998620 ATCAACAACAACAGGACCACTATCGCATCACAAATTGACAAAACAAA-CCTACATTGCGGCACTA
1 ATCAACAACATCGGGACCACTATCGCATCACAAATCGACAAAACAAACCCTACATTGC-GCACTG
* * *
15998684 AAATTGCAATAATAAATCAAAAATAACCATCTACAATTTTAACAATATCTTT
65 AAATTGCAATAATAAATCACAAATAACCATCTACAATTTTAACAACAGCTTT
* * *
15998736 ATCAACAACATTGGGACCACTGTCGCATCACAAATCGACAAAACAAACCCTACATTGTCGCATTG
1 ATCAACAACATCGGGACCACTATCGCATCACAAATCGACAAAACAAACCCTACATTG-CGCACTG
*
15998801 AAATTGCAATAATAAATCACAATTAACCATCTACAATTTTAACAACAGCTTT
65 AAATTGCAATAATAAATCACAAATAACCATCTACAATTTTAACAACAGCTTT
*
15998853 ATCAACAACATCGAGACCACTATCGCATCACAAATCGACAAAACAAACCCTACATTGCGACACTG
1 ATCAACAACATCGGGACCACTATCGCATCACAAATCGACAAAACAAACCCTACATTGCG-CACTG
15998918 AAATTGCAATAATAAATCACAAATAAC
65 AAATTGCAATAATAAATCACAAATAAC
15998945 GAACAAACCA
Statistics
Matches: 190, Mismatches: 16, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
116 44 0.23
117 145 0.76
118 1 0.01
ACGTcount: A:0.45, C:0.25, G:0.08, T:0.22
Consensus pattern (116 bp):
ATCAACAACATCGGGACCACTATCGCATCACAAATCGACAAAACAAACCCTACATTGCGCACTGA
AATTGCAATAATAAATCACAAATAACCATCTACAATTTTAACAACAGCTTT
Found at i:15999232 original size:16 final size:17
Alignment explanation
Indices: 15999213--15999245 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15999203 GGATGTTATG
*
15999213 GATTTGG-GGATTTGAC
1 GATTTGGAGAATTTGAC
15999229 GATTTGGAGAATTTGAC
1 GATTTGGAGAATTTGAC
15999246 AAGTTGGGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.24, C:0.06, G:0.33, T:0.36
Consensus pattern (17 bp):
GATTTGGAGAATTTGAC
Found at i:16003461 original size:19 final size:20
Alignment explanation
Indices: 16003439--16003476 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
16003429 TACAAAAATG
*
16003439 TGGTTAAAT-TTGAAAAAGT
1 TGGTAAAATGTTGAAAAAGT
*
16003458 TGGTAAAATGTTGTAAAAG
1 TGGTAAAATGTTGAAAAAG
16003477 AAGGTTCCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.42, C:0.00, G:0.24, T:0.34
Consensus pattern (20 bp):
TGGTAAAATGTTGAAAAAGT
Found at i:16003582 original size:41 final size:41
Alignment explanation
Indices: 16003524--16003676 Score: 200
Period size: 41 Copynumber: 3.7 Consensus size: 41
16003514 CATTGAATGT
* *
16003524 AAGGGGTTTCTAAGTGTAGATTCCCTGAATCACTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCTGAATCACTGATCAAA
* * * **
16003565 AAAGGGTTGCTAAGTGTAGATTCACC-GAATCATTGATTGAA
1 AAGGGGTTGCTAAGTGCAGATTC-CCTGAATCACTGATCAAA
* *
16003606 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCACTGATCACA
1 AAGGGGTTGCTAAGTGCAGATTCCCTGAATCACTGATCAAA
*
16003647 AAGGGGTTGTTAAGTGCAGATTCCCTGAAT
1 AAGGGGTTGCTAAGTGCAGATTCCCTGAAT
16003677 TATTGAATCT
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
40 2 0.02
41 93 0.96
42 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCAGATTCCCTGAATCACTGATCAAA
Found at i:16003691 original size:82 final size:82
Alignment explanation
Indices: 16003513--16003704 Score: 253
Period size: 82 Copynumber: 2.3 Consensus size: 82
16003503 AGACCGAGAT
* *
16003513 TCATTGAATGT-AAGGGGTTTCTAAGTGTAGATTCCCTGAATCACTGATCAAAAAAGGGTTGCTA
1 TCATTGAATGTAAAGGGGTTTCTAAGTGCAGATTCCCCGAATCACTGATCAAAAAAGGGTTGCTA
*
16003577 AGTGTAGATTCACCGAA
66 AGTGCAGATTCACCGAA
* * * * * *
16003594 TCATTGATTGAAAAGGGGTTGCTAAGTGCAGATTCCCCGAATCACTGATCACAAAGGGGTTGTTA
1 TCATTGAATGTAAAGGGGTTTCTAAGTGCAGATTCCCCGAATCACTGATCAAAAAAGGGTTGCTA
16003659 AGTGCAGATTC-CCTGAA
66 AGTGCAGATTCACC-GAA
* *
16003676 TTATTGAATCTAAAGGTGGTTTCTAAGTG
1 TCATTGAATGTAAAGG-GGTTTCTAAGTG
16003705 TTGATTCCAC
Statistics
Matches: 94, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
81 11 0.12
82 72 0.77
83 11 0.12
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (82 bp):
TCATTGAATGTAAAGGGGTTTCTAAGTGCAGATTCCCCGAATCACTGATCAAAAAAGGGTTGCTA
AGTGCAGATTCACCGAA
Found at i:16003754 original size:85 final size:84
Alignment explanation
Indices: 16003568--16003800 Score: 204
Period size: 84 Copynumber: 2.8 Consensus size: 84
16003558 GATCAAAAAA
* * * * * *
16003568 GGGTTGCTAAGTGTAGATTCACCGAATCATTGATTGAAAAGG-GGTTGCTAAGTGCAGATTCC-C
1 GGGTTGCTAAGTGCAGATTCCCCGAATCACTGAAT-ATAAGGTGGTTGCTAAGTGCTGATTCCAC
* * ***
16003631 CGAATCAC-TGA-TCACAAAG
65 CGTATC-CTTAATTGTGAAAG
* * * * * * *
16003650 GGGTTGTTAAGTGCAGATTCCCTGAATTATTGAATCTAAAGGTGGTTTCTAAGTGTTGATTCCAC
1 GGGTTGCTAAGTGCAGATTCCCCGAATCACTGAATAT-AAGGTGGTTGCTAAGTGCTGATTCCAC
16003715 CGTATCCTTAATTGTGAAAG
65 CGTATCCTTAATTGTGAAAG
* ** * *
16003735 GGGTTGCTATGTGTTGATTCCCCGTATCACTGAATATAAGGTGGTTGCTAAGTGCTGATTTCACC
1 GGGTTGCTAAGTGCAGATTCCCCGAATCACTGAATATAAGGTGGTTGCTAAGTGCTGATTCCACC
16003800 G
66 G
16003801 AGTAACGGTT
Statistics
Matches: 118, Mismatches: 28, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
82 33 0.28
83 18 0.15
84 34 0.29
85 33 0.28
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (84 bp):
GGGTTGCTAAGTGCAGATTCCCCGAATCACTGAATATAAGGTGGTTGCTAAGTGCTGATTCCACC
GTATCCTTAATTGTGAAAG
Found at i:16003781 original size:126 final size:122
Alignment explanation
Indices: 16003517--16003794 Score: 292
Period size: 126 Copynumber: 2.2 Consensus size: 122
16003507 CGAGATTCAT
* *
16003517 TGAATGTAAGGGGTT-TCTAAGTGTAGATTCCCTGAATCACTGATCAAAAAAGGGTTGCTAAGTG
1 TGAATATAAGGGGTTGT-TAAGTGCAGATTCCCTGAATCACTGATCAAAAAAGGGTTGCTAAGTG
*
16003581 TAGATTCACCGAATCATTGATTGAAAAGGGGTTGCTAAGTGCAGATTCCCCGAATCAC
65 TAGATTCACCGAATCATTAATTGAAAAGGGGTTGCTAAGTGCAGATTCCCCGAATCAC
* * * * * *
16003639 TG-ATCACAAAGGGGTTGTTAAGTGCAGATTCCCTGAATTATTGAATC-TAAAGGTGGTTTCTAA
1 TGAAT-A-TAAGGGGTTGTTAAGTGCAGATTCCCTGAATCACTG-ATCAAAAAAG-GGTTGCTAA
* * * * * ** *
16003702 GTGTTGATTCCACCGTATCCTTAATTGTGAAAGGGGTTGCTATGTGTTGATTCCCCGTATCAC
62 GTGTAGATT-CACCGAATCATTAATTG-AAAAGGGGTTGCTAAGTGCAGATTCCCCGAATCAC
* *
16003765 TGAATATAAGGTGGTTGCTAAGTGCTGATT
1 TGAATATAAGG-GGTTGTTAAGTGCAGATT
16003795 TCACCGAGTA
Statistics
Matches: 127, Mismatches: 20, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
121 2 0.02
122 2 0.02
123 34 0.27
124 20 0.16
125 18 0.14
126 49 0.39
127 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (122 bp):
TGAATATAAGGGGTTGTTAAGTGCAGATTCCCTGAATCACTGATCAAAAAAGGGTTGCTAAGTGT
AGATTCACCGAATCATTAATTGAAAAGGGGTTGCTAAGTGCAGATTCCCCGAATCAC
Found at i:16003794 original size:41 final size:40
Alignment explanation
Indices: 16003517--16003794 Score: 170
Period size: 41 Copynumber: 6.7 Consensus size: 40
16003507 CGAGATTCAT
* * *
16003517 TGAATGTAAGGGGTTTCTAAGTG-TAGATTCCCTGAATCAC
1 TGAATATAAGGGGTTGCTAAGTGCT-GATTCCCCGAATCAC
* * * *
16003557 TG-ATCAAAAAAGGGTTGCTAAGTG-TAGATTCACCGAATCAT
1 TGAAT--ATAAGGGGTTGCTAAGTGCT-GATTCCCCGAATCAC
* * *
16003598 TGATTGAAAAGGGGTTGCTAAGTGCAGATTCCCCGAATCAC
1 TGAAT-ATAAGGGGTTGCTAAGTGCTGATTCCCCGAATCAC
* * * * * *
16003639 TG-ATCACAAAGGGGTTGTTAAGTGCAGATTCCCTGAATTAT
1 TGAAT-A-TAAGGGGTTGCTAAGTGCTGATTCCCCGAATCAC
* * * *
16003680 TGAATCTAAAGGTGGTTTCTAAGTGTTGATTCCACCGTATC-C
1 TGAATAT-AAGG-GGTTGCTAAGTGCTGATTCC-CCGAATCAC
* * * * *
16003722 TTAATTGTGAAAGGGGTTGCTATGTGTTGATTCCCCGTATCAC
1 TGAA-TAT--AAGGGGTTGCTAAGTGCTGATTCCCCGAATCAC
16003765 TGAATATAAGGTGGTTGCTAAGTGCTGATT
1 TGAATATAAGG-GGTTGCTAAGTGCTGATT
16003795 TCACCGAGTA
Statistics
Matches: 188, Mismatches: 37, Indels: 25
0.75 0.15 0.10
Matches are distributed among these distances:
39 2 0.01
40 8 0.04
41 114 0.61
42 31 0.16
43 28 0.15
44 5 0.03
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (40 bp):
TGAATATAAGGGGTTGCTAAGTGCTGATTCCCCGAATCAC
Found at i:16009295 original size:11 final size:11
Alignment explanation
Indices: 16009279--16009305 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
16009269 AGTTTTTCAA
16009279 AAAAAAATTCC
1 AAAAAAATTCC
16009290 AAAAAAATTCC
1 AAAAAAATTCC
16009301 AAAAA
1 AAAAA
16009306 TATTTTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.70, C:0.15, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAAATTCC
Found at i:16013985 original size:12 final size:12
Alignment explanation
Indices: 16013968--16013993 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16013958 GTATGTTTAC
16013968 GATAGTGATTAT
1 GATAGTGATTAT
16013980 GATAGTGATTAT
1 GATAGTGATTAT
16013992 GA
1 GA
16013994 AATAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.27, T:0.38
Consensus pattern (12 bp):
GATAGTGATTAT
Found at i:16017507 original size:16 final size:16
Alignment explanation
Indices: 16017486--16017519 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
16017476 GTATTCAACG
*
16017486 ATTTTATAGATTTATA
1 ATTTTATAGATTAATA
*
16017502 ATTTTATTGATTAATA
1 ATTTTATAGATTAATA
16017518 AT
1 AT
16017520 ATATTATGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
ATTTTATAGATTAATA
Found at i:16018550 original size:3 final size:3
Alignment explanation
Indices: 16018542--16018579 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
16018532 ATTGAGCCCA
16018542 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
16018580 ACTAGTTGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:16027651 original size:38 final size:40
Alignment explanation
Indices: 16027562--16027654 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
16027552 GGGGGAAATT
* *
16027562 AGTAAAGTGCGTCCAGCTCAGCGCTTTTTTCCCTCTGACC
1 AGTAAAGTGCGTCCAACTCAGCGCTCTTTTCCCTCTGACC
* *
16027602 AATAAAGTGCGTCTAACTCAGCGC-CTTTTCCC-CTGACC
1 AGTAAAGTGCGTCCAACTCAGCGCTCTTTTCCCTCTGACC
*
16027640 AGTAAAATGCGTCCA
1 AGTAAAGTGCGTCCA
16027655 GGTCAACGCA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
38 18 0.39
39 7 0.15
40 21 0.46
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (40 bp):
AGTAAAGTGCGTCCAACTCAGCGCTCTTTTCCCTCTGACC
Found at i:16027778 original size:19 final size:19
Alignment explanation
Indices: 16027756--16027822 Score: 55
Period size: 19 Copynumber: 3.4 Consensus size: 19
16027746 TTAAATTAAT
16027756 GTTTAGTATTTTAATTAGG
1 GTTTAGTATTTTAATTAGG
* *
16027775 GTTTAGGATTTAATAAATTAGT
1 GTTTAGTATTT--T-AATTAGG
* *
16027797 GTTTA-TGGTTTCAATTAGG
1 GTTTAGT-ATTTTAATTAGG
16027816 GTTTAGT
1 GTTTAGT
16027823 GTTTATTAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
19 21 0.57
20 1 0.03
21 1 0.03
22 14 0.38
ACGTcount: A:0.27, C:0.01, G:0.22, T:0.49
Consensus pattern (19 bp):
GTTTAGTATTTTAATTAGG
Found at i:16027792 original size:41 final size:42
Alignment explanation
Indices: 16027724--16027821 Score: 112
Period size: 41 Copynumber: 2.4 Consensus size: 42
16027714 GTTTTAATTG
* * *
16027724 TTTAACTAGGGTTTA-TAGTTTATTAAATTAATGTTTA-GTAT
1 TTTAATTAGGGTTTAGGAGTTTAATAAATTAATGTTTATG-AT
* *
16027765 TTTAATTAGGGTTTAGGA-TTTAATAAATTAGTGTTTATGGT
1 TTTAATTAGGGTTTAGGAGTTTAATAAATTAATGTTTATGAT
*
16027806 TTCAATTAGGGTTTAG
1 TTTAATTAGGGTTTAG
16027822 TGTTTATTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
41 47 0.96
42 2 0.04
ACGTcount: A:0.30, C:0.02, G:0.19, T:0.49
Consensus pattern (42 bp):
TTTAATTAGGGTTTAGGAGTTTAATAAATTAATGTTTATGAT
Found at i:16027935 original size:29 final size:29
Alignment explanation
Indices: 16027902--16027975 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
16027892 TAGTGTTCAA
16027902 GGGTTCTGAAAAAATAATTTTGACAAGAT
1 GGGTTCTGAAAAAATAATTTTGACAAGAT
*
16027931 GGGTT-TCGAAAAAATAATTTTGACGAGAT
1 GGGTTCT-GAAAAAATAATTTTGACAAGAT
* *
16027960 GAGTTCTAAAAAAATA
1 GGGTTCTGAAAAAATA
16027976 TATCAAGAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
28 1 0.03
29 38 0.95
30 1 0.03
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (29 bp):
GGGTTCTGAAAAAATAATTTTGACAAGAT
Found at i:16030543 original size:4 final size:4
Alignment explanation
Indices: 16030473--16030525 Score: 54
Period size: 4 Copynumber: 12.8 Consensus size: 4
16030463 TAAGTAATAA
* *
16030473 AAAG AAAT AAAG AAAG AAAG ATAG AAATG AAACAG AAAG -AAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA-G -AA-AG AAAG AAAG AAAG AAAG
16030523 AAA
1 AAA
16030526 AAGAAAAAGG
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
3 3 0.07
4 31 0.76
5 3 0.07
6 3 0.07
7 1 0.02
ACGTcount: A:0.72, C:0.02, G:0.21, T:0.06
Consensus pattern (4 bp):
AAAG
Found at i:16030747 original size:119 final size:120
Alignment explanation
Indices: 16030535--16030771 Score: 377
Period size: 119 Copynumber: 2.0 Consensus size: 120
16030525 AAAGAAAAAG
* *
16030535 GGAAAGAAAAAAAGGAGAAAGATAAGGTTAGGGGGTTTCAAAGTTTCCAAGCTCAATTGGTTAGT
1 GGAAAGAAAAAAAGGAGAAAGAGAAGGCTAGGGGGTTTCAAAGTTTCCAAGCTCAATTGGTTAGT
16030600 CAATTTAGTCCATTTTTCTTGTAATTTTTATGTTTTTGGAATCCCGGTATTAAGT
66 CAATTTAGTCCATTTTTCTTGTAATTTTTATGTTTTTGGAATCCCGGTATTAAGT
* * * *
16030655 GGAAAGAAAGAAAGGAGAAGGAGAAGGCTA-GGGGTTTCAAAGTTTTCAAGTTCAATTGGTTAGT
1 GGAAAGAAAAAAAGGAGAAAGAGAAGGCTAGGGGGTTTCAAAGTTTCCAAGCTCAATTGGTTAGT
* * * *
16030719 TAATTTAGTCCCTTTTTCTTTTAATTTTTATGTTTTTGGAATCCCGGTGTTAA
66 CAATTTAGTCCATTTTTCTTGTAATTTTTATGTTTTTGGAATCCCGGTATTAA
16030772 ATACTACCCG
Statistics
Matches: 107, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
119 81 0.76
120 26 0.24
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.37
Consensus pattern (120 bp):
GGAAAGAAAAAAAGGAGAAAGAGAAGGCTAGGGGGTTTCAAAGTTTCCAAGCTCAATTGGTTAGT
CAATTTAGTCCATTTTTCTTGTAATTTTTATGTTTTTGGAATCCCGGTATTAAGT
Found at i:16031576 original size:41 final size:38
Alignment explanation
Indices: 16031519--16031654 Score: 132
Period size: 37 Copynumber: 3.5 Consensus size: 38
16031509 CAACTTTGAG
16031519 TCGATGAGACACTGGGTGTCAATTTATTGCTTCGGATTTA
1 TCGATGAGACACTGGGTGTCAATTTATT-CTTC-GATTTA
* *
16031559 TTCGATGAGGCACTGGGTGCCAATTTA--CTTCGATTTA
1 -TCGATGAGACACTGGGTGTCAATTTATTCTTCGATTTA
* * * *
16031596 GCCGATGAGACACTGGGTGTCAAATTATTACTTCAAATTA
1 -TCGATGAGACACTGGGTGTCAATTTATT-CTTCGATTTA
* *
16031636 TCTGATGAGGCATTGGGTG
1 TC-GATGAGACACTGGGTG
16031655 CCAAACTGGT
Statistics
Matches: 79, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
37 28 0.35
38 4 0.05
39 1 0.01
40 22 0.28
41 24 0.30
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (38 bp):
TCGATGAGACACTGGGTGTCAATTTATTCTTCGATTTA
Found at i:16031603 original size:37 final size:37
Alignment explanation
Indices: 16031520--16031658 Score: 125
Period size: 40 Copynumber: 3.6 Consensus size: 37
16031510 AACTTTGAGT
* *
16031520 CGATGAGACACTGGGTGTCAATTTATTGCTTCGGATTTATT
1 CGATGAGACACTGGGTGCCAATTTA---CTTC-GATTTATC
* *
16031561 CGATGAGGCACTGGGTGCCAATTTACTTCGATTTAGC
1 CGATGAGACACTGGGTGCCAATTTACTTCGATTTATC
* * *
16031598 CGATGAGACACTGGGTGTCAAATTATTACTTCAAATTATC
1 CGATGAGACACTGGGTG-CCAA-T-TTACTTCGATTTATC
* * *
16031638 TGATGAGGCATTGGGTGCCAA
1 CGATGAGACACTGGGTGCCAA
16031659 ACTGGTGTGT
Statistics
Matches: 82, Mismatches: 13, Indels: 8
0.80 0.13 0.08
Matches are distributed among these distances:
37 22 0.27
38 7 0.09
39 4 0.05
40 26 0.32
41 23 0.28
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (37 bp):
CGATGAGACACTGGGTGCCAATTTACTTCGATTTATC
Found at i:16039778 original size:40 final size:40
Alignment explanation
Indices: 16039720--16039800 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
16039710 NNNNNNNNNN
*
16039720 TCTGGTGTGTTTCAGTTGGATTAGCTCTTCTGAGCTTCTG
1 TCTGGTGTGTTTCAGTTGGATTAGCTCTTATGAGCTTCTG
**
16039760 TCTGGTGTGTTTTGGTTGGATTAGCTCTTATGAGCTTCTG
1 TCTGGTGTGTTTCAGTTGGATTAGCTCTTATGAGCTTCTG
16039800 T
1 T
16039801 TGATTTGACG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.10, C:0.15, G:0.28, T:0.47
Consensus pattern (40 bp):
TCTGGTGTGTTTCAGTTGGATTAGCTCTTATGAGCTTCTG
Found at i:16041015 original size:22 final size:21
Alignment explanation
Indices: 16040961--16041029 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 21
16040951 AATAAGTAAT
*
16040961 AAAAAGAAAGAAAGATAGAAATG
1 AAAAAGAAAG-AAGAAAGAAA-G
*
16040984 AAACAGAAAGAAGAAAGAAAG
1 AAAAAGAAAGAAGAAAGAAAG
**
16041005 AAAAAGAAAAGGGGAAAGAAAG
1 AAAAAG-AAAGAAGAAAGAAAG
16041027 AAA
1 AAA
16041030 GGAGAAGGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
21 6 0.15
22 25 0.62
23 9 0.22
ACGTcount: A:0.71, C:0.01, G:0.25, T:0.03
Consensus pattern (21 bp):
AAAAAGAAAGAAGAAAGAAAG
Found at i:16041938 original size:41 final size:38
Alignment explanation
Indices: 16041881--16042016 Score: 132
Period size: 37 Copynumber: 3.5 Consensus size: 38
16041871 CAACTTTGAG
16041881 TCGATGAGACACTGGGTGTCAATTTATTGCTTCGGATTTA
1 TCGATGAGACACTGGGTGTCAATTTATT-CTTC-GATTTA
* *
16041921 TTCGATGAGGCACTGGGTGCCAATTTA--CTTCGATTTA
1 -TCGATGAGACACTGGGTGTCAATTTATTCTTCGATTTA
* * * *
16041958 GCCGATGAGACACTGGGTGTCAAATTATTACTTCAAATTA
1 -TCGATGAGACACTGGGTGTCAATTTATT-CTTCGATTTA
* *
16041998 TCTGATGAGGCATTGGGTG
1 TC-GATGAGACACTGGGTG
16042017 CCAAACTGGT
Statistics
Matches: 79, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
37 28 0.35
38 4 0.05
39 1 0.01
40 22 0.28
41 24 0.30
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (38 bp):
TCGATGAGACACTGGGTGTCAATTTATTCTTCGATTTA
Found at i:16041965 original size:37 final size:37
Alignment explanation
Indices: 16041882--16042020 Score: 125
Period size: 40 Copynumber: 3.6 Consensus size: 37
16041872 AACTTTGAGT
* *
16041882 CGATGAGACACTGGGTGTCAATTTATTGCTTCGGATTTATT
1 CGATGAGACACTGGGTGCCAATTTA---CTTC-GATTTATC
* *
16041923 CGATGAGGCACTGGGTGCCAATTTACTTCGATTTAGC
1 CGATGAGACACTGGGTGCCAATTTACTTCGATTTATC
* * *
16041960 CGATGAGACACTGGGTGTCAAATTATTACTTCAAATTATC
1 CGATGAGACACTGGGTG-CCAA-T-TTACTTCGATTTATC
* * *
16042000 TGATGAGGCATTGGGTGCCAA
1 CGATGAGACACTGGGTGCCAA
16042021 ACTGGTGTGT
Statistics
Matches: 82, Mismatches: 13, Indels: 8
0.80 0.13 0.08
Matches are distributed among these distances:
37 22 0.27
38 7 0.09
39 4 0.05
40 26 0.32
41 23 0.28
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (37 bp):
CGATGAGACACTGGGTGCCAATTTACTTCGATTTATC
Found at i:16048637 original size:4 final size:4
Alignment explanation
Indices: 16048628--16048698 Score: 51
Period size: 4 Copynumber: 18.0 Consensus size: 4
16048618 TAAGTAATAA
* *
16048628 AAAG AAAG AAAA AAAG ATAG AAATG AAACAG AAAG -AAG AAAG AAAG -AA-
1 AAAG AAAG AAAG AAAG AAAG AAA-G -AA-AG AAAG AAAG AAAG AAAG AAAG
**
16048676 AAAG AAA- AGGG AAAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG
16048699 GAGAAAGACA
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
3 8 0.15
4 37 0.71
5 3 0.06
6 3 0.06
7 1 0.02
ACGTcount: A:0.72, C:0.01, G:0.24, T:0.03
Consensus pattern (4 bp):
AAAG
Found at i:16048660 original size:11 final size:10
Alignment explanation
Indices: 16048626--16048697 Score: 53
Period size: 11 Copynumber: 7.3 Consensus size: 10
16048616 AATAAGTAAT
16048626 AAAAAGAAAG
1 AAAAAGAAAG
16048636 -AAAA-AAAG
1 AAAAAGAAAG
*
16048644 --ATAGAAATG
1 AAAAAGAAA-G
*
16048653 AAACAGAAAG
1 AAAAAGAAAG
16048663 AAGAAAGAAAG
1 AA-AAAGAAAG
16048674 AAAAAGAAAAG
1 AAAAAG-AAAG
**
16048685 GGAAAGAAAG
1 AAAAAGAAAG
16048695 AAA
1 AAA
16048698 GGAGAAAGAC
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
7 2 0.04
8 7 0.14
9 5 0.10
10 12 0.24
11 23 0.47
ACGTcount: A:0.74, C:0.01, G:0.22, T:0.03
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:16048671 original size:22 final size:21
Alignment explanation
Indices: 16048628--16048706 Score: 65
Period size: 21 Copynumber: 3.7 Consensus size: 21
16048618 TAAGTAATAA
*
16048628 AAAGAAAGAA-AAA-AAGATAG
1 AAAGAAA-AAGAAAGAAGAAAG
*
16048648 AAATGAAACAGAAAGAAGAAAG
1 AAA-GAAAAAGAAAGAAGAAAG
*
16048670 AAAGAAAAAGAAA-AGGGAAAG
1 AAAGAAAAAGAAAGA-AGAAAG
*
16048691 AAAGAAAGGAGAAAGA
1 AAAGAAA-AAGAAAGA
16048707 CAAGGCTAGG
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
20 5 0.10
21 28 0.58
22 14 0.29
23 1 0.02
ACGTcount: A:0.71, C:0.01, G:0.25, T:0.03
Consensus pattern (21 bp):
AAAGAAAAAGAAAGAAGAAAG
Found at i:16048682 original size:27 final size:28
Alignment explanation
Indices: 16048626--16048697 Score: 60
Period size: 27 Copynumber: 2.6 Consensus size: 28
16048616 AATAAGTAAT
* *
16048626 AAAAAGAAAGAA-AAAAAGATAGAAATG
1 AAAAAGAAAGAAGAAAAAGAGAAAAATG
*
16048653 AAACAGAAAGAAGAAAGAA-AGAAAAA-G
1 AAAAAGAAAGAAGAAA-AAGAGAAAAATG
*
16048680 AAAAGGGAAAGAAAGAAA
1 AAAA-AGAAAG-AAGAAA
16048698 GGAGAAAGAC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
27 15 0.42
28 13 0.36
29 8 0.22
ACGTcount: A:0.74, C:0.01, G:0.22, T:0.03
Consensus pattern (28 bp):
AAAAAGAAAGAAGAAAAAGAGAAAAATG
Found at i:16056744 original size:25 final size:26
Alignment explanation
Indices: 16056715--16056770 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
16056705 TTAATCAACA
*
16056715 TAAAATATTAA-TAATTCAAT-AAAT
1 TAAAATATTAATTAATTAAATAAAAT
16056739 TGAAAA-ATTAATTAATTAAATAAAAT
1 T-AAAATATTAATTAATTAAATAAAAT
16056765 TAAAAT
1 TAAAAT
16056771 TTTGGAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 6 0.22
25 16 0.59
26 5 0.19
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (26 bp):
TAAAATATTAATTAATTAAATAAAAT
Found at i:16057604 original size:425 final size:425
Alignment explanation
Indices: 16056814--16057665 Score: 1704
Period size: 425 Copynumber: 2.0 Consensus size: 425
16056804 AAAAGTTAAG
16056814 AACTCAAAGAAAATAAATCTAAAGCAAAAGAGGTCAATTTAGGGATATTTGTAGGGTGTCTTGAT
1 AACTCAAAGAAAATAAATCTAAAGCAAAAGAGGTCAATTTAGGGATATTTGTAGGGTGTCTTGAT
16056879 GGTGTGGTGCGAGTAGCAAGGCGGCAGCAGCACGCTAGGGAGTAGTATGATATGCATGTGCTGCG
66 GGTGTGGTGCGAGTAGCAAGGCGGCAGCAGCACGCTAGGGAGTAGTATGATATGCATGTGCTGCG
16056944 TGGATGGGAGCAAGCAAGCAGCAGGTGGCACTATCGGGCAAACAAAAGAGTTGGTGCATTGGCAC
131 TGGATGGGAGCAAGCAAGCAGCAGGTGGCACTATCGGGCAAACAAAAGAGTTGGTGCATTGGCAC
16057009 GCGCGAGCAGGTGCGTGAGAGTTGGTCTGGCGCAAGCGGGAGTAGCAGCGTGAGCTGCTGGCCAA
196 GCGCGAGCAGGTGCGTGAGAGTTGGTCTGGCGCAAGCGGGAGTAGCAGCGTGAGCTGCTGGCCAA
16057074 ATGGGGCTGCTGGGCGGTGTTGTGGCTAGGGAGTTGGGAGCTGGGGCACTAGGTGATTTGGTGGG
261 ATGGGGCTGCTGGGCGGTGTTGTGGCTAGGGAGTTGGGAGCTGGGGCACTAGGTGATTTGGTGGG
16057139 TTTTTGATGCTAGGTTTGATTGAGGGATGATTGAAAAAAAATAGAAAATGTGGGTGAAATTTATA
326 TTTTTGATGCTAGGTTTGATTGAGGGATGATTGAAAAAAAATAGAAAATGTGGGTGAAATTTATA
16057204 GTGAGAGGAGTAGGAGTTTAATTAGAATTCTTAGA
391 GTGAGAGGAGTAGGAGTTTAATTAGAATTCTTAGA
16057239 AACTCAAAGAAAATAAATCTAAAGCAAAAGAGGTCAATTTAGGGATATTTGTAGGGTGTCTTGAT
1 AACTCAAAGAAAATAAATCTAAAGCAAAAGAGGTCAATTTAGGGATATTTGTAGGGTGTCTTGAT
16057304 GGTGTGGTGCGAGTAGCAAGGCGGCAGCAGCACGCTAGGGAGTAGTATGATATGCATGTGCTGCG
66 GGTGTGGTGCGAGTAGCAAGGCGGCAGCAGCACGCTAGGGAGTAGTATGATATGCATGTGCTGCG
16057369 TGGATGGGAGCAAGCAAGCAGCAGGTGGCACTATCGGGCAAACAAAAGAGTTGGTGCATTGGCAC
131 TGGATGGGAGCAAGCAAGCAGCAGGTGGCACTATCGGGCAAACAAAAGAGTTGGTGCATTGGCAC
16057434 GCGCGAGCAGGTGCGTGAGAGTTGGTCTGGCGCAAGCGGGAGTAGCAGCGTGAGCTGCTGGCCAA
196 GCGCGAGCAGGTGCGTGAGAGTTGGTCTGGCGCAAGCGGGAGTAGCAGCGTGAGCTGCTGGCCAA
16057499 ATGGGGCTGCTGGGCGGTGTTGTGGCTAGGGAGTTGGGAGCTGGGGCACTAGGTGATTTGGTGGG
261 ATGGGGCTGCTGGGCGGTGTTGTGGCTAGGGAGTTGGGAGCTGGGGCACTAGGTGATTTGGTGGG
16057564 TTTTTGATGCTAGGTTTGATTGAGGGATGATTGAAAAAAAATAGAAAATGTGGGTGAAATTTATA
326 TTTTTGATGCTAGGTTTGATTGAGGGATGATTGAAAAAAAATAGAAAATGTGGGTGAAATTTATA
16057629 GTGAGAGGAGTAGGAGTTTAATTAGAATTCTTAGA
391 GTGAGAGGAGTAGGAGTTTAATTAGAATTCTTAGA
16057664 AA
1 AA
16057666 AATTTAATAC
Statistics
Matches: 427, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
425 427 1.00
ACGTcount: A:0.27, C:0.12, G:0.36, T:0.24
Consensus pattern (425 bp):
AACTCAAAGAAAATAAATCTAAAGCAAAAGAGGTCAATTTAGGGATATTTGTAGGGTGTCTTGAT
GGTGTGGTGCGAGTAGCAAGGCGGCAGCAGCACGCTAGGGAGTAGTATGATATGCATGTGCTGCG
TGGATGGGAGCAAGCAAGCAGCAGGTGGCACTATCGGGCAAACAAAAGAGTTGGTGCATTGGCAC
GCGCGAGCAGGTGCGTGAGAGTTGGTCTGGCGCAAGCGGGAGTAGCAGCGTGAGCTGCTGGCCAA
ATGGGGCTGCTGGGCGGTGTTGTGGCTAGGGAGTTGGGAGCTGGGGCACTAGGTGATTTGGTGGG
TTTTTGATGCTAGGTTTGATTGAGGGATGATTGAAAAAAAATAGAAAATGTGGGTGAAATTTATA
GTGAGAGGAGTAGGAGTTTAATTAGAATTCTTAGA
Found at i:16065954 original size:15 final size:16
Alignment explanation
Indices: 16065936--16065965 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
16065926 ATGATAAAAT
16065936 AATATTAA-ATAATTA
1 AATATTAATATAATTA
16065951 AATATTAATATAATT
1 AATATTAATATAATT
16065966 TTTTTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATTAATATAATTA
Found at i:16066267 original size:17 final size:18
Alignment explanation
Indices: 16066230--16066270 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
16066220 CAATGCAAAG
*
16066230 TAAATAAATTATTAAAAA
1 TAAAAAAATTATTAAAAA
*
16066248 TAAAAAAATTA-TAAATA
1 TAAAAAAATTATTAAAAA
16066265 TAAAAA
1 TAAAAA
16066271 TTGGCTCAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAAAAAATTATTAAAAA
Found at i:16066446 original size:19 final size:18
Alignment explanation
Indices: 16066422--16066469 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 18
16066412 AACATTAAAA
16066422 TTTAAATTTTTTTTATATT
1 TTTAAATTTTTTTT-TATT
*
16066441 TTTAAAATTATTTTTTATT
1 TTT-AAATTTTTTTTTATT
*
16066460 TTAAAATTTT
1 TTTAAATTTT
16066470 AAATATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 9 0.36
20 10 0.40
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTAAATTTTTTTTTATT
Found at i:16066461 original size:26 final size:24
Alignment explanation
Indices: 16066428--16066504 Score: 79
Period size: 24 Copynumber: 3.2 Consensus size: 24
16066418 AAAATTTAAA
*
16066428 TTTT-TTTTATATTTTTAAAATTATT
1 TTTTATTTTATAATTTTAAAA-TA-T
*
16066453 TTTTATTTTAAAATTTT-AAATAT
1 TTTTATTTTATAATTTTAAAATAT
*
16066476 TTTTATTTTCATAATTTT-ATATAT
1 TTTTATTTT-ATAATTTTAAAATAT
16066500 TTTTA
1 TTTTA
16066505 AAATATATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
23 10 0.22
24 19 0.41
25 7 0.15
26 10 0.22
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (24 bp):
TTTTATTTTATAATTTTAAAATAT
Found at i:16066463 original size:18 final size:20
Alignment explanation
Indices: 16066425--16066467 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
16066415 ATTAAAATTT
*
16066425 AAATTTTTTTTATATTTTTA
1 AAATTATTTTTATATTTTTA
16066445 AAATTATTTTT-TA-TTTTA
1 AAATTATTTTTATATTTTTA
16066463 AAATT
1 AAATT
16066468 TTAAATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.45
19 2 0.09
20 10 0.45
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
AAATTATTTTTATATTTTTA
Found at i:16067635 original size:6 final size:6
Alignment explanation
Indices: 16067624--16067660 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
16067614 ACGTTAGCAA
16067624 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT A
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT A
16067661 ATTATATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
ATAAAT
Found at i:16076121 original size:28 final size:28
Alignment explanation
Indices: 16076084--16076155 Score: 76
Period size: 29 Copynumber: 2.6 Consensus size: 28
16076074 ACATCCATAT
*
16076084 TATTTTTTAAAATTTTAAAAAATATTTA
1 TATTATTTAAAATTTTAAAAAATATTTA
* * * *
16076112 TATTATTTAATAATTTTATATATTTTTTA
1 TATTATTTAA-AATTTTAAAAAATATTTA
16076141 T-TTA-TTAAAATTTTA
1 TATTATTTAAAATTTTA
16076156 TATATAAACA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
26 7 0.18
27 4 0.11
28 12 0.32
29 15 0.39
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (28 bp):
TATTATTTAAAATTTTAAAAAATATTTA
Found at i:16076141 original size:24 final size:27
Alignment explanation
Indices: 16076105--16076160 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
16076095 ATTTTAAAAA
*
16076105 ATATTTATATTATTTA-ATAATTTTAT
1 ATATTTATATTATTTATAAAATTTTAT
16076131 ATATTT-T-TTATTTATTAAAATTTTAT
1 ATATTTATATTATTTA-TAAAATTTTAT
16076157 ATAT
1 ATAT
16076161 AAACAACTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 7 0.26
25 1 0.04
26 19 0.70
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
ATATTTATATTATTTATAAAATTTTAT
Found at i:16076906 original size:24 final size:24
Alignment explanation
Indices: 16076885--16076933 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
16076875 AGTTAAAATG
*
16076885 TATATATAATTAAATATCAAAATAT
1 TATATA-AATTAAATAACAAAATAT
*
16076910 TTTATAAATTAAATAACAAAATAT
1 TATATAAATTAAATAACAAAATAT
16076934 AATTATGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (24 bp):
TATATAAATTAAATAACAAAATAT
Found at i:16079281 original size:22 final size:21
Alignment explanation
Indices: 16079252--16079294 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
16079242 TTTCACTTTC
*
16079252 TAAA-TTTTATTTAATATTATT
1 TAAATTTTTATTAAAT-TTATT
16079273 TAAATTTTTTATTAAATTTATT
1 TAAA-TTTTTATTAAATTTATT
16079295 GGTATGAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 5 0.26
23 10 0.53
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TAAATTTTTATTAAATTTATT
Found at i:16079369 original size:29 final size:30
Alignment explanation
Indices: 16079309--16079382 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 30
16079299 TGAGATTTTA
*
16079309 AAATAAAAAAAT-TCACTTAATAATTATGT
1 AAATAAAAAAATAACACTTAATAATTATGT
*
16079338 AAATAAAAAAATAACA-TT-ATAATATATTT
1 AAATAAAAAAATAACACTTAATAAT-TATGT
16079367 AAATTTAAAAAAATAA
1 AAA--TAAAAAAATAA
16079383 TTTTAACAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
28 5 0.13
29 21 0.54
30 2 0.05
31 11 0.28
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.32
Consensus pattern (30 bp):
AAATAAAAAAATAACACTTAATAATTATGT
Found at i:16082749 original size:27 final size:27
Alignment explanation
Indices: 16082719--16082794 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
16082709 GACAGCTTGA
16082719 CCCCTCCTGTCGAGAATGACAATGTGG
1 CCCCTCCTGTCGAGAATGACAATGTGG
* * *
16082746 CCCCTCCTATTGAGAATGATAATGTGG
1 CCCCTCCTGTCGAGAATGACAATGTGG
* *
16082773 CCCTTCTTG-CTGAGAATGACAA
1 CCCCTCCTGTC-GAGAATGACAA
16082795 AGCGGACCAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (27 bp):
CCCCTCCTGTCGAGAATGACAATGTGG
Found at i:16083284 original size:72 final size:71
Alignment explanation
Indices: 16083130--16084022 Score: 615
Period size: 72 Copynumber: 12.5 Consensus size: 71
16083120 AAATCATCAT
* * * * * * * * *
16083130 CTGAGAGTTTTTAACTCTCGCTGACTGTTTGG-GGGTTACAGTTTTAAAGCTACGAGCCTTAATG
1 CTGAGAGCTTTTAACTCTCGCTAACTATTTGGAGGGCTGC-GGTTTAAACCTGCGAGCCTTAATA
*
16083194 ATGACAT
65 ATGACAG
* * * **
16083201 CTGAGAGCTTTTAACTCTCGTTAACTGTTTGGAGGGCTGCGGTATTGAACCTGTAAGCCTTAATA
1 CTGAGAGCTTTTAACTCTCGCTAACTATTTGGAGGGCTGCGGT-TTAAACCTGCGAGCCTTAATA
*
16083266 ATAACAG
65 ATGACAG
* * ** * *
16083273 CTGAGAGCTTTTAACTCTCGCTAACTATTTGGAGAGCTGCGATTTTAATTCTGTGAGCCTTAATG
1 CTGAGAGCTTTTAACTCTCGCTAACTATTTGGAGGGCTGCG-GTTTAAACCTGCGAGCCTTAATA
*
16083338 ATGATAG
65 ATGACAG
* ** ** * *
16083345 -TTAGGAGCTTTTAACTCTCGCTAACTGCTTGGAGGGCTGCAGCCTTAAACCTGTGAGCTTTAAT
1 CTGA-GAGCTTTTAACTCTCGCTAACTATTTGGAGGGCTGC-GGTTTAAACCTGCGAGCCTTAAT
*
16083409 AATAACAG
64 AATGACAG
* * * * * * * ** *
16083417 CTGGGAGCTTTTAACTCTCACCAACTATTT-GAGGGGGTACAGTTTTAATCAAGTGAGCCTTAAT
1 CTGAGAGCTTTTAACTCTCGCTAACTATTTGGA-GGGCTGC-GGTTTAAACCTGCGAGCCTTAAT
*
16083481 AATGACAA
64 AATGACAG
* * * ** * * * **
16083489 TTGGGAGTTTTTAACTCTCATTAACTATTT-AAGGGGCTACGGCTTTAAACCTGAGAGATTTAAT
1 CTGAGAGCTTTTAACTCTCGCTAACTATTTGGA-GGGCTGCGG-TTTAAACCTGCGAGCCTTAAT
* *
16083553 GATGATAG
64 AATGACAG
* * * * * *
16083561 -TTAGGAGCTTTTAACTTTCGCTAACTATTTGGGGGGTTGCGGTATTGAACCTGCGAGCTTTAAT
1 CTGA-GAGCTTTTAACTCTCGCTAACTATTTGGAGGGCTGCGGT-TTAAACCTGCGAGCCTTAAT
*
16083625 AATAACAG
64 AATGACAG
* * * * * * * *
16083633 TTGGGAGCTTTTAACTCTCGCTAACTGTTT-GAGGGACTGCGATTTTAATCTCGTGAGCTTTAAT
1 CTGAGAGCTTTTAACTCTCGCTAACTATTTGGAGGG-CTGCGGTTTAAACCT-GCGAGCCTTAAT
*
16083697 AATGACAT
64 AATGACAG
* * * * ** *
16083705 TTGAGAGCTTTTAAATCTCGCTAATTGTTTGG-GGGCTGCAATTTTAAACCTGCGAGCCTTAATG
1 CTGAGAGCTTTTAACTCTCGCTAACTATTTGGAGGGCTGC-GGTTTAAACCTGCGAGCCTTAATA
*
16083769 ATGATAG
65 ATGACAG
* * * *
16083776 CTGGGAGCTTTTAACTCTCGCTAACTATTTGG-GGGTTGTGGTTGTAAACCTGCGAGCCTTAACA
1 CTGAGAGCTTTTAACTCTCGCTAACTATTTGGAGGGCTGCGGTT-TAAACCTGCGAGCCTTAATA
16083840 ATGACAG
65 ATGACAG
* * * * * * *
16083847 TTGAGAGCTTTTAACTCTCGCTAACTGTTTGG-GTGGTTGTGGTTTTAAACCTACGAGTCTGAAT
1 CTGAGAGCTTTTAACTCTCGCTAACTATTTGGAG-GGCTGCGG-TTTAAACCTGCGAGCCTTAAT
*
16083911 GAA-GACTG
64 -AATGACAG
* * * * * *
16083919 CT-AGGAGTTTTTAACTCTCGCTAAATATTT-AAGGGGTTGTGGTATTGAACCTGCGAGCCTTAA
1 CTGA-GAGCTTTTAACTCTCGCTAACTATTTGGA-GGGCTGCGGT-TTAAACCTGCGAGCCTTAA
*
16083982 TAATGATAG
63 TAATGACAG
*
16083991 CTG-GAAGCTTTTAACTCTCGCTAACTGTTTGG
1 CTGAG-AGCTTTTAACTCTCGCTAACTATTTGG
16084023 GTTTTTTATG
Statistics
Matches: 650, Mismatches: 144, Indels: 54
0.77 0.17 0.06
Matches are distributed among these distances:
70 2 0.00
71 158 0.24
72 480 0.74
73 10 0.02
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (71 bp):
CTGAGAGCTTTTAACTCTCGCTAACTATTTGGAGGGCTGCGGTTTAAACCTGCGAGCCTTAATAA
TGACAG
Found at i:16091434 original size:5 final size:5
Alignment explanation
Indices: 16091424--16091449 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
16091414 NNNNNNNNNN
16091424 ATTAT ATTAT ATTAT ATTAT ATTAT A
1 ATTAT ATTAT ATTAT ATTAT ATTAT A
16091450 ACTCAAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:16092018 original size:22 final size:22
Alignment explanation
Indices: 16091992--16092038 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
16091982 TTTATATTAA
16091992 ATTATTTTATCATGATTGATTT
1 ATTATTTTATCATGATTGATTT
*
16092014 ATTATTTTATGATGATTGATTT
1 ATTATTTTATCATGATTGATTT
16092036 ATT
1 ATT
16092039 GCGCTCAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.02, G:0.11, T:0.60
Consensus pattern (22 bp):
ATTATTTTATCATGATTGATTT
Found at i:16092892 original size:10 final size:9
Alignment explanation
Indices: 16092857--16092894 Score: 51
Period size: 10 Copynumber: 4.1 Consensus size: 9
16092847 TTTAGATTAA
16092857 AAATTAATT
1 AAATTAATT
16092866 -AATTAAGTT
1 AAATTAA-TT
16092875 AAATTAATT
1 AAATTAATT
16092884 AAGATTAATT
1 AA-ATTAATT
16092894 A
1 A
16092895 GTTTAATTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 6 0.23
9 6 0.23
10 14 0.54
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (9 bp):
AAATTAATT
Found at i:16092893 original size:14 final size:14
Alignment explanation
Indices: 16092859--16092894 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
16092849 TAGATTAAAA
16092859 ATTAATTAATTAAG
1 ATTAATTAATTAAG
16092873 -TTAAATTAATTAAG
1 ATT-AATTAATTAAG
16092887 ATTAATTA
1 ATTAATTA
16092895 GTTTAATTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 2 0.10
14 16 0.80
15 2 0.10
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (14 bp):
ATTAATTAATTAAG
Found at i:16096885 original size:20 final size:20
Alignment explanation
Indices: 16096846--16096900 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
16096836 CCTTGTTTGA
*
16096846 ATGTTACACGGCCT-GGGCG
1 ATGTCACACGGCCTGGGGCG
16096865 ATGTCACACGGCCTGGGGCG
1 ATGTCACACGGCCTGGGGCG
16096885 ATGTCACACGGCCTGG
1 ATGTCACACGGCCTGG
16096901 CCATATGACC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 13 0.38
20 21 0.62
ACGTcount: A:0.16, C:0.29, G:0.36, T:0.18
Consensus pattern (20 bp):
ATGTCACACGGCCTGGGGCG
Found at i:16100728 original size:5 final size:5
Alignment explanation
Indices: 16100718--16100755 Score: 67
Period size: 5 Copynumber: 7.4 Consensus size: 5
16100708 AAAACTCATA
16100718 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAATAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AA
16100756 CTAGTCATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 28 0.88
6 4 0.12
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:16103674 original size:42 final size:42
Alignment explanation
Indices: 16103585--16103725 Score: 212
Period size: 42 Copynumber: 3.4 Consensus size: 42
16103575 GATCTTGGTA
* * * *
16103585 TCGCACATTTAGTGCCCGTTATTC-ACATCGTCATTTTAGTT
1 TCGCACACTTAGTGCCTGTTATTCAACATCATCATTTTAATT
*
16103626 TCGCACACTTAATGCCTGTTATTCAACATCATCATTTTAATT
1 TCGCACACTTAGTGCCTGTTATTCAACATCATCATTTTAATT
*
16103668 TTGCACACTTAGTGCCTGTTATTCAACATCATCATTTTAATT
1 TCGCACACTTAGTGCCTGTTATTCAACATCATCATTTTAATT
*
16103710 TCCCACACTTAGTGCC
1 TCGCACACTTAGTGCC
16103726 ATTCATATAG
Statistics
Matches: 90, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
41 21 0.23
42 69 0.77
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.40
Consensus pattern (42 bp):
TCGCACACTTAGTGCCTGTTATTCAACATCATCATTTTAATT
Found at i:16104862 original size:17 final size:15
Alignment explanation
Indices: 16104834--16104866 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
16104824 TTTAAAACAA
16104834 AAATTTAGCACACAC
1 AAATTTAGCACACAC
16104849 AAATTTAGCACACAC
1 AAATTTAGCACACAC
16104864 AAA
1 AAA
16104867 AAGTAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.52, C:0.24, G:0.06, T:0.18
Consensus pattern (15 bp):
AAATTTAGCACACAC
Found at i:16122475 original size:18 final size:19
Alignment explanation
Indices: 16122436--16122477 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
16122426 TTGGTAAAAC
*
16122436 AAAAACAAAAGAAAACCAG
1 AAAAACAAAAGAAAACAAG
16122455 AAAAA-AAAAGAAAA-AAGG
1 AAAAACAAAAGAAAACAA-G
16122473 AAAAA
1 AAAAA
16122478 TACCATGGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 15 0.71
19 5 0.24
ACGTcount: A:0.81, C:0.07, G:0.12, T:0.00
Consensus pattern (19 bp):
AAAAACAAAAGAAAACAAG
Found at i:16131321 original size:16 final size:16
Alignment explanation
Indices: 16131297--16131337 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
16131287 AAATATTCTA
16131297 TTAAT-TTAA-TAAGAT
1 TTAATATTAATTAA-AT
*
16131312 TTAATATTAATTTAAT
1 TTAATATTAATTAAAT
16131328 TTAATATTAA
1 TTAATATTAA
16131338 AGTGATTAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 5 0.22
16 16 0.70
17 2 0.09
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
TTAATATTAATTAAAT
Found at i:16142382 original size:34 final size:34
Alignment explanation
Indices: 16142313--16142392 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 34
16142303 ATATCAAACT
*
16142313 AGAAAGTCATATTTCCATAAACATATACTAGATC
1 AGAATGTCATATTTCCATAAACATATACTAGATC
* * * *
16142347 AGAGTGTCATATTTTCATAAATATATA-TCATATC
1 AGAATGTCATATTTCCATAAACATATACT-AGATC
*
16142381 AGAATGTTATAT
1 AGAATGTCATAT
16142393 CAGATCAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
33 1 0.03
34 37 0.97
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.36
Consensus pattern (34 bp):
AGAATGTCATATTTCCATAAACATATACTAGATC
Found at i:16147600 original size:6 final size:6
Alignment explanation
Indices: 16147553--16147581 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
16147543 GCCTATTTTT
16147553 AATTAA AATTAA AATTAA AATTAA AATTA
1 AATTAA AATTAA AATTAA AATTAA AATTA
16147582 TTTTTTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
AATTAA
Found at i:16147633 original size:16 final size:16
Alignment explanation
Indices: 16147596--16147635 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
16147586 TTAATAAAAT
* *
16147596 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
16147612 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
16147628 TAAAATTA
1 TAAAATTA
16147636 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:16147635 original size:22 final size:22
Alignment explanation
Indices: 16147568--16147620 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
16147558 AAATTAAAAT
* * *
16147568 TAAAATTAAAATTATTTTTTAA
1 TAAAATTAAAACTAATTGTTAA
*
16147590 TAAAATTAAAACTAATTGTTAT
1 TAAAATTAAAACTAATTGTTAA
16147612 TAAAATTAA
1 TAAAATTAA
16147621 TTGTTAGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
TAAAATTAAAACTAATTGTTAA
Found at i:16147808 original size:9 final size:9
Alignment explanation
Indices: 16147775--16147802 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
16147765 TTTATCAAAT
16147775 TATTAATTG
1 TATTAATTG
16147784 TATTAATTG
1 TATTAATTG
16147793 TATTAATTG
1 TATTAATTG
16147802 T
1 T
16147803 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:16147825 original size:68 final size:68
Alignment explanation
Indices: 16147716--16147900 Score: 361
Period size: 68 Copynumber: 2.7 Consensus size: 68
16147706 NNNNNNNNNN
16147716 TATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAA
1 TATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAA
16147781 TTG
66 TTG
16147784 TATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAA
1 TATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAA
16147849 TTG
66 TTG
*
16147852 TATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAA
1 TATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAA
16147901 ACAAATTTTA
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 116 1.00
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (68 bp):
TATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAA
TTG
Found at i:16147855 original size:9 final size:9
Alignment explanation
Indices: 16147843--16147870 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
16147833 TTTATCAAAT
16147843 TATTAATTG
1 TATTAATTG
16147852 TATTAATTG
1 TATTAATTG
16147861 TATTAATTG
1 TATTAATTG
16147870 T
1 T
16147871 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:16147988 original size:22 final size:20
Alignment explanation
Indices: 16147963--16148012 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 20
16147953 AAGTAAATAA
16147963 ATTTAAAATAAAAAACTATTAT
1 ATTTAAAATAAAAAA-TA-TAT
16147985 ATTTTAAAAATAAAAAATATAT
1 A-TTT-AAAATAAAAAATATAT
16148007 ATTTAA
1 ATTTAA
16148013 TATTTTTCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 2 0.08
21 3 0.12
22 5 0.19
23 5 0.19
24 11 0.42
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
ATTTAAAATAAAAAATATAT
Found at i:16147999 original size:24 final size:22
Alignment explanation
Indices: 16147967--16148010 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
16147957 AAATAAATTT
16147967 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAA-TA-TATATTTTA
16147991 AAAATAAAAAATATATATTT
1 AAAATAAAAAATATATATTT
16148011 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAATAAAAAATATATATTTTA
Found at i:16155140 original size:21 final size:21
Alignment explanation
Indices: 16155110--16155149 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16155100 TTAATGTTAA
16155110 TATTAATATAAAATTTAAATT
1 TATTAATATAAAATTTAAATT
* *
16155131 TATTACTATAAATTTTAAA
1 TATTAATATAAAATTTAAA
16155150 AATTTTATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (21 bp):
TATTAATATAAAATTTAAATT
Found at i:16158693 original size:21 final size:21
Alignment explanation
Indices: 16158654--16158699 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
16158644 NNNNNNNNNN
**
16158654 TATATATTTTAAATTTATTAA
1 TATATATTTTAAAAATATTAA
* *
16158675 TATATTTTTTAAAAATATTTA
1 TATATATTTTAAAAATATTAA
16158696 TATA
1 TATA
16158700 CTTATTAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TATATATTTTAAAAATATTAA
Found at i:16159638 original size:80 final size:82
Alignment explanation
Indices: 16159524--16159691 Score: 225
Period size: 80 Copynumber: 2.1 Consensus size: 82
16159514 GTTATGTATT
* * * *
16159524 TATATTAAAAATAGGACCCCACTTAATTATATTTAAAATTTAACTTAAAAATGATACTC-ACTTT
1 TATATTAAAAATAGGACCCCACTTAATCATATTTAAAAATTAACTTAAAAATAAGA-TCAACTTT
*
16159588 GAATATAATT-AAAAATA
65 AAATATAATTAAAAAATA
* ** *
16159605 TATATTACAAATAGGA-TTCACTTAATCATATTTAAAAATTAATTTAAAAATAAGATCAACTTTA
1 TATATTAAAAATAGGACCCCACTTAATCATATTTAAAAATTAACTTAAAAATAAGATCAACTTTA
16159669 AATATAATTAAAAAATA
66 AATATAATTAAAAAATA
16159686 TATATT
1 TATATT
16159692 TTGGAACTCA
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
79 2 0.03
80 46 0.61
81 28 0.37
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.37
Consensus pattern (82 bp):
TATATTAAAAATAGGACCCCACTTAATCATATTTAAAAATTAACTTAAAAATAAGATCAACTTTA
AATATAATTAAAAAATA
Found at i:16159680 original size:40 final size:40
Alignment explanation
Indices: 16159528--16159682 Score: 113
Period size: 40 Copynumber: 3.9 Consensus size: 40
16159518 TGTATTTATA
* * * * * *
16159528 TTAAAAATAGGACCCCAC-TTAATTATATTTAAAATTTAAC
1 TTAAAAATAAGA-CTCACTTTAAATATAATTAAAAATTAAT
* * *
16159568 TTAAAAATGATACTCACTTTGAATATAATTAAAAA-TATAT
1 TTAAAAATAAGACTCACTTTAAATATAATTAAAAATTA-AT
* * * *
16159608 ATTACAAATAGGATTCAC-TT-AATCATATTTAAAAATTAAT
1 -TTAAAAATAAGACTCACTTTAAAT-ATAATTAAAAATTAAT
16159648 TTAAAAATAAGA-TCAACTTTAAATATAATTAAAAA
1 TTAAAAATAAGACTC-ACTTTAAATATAATTAAAAA
16159683 ATATATATTT
Statistics
Matches: 89, Mismatches: 18, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
38 2 0.02
39 21 0.24
40 49 0.55
41 17 0.19
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.35
Consensus pattern (40 bp):
TTAAAAATAAGACTCACTTTAAATATAATTAAAAATTAAT
Found at i:16160103 original size:113 final size:114
Alignment explanation
Indices: 16159903--16160132 Score: 435
Period size: 113 Copynumber: 2.0 Consensus size: 114
16159893 ACTGACAATA
16159903 ATGTCAATGCCAACCGAGTTAAGACTCAACTTGCTTGCGTTCCTTTTTATATATACTAATTTCTA
1 ATGTCAATGCC-ACCGAGTTAAGACTCAACTTGCTTGCGTTCCTTTTTATATATACTAATTTCTA
16159968 TGTTCGTGCTCTGCACAGGTTGATTGTGTGTATTTATTTTAATATGTTAT
65 TGTTCGTGCTCTGCACAGGTTGATTGTGTGTATTTATTTTAATATGTTAT
16160018 ATGTCAATGCC-CCGAGTTAAGACTCAACTTGCTTGCGTTCCTTTTTATATATACTAATTTCTAT
1 ATGTCAATGCCACCGAGTTAAGACTCAACTTGCTTGCGTTCCTTTTTATATATACTAATTTCTAT
*
16160082 GTTCGTGCTCTGCACAGGTTGATTGTGTGTGTTTATTTTAATATGTTAT
66 GTTCGTGCTCTGCACAGGTTGATTGTGTGTATTTATTTTAATATGTTAT
16160131 AT
1 AT
16160133 ATATATATAT
Statistics
Matches: 114, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
113 103 0.90
115 11 0.10
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.44
Consensus pattern (114 bp):
ATGTCAATGCCACCGAGTTAAGACTCAACTTGCTTGCGTTCCTTTTTATATATACTAATTTCTAT
GTTCGTGCTCTGCACAGGTTGATTGTGTGTATTTATTTTAATATGTTAT
Found at i:16162392 original size:80 final size:82
Alignment explanation
Indices: 16162278--16162445 Score: 225
Period size: 80 Copynumber: 2.1 Consensus size: 82
16162268 GTTATGTATT
* * * *
16162278 TATATTAAAAATAGGACCCCACTTAATTATATTTAAAATTTAACTTAAAAATGATACTC-ACTTT
1 TATATTAAAAATAGGACCCCACTTAATCATATTTAAAAATTAACTTAAAAATAAGA-TCAACTTT
*
16162342 GAATATAATT-AAAAATA
65 AAATATAATTAAAAAATA
* ** *
16162359 TATATTACAAATAGGA-TTCACTTAATCATATTTAAAAATTAATTTAAAAATAAGATCAACTTTA
1 TATATTAAAAATAGGACCCCACTTAATCATATTTAAAAATTAACTTAAAAATAAGATCAACTTTA
16162423 AATATAATTAAAAAATA
66 AATATAATTAAAAAATA
16162440 TATATT
1 TATATT
16162446 TTGGAACTCA
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
79 2 0.03
80 46 0.61
81 28 0.37
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.37
Consensus pattern (82 bp):
TATATTAAAAATAGGACCCCACTTAATCATATTTAAAAATTAACTTAAAAATAAGATCAACTTTA
AATATAATTAAAAAATA
Found at i:16162434 original size:40 final size:40
Alignment explanation
Indices: 16162282--16162436 Score: 113
Period size: 40 Copynumber: 3.9 Consensus size: 40
16162272 TGTATTTATA
* * * * * *
16162282 TTAAAAATAGGACCCCAC-TTAATTATATTTAAAATTTAAC
1 TTAAAAATAAGA-CTCACTTTAAATATAATTAAAAATTAAT
* * *
16162322 TTAAAAATGATACTCACTTTGAATATAATTAAAAA-TATAT
1 TTAAAAATAAGACTCACTTTAAATATAATTAAAAATTA-AT
* * * *
16162362 ATTACAAATAGGATTCAC-TT-AATCATATTTAAAAATTAAT
1 -TTAAAAATAAGACTCACTTTAAAT-ATAATTAAAAATTAAT
16162402 TTAAAAATAAGA-TCAACTTTAAATATAATTAAAAA
1 TTAAAAATAAGACTC-ACTTTAAATATAATTAAAAA
16162437 ATATATATTT
Statistics
Matches: 89, Mismatches: 18, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
38 2 0.02
39 21 0.24
40 49 0.55
41 17 0.19
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.35
Consensus pattern (40 bp):
TTAAAAATAAGACTCACTTTAAATATAATTAAAAATTAAT
Found at i:16166841 original size:39 final size:39
Alignment explanation
Indices: 16166787--16166872 Score: 136
Period size: 39 Copynumber: 2.2 Consensus size: 39
16166777 TGTACTTGAG
*
16166787 AAAATTTTCTAAAATAATAAGCTGAGAATGTGGATCTAC
1 AAAATTTTCTAAAATAATAAGCTGAGAATGTGAATCTAC
* * *
16166826 AAAATTTTGTAAAATAATAAGTTGGGAATGTGAATCTAC
1 AAAATTTTCTAAAATAATAAGCTGAGAATGTGAATCTAC
16166865 AAAATTTT
1 AAAATTTT
16166873 TTATCCTTGG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.34
Consensus pattern (39 bp):
AAAATTTTCTAAAATAATAAGCTGAGAATGTGAATCTAC
Found at i:16166917 original size:57 final size:58
Alignment explanation
Indices: 16166826--16166970 Score: 195
Period size: 58 Copynumber: 2.5 Consensus size: 58
16166816 GTGGATCTAC
* * * *
16166826 AAAATTTTGTAAAATAATAAGTTGGGAATGTGAAT-CTAC-AAAATTTTTTATCCTTGG
1 AAAATTTTCTAAAATAATAAGCTGGGAATATGAATAC-ACGAAAATTTTTTATCCTTGA
* **
16166883 AAAATTTTCTAAAATAATAAGCTGGGAATATGAATACGCGAACTTTTTTTATCCTTGA
1 AAAATTTTCTAAAATAATAAGCTGGGAATATGAATACACGAAAATTTTTTATCCTTGA
16166941 AAAATTTTCTAAAATAATAAAGCTGGGAAT
1 AAAATTTTCTAAAATAAT-AAGCTGGGAAT
16166971 GTAAATCCTC
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
57 33 0.42
58 34 0.44
59 11 0.14
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (58 bp):
AAAATTTTCTAAAATAATAAGCTGGGAATATGAATACACGAAAATTTTTTATCCTTGA
Found at i:16166992 original size:58 final size:55
Alignment explanation
Indices: 16166826--16167005 Score: 189
Period size: 57 Copynumber: 3.1 Consensus size: 55
16166816 GTGGATCTAC
* * * *
16166826 AAAATTTTGTAAAATAATAAGTTGGGAATGTGAATCTACAAAATTTTTTATCCTTGG
1 AAAATTTTCTAAAATAATAAGCTGGGAATGTGAATCT-C-AACTTTTTTATCCTTGA
* *
16166883 AAAATTTTCTAAAATAATAAGCTGGGAATATGAATACGCGAACTTTTTTTATCCTTGA
1 AAAATTTTCTAAAATAATAAGCTGGGAATGTGAAT-CTC-AAC-TTTTTTATCCTTGA
* * *
16166941 AAAATTTTCTAAAATAATAAAGCTGGGAATGTAAATCCTCAAGCTACTTTATATCCTTGG
1 AAAATTTTCTAAAATAAT-AAGCTGGGAATGTGAAT-CTCAA-CT--TTTTTATCCTTGA
16167001 AAAAT
1 AAAAT
16167006 GTTTTATATT
Statistics
Matches: 104, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
57 35 0.34
58 35 0.34
59 18 0.17
60 16 0.15
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (55 bp):
AAAATTTTCTAAAATAATAAGCTGGGAATGTGAATCTCAACTTTTTTATCCTTGA
Found at i:16167309 original size:69 final size:69
Alignment explanation
Indices: 16167042--16167309 Score: 252
Period size: 69 Copynumber: 3.9 Consensus size: 69
16167032 ATGGTAAGGC
* * * * * * *
16167042 TGGGAGCTTTGCTCTCACTAATTGTTTTGGAGGTTACGGCTCTTCGCTTGCGACCCTAAATTTGA
1 TGGGAGCTTTGCTCTCACTAACTGTTTTGGAGGTTGCGGCTCTTCACCTGCGAACCTTAATATGA
16167107 CAGT
66 CAGT
** * * * * *
16167111 TGGGAGCTTTGCTCTTGCTAACTTTTTTAGG-GGCTGCGGCTTTTCACCTAC-AATTCTTAATAT
1 TGGGAGCTTTGCTCTCACTAACTGTTTT-GGAGGTTGCGGCTCTTCACCTGCGAA-CCTTAATAT
*
16167174 GATAGT
64 GACAGT
* * * * *
16167180 TGGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTTGCGGCTCTTCGCCTGCGAGCTTTAATATGA
1 TGGGAGCTTTGCTCTCACTAACTGTTTTGGAGGTTGCGGCTCTTCACCTGCGAACCTTAATATGA
16167245 CAGT
66 CAGT
* * * * * * * *
16167249 TGGGAGTTTTGCTCTTATTAACTATTTTTGAGGTTGCGGCTCTTTACTTGTGAACCTTAAT
1 TGGGAGCTTTGCTCTCACTAACTGTTTTGGAGGTTGCGGCTCTTCACCTGCGAACCTTAAT
16167310 TTGGCAAAAA
Statistics
Matches: 156, Mismatches: 39, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
68 3 0.02
69 150 0.96
70 3 0.02
ACGTcount: A:0.17, C:0.19, G:0.25, T:0.39
Consensus pattern (69 bp):
TGGGAGCTTTGCTCTCACTAACTGTTTTGGAGGTTGCGGCTCTTCACCTGCGAACCTTAATATGA
CAGT
Done.