Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 36 of 171
Found at i:16328051 original size:14 final size:14
Alignment explanation
Indices: 16328034--16328064 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
16328024 TTTTTTTAAT
*
16328034 TTTTTAATATTTTA
1 TTTTTAATAATTTA
16328048 TTTTTAATAATTTA
1 TTTTTAATAATTTA
16328062 TTT
1 TTT
16328065 AATCGAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTTAATAATTTA
Found at i:16328052 original size:15 final size:15
Alignment explanation
Indices: 16328027--16328064 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
16328017 AAATTGATTT
16328027 TTTTAATTTTTTAATA
1 TTTT-ATTTTTTAATA
16328043 TTTTA-TTTTTAATA
1 TTTTATTTTTTAATA
*
16328057 ATTTATTT
1 TTTTATTT
16328065 AATCGAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 13 0.65
15 3 0.15
16 4 0.20
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTATTTTTTAATA
Found at i:16341391 original size:22 final size:20
Alignment explanation
Indices: 16341366--16341412 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
16341356 TTTTTGTCAC
16341366 TTATTCATTAATTTTTTTAAAA
1 TTATT-ATTAA-TTTTTTAAAA
*
16341388 TTATTGTTAATTTTTTAAAA
1 TTATTATTAATTTTTTAAAA
16341408 -TATTA
1 TTATTA
16341413 AAATGATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 4 0.17
20 10 0.43
21 4 0.17
22 5 0.22
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (20 bp):
TTATTATTAATTTTTTAAAA
Found at i:16348345 original size:22 final size:23
Alignment explanation
Indices: 16348286--16348347 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
16348276 AGGGAGTCGA
*
16348286 AATTAAATTATAATTTTTACGAT
1 AATTAAATTATAATTTTTACAAT
* * *
16348309 AGTAAAAATATAATTTTTA-AAT
1 AATTAAATTATAATTTTTACAAT
*
16348331 AATTAAATTAAAATTTT
1 AATTAAATTATAATTTT
16348348 ATTATTTTTA
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
22 15 0.48
23 16 0.52
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (23 bp):
AATTAAATTATAATTTTTACAAT
Found at i:16357737 original size:40 final size:37
Alignment explanation
Indices: 16357644--16357737 Score: 84
Period size: 40 Copynumber: 2.5 Consensus size: 37
16357634 ATAGATTCGT
* *
16357644 TGAGGTACTGGATACCACTTTACTTCGGCTAGGCCGA
1 TGAGGTACTGGATGCCACTTTACTTCGACTAGGCCGA
** *
16357681 TGAGACACTAGG-TGCCACTTTATTGCTTCGAACTA-TCCGA
1 TGAGGTACT-GGATGCCACTTTA---CTTCG-ACTAGGCCGA
16357721 TGAGGTACTGGATGCCA
1 TGAGGTACTGGATGCCA
16357738 TTCTGGAGTG
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
37 16 0.36
38 2 0.05
39 2 0.05
40 21 0.48
41 3 0.07
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (37 bp):
TGAGGTACTGGATGCCACTTTACTTCGACTAGGCCGA
Found at i:16361590 original size:52 final size:52
Alignment explanation
Indices: 16361527--16361716 Score: 263
Period size: 52 Copynumber: 3.7 Consensus size: 52
16361517 ATTCCATTTA
* * * * * *
16361527 ATACTCACGATGACACATATTCATCGGACCTCTTAATTCGTGAAGGAATCAT
1 ATACTCACGATGACACATAGTCATCGGACCTTTTAATACATAAAGGATTCAT
* * * *
16361579 ATACTTACGATGACACATAGTCGTCGGACCTTTTAATCCATAAAGGATTTAT
1 ATACTCACGATGACACATAGTCATCGGACCTTTTAATACATAAAGGATTCAT
* *
16361631 ATACTCACAATGACACATAGTTATCGGACCTTTTAATACATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTTTTAATACATAAAGGATTCAT
*
16361683 ATACTCACGATGACACATAGTCATCAGACCTTTT
1 ATACTCACGATGACACATAGTCATCGGACCTTTT
16361717 TTTATTTACG
Statistics
Matches: 120, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 120 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.31
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTTTTAATACATAAAGGATTCAT
Found at i:16372699 original size:25 final size:25
Alignment explanation
Indices: 16372671--16372722 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
16372661 AATAAAGAAC
*
16372671 CCTCAAAATGTAAACACTAAATTCT
1 CCTCAAAACGTAAACACTAAATTCT
16372696 CCTCAAAACGTAAACACTAAATTCT
1 CCTCAAAACGTAAACACTAAATTCT
16372721 CC
1 CC
16372723 AAAAGTGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.42, C:0.29, G:0.04, T:0.25
Consensus pattern (25 bp):
CCTCAAAACGTAAACACTAAATTCT
Found at i:16372900 original size:24 final size:24
Alignment explanation
Indices: 16372847--16372909 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
16372837 TAGACTAATA
* *
16372847 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
* * *
16372871 ATAGTTTAATTGAAACAAATAAAT
1 AGAGTTTAACTGAAACAAATAAAC
16372895 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
16372910 GATTATTTCT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.51, C:0.10, G:0.13, T:0.27
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:16374894 original size:24 final size:24
Alignment explanation
Indices: 16374833--16374895 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
16374823 TAGACTAATA
* *
16374833 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
* *
16374857 AGAGTTTAATTGAAACAATTAAAC
1 AGAGTTTAACTGAAACAAATAAAC
16374881 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
16374896 GATTATTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.25
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:16385036 original size:35 final size:35
Alignment explanation
Indices: 16384991--16385062 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
16384981 AATTCCCACC
* *
16384991 TTTTTTCTTTCAACTTTGTCTTCGGTACATAAAAT
1 TTTTTTCTTTCAAATTTGTCTTCGGCACATAAAAT
16385026 TTTTTTCTTTCAAATTTGTCTTCGGCACATAAAAT
1 TTTTTTCTTTCAAATTTGTCTTCGGCACATAAAAT
16385061 TT
1 TT
16385063 GACTTTTACA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.24, C:0.17, G:0.08, T:0.51
Consensus pattern (35 bp):
TTTTTTCTTTCAAATTTGTCTTCGGCACATAAAAT
Found at i:16386982 original size:16 final size:17
Alignment explanation
Indices: 16386963--16387016 Score: 67
Period size: 16 Copynumber: 3.2 Consensus size: 17
16386953 TACCCATCAT
*
16386963 TTATAACAA-TATTTTG
1 TTATAACAACTAATTTG
*
16386979 TTATAACAATTAAATTTG
1 TTATAACAACT-AATTTG
16386997 TTATAA-AACTAATTTG
1 TTATAACAACTAATTTG
16387013 TTAT
1 TTAT
16387017 GTTTTATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 19 0.56
17 4 0.12
18 11 0.32
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.48
Consensus pattern (17 bp):
TTATAACAACTAATTTG
Found at i:16387263 original size:20 final size:21
Alignment explanation
Indices: 16387227--16387265 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
16387217 TCAAAATATT
*
16387227 AATAATATTTTATTAAATAAA
1 AATAATATTTTAATAAATAAA
16387248 AATAATA-TTTAATAAATA
1 AATAATATTTTAATAAATA
16387266 GAATTACATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AATAATATTTTAATAAATAAA
Found at i:16387325 original size:3 final size:3
Alignment explanation
Indices: 16387317--16387356 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
16387307 TCACTAATTA
16387317 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
16387357 TATGTTTCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:16391061 original size:21 final size:18
Alignment explanation
Indices: 16391020--16391064 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 18
16391010 TTTAAATTTA
16391020 TTTTTTTAAACTTATATT
1 TTTTTTTAAACTTATATT
*
16391038 TTTTATTTAAACTCTTTCATT
1 TTTT-TTTAAACT-TAT-ATT
16391059 TTTTTT
1 TTTTTT
16391065 AAATGAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 4 0.17
19 8 0.35
20 4 0.17
21 7 0.30
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTTTAAACTTATATT
Found at i:16395575 original size:174 final size:174
Alignment explanation
Indices: 16395285--16395603 Score: 550
Period size: 174 Copynumber: 1.8 Consensus size: 174
16395275 TTTGAGGTGA
*
16395285 ATGTTTATTTTCCATAGATGATTCTTGCTTCTTCCCTTTCTCAGATTCAGCTTTGTACACATCCG
1 ATGTTTATTTGCCATAGATGATTCTTGCTTCTTCCCTTTCTCAGATTCAGCTTTGTACACATCCG
*
16395350 TTTCCTGCTGAACCGGATTCTTATGTTCATTTGCCGTAGATGATTCTTGCTTCTTACCTTTTTCA
66 TTTCCTGCTGAACCGGATTCTTATGTTCATTTGCCGTAGATGATTCTTGCTTCTTACCTTTCTCA
16395415 GA-TTCCGTTTTGTCCGCATTCGTTTCCTGCTGAACCGGATTCTT
131 -ACTTCCGTTTTGTCCGCATTCGTTTCCTGCTGAACCGGATTCTT
* *
16395459 ATGTTTATTTGCCATAGATGATTCTTGCTTCTTCCCTTTCTCAGATTCAGCTTTGTCCACATCTG
1 ATGTTTATTTGCCATAGATGATTCTTGCTTCTTCCCTTTCTCAGATTCAGCTTTGTACACATCCG
* * *
16395524 TTTCCTGCTGAACCGTATTCTTATGTTTATTTGCCGTAGATGATTCTTGCTTCTTCCCTTTCTCA
66 TTTCCTGCTGAACCGGATTCTTATGTTCATTTGCCGTAGATGATTCTTGCTTCTTACCTTTCTCA
*
16395589 ACTTCTGTTTTGTCC
131 ACTTCCGTTTTGTCC
16395604 ACTTTCATTT
Statistics
Matches: 136, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
173 1 0.01
174 135 0.99
ACGTcount: A:0.15, C:0.25, G:0.15, T:0.45
Consensus pattern (174 bp):
ATGTTTATTTGCCATAGATGATTCTTGCTTCTTCCCTTTCTCAGATTCAGCTTTGTACACATCCG
TTTCCTGCTGAACCGGATTCTTATGTTCATTTGCCGTAGATGATTCTTGCTTCTTACCTTTCTCA
ACTTCCGTTTTGTCCGCATTCGTTTCCTGCTGAACCGGATTCTT
Found at i:16395632 original size:87 final size:87
Alignment explanation
Indices: 16395285--16395616 Score: 488
Period size: 87 Copynumber: 3.8 Consensus size: 87
16395275 TTTGAGGTGA
* * *
16395285 ATGTTTATTTTCCATAGATGATTCTTGCTTCTTCCCTTTCTCAGATTCAGCTTTGTACACATCCG
1 ATGTTTATTTGCCATAGATGATTCTTGCTTCTTCCCTTTCTCAGATTCAGCTTTGTCCACATTCG
16395350 TTTCCTGCTGAACCGGATTCTT
66 TTTCCTGCTGAACCGGATTCTT
* * * * * * *
16395372 ATGTTCATTTGCCGTAGATGATTCTTGCTTCTTACCTTTTTCAGATTCCGTTTTGTCCGCATTCG
1 ATGTTTATTTGCCATAGATGATTCTTGCTTCTTCCCTTTCTCAGATTCAGCTTTGTCCACATTCG
16395437 TTTCCTGCTGAACCGGATTCTT
66 TTTCCTGCTGAACCGGATTCTT
16395459 ATGTTTATTTGCCATAGATGATTCTTGCTTCTTCCCTTTCTCAGATTCAGCTTTGTCCACA-TCT
1 ATGTTTATTTGCCATAGATGATTCTTGCTTCTTCCCTTTCTCAGATTCAGCTTTGTCCACATTC-
*
16395523 GTTTCCTGCTGAACCGTATTCTT
65 GTTTCCTGCTGAACCGGATTCTT
* * * *
16395546 ATGTTTATTTGCCGTAGATGATTCTTGCTTCTTCCCTTTCTCA-ACTTCTGTTTTGTCCACTTTC
1 ATGTTTATTTGCCATAGATGATTCTTGCTTCTTCCCTTTCTCAGA-TTCAGCTTTGTCCACATTC
*
16395610 ATTTCCT
65 GTTTCCT
16395617 TCTGCAGCAG
Statistics
Matches: 219, Mismatches: 23, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
86 3 0.01
87 214 0.98
88 2 0.01
ACGTcount: A:0.15, C:0.25, G:0.14, T:0.46
Consensus pattern (87 bp):
ATGTTTATTTGCCATAGATGATTCTTGCTTCTTCCCTTTCTCAGATTCAGCTTTGTCCACATTCG
TTTCCTGCTGAACCGGATTCTT
Found at i:16404447 original size:138 final size:140
Alignment explanation
Indices: 16404237--16404518 Score: 381
Period size: 138 Copynumber: 2.0 Consensus size: 140
16404227 CACCAGAGTC
* *
16404237 TCATTTTCATTCATCTTTTTGATTGAAATATATTCTAGCCACTAATAGTCATTGACAGAAGAGGA
1 TCATTTTAATTCATCTTTTTGATTGAAATATATTCTAGCCACTAATAGTCATTCACAGAAGAGGA
* * * * * * *
16404302 CTGAAACTCAAGAATCAAATGCTTCTGATTGAAAGAGAACTAG-TCACAT-AAAGACAATCATAG
66 ATAAAACTCAACAACCAAATGCTTCTGATTGAAAGAGAACTAGACCACATAAAAGACAACCATAC
16404365 CAAATTAGTA
131 CAAATTAGTA
* *
16404375 TCATTTTAATTCATCTTTTTGGTTGAGATATATTCTAGCCACTAATAG-CATTCACAGAAGAGGA
1 TCATTTTAATTCATCTTTTTGATTGAAATATATTCTAGCCACTAATAGTCATTCACAGAAGAGG-
* * * * * *
16404439 AATAAAACTCAACAACCAGATTCTTCTGATTGAGAGAGAACTAGACCATATAAAAGATAACCGTA
65 AATAAAACTCAACAACCAAATGCTTCTGATTGAAAGAGAACTAGACCACATAAAAGACAACCATA
16404504 CCAAATTAGTA
130 CCAAATTAGTA
16404515 TCAT
1 TCAT
16404519 CCCTGGGATC
Statistics
Matches: 124, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
137 14 0.11
138 82 0.66
139 4 0.03
140 24 0.19
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (140 bp):
TCATTTTAATTCATCTTTTTGATTGAAATATATTCTAGCCACTAATAGTCATTCACAGAAGAGGA
ATAAAACTCAACAACCAAATGCTTCTGATTGAAAGAGAACTAGACCACATAAAAGACAACCATAC
CAAATTAGTA
Found at i:16408768 original size:15 final size:15
Alignment explanation
Indices: 16408748--16408778 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
16408738 GGAACATTTT
16408748 GCTTATAATGTTGCA
1 GCTTATAATGTTGCA
16408763 GCTTATAATGTTGCA
1 GCTTATAATGTTGCA
16408778 G
1 G
16408779 TTGATACTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (15 bp):
GCTTATAATGTTGCA
Found at i:16409762 original size:2 final size:2
Alignment explanation
Indices: 16409755--16409784 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
16409745 TTATTTTCTT
16409755 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16409785 TACATATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16409791 original size:14 final size:14
Alignment explanation
Indices: 16409758--16409800 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
16409748 TTTTCTTTAT
*
16409758 ATATATATATATATAT
1 ATATATA-ATAT-TAC
16409774 ATATATAATATTAC
1 ATATATAATATTAC
*
16409788 ATATAAAATATTA
1 ATATATAATATTA
16409801 TTATGTTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 14 0.56
15 4 0.16
16 7 0.28
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (14 bp):
ATATATAATATTAC
Found at i:16410145 original size:29 final size:28
Alignment explanation
Indices: 16410105--16410173 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
16410095 TGTGGCAATT
* *
16410105 AAAATAAAAATTTTAA-ATTTAAATTTTA
1 AAAATAAAAATTATAATA-TTAAATATTA
16410133 AAAATAGAAAATTATAATATTAAATATTA
1 AAAATA-AAAATTATAATATTAAATATTA
16410162 AAATATTAAAAA
1 AAA-A-TAAAAA
16410174 ATGCCTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 6 0.17
29 21 0.60
30 6 0.17
31 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (28 bp):
AAAATAAAAATTATAATATTAAATATTA
Found at i:16410166 original size:15 final size:15
Alignment explanation
Indices: 16410102--16410171 Score: 51
Period size: 15 Copynumber: 4.9 Consensus size: 15
16410092 TCATGTGGCA
*
16410102 ATTAAAATA-AAAAT
1 ATTAAAATATTAAAT
*
16410116 -TTTAAAT-TTAAAT
1 ATTAAAATATTAAAT
* *
16410129 TTTAAAA-A-TAGAAA
1 ATTAAAATATTA-AAT
*
16410143 ATTATAATATTAAAT
1 ATTAAAATATTAAAT
16410158 ATTAAAATATTAAA
1 ATTAAAATATTAAA
16410172 AAATGCCTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 11
0.69 0.13 0.18
Matches are distributed among these distances:
13 12 0.29
14 12 0.29
15 16 0.38
16 2 0.05
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (15 bp):
ATTAAAATATTAAAT
Found at i:16411440 original size:7 final size:7
Alignment explanation
Indices: 16411424--16411476 Score: 56
Period size: 7 Copynumber: 7.7 Consensus size: 7
16411414 AGTGGCACCT
*
16411424 TTTAGAA
1 TTTAGGA
16411431 TTTAGGA
1 TTTAGGA
16411438 TTTAGGA
1 TTTAGGA
16411445 -TTA-GA
1 TTTAGGA
*
16411450 GTTTAGGG
1 -TTTAGGA
16411458 TTTAGGA
1 TTTAGGA
*
16411465 TTTAAGA
1 TTTAGGA
16411472 TTTAG
1 TTTAG
16411477 AGTTTATACA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
5 2 0.05
6 3 0.08
7 32 0.84
8 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.43
Consensus pattern (7 bp):
TTTAGGA
Found at i:16411448 original size:20 final size:20
Alignment explanation
Indices: 16411425--16411466 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
16411415 GTGGCACCTT
16411425 TTAGAATTTAGGATTTAGGA
1 TTAGAATTTAGGATTTAGGA
* *
16411445 TTAGAGTTTAGGGTTTAGGA
1 TTAGAATTTAGGATTTAGGA
16411465 TT
1 TT
16411467 TAAGATTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (20 bp):
TTAGAATTTAGGATTTAGGA
Found at i:16427452 original size:15 final size:14
Alignment explanation
Indices: 16427408--16427449 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
16427398 GAATTTAATT
16427408 TTTTATATTTTT-A
1 TTTTATATTTTTAA
* *
16427421 TTTAATAAATTTTAA
1 TTTTAT-ATTTTTAA
16427436 TTTTATATTTTTAA
1 TTTTATATTTTTAA
16427450 ATTGATTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 5 0.22
14 12 0.52
15 6 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTATATTTTTAA
Found at i:16427982 original size:13 final size:12
Alignment explanation
Indices: 16427967--16428013 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
16427957 TTAGTATTGT
16427967 TTTTGAAAAATG
1 TTTTGAAAAATG
*
16427979 TTTTAAAAAATG
1 TTTTGAAAAATG
* *
16427991 CTGTGAAAAATG
1 TTTTGAAAAATG
16428003 ATTTTGAAAAA
1 -TTTTGAAAAA
16428014 ATTTGATTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
12 20 0.71
13 8 0.29
ACGTcount: A:0.47, C:0.02, G:0.15, T:0.36
Consensus pattern (12 bp):
TTTTGAAAAATG
Found at i:16428763 original size:15 final size:15
Alignment explanation
Indices: 16428743--16428775 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
16428733 TAATTTGAAA
16428743 TTTTTTGAACGTTTG
1 TTTTTTGAACGTTTG
16428758 TTTTTTGAACGTTTG
1 TTTTTTGAACGTTTG
16428773 TTT
1 TTT
16428776 CGGTGGTTGT
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:0.12, C:0.06, G:0.18, T:0.64
Consensus pattern (15 bp):
TTTTTTGAACGTTTG
Found at i:16437825 original size:47 final size:47
Alignment explanation
Indices: 16437751--16437846 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
16437741 TAATTTAATC
* *
16437751 GATCAATTTTATTTTACAAACATCCATTTAAAAATAAATTATGAATA
1 GATCAATTTTATTTTAAAAACACCCATTTAAAAATAAATTATGAATA
16437798 GATCAATTTTATTTTAAAAACACCCATTTAAAAATAAATTATGAATA
1 GATCAATTTTATTTTAAAAACACCCATTTAAAAATAAATTATGAATA
16437845 GA
1 GA
16437847 AAAAAATTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.36
Consensus pattern (47 bp):
GATCAATTTTATTTTAAAAACACCCATTTAAAAATAAATTATGAATA
Found at i:16440084 original size:21 final size:20
Alignment explanation
Indices: 16440046--16440084 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
16440036 CTACAAAAAT
* *
16440046 AGTTACTTTTATTTACTTCA
1 AGTTACTTTTAGTCACTTCA
16440066 AGTTACATTTTAGTCACTT
1 AGTTAC-TTTTAGTCACTT
16440085 ATGTTTGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.26, C:0.15, G:0.08, T:0.51
Consensus pattern (20 bp):
AGTTACTTTTAGTCACTTCA
Found at i:16446850 original size:23 final size:23
Alignment explanation
Indices: 16446797--16446855 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
16446787 AAGGGGTCTC
16446797 AATTTGTTATTTTATTACTAGTAT
1 AATTT-TTATTTTATTACTAGTAT
* *
16446821 ATATTTTTATTTTATT-GTATTAT
1 A-ATTTTTATTTTATTACTAGTAT
*
16446844 ATTTTTTATTTT
1 AATTTTTATTTT
16446856 TAGAAAAAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 10 0.32
23 6 0.19
24 11 0.35
25 4 0.13
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (23 bp):
AATTTTTATTTTATTACTAGTAT
Found at i:16447954 original size:6 final size:6
Alignment explanation
Indices: 16447945--16447985 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
16447935 GAAAAGAGGA
*
16447945 AGAAGC AGAAGC AGAAGC AGAAGC AGAAGC AGAAGA AGAAG
1 AGAAGC AGAAGC AGAAGC AGAAGC AGAAGC AGAAGC AGAAG
16447986 AATATTGTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.54, C:0.12, G:0.34, T:0.00
Consensus pattern (6 bp):
AGAAGC
Found at i:16451536 original size:71 final size:70
Alignment explanation
Indices: 16451461--16451791 Score: 258
Period size: 71 Copynumber: 4.6 Consensus size: 70
16451451 TAAAACAATG
* * * *
16451461 GTTTTATTTAATACCAAAATTCAATAAATCAAACTAAACTAACATTCTGAAAACATATTATTGAA
1 GTTTTACTTAATATCAAAATTCAATAAATCAAACTAAATTAAC-TTCTGAAAACATATAATTGAA
16451526 TAAACA
65 TAAACA
* * ** * * * * * *
16451532 GTTTTA-TTAAATATCGAAACTCAATAAATTGAATTAAAATAGTCTTTTTAAAACCACATAATTG
1 GTTTTACTT-AATATCAAAATTCAATAAATCAAACTAAATTA-ACTTCTGAAAA-CATATAATTG
* *
16451596 AATAGACG
63 AATAAACA
** *
16451604 GTTTTACTTAATATC-AAATTCTAATAAATCAAACTAAATTAATCTTCTGAAAATGTATAA-CGA
1 GTTTTACTTAATATCAAAATTC-AATAAATCAAACTAAATTAA-CTTCTGAAAACATATAATTG-
*
16451667 AATAAACG
63 AATAAACA
* * * *
16451675 GTTTTACTTAATATCAAAAATCAATAAA-CTAAACTAAATTAACTTTTTTTTAAAAACGTATAAT
1 GTTTTACTTAATATCAAAATTCAATAAATC-AAACTAAATTAAC----TTCTGAAAACATATAAT
*
16451739 TGAACAAACA
61 TGAATAAACA
* * *
16451749 ATTTTACTTATTATCAAAAGTT-AACAAATCAAACTAAATTAAC
1 GTTTTACTTAATATCAAAA-TTCAATAAATCAAACTAAATTAAC
16451792 ATAATAAACT
Statistics
Matches: 206, Mismatches: 38, Indels: 29
0.75 0.14 0.11
Matches are distributed among these distances:
70 5 0.02
71 87 0.42
72 55 0.27
73 2 0.01
74 54 0.26
75 3 0.01
ACGTcount: A:0.47, C:0.13, G:0.06, T:0.34
Consensus pattern (70 bp):
GTTTTACTTAATATCAAAATTCAATAAATCAAACTAAATTAACTTCTGAAAACATATAATTGAAT
AAACA
Found at i:16451723 original size:143 final size:145
Alignment explanation
Indices: 16451460--16451793 Score: 349
Period size: 143 Copynumber: 2.3 Consensus size: 145
16451450 CTAAAACAAT
* * * **
16451460 GGTTTTATTTAATACCAAAATTC-AATAAATCAAACTAAACTAACATTCTGAAAACATATTATTG
1 GGTTTTACTTAATATCAAAATTCTAATAAATCAAACTAAATTAACATTCTGAAAACATATTAACG
* * * * * * *
16451524 AATAAACAGTTTTATTAAATATCGAAACTCAATAAATTGAATTAAAATA-GTCTTTTTAAAACCA
66 AATAAACAGTTTTATTAAATATCAAAAATCAATAAACTAAACTAAAATACTTCTTTTTAAAAACA
* *
16451588 CATAATTGAATAGAC
131 CATAATTGAACAAAC
**
16451603 GGTTTTACTTAATATC-AAATTCTAATAAATCAAACTAAATTAATC-TTCTGAAAATGTA-TAAC
1 GGTTTTACTTAATATCAAAATTCTAATAAATCAAACTAAATTAA-CATTCTGAAAACATATTAAC
* * *
16451665 GAAATAAACGGTTTTACTT-AATATCAAAAATCAATAAACTAAACTAAATTAACTTTTTTTTAAA
65 G-AATAAACAGTTTTA-TTAAATATCAAAAATCAATAAACTAAACTAAAAT-ACTTCTTTTTAAA
**
16451729 AACGTATAATTGAACAAAC
127 AACACATAATTGAACAAAC
** * * *
16451748 AATTTTACTTATTATCAAAAGT-TAACAAATCAAACTAAATTAACAT
1 GGTTTTACTTAATATCAAAATTCTAATAAATCAAACTAAATTAACAT
16451794 AATAAACTGT
Statistics
Matches: 157, Mismatches: 26, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
142 9 0.06
143 82 0.52
144 5 0.03
145 57 0.36
146 4 0.03
ACGTcount: A:0.47, C:0.13, G:0.06, T:0.34
Consensus pattern (145 bp):
GGTTTTACTTAATATCAAAATTCTAATAAATCAAACTAAATTAACATTCTGAAAACATATTAACG
AATAAACAGTTTTATTAAATATCAAAAATCAATAAACTAAACTAAAATACTTCTTTTTAAAAACA
CATAATTGAACAAAC
Found at i:16452160 original size:71 final size:71
Alignment explanation
Indices: 16451968--16452768 Score: 599
Period size: 71 Copynumber: 11.2 Consensus size: 71
16451958 ATCAAATTTC
* * * * * **
16451968 TATAACAGAATAAA-AGTTTTACTTAATACCAAAACTTAATAAATCAAATTAAATTAAGTTTTTT
1 TATAACTGAATAAACGGTTCTACTTAATATCAAAACTTAATAAATCAAACTAAATTAA-CCTTTT
**
16452032 AAAAACA
65 AAAAATG
* * * * * * * * *
16452039 CACAATTGAACAAA-TGATCTTACTTAATATCAAAA-TTCAACAAATCAAACTAAATTTACCTTC
1 TATAACTGAATAAACGGTTC-TACTTAATATCAAAACTT-AATAAATCAAACTAAATTAACCTTT
*
16452102 TGAAAATG
64 TAAAAATG
* *
16452110 TATAACTGAATAAACGGTTCTACTTACTATCAAAACTTAATAAATTAAACTAAATTAACCTTTTT
1 TATAACTGAATAAACGGTTCTACTTAATATCAAAACTTAATAAATCAAACTAAATTAACC-TTTT
16452175 AAAAAT-
65 AAAAATG
* * * * **
16452181 CATAATTGAACAAACGATTCTACTTAATATCAAAACTTAATAAATTGAACTAAATTAACCTTTTT
1 TATAACTGAATAAACGGTTCTACTTAATATCAAAACTTAATAAATCAAACTAAATTAACC-TTTT
16452246 AAAAATG
65 AAAAATG
* * * * *
16452253 CATAATTGAACAAACGAGTT-TACTTAATATC-AAATTTCAAT-AATCAAACTAAATTAATCTTT
1 TATAACTGAATAAACG-GTTCTACTTAATATCAAAACTT-AATAAATCAAACTAAATTAACCTTT
*
16452315 TGAAAATG
64 TAAAAATG
* * * * *
16452323 TATAACTGAATAAATGGTTGTACTTAATATCAAAACTCAATAAATCGAACTAAATTAACCTTCTA
1 TATAACTGAATAAACGGTTCTACTTAATATCAAAACTTAATAAATCAAACTAAATTAACCTTTTA
16452388 AAAATG
66 AAAATG
* ** *
16452394 TATAA-TAGAATAAACGGATT-TACTTAATATCAAAACTCAATAAATTGAACAAAATTAACCTTT
1 TATAACT-GAATAAACGG-TTCTACTTAATATCAAAACTTAATAAATCAAACTAAATTAACC-TT
* *
16452457 TTAAGAACG
63 TTAAAAATG
* * * * * * * *
16452466 CATAATTGAACAAACGATTTTACTTAATATC-AAATTTCAATAACTCAAACTAAATTAATCC-TC
1 TATAACTGAATAAACGGTTCTACTTAATATCAAAACTT-AATAAATCAAACTAAATTAA-CCTTT
*
16452529 TGAAAATG
64 TAAAAATG
* * * ** *
16452537 TATAACTGAATAAACGATTCTACTTAATATCAAAAGTTAATAGATTGAACTAAATT-A-TTTTTA
1 TATAACTGAATAAACGGTTCTACTTAATATCAAAACTTAATAAATCAAACTAAATTAACCTTTT-
**
16452600 AAAAAAACA
65 --AAAAATG
* * * ** * * *
16452609 CATGATTGAATAAAC-AATCTTACTTAATATCAAAA-TTCGAAAAAATCAAATTAAATT-AGCTT
1 TATAACTGAATAAACGGTTC-TACTTAATATCAAAACTT--AATAAATCAAACTAAATTAACCTT
*
16452671 TCTGAAAATG
63 T-TAAAAATG
* * * **
16452681 TGTAACTGAATAAATGGTTCTACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTT
1 TATAACTGAATAAACGGTTCTACTTAATATCAAAACTTAATAAATCAAACTAAATTAACC--TTT
*
16452746 TAAAAACG
64 TAAAAATG
* *
16452754 TATAATTGAACAAAC
1 TATAACTGAATAAAC
16452769 TAATTTGACC
Statistics
Matches: 580, Mismatches: 117, Indels: 64
0.76 0.15 0.08
Matches are distributed among these distances:
69 5 0.01
70 38 0.07
71 301 0.52
72 190 0.33
73 39 0.07
74 6 0.01
75 1 0.00
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (71 bp):
TATAACTGAATAAACGGTTCTACTTAATATCAAAACTTAATAAATCAAACTAAATTAACCTTTTA
AAAATG
Found at i:16452268 original size:143 final size:142
Alignment explanation
Indices: 16451968--16452768 Score: 809
Period size: 143 Copynumber: 5.6 Consensus size: 142
16451958 ATCAAATTTC
* * * * * * **
16451968 TATAACAGAATAAA-AGTTTTACTTAATACCAAAACTTAATAAATCAAATTAAATTAAGTTTTTT
1 TATAACTGAATAAACGGTTCTACTTAATATCAAAACTTAATAAATTAAACTAAATTAACCTTTTT
* * * *
16452032 AAAAACACACAATTGAACAAATGA-TCTTACTTAATATCAAAATTCAACAAATCAAACTAAATTT
66 AAAAA-ACATAATTGAACAAACGATTC-TACTTAATATCAAAATTCAATAAATCAAACTAAATTA
16452096 ACCTTCTGAAAATG
129 ACCTTCTGAAAATG
*
16452110 TATAACTGAATAAACGGTTCTACTTACTATCAAAACTTAATAAATTAAACTAAATTAACCTTTTT
1 TATAACTGAATAAACGGTTCTACTTAATATCAAAACTTAATAAATTAAACTAAATTAACCTTTTT
* **
16452175 AAAAATCATAATTGAACAAACGATTCTACTTAATATCAAAACTT-AATAAATTGAACTAAATTAA
66 AAAAAACATAATTGAACAAACGATTCTACTTAATATCAAAA-TTCAATAAATCAAACTAAATTAA
* *
16452239 CCTTTTTAAAAATG
130 CC-TTCTGAAAATG
* * * * * *
16452253 CATAATTGAACAAACGAGTT-TACTTAATATC-AAATTTCAAT-AATCAAACTAAATTAATCTTT
1 TATAACTGAATAAACG-GTTCTACTTAATATCAAAACTT-AATAAATTAAACTAAATTAACCTTT
* *** * * * * * * *
16452315 TGAAAATGTATAACTGAATAAATGGTTGTACTTAATATCAAAACTCAATAAATCGAACTAAATTA
64 TTAAAAAACATAATTGAACAAACGATTCTACTTAATATCAAAATTCAATAAATCAAACTAAATTA
*
16452380 ACCTTCTAAAAATG
129 ACCTTCTGAAAATG
* * *
16452394 TATAA-TAGAATAAACGGATT-TACTTAATATCAAAACTCAATAAATTGAACAAAATTAACCTTT
1 TATAACT-GAATAAACGG-TTCTACTTAATATCAAAACTTAATAAATTAAACTAAATTAACCTTT
** * * *
16452457 TTAAGAACGCATAATTGAACAAACGATTTTACTTAATATCAAATTTCAATAACTCAAACTAAATT
64 TTAA-AAAACATAATTGAACAAACGATTCTACTTAATATCAAAATTCAATAAATCAAACTAAATT
16452522 AATCC-TCTGAAAATG
128 AA-CCTTCTGAAAATG
* * * *
16452537 TATAACTGAATAAACGATTCTACTTAATATCAAAAGTTAATAGATTGAACTAAATT-A--TTTTT
1 TATAACTGAATAAACGGTTCTACTTAATATCAAAACTTAATAAATTAAACTAAATTAACCTTTTT
* * * * *
16452599 AAAAAAAACACATGATTGAATAAAC-AATCTTACTTAATATCAAAATTCGAAAAAATCAAATTAA
66 ---AAAAA-ACATAATTGAACAAACGATTC-TACTTAATATCAAAATTC-AATAAATCAAACTAA
* *
16452663 ATTAGCTTTCTGAAAATG
125 ATTAACCTTCTGAAAATG
* * * *
16452681 TGTAACTGAATAAATGGTTCTACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTT
1 TATAACTGAATAAACGGTTCTACTTAATATCAAAACTTAATAAATTAAACTAAATTAACCTTTTT
*
16452746 TAAAAACGTATAATTGAACAAAC
66 AAAAAAC--ATAATTGAACAAAC
16452769 TAATTTGACC
Statistics
Matches: 548, Mismatches: 84, Indels: 51
0.80 0.12 0.07
Matches are distributed among these distances:
140 7 0.01
141 39 0.07
142 171 0.31
143 227 0.41
144 86 0.16
145 13 0.02
147 5 0.01
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (142 bp):
TATAACTGAATAAACGGTTCTACTTAATATCAAAACTTAATAAATTAAACTAAATTAACCTTTTT
AAAAAACATAATTGAACAAACGATTCTACTTAATATCAAAATTCAATAAATCAAACTAAATTAAC
CTTCTGAAAATG
Found at i:16452384 original size:213 final size:212
Alignment explanation
Indices: 16451985--16452593 Score: 853
Period size: 213 Copynumber: 2.8 Consensus size: 212
16451975 GAATAAAAGT
* ** * ** * *
16451985 TTTACTTAATACCAAAACTTAATAAATCAAATTAAATTAAGTTTTTTAAAAACACACAATTGAAC
1 TTTACTTAATATCAAAACTTAATAAATTGAACTAAATTAACCTTTTTAAAAACGCATAATTGAAC
* * * * *
16452050 AAATGATCTTACTTAATATCAAAATTCAACAAATCAAACTAAATTTACCTTCTGAAAATGTATAA
66 AAACGAT-TTACTTAATATCAAATTTCAA-TAATCAAACTAAATTAATCTTCTGAAAATGTATAA
* * *
16452115 CTGAATAAACGGTTCTACTTACTATCAAAACTTAATAAATTAAACTAAATTAACCTTTTTAAAAA
129 CTGAATAAACGGTTCTACTTAATATCAAAACTTAATAAATTGAACTAAATTAACC-TTCTAAAAA
*
16452180 T-CATAATTGAACAAAC-GA
193 TGCATAATAGAACAAACGGA
*
16452198 TTCTACTTAATATCAAAACTTAATAAATTGAACTAAATTAACCTTTTTAAAAATGCATAATTGAA
1 TT-TACTTAATATCAAAACTTAATAAATTGAACTAAATTAACCTTTTTAAAAACGCATAATTGAA
*
16452263 CAAACGAGTTTACTTAATATCAAATTTCAATAATCAAACTAAATTAATCTTTTGAAAATGTATAA
65 CAAACGA-TTTACTTAATATCAAATTTCAATAATCAAACTAAATTAATCTTCTGAAAATGTATAA
* * * *
16452328 CTGAATAAATGGTTGTACTTAATATCAAAACTCAATAAATCGAACTAAATTAACCTTCTAAAAAT
129 CTGAATAAACGGTTCTACTTAATATCAAAACTTAATAAATTGAACTAAATTAACCTTCTAAAAAT
* *
16452393 GTATAATAGAATAAACGGA
194 GCATAATAGAACAAACGGA
* * *
16452412 TTTACTTAATATCAAAACTCAATAAATTGAACAAAATTAACCTTTTTAAGAACGCATAATTGAAC
1 TTTACTTAATATCAAAACTTAATAAATTGAACTAAATTAACCTTTTTAAAAACGCATAATTGAAC
*
16452477 AAACGATTTTACTTAATATCAAATTTCAATAACTCAAACTAAATTAATCCTCTGAAAATGTATAA
66 AAACGA-TTTACTTAATATCAAATTTCAATAA-TCAAACTAAATTAATCTTCTGAAAATGTATAA
* * *
16452542 CTGAATAAACGATTCTACTTAATATCAAAAGTTAATAGATTGAACTAAATTA
129 CTGAATAAACGGTTCTACTTAATATCAAAACTTAATAAATTGAACTAAATTA
16452594 TTTTTAAAAA
Statistics
Matches: 352, Mismatches: 39, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
212 9 0.03
213 184 0.52
214 158 0.45
215 1 0.00
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (212 bp):
TTTACTTAATATCAAAACTTAATAAATTGAACTAAATTAACCTTTTTAAAAACGCATAATTGAAC
AAACGATTTACTTAATATCAAATTTCAATAATCAAACTAAATTAATCTTCTGAAAATGTATAACT
GAATAAACGGTTCTACTTAATATCAAAACTTAATAAATTGAACTAAATTAACCTTCTAAAAATGC
ATAATAGAACAAACGGA
Found at i:16452868 original size:109 final size:109
Alignment explanation
Indices: 16452668--16452869 Score: 300
Period size: 109 Copynumber: 1.8 Consensus size: 109
16452658 ATTAAATTAG
* * * * *
16452668 CTTTCTGAAAATGTGTAACTGAATAAATGGTTCTACTTAATATCAAAACTCAATAAATTGAACTA
1 CTTTCTGAAAATGTATAACTAAATAAACGGTTATACTTAATATCAAAACTCAATAAATTAAACTA
16452733 AATTAACCTTTTTTAAAAACGTATAATTGAACAAACTAATTTGAC
66 AATTAACCTTTTTTAAAAACG-ATAATTGAACAAACTAATTTGAC
16452778 CTTT-TGAAAATGTATAACTAAATAAACGGTTATACTTAATATCAAAACTCAATAAATTAAACTA
1 CTTTCTGAAAATGTATAACTAAATAAACGGTTATACTTAATATCAAAACTCAATAAATTAAACTA
* *
16452842 GATTAACTTTTTTTTAAAATAC-ATAATT
66 AATTAAC-CTTTTTTAAAA-ACGATAATT
16452870 AAATAAACGG
Statistics
Matches: 83, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
109 67 0.81
110 14 0.17
111 2 0.02
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.36
Consensus pattern (109 bp):
CTTTCTGAAAATGTATAACTAAATAAACGGTTATACTTAATATCAAAACTCAATAAATTAAACTA
AATTAACCTTTTTTAAAAACGATAATTGAACAAACTAATTTGAC
Found at i:16459657 original size:2 final size:2
Alignment explanation
Indices: 16459652--16459689 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
16459642 ATTAAAAAAA
16459652 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16459690 TTCTCTTTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16461420 original size:21 final size:21
Alignment explanation
Indices: 16461387--16461462 Score: 61
Period size: 21 Copynumber: 3.6 Consensus size: 21
16461377 TTTATAAAAA
16461387 TTTTAAA-A-TTTTA-ATATTT
1 TTTTAAATATTTTTAGA-ATTT
*
16461406 TTTTATATATTTTTAGAATTT
1 TTTTAAATATTTTTAGAATTT
*
16461427 TTTTAAATATAACTTTT-GAAATT
1 TTTTAAATAT---TTTTAGAATTT
*
16461450 TTATAAATATTTT
1 TTTTAAATATTTT
16461463 AAAATTAAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
19 6 0.13
20 4 0.09
21 18 0.38
22 1 0.02
23 14 0.30
24 4 0.09
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.61
Consensus pattern (21 bp):
TTTTAAATATTTTTAGAATTT
Found at i:16467135 original size:15 final size:15
Alignment explanation
Indices: 16467115--16467147 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
16467105 TTTCAATTAT
16467115 ATTATATGAAAT-ATA
1 ATTATAT-AAATAATA
16467130 ATTATATAAATAATA
1 ATTATATAAATAATA
16467145 ATT
1 ATT
16467148 TTAGTAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
ATTATATAAATAATA
Found at i:16477577 original size:24 final size:24
Alignment explanation
Indices: 16477532--16477577 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
16477522 TAGGTATTTT
**
16477532 GACTTCCATTTAGGTATAGTTTGG
1 GACTTCCATTTAGACATAGTTTGG
16477556 GACTTCCAATTTAGACAT-GTTT
1 GACTTCC-ATTTAGACATAGTTT
16477578 CTTCTTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (24 bp):
GACTTCCATTTAGACATAGTTTGG
Found at i:16489806 original size:12 final size:14
Alignment explanation
Indices: 16489777--16489805 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
16489767 ACAAAATTAT
16489777 AAATATATAAATAA
1 AAATATATAAATAA
16489791 AAATATA-AAATAA
1 AAATATATAAATAA
16489804 AA
1 AA
16489806 TTGTGGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AAATATATAAATAA
Found at i:16489962 original size:21 final size:23
Alignment explanation
Indices: 16489925--16489968 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
16489915 CTAAACATAT
16489925 TAATTATTGTGTAATATTAGAAC
1 TAATTATTGTGTAATATTAGAAC
*
16489948 TAATTA-TGT-TAATATTTGAAC
1 TAATTATTGTGTAATATTAGAAC
16489969 AAAAGTTGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
22 3 0.15
23 6 0.30
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (23 bp):
TAATTATTGTGTAATATTAGAAC
Found at i:16494906 original size:17 final size:18
Alignment explanation
Indices: 16494886--16494919 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
16494876 AACTAAACAT
*
16494886 CAAACCAAA-GAAAAGAA
1 CAAAACAAAGGAAAAGAA
16494903 CAAAACAAAGGAAAAGA
1 CAAAACAAAGGAAAAGA
16494920 GACGAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.71, C:0.15, G:0.15, T:0.00
Consensus pattern (18 bp):
CAAAACAAAGGAAAAGAA
Found at i:16497502 original size:3 final size:3
Alignment explanation
Indices: 16497458--16497519 Score: 63
Period size: 3 Copynumber: 20.0 Consensus size: 3
16497448 ATATATGATG
* * *
16497458 TTC TTC TCTC TTC CTC TTCC TT- TTC TTA TTC TTG TGTC TTC TTC TTC
1 TTC TTC T-TC TTC TTC TT-C TTC TTC TTC TTC TTC T-TC TTC TTC TTC
16497505 TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC
16497520 ACCTTCACCT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
2 2 0.04
3 39 0.80
4 8 0.16
ACGTcount: A:0.02, C:0.32, G:0.03, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:16516133 original size:3 final size:3
Alignment explanation
Indices: 16516127--16516158 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
16516117 TTTTTTTAAA
*
16516127 AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
16516159 AGAAATATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:16521068 original size:55 final size:55
Alignment explanation
Indices: 16520997--16521125 Score: 197
Period size: 55 Copynumber: 2.3 Consensus size: 55
16520987 AAAATTCAAA
* * *
16520997 ATTTTTGGGTGTTGGCCATCAAATGGTCGACACCCCTTTTCTCGAAAAAAAATTAC
1 ATTTTTGAGTGTTGGCCATCAAATGGTCGACACCCCTATT-TCAAAAAAAAATTAC
* *
16521053 ATTTTT-AGTGTTGGCCATCAAATGGTCGATACCCCTATTTCAAAAAAAAATTAT
1 ATTTTTGAGTGTTGGCCATCAAATGGTCGACACCCCTATTTCAAAAAAAAATTAC
16521107 ATTTTTGAGTGTTGGCCAT
1 ATTTTTGAGTGTTGGCCAT
16521126 TGCATGGCTG
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
54 19 0.28
55 42 0.63
56 6 0.09
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (55 bp):
ATTTTTGAGTGTTGGCCATCAAATGGTCGACACCCCTATTTCAAAAAAAAATTAC
Found at i:16523690 original size:62 final size:61
Alignment explanation
Indices: 16523625--16523839 Score: 283
Period size: 61 Copynumber: 3.5 Consensus size: 61
16523615 TGATGTTACA
*
16523625 AAAAAAATTCAAATTTTTTTGGTGTTGGCCATTGCATGGCCGACACTCCCCTTTTCTCAAG
1 AAAAAAATTCAAATTTTTTTGGTGTTGGCCATTGCATGGCCGACACTCCCCTTTTCTCGAG
* * * * * * *
16523686 AAAAAAATTCAAAATTTTTTGGTGTTGGTCATTGCATGGTCAATACCCCCCTTTTCTCGGG
1 AAAAAAATTCAAATTTTTTTGGTGTTGGCCATTGCATGGCCGACACTCCCCTTTTCTCGAG
* *
16523747 AAAAAAATTTCAAATTTTTTTGGTGTTAGCCATCAG-ATGGCCGACACT-CCCTTTTCTCGAG
1 AAAAAAA-TTCAAATTTTTTTGGTGTTGGCCAT-TGCATGGCCGACACTCCCCTTTTCTCGAG
* *
16523808 AAAAAAATTCACA-TTTTTTGATGTTGGCCATT
1 AAAAAAATTCAAATTTTTTTGGTGTTGGCCATT
16523840 TTCCTCGAAT
Statistics
Matches: 131, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
59 16 0.12
60 5 0.04
61 79 0.60
62 30 0.23
63 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (61 bp):
AAAAAAATTCAAATTTTTTTGGTGTTGGCCATTGCATGGCCGACACTCCCCTTTTCTCGAG
Found at i:16524962 original size:24 final size:24
Alignment explanation
Indices: 16524933--16524986 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
16524923 GGCATTACAT
* *
16524933 TGGTGTTCGTCGGCTTATCCTCGG
1 TGGTGTTCGTCAGCTCATCCTCGG
*
16524957 TGGTGTTCGTCAGCTCATCCTCTG
1 TGGTGTTCGTCAGCTCATCCTCGG
16524981 TGGTGT
1 TGGTGT
16524987 CAACGTTGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.06, C:0.24, G:0.31, T:0.39
Consensus pattern (24 bp):
TGGTGTTCGTCAGCTCATCCTCGG
Found at i:16525325 original size:57 final size:61
Alignment explanation
Indices: 16525225--16525393 Score: 188
Period size: 57 Copynumber: 2.8 Consensus size: 61
16525215 AATCGTGAAG
*
16525225 AAAAAAATTTTGAATTTTTTTTCTCGAGAAAAAAAGTGGGTGTCGGTCATTTGATGGCCAACAT-
1 AAAAAAA-TTTGAATTTTTTTT-T--AGAAAAAAAGTGGGTGTCGGCCATTTGATGGCCAACATC
*
16525289 AAAAAAATTTGAATTTTTTTTT-G-AAATAAG-GGGTGTCGGCCATTTGATGGCCAACATC
1 AAAAAAATTTGAATTTTTTTTTAGAAAAAAAGTGGGTGTCGGCCATTTGATGGCCAACATC
* * *
16525347 CAAAAATTTTGAAATTTTTTTTCT-GACAAAAAA-AGGGTGTCGGCCAT
1 AAAAAAATTTG-AATTTTTTTT-TAGA-AAAAAAGTGGGTGTCGGCCAT
16525394 GCAAATTTTT
Statistics
Matches: 94, Mismatches: 5, Indels: 14
0.83 0.04 0.12
Matches are distributed among these distances:
57 26 0.28
58 15 0.16
59 11 0.12
60 2 0.02
62 19 0.20
63 14 0.15
64 7 0.07
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (61 bp):
AAAAAAATTTGAATTTTTTTTTAGAAAAAAAGTGGGTGTCGGCCATTTGATGGCCAACATC
Found at i:16526529 original size:44 final size:44
Alignment explanation
Indices: 16526427--16526508 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
16526417 TTTTATAAAA
* *
16526427 ATATAAAAA-TATAAATA--TAAATTTTAAAAATTCAAAACAAT
1 ATATAAAAATTAAAAATATTTAAATTTAAAAAATTCAAAACAAT
16526468 ATATAAAAATTAAAAATATTTAAATTTAAAAAATTGCAAAA
1 ATATAAAAATTAAAAATATTTAAATTTAAAAAATT-CAAAA
16526509 AAACTTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
41 9 0.26
42 7 0.20
44 14 0.40
45 5 0.14
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.32
Consensus pattern (44 bp):
ATATAAAAATTAAAAATATTTAAATTTAAAAAATTCAAAACAAT
Found at i:16526901 original size:19 final size:20
Alignment explanation
Indices: 16526874--16526916 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
16526864 AGTTAAAGTC
*
16526874 AAATGTGAT-TTTTTAATTT
1 AAATGTGATGTTTTCAATTT
*
16526893 AAATTTGATGTTTTCAATTT
1 AAATGTGATGTTTTCAATTT
16526913 AAAT
1 AAAT
16526917 AAACTTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.53
Consensus pattern (20 bp):
AAATGTGATGTTTTCAATTT
Found at i:16536346 original size:49 final size:49
Alignment explanation
Indices: 16536233--16536348 Score: 132
Period size: 49 Copynumber: 2.4 Consensus size: 49
16536223 AAAAAATATA
16536233 AAACTCAAAACC-TAAA-TCGTAAACTCTTGAACCTTAAATCTGAACCCT
1 AAACTCAAAACCATAAACTCG-AAACTCTTGAACCTTAAATCTGAACCCT
** * *
16536281 AAACTCGTACCTCATAAACTC-AAACTCTTGAACCTTAAA-CTCGAATCCT
1 AAACTCAAAAC-CATAAACTCGAAACTCTTGAACCTTAAATCT-GAACCCT
16536330 AAATCTCAAAACCATAAAC
1 AAA-CTCAAAACCATAAAC
16536349 CTTAAACTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
48 10 0.18
49 35 0.62
50 9 0.16
51 2 0.04
ACGTcount: A:0.42, C:0.28, G:0.05, T:0.24
Consensus pattern (49 bp):
AAACTCAAAACCATAAACTCGAAACTCTTGAACCTTAAATCTGAACCCT
Found at i:16536530 original size:29 final size:26
Alignment explanation
Indices: 16536477--16536530 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 26
16536467 TATTTGTTCA
*
16536477 TAATTTAAAAAGTTAATTATTTTAAG
1 TAATTTAAAAAGTTAATTATGTTAAG
16536503 TAATTTAATTAAAGTTAAATTATGTTAA
1 TAATTTAA--AAAGTT-AATTATGTTAA
16536531 AAAAATATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 8 0.33
28 6 0.25
29 10 0.42
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (26 bp):
TAATTTAAAAAGTTAATTATGTTAAG
Found at i:16541068 original size:36 final size:35
Alignment explanation
Indices: 16540998--16541081 Score: 91
Period size: 36 Copynumber: 2.4 Consensus size: 35
16540988 AACCTTGAAC
*
16540998 TTAAACCTTAAACTCATACCCCATAATCCCAAACTT
1 TTAAACCTTAAACTCATACCCCATAATCCAAAAC-T
* *
16541034 TTAAACCTTAAACTCGA-ATCCTA-AATCTCAAAACT
1 TTAAACCTTAAACTC-ATACCCCATAATC-CAAAACT
*
16541069 CTAAACCTTAAAC
1 TTAAACCTTAAAC
16541082 ATTTAAACCA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
35 17 0.40
36 24 0.57
37 1 0.02
ACGTcount: A:0.42, C:0.30, G:0.01, T:0.27
Consensus pattern (35 bp):
TTAAACCTTAAACTCATACCCCATAATCCAAAACT
Found at i:16552367 original size:30 final size:29
Alignment explanation
Indices: 16552333--16552396 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
16552323 TTAGTAAAAG
*
16552333 TAAAA-TTATATTTTATCTCTTTAAAAATGA
1 TAAAATTTA-ATTTAAT-TCTTTAAAAATGA
* *
16552363 TAAAATTTAATTTAATTTTTTAAAAATTA
1 TAAAATTTAATTTAATTCTTTAAAAATGA
16552392 TAAAA
1 TAAAA
16552397 ATATTGATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 16 0.53
30 11 0.37
31 3 0.10
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (29 bp):
TAAAATTTAATTTAATTCTTTAAAAATGA
Found at i:16553875 original size:23 final size:22
Alignment explanation
Indices: 16553829--16553872 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
16553819 ATAGAATTAA
16553829 AAATATTGTAAGATTTATAAAT
1 AAATATTGTAAGATTTATAAAT
16553851 AAATATTGATAA-ATTT-TAAAT
1 AAATATTG-TAAGATTTATAAAT
16553872 A
1 A
16553873 TAATTAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.29
22 12 0.57
23 3 0.14
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (22 bp):
AAATATTGTAAGATTTATAAAT
Found at i:16553892 original size:27 final size:27
Alignment explanation
Indices: 16553844--16553899 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
16553834 TTGTAAGATT
* * *
16553844 TATAAATAAATATTGATAAATTTTAAA
1 TATAAATAAATAATAATAAATTATAAA
* *
16553871 TATAATTAAATAATAATTAATTATAAA
1 TATAAATAAATAATAATAAATTATAAA
16553898 TA
1 TA
16553900 AGTATTAACA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (27 bp):
TATAAATAAATAATAATAAATTATAAA
Found at i:16555227 original size:4 final size:4
Alignment explanation
Indices: 16555218--16555243 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
16555208 CATATGTGAA
16555218 TTAG TTAG TTAG TTAG TTAG TTAG TT
1 TTAG TTAG TTAG TTAG TTAG TTAG TT
16555244 GAGATACAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (4 bp):
TTAG
Found at i:16560032 original size:18 final size:18
Alignment explanation
Indices: 16560009--16560060 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
16559999 TGGTTCAATT
16560009 ACACACACACACACCCAC
1 ACACACACACACACCCAC
16560027 ACACACACACACACCCAC
1 ACACACACACACACCCAC
* *
16560045 ACCCACACCCACACCC
1 ACACACACACACACCC
16560061 CCCCCCCCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.40, C:0.60, G:0.00, T:0.00
Consensus pattern (18 bp):
ACACACACACACACCCAC
Found at i:16560059 original size:6 final size:6
Alignment explanation
Indices: 16560012--16560060 Score: 71
Period size: 6 Copynumber: 8.2 Consensus size: 6
16560002 TTCAATTACA
* * *
16560012 CACACA CACACC CACACA CACACA CACACC CACACC CACACC CACACC
1 CACACC CACACC CACACC CACACC CACACC CACACC CACACC CACACC
16560060 C
1 C
16560061 CCCCCCCCCA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.39, C:0.61, G:0.00, T:0.00
Consensus pattern (6 bp):
CACACC
Found at i:16572240 original size:58 final size:58
Alignment explanation
Indices: 16572147--16572258 Score: 174
Period size: 58 Copynumber: 1.9 Consensus size: 58
16572137 TTATTATTAC
*
16572147 ATATAATTTAATTATATTTTAACATAATTATTATT-AAATAT-AATTTAATAAAATAAT
1 ATATAATTTAATAATATTTTAACATAATTATTATTAAAATATGAA-TTAATAAAATAAT
*
16572204 ATATAATTTAATAATATTTTTAATATAATTATTATTAAAATATGAATTAATAAAA
1 ATATAATTTAATAATA-TTTTAACATAATTATTATTAAAATATGAATTAATAAAA
16572259 ATCATAATAT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
57 15 0.30
58 18 0.36
59 15 0.30
60 2 0.04
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (58 bp):
ATATAATTTAATAATATTTTAACATAATTATTATTAAAATATGAATTAATAAAATAAT
Found at i:16572274 original size:58 final size:57
Alignment explanation
Indices: 16572147--16572274 Score: 154
Period size: 58 Copynumber: 2.2 Consensus size: 57
16572137 TTATTATTAC
* *
16572147 ATATAATTTAATTATATTTTAACATAATTATTATTAAATATAATTTAATAAAATAAT
1 ATATAATATAATAATATTTTAACATAATTATTATTAAATATAATTTAATAAAATAAT
* * *
16572204 ATATAATTTAATAATATTTTTAATATAATTATTATTAAAATATGAA-TTAATAAAAATCAT
1 ATATAATATAATAATA-TTTTAACATAATTATTATT-AAATAT-AATTTAAT-AAAATAAT
16572264 A-AT-ATATAATA
1 ATATAATATAATA
16572275 TTAGAAAATT
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
57 15 0.24
58 25 0.40
59 13 0.21
60 10 0.16
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (57 bp):
ATATAATATAATAATATTTTAACATAATTATTATTAAATATAATTTAATAAAATAAT
Found at i:16589709 original size:18 final size:19
Alignment explanation
Indices: 16589682--16589723 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
16589672 CGAAAAATAA
16589682 TTTTTAAAAAATT-AT-TT
1 TTTTTAAAAAATTAATATT
*
16589699 TTTTTAGAAAAGTTAATATT
1 TTTTTA-AAAAATTAATATT
16589719 TTTTT
1 TTTTT
16589724 GTGTGTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
18 6 0.29
19 2 0.10
20 7 0.33
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (19 bp):
TTTTTAAAAAATTAATATT
Found at i:16590884 original size:26 final size:28
Alignment explanation
Indices: 16590851--16590904 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
16590841 ACCTTATCAA
16590851 TTTGGAAA-ATATATTAC-GGAAAAAAT
1 TTTGGAAAGATATATTACAGGAAAAAAT
* *
16590877 TTTGGAAAGATATTTTACATGAAAAAAT
1 TTTGGAAAGATATATTACAGGAAAAAAT
16590905 GGGTAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.33
27 8 0.33
28 8 0.33
ACGTcount: A:0.48, C:0.04, G:0.15, T:0.33
Consensus pattern (28 bp):
TTTGGAAAGATATATTACAGGAAAAAAT
Found at i:16593366 original size:40 final size:42
Alignment explanation
Indices: 16593288--16593368 Score: 130
Period size: 40 Copynumber: 2.0 Consensus size: 42
16593278 CGATCATGCA
*
16593288 ATGGCCAACATCCAGAAAATACAATTTTTTTTGAAATAAGGT
1 ATGGCCAACACCCAGAAAATACAATTTTTTTTGAAATAAGGT
*
16593330 ATGGCCAACACCCA-AAAATGC-ATTTTTTTTGAAATAAGG
1 ATGGCCAACACCCAGAAAATACAATTTTTTTTGAAATAAGG
16593369 GGTGTCGGGC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 18 0.49
41 6 0.16
42 13 0.35
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGGCCAACACCCAGAAAATACAATTTTTTTTGAAATAAGGT
Found at i:16595231 original size:9 final size:9
Alignment explanation
Indices: 16595217--16595247 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
16595207 GTATAACTTG
16595217 TCTTTTCGT
1 TCTTTTCGT
16595226 TCTTTTCGT
1 TCTTTTCGT
*
16595235 TCTTCTCGT
1 TCTTTTCGT
16595244 TCTT
1 TCTT
16595248 CTTCTTATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.00, C:0.26, G:0.10, T:0.65
Consensus pattern (9 bp):
TCTTTTCGT
Found at i:16596710 original size:2 final size:2
Alignment explanation
Indices: 16596703--16596748 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
16596693 TTAAATGTCG
16596703 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16596745 AT AT
1 AT AT
16596749 GTTTATTCTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16597991 original size:2 final size:2
Alignment explanation
Indices: 16597984--16598028 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
16597974 TAATTCACCA
16597984 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16598025 AT AT
1 AT AT
16598029 GATGCATTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:16603014 original size:86 final size:85
Alignment explanation
Indices: 16602803--16604027 Score: 890
Period size: 86 Copynumber: 14.3 Consensus size: 85
16602793 AATATAGCTA
* * * * * *
16602803 CCTCGGTTTACACGATGATGCACTGTATGTGTCAATATAGATGCTTCGGTTTACCCGATAATGCA
1 CCTCGGTTTAC-CGATGATGCACTGTGTGTGCCAGTATAGATGCCTCGGTTTACTCGATGATGCA
*
16602868 CTGTGTGT--CACTATAGATG
65 CTGTGTGTGCCAGTATAGATG
* * * * *
16602887 CCTCAGTTTACCCGATGATACATTGTGTGTGCCATTATAGATGCCTCGGTTTACTCAATGATGCA
1 CCTCGGTTTA-CCGATGATGCACTGTGTGTGCCAGTATAGATGCCTCGGTTTACTCGATGATGCA
* * *
16602952 TTGTGTGTTCCAGTATAGATA
65 CTGTGTGTGCCAGTATAGATG
* * * * *
16602973 CCTTGGTTTACCTGATAATGCACTGTGTGAGCCAATATAGATGCCTTGGTTTACTCGATGATGCA
1 CCTCGGTTTACC-GATGATGCACTGTGTGTGCCAGTATAGATGCCTCGGTTTACTCGATGATGCA
* *
16603038 CTATGTGTGCCAGTATAAATG
65 CTGTGTGTGCCAGTATAGATG
* * * * **
16603059 CCT-GAGCTTATCCGATGATGCACTATGTGTGTCAGTATAAATATCTCGGTTTACTCGATGATGC
1 CCTCG-GTTTA-CCGATGATGCACTGTGTGTGCCAGTATAGATGCCTCGGTTTACTCGATGATGC
* * *
16603123 ACTGTGTGTACCACTATATATG
64 ACTGTGTGTGCCAGTATAGATG
* * * *
16603145 CCTCGGTTTACCTTATGATGCACGGTGTGTGCCAGTATAGATTG-CTCGGTTTACTCGATGGTAC
1 CCTCGGTTTACC-GATGATGCACTGTGTGTGCCAGTATAGA-TGCCTCGGTTTACTCGATGATGC
* * *
16603209 ATTGTGTGTGCCAGTATAAATA
64 ACTGTGTGTGCCAGTATAGATG
** * * * * * *
16603231 CCTCAATTTACCCGATAATACATTGTGTGTTCCAGTATAGATGTCTCGGTTTACTCGATGATTCA
1 CCTCGGTTTA-CCGATGATGCACTGTGTGTGCCAGTATAGATGCCTCGGTTTACTCGATGATGCA
*
16603296 CTGGGTGTGCCAGTATAGATG
65 CTGTGTGTGCCAGTATAGATG
* * * * * *
16603317 CCTCGATTTATCCGATGATGCACTGTGTGTGCTAGTAGAGATGCTTCGATTTA-TTGATGATGCA
1 CCTCGGTTTA-CCGATGATGCACTGTGTGTGCCAGTATAGATGCCTCGGTTTACTCGATGATGCA
* *
16603381 CTGTATGTGCCAGTATATATG
65 CTGTGTGTGCCAGTATAGATG
** * * * * * *
16603402 TTTCGGTTTATCGATGATGCAGTGTGTGTGCCAGTATATATGCTTCGGTTTACCCGATGAAGCAC
1 CCTCGGTTTACCGATGATGCACTGTGTGTGCCAGTATAGATGCCTCGGTTTACTCGATGATGCAC
* *
16603467 TATATGTGCCAGTATAGATG
66 TGTGTGTGCCAGTATAGATG
* * * * ** ** * *
16603487 CTTCGATTTACCCGATGATGCA-T-TGTGTGCAAATATAGATGTGAT-AATTTGCTCGATAATGC
1 CCTCGGTTTA-CCGATGATGCACTGTGTGTGCCAGTATAGATG-CCTCGGTTTACTCGATGATGC
* *
16603549 ATTGTGTGTGCTAGTATAGATG
64 ACTGTGTGTGCCAGTATAGATG
* * ** * * * * * * * *
16603571 CTTTGGGTTTTTCAAGGATGTA-T-TGTGTTCCAATAAAGATGCTTCGATTTA-TCCGACT-ATG
1 C-CTCGGTTTACCGATGATGCACTGTGTGTGCCAGTATAGATGCCTCGGTTTACT-CGA-TGATG
*
16603632 CACTGTGTGTTCCAGTATAGATG
63 CACTGTGTGTGCCAGTATAGATG
** * * * * * * * ** **
16603655 ATTTGATTTACTCGACGATACACTGTGTGTGGCAGTATAGATGCCTCGGTTTACACAACAATATA
1 CCTCGGTTTAC-CGATGATGCACTGTGTGTGCCAGTATAGATGCCTCGGTTTACTCGATGATGCA
* * *
16603720 CTGTGTATGCTAATATAGATG
65 CTGTGTGTGCCAGTATAGATG
** *** * * * * * *
16603741 TTTTTATTTATCTGATGATGCATTGTATGTGCCAGTATAGATGCCTCGATTTACTTGATGCTGCA
1 CCTCGGTTTA-CCGATGATGCACTGTGTGTGCCAGTATAGATGCCTCGGTTTACTCGATGATGCA
* * *
16603806 CTGTGTTTGTCGGTATAGATG
65 CTGTGTGTGCCAGTATAGATG
* * * * * * * * ** *
16603827 CCTCGATTTACTCAATAATGCACTCTCTCTGTCTGTATAGATGCCTTAGTTTACTTGATGATGCA
1 CCTCGGTTTAC-CGATGATGCACTGTGTGTGCCAGTATAGATGCCTCGGTTTACTCGATGATGCA
* * *
16603892 TTGTGTATGCCCGTATAGATG
65 CTGTGTGTGCCAGTATAGATG
* * ** * * * **
16603913 CCTCGGGTTACCCGATGATGTACACTATGTGCCCGTATAGATGCTTTAGTTTACTCGATGATGCA
1 CCTCGGTTTA-CCGATGATGCACTGTGTGTGCCAGTATAGATGCCTCGGTTTACTCGATGATGCA
*
16603978 CTGTGTGTGCCAATATAGATG
65 CTGTGTGTGCCAGTATAGATG
*
16603999 CCTCGATTTACCCGATGATGCACTGTGTG
1 CCTCGGTTTA-CCGATGATGCACTGTGTG
16604028 CCAGTGTCAC
Statistics
Matches: 892, Mismatches: 223, Indels: 50
0.77 0.19 0.04
Matches are distributed among these distances:
83 8 0.01
84 200 0.22
85 88 0.10
86 588 0.66
87 8 0.01
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (85 bp):
CCTCGGTTTACCGATGATGCACTGTGTGTGCCAGTATAGATGCCTCGGTTTACTCGATGATGCAC
TGTGTGTGCCAGTATAGATG
Found at i:16603390 original size:42 final size:42
Alignment explanation
Indices: 16602815--16604027 Score: 671
Period size: 43 Copynumber: 28.4 Consensus size: 42
16602805 TCGGTTTACA
* * * * *
16602815 CGATGATGCACTGTATGTGTCAATATAGATGCTTCGGTTTACC
1 CGATGATGCACTGTGTGTGCCAGTATAGATGCTTCGATTTA-T
* * * *
16602858 CGATAATGCACTGTGTGT--CACTATAGATGCCTC-AGTTTACC
1 CGATGATGCACTGTGTGTGCCAGTATAGATGCTTCGA-TTTA-T
* * * * *
16602899 CGATGATACATTGTGTGTGCCATTATAGATGCCTCGGTTTACT
1 CGATGATGCACTGTGTGTGCCAGTATAGATGCTTCGATTTA-T
* * * * * *
16602942 CAATGATGCATTGTGTGTTCCAGTATAGATACCTT-GGTTTAC
1 CGATGATGCACTGTGTGTGCCAGTATAGAT-GCTTCGATTTAT
* * * *
16602984 CTGATAATGCACTGTGTGAGCCAATATAGATGCCTT-GGTTTACT
1 C-GATGATGCACTGTGTGTGCCAGTATAGATG-CTTCGATTTA-T
* * * *
16603028 CGATGATGCACTATGTGTGCCAGTATAAATGCCT-GAGCTTAT
1 CGATGATGCACTGTGTGTGCCAGTATAGATGCTTCGA-TTTAT
* * * * *
16603070 CCGATGATGCACTATGTGTGTCAGTATAAAT-ATCTCGGTTTACT
1 -CGATGATGCACTGTGTGTGCCAGTATAGATGCT-TCGATTTA-T
* * * * * *
16603114 CGATGATGCACTGTGTGTACCACTATATATGCCTCGGTTTAC
1 CGATGATGCACTGTGTGTGCCAGTATAGATGCTTCGATTTAT
* * *
16603156 CTTATGATGCACGGTGTGTGCCAGTATAGATTGC-TCGGTTTACT
1 C-GATGATGCACTGTGTGTGCCAGTATAGA-TGCTTCGATTTA-T
* * * * * * * *
16603200 CGATGGTACATTGTGTGTGCCAGTATAAATACCTCAATTTACC
1 CGATGATGCACTGTGTGTGCCAGTATAGATGCTTCGATTTA-T
* * * * *
16603243 CGATAATACATTGTGTGTTCCAGTATAGATG-TCTCGGTTTACT
1 CGATGATGCACTGTGTGTGCCAGTATAGATGCT-TCGATTTA-T
* * *
16603286 CGATGATTCACTGGGTGTGCCAGTATAGATGCCTCGATTTAT
1 CGATGATGCACTGTGTGTGCCAGTATAGATGCTTCGATTTAT
* *
16603328 CCGATGATGCACTGTGTGTGCTAGTAGAGATGCTTCGATTTAT
1 -CGATGATGCACTGTGTGTGCCAGTATAGATGCTTCGATTTAT
* * * * *
16603371 TGATGATGCACTGTATGTGCCAGTATATATGTTTCGGTTTAT
1 CGATGATGCACTGTGTGTGCCAGTATAGATGCTTCGATTTAT
* * * *
16603413 CGATGATGCAGTGTGTGTGCCAGTATATATGCTTCGGTTTACC
1 CGATGATGCACTGTGTGTGCCAGTATAGATGCTTCGATTTA-T
* * * *
16603456 CGATGAAGCACTATATGTGCCAGTATAGATGCTTCGATTTACC
1 CGATGATGCACTGTGTGTGCCAGTATAGATGCTTCGATTTA-T
* * * *
16603499 CGATGATGCA-T-TGTGTGCAAATATAGATG-TGAT-AATTTGCT
1 CGATGATGCACTGTGTGTGCCAGTATAGATGCT--TCGATTT-AT
* * * * * *
16603540 CGATAATGCATTGTGTGTGCTAGTATAGATGCTTTGGGTTTTT
1 CGATGATGCACTGTGTGTGCCAGTATAGATGC-TTCGATTTAT
* * * * * *
16603583 CAAGGATGTA-T-TGTGTTCCAATAAAGATGCTTCGATTTAT
1 CGATGATGCACTGTGTGTGCCAGTATAGATGCTTCGATTTAT
* * *
16603623 CCGACT-ATGCACTGTGTGTTCCAGTATAGATGATTTGATTTACT
1 -CGA-TGATGCACTGTGTGTGCCAGTATAGATGCTTCGATTTA-T
* * * * * *
16603667 CGACGATACACTGTGTGTGGCAGTATAGATGCCTCGGTTTACA
1 CGATGATGCACTGTGTGTGCCAGTATAGATGCTTCGATTTA-T
* ** ** * * * * **
16603710 CAACAATATACTGTGTATGCTAATATAGATGTTTTTATTTAT
1 CGATGATGCACTGTGTGTGCCAGTATAGATGCTTCGATTTAT
* * *
16603752 CTGATGATGCATTGTATGTGCCAGTATAGATGCCTCGATTTACT
1 C-GATGATGCACTGTGTGTGCCAGTATAGATGCTTCGATTTA-T
* * * * * *
16603796 TGATGCTGCACTGTGTTTGTCGGTATAGATGCCTCGATTTACT
1 CGATGATGCACTGTGTGTGCCAGTATAGATGCTTCGATTTA-T
* * * * * * * *
16603839 CAATAATGCACTCTCTCTGTCTGTATAGATGCCTTAG-TTTACT
1 CGATGATGCACTGTGTGTGCCAGTATAGATG-CTTCGATTTA-T
* * * * * ** *
16603882 TGATGATGCATTGTGTATGCCCGTATAGATGCCTCGGGTTACC
1 CGATGATGCACTGTGTGTGCCAGTATAGATGCTTCGATTTA-T
* ** * * *
16603925 CGATGATGTACACTATGTGCCCGTATAGATGCTT-TAGTTTACT
1 CGATGATGCACTGTGTGTGCCAGTATAGATGCTTCGA-TTTA-T
* * *
16603968 CGATGATGCACTGTGTGTGCCAATATAGATGCCTCGATTTACC
1 CGATGATGCACTGTGTGTGCCAGTATAGATGCTTCGATTTA-T
16604011 CGATGATGCACTGTGTG
1 CGATGATGCACTGTGTG
16604028 CCAGTGTCAC
Statistics
Matches: 908, Mismatches: 220, Indels: 84
0.75 0.18 0.07
Matches are distributed among these distances:
40 8 0.01
41 83 0.09
42 90 0.10
43 708 0.78
44 18 0.02
45 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (42 bp):
CGATGATGCACTGTGTGTGCCAGTATAGATGCTTCGATTTAT
Found at i:16607684 original size:43 final size:43
Alignment explanation
Indices: 16607628--16608959 Score: 358
Period size: 43 Copynumber: 31.2 Consensus size: 43
16607618 TATGCCTTAA
* * *
16607628 TTTACTCGATGATGCATTGTGTGTGCTAGTATAGATGTTTCGG
1 TTTACTCGATGATGCATTGTGTGTGCCAGTATAGATGCTTCAG
* * * *
16607671 TTTACCCGTTGATGCATTATGTGTGCTAGTATAGATG-TCTC-G
1 TTTACTCGATGATGCATTGTGTGTGCCAGTATAGATGCT-TCAG
* * * *
16607713 ATTTACTCGATGACGCATTGTGTGTACCCGTATAGATGCCTCAG
1 -TTTACTCGATGATGCATTGTGTGTGCCAGTATAGATGCTTCAG
* * * *
16607757 TTTACTCGATGATGCACTGTGTATGCCAGTATA-ATATCTTCGG
1 TTTACTCGATGATGCATTGTGTGTGCCAGTATAGAT-GCTTCAG
* * * *
16607800 TTTACCCAATGATGCATTATGTGTGCCAGTATAGATGCGTCAG
1 TTTACTCGATGATGCATTGTGTGTGCCAGTATAGATGCTTCAG
* * *
16607843 TTTACTTGATGATGCACTGTGTGTCCCAGTATAGATGCTTCAG
1 TTTACTCGATGATGCATTGTGTGTGCCAGTATAGATGCTTCAG
* * * * * * * *
16607886 TTTACCCGATGAGGTACTATGTGTTCCAATATAGATAC--CACG
1 TTTACTCGATGATGCATTGTGTGTGCCAGTATAGATGCTTCA-G
* * * * * * * *
16607928 ATTTAC-CTAATTAGGTAATT-TGCGTGCAAGTGTAGATGCCTC-G
1 -TTTACTC-GATGATG-CATTGTGTGTGCCAGTATAGATGCTTCAG
* * * * * *
16607971 ATTTACCCGATAACGCA--CTCTGTG-CAGTATAGATACTTC-G
1 -TTTACTCGATGATGCATTGTGTGTGCCAGTATAGATGCTTCAG
* ** * * *
16608011 ATTTACCCGATGACACATTGTGTGTGCCAATATAGATACCTC-G
1 -TTTACTCGATGATGCATTGTGTGTGCCAGTATAGATGCTTCAG
* * * * * ** * * *
16608054 ATTTAC-CTGATAACGTACTGCGTGTTTCAGTGTAGATACTTCGG
1 -TTTACTC-GATGATGCATTGTGTGTGCCAGTATAGATGCTTCAG
* * * * *
16608098 TTTCCCCGATGATTCACTATGTGT--CAGTATAGATGAC-TC-G
1 TTTACTCGATGATGCATTGTGTGTGCCAGTATAGATG-CTTCAG
* * * * * ** * *
16608138 ATTTTCTCGATGACGCACTATGTGTACCAAAATAGATGCGTCGG
1 -TTTACTCGATGATGCATTGTGTGTGCCAGTATAGATGCTTCAG
* * * * * * * *
16608182 TTTAACT-AATGACGTATTATATGTGCCCGTACAGATGCATC-G
1 TTT-ACTCGATGATGCATTGTGTGTGCCAGTATAGATGCTTCAG
** *
16608224 ATTT-CTTCGATGATGCATAATGTGTACCAGTATAGATGAC-TC-G
1 -TTTAC-TCGATGATGCATTGTGTGTGCCAGTATAGATG-CTTCAG
* * *
16608267 ATTTACCCGATGATGCACTT-TATGTGTCAGTATAGATGCTTC-G
1 -TTTACTCGATGATGCA-TTGTGTGTGCCAGTATAGATGCTTCAG
* * * **** *
16608310 ATTTAC-CAAATGAT-C-TTTTGTATATTGGTATAGATGCCTCAG
1 -TTTACTC-GATGATGCATTGTGTGTGCCAGTATAGATGCTTCAG
* * * * *
16608352 TTTACCCGATGATGCAGTGTGTGTTTGCTAGTATAAAT-ATCTCAG
1 TTTACTCGATGATGCA-T-TGTGTGTGCCAGTATAGATGCT-TCAG
* * * *
16608397 TTTACACGATG-T--ACTGTGTGTGCCAGTATAGATACCTT-GG
1 TTTACTCGATGATGCATTGTGTGTGCCAGTATAGAT-GCTTCAG
* * * *
16608437 TTTACTCGATGATGCA--CTGTGTGACAATATAGATGTCTT-GG
1 TTTACTCGATGATGCATTGTGTGTGCCAGTATAGATG-CTTCAG
* * * ** * *
16608478 TTTACCCGATTATGCACTGCATGTGCCAGTATAGATACGTCAG
1 TTTACTCGATGATGCATTGTGTGTGCCAGTATAGATGCTTCAG
* * * ** ** * *
16608521 TTCAGTCGATTATTTACGGTGTGTGCCAATATAGATGTCTTGA-
1 TTTACTCGATGATGCATTGTGTGTGCCAGTATAGATG-CTTCAG
* ** * *
16608564 TTTACCCGATGATATACTGTGTGTGCCAATATAGATG--TCTAG
1 TTTACTCGATGATGCATTGTGTGTGCCAGTATAGATGCTTC-AG
* *
16608606 ATTTACTCGATGATGCATTGTGTGTGCAAGTATAGATAC--CACG
1 -TTTACTCGATGATGCATTGTGTGTGCCAGTATAGATGCTTCA-G
* * * * * *
16608649 ATTAATCAGATGATGCACTGTGTGTG-CTGACATAGATGCCTC-G
1 TTTACTC-GATGATGCATTGTGTGTGCCAG-TATAGATGCTTCAG
* * ** * * *
16608692 ATTTAC-CCACCGATTTACTGTGTGTGCCAGGATAGATGCATC-G
1 -TTTACTCGA-TGATGCATTGTGTGTGCCAGTATAGATGCTTCAG
* * * * * * * *
16608735 ATTTACTCGATGAAGTACTGCGTGTACTATTATAGATGCCTC-G
1 -TTTACTCGATGATGCATTGTGTGTGCCAGTATAGATGCTTCAG
* * * *
16608778 ATTTACTTGATGATACACTGTGTGTGCCCGTATAGATG-TCTC-G
1 -TTTACTCGATGATGCATTGTGTGTGCCAGTATAGATGCT-TCAG
* * * *
16608821 ATTTACTGGATGATGCACTATGTGTGCCAGTATAGATGCCTC-G
1 -TTTACTCGATGATGCATTGTGTGTGCCAGTATAGATGCTTCAG
* * * * * * * *
16608864 ATGTACTCGATGATGGACTATGTTTGCAAGTATAAATTCTTC-G
1 -TTTACTCGATGATGCATTGTGTGTGCCAGTATAGATGCTTCAG
* * * *
16608907 ATTTAC-CGGATGATGTATTATGTGTACCAGTATA-ATGCCTC-G
1 -TTTACTC-GATGATGCATTGTGTGTGCCAGTATAGATGCTTCAG
16608949 ATTTACTCGAT
1 -TTTACTCGAT
16608960 AGTATAAATA
Statistics
Matches: 981, Mismatches: 238, Indels: 141
0.72 0.17 0.10
Matches are distributed among these distances:
40 58 0.06
41 101 0.10
42 51 0.05
43 716 0.73
44 26 0.03
45 29 0.03
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (43 bp):
TTTACTCGATGATGCATTGTGTGTGCCAGTATAGATGCTTCAG
Found at i:16607760 original size:86 final size:87
Alignment explanation
Indices: 16607627--16608959 Score: 591
Period size: 86 Copynumber: 15.6 Consensus size: 87
16607617 ATATGCCTTA
* ** * * * * *
16607627 ATTTACTCGATGATGCATTGTGTGTGCTAGTATAGATGTTTCGGTTTACCCGTTGATGCATTATG
1 ATTTACTCGATGATGCATTGTGTGTGCCAGTATAGATGCCTCAGTTTACTCGATGATGCACTGTG
*
16607692 TGTGCTAGTATAGATGTC-TCG
66 TGTGCCAGTATAGATGTCTTCG
* * *
16607713 ATTTACTCGATGACGCATTGTGTGTACCCGTATAGATGCCTCAGTTTACTCGATGATGCACTGTG
1 ATTTACTCGATGATGCATTGTGTGTGCCAGTATAGATGCCTCAGTTTACTCGATGATGCACTGTG
* *
16607778 TATGCCAGTATA-ATATCTTCG
66 TGTGCCAGTATAGATGTCTTCG
* * * * * *
16607799 GTTTACCCAATGATGCATTATGTGTGCCAGTATAGATGCGTCAGTTTACTTGATGATGCACTGTG
1 ATTTACTCGATGATGCATTGTGTGTGCCAGTATAGATGCCTCAGTTTACTCGATGATGCACTGTG
*
16607864 TGTCCCAGTATAGATG-CTTC-
66 TGTGCCAGTATAGATGTCTTCG
* * * * * * * * * * * * * *
16607884 AGTTTACCCGATGAGGTACTATGTGTTCCAATATAGATACCAC-GATTTAC-CTAATTAGGTAAT
1 A-TTTACTCGATGATGCATTGTGTGTGCCAGTATAGATGCCTCAG-TTTACTC-GATGATGCACT
* * * * *
16607947 TTGCGTGCAAGTGTAGATG-CCTCG
63 GTGTGTGCCAGTATAGATGTCTTCG
* * * * * * * * ** *
16607971 ATTTACCCGATAACGCA--CTCTGTG-CAGTATAGATACTTC-GATTTACCCGATGACACATTGT
1 ATTTACTCGATGATGCATTGTGTGTGCCAGTATAGATGCCTCAG-TTTACTCGATGATGCACTGT
* * *
16608032 GTGTGCCAATATAGAT-ACCTCG
65 GTGTGCCAGTATAGATGTCTTCG
* * * * * ** * * * * * * * *
16608054 ATTTAC-CTGATAACGTACTGCGTGTTTCAGTGTAGATACTTCGGTTTCCCCGATGATTCACTAT
1 ATTTACTC-GATGATGCATTGTGTGTGCCAGTATAGATGCCTCAGTTTACTCGATGATGCACTGT
*
16608118 GTGT--CAGTATAGATGAC-TCG
65 GTGTGCCAGTATAGATGTCTTCG
* * * * * ** * * * * * * *
16608138 ATTTTCTCGATGACGCACTATGTGTACCAAAATAGATGCGTCGGTTTAACT-AATGACGTATTAT
1 ATTTACTCGATGATGCATTGTGTGTGCCAGTATAGATGCCTCAGTTT-ACTCGATGATGCACTGT
* * * *
16608202 ATGTGCCCGTACAGATG-CATCG
65 GTGTGCCAGTATAGATGTCTTCG
** * * * *
16608224 ATTT-CTTCGATGATGCATAATGTGTACCAGTATAGATGACTC-GATTTACCCGATGATGCACTT
1 ATTTAC-TCGATGATGCATTGTGTGTGCCAGTATAGATGCCTCAG-TTTACTCGATGATGCACTG
* *
16608287 TATGTGTCAGTATAGATG-CTTCG
64 TGTGTGCCAGTATAGATGTCTTCG
* * * **** * *
16608310 ATTTAC-CAAATGAT-C-TTTTGTATATTGGTATAGATGCCTCAGTTTACCCGATGATGCAGTGT
1 ATTTACTC-GATGATGCATTGTGTGTGCCAGTATAGATGCCTCAGTTTACTCGATGATGCACTGT
* * *
16608372 GTGTTTGCTAGTATAAATATC-TC-
65 GTG--TGCCAGTATAGATGTCTTCG
* * * **
16608395 AGTTTACACGATG-T--ACTGTGTGTGCCAGTATAGATACCTTGGTTTACTCGATGATGCAC--T
1 A-TTTACTCGATGATGCATTGTGTGTGCCAGTATAGATGCCTCAGTTTACTCGATGATGCACTGT
* *
16608455 GTGTGACAATATAGATGTCTT-G
65 GTGTGCCAGTATAGATGTCTTCG
* * * * ** * * * * * ** *
16608477 GTTTACCCGATTATGCACTGCATGTGCCAGTATAGATACGTCAGTTCAGTCGATTATTTACGGTG
1 ATTTACTCGATGATGCATTGTGTGTGCCAGTATAGATGCCTCAGTTTACTCGATGATGCACTGTG
*
16608542 TGTGCCAATATAGATGTCTT-G
66 TGTGCCAGTATAGATGTCTTCG
* ** * * * *
16608563 ATTTACCCGATGATATACTGTGTGTGCCAATATAGATGTCT-AGATTTACTCGATGATGCATTGT
1 ATTTACTCGATGATGCATTGTGTGTGCCAGTATAGATGCCTCAG-TTTACTCGATGATGCACTGT
* * **
16608627 GTGTGCAAGTATAGAT-ACCACG
65 GTGTGCCAGTATAGATGTCTTCG
* * * * * * **
16608649 A-TTAATCAGATGATGCACTGTGTGTG-CTGACATAGATGCCTC-GATTTAC-CCACCGATTTAC
1 ATTTACTC-GATGATGCATTGTGTGTGCCAG-TATAGATGCCTCAG-TTTACTCGA-TGATGCAC
* *
16608710 TGTGTGTGCCAGGATAGATG-CATCG
62 TGTGTGTGCCAGTATAGATGTCTTCG
* * * * * * * * *
16608735 ATTTACTCGATGAAGTACTGCGTGTACTATTATAGATGCCTC-GATTTACTTGATGATACACTGT
1 ATTTACTCGATGATGCATTGTGTGTGCCAGTATAGATGCCTCAG-TTTACTCGATGATGCACTGT
*
16608799 GTGTGCCCGTATAGATGTC-TCG
65 GTGTGCCAGTATAGATGTCTTCG
* * * * * *
16608821 ATTTACTGGATGATGCACTATGTGTGCCAGTATAGATGCCTC-GATGTACTCGATGATGGACTAT
1 ATTTACTCGATGATGCATTGTGTGTGCCAGTATAGATGCCTCAG-TTTACTCGATGATGCACTGT
* * *
16608885 GTTTGCAAGTATAAAT-TCTTCG
65 GTGTGCCAGTATAGATGTCTTCG
* * *
16608907 ATTTAC-CGGATGATGTATTATGTGTACCAGTATA-ATGCCTC-GATTTACTCGAT
1 ATTTACTC-GATGATGCATTGTGTGTGCCAGTATAGATGCCTCAG-TTTACTCGAT
16608960 AGTATAAATA
Statistics
Matches: 953, Mismatches: 243, Indels: 103
0.73 0.19 0.08
Matches are distributed among these distances:
81 20 0.02
82 3 0.00
83 60 0.06
84 134 0.14
85 84 0.09
86 638 0.67
87 14 0.01
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (87 bp):
ATTTACTCGATGATGCATTGTGTGTGCCAGTATAGATGCCTCAGTTTACTCGATGATGCACTGTG
TGTGCCAGTATAGATGTCTTCG
Found at i:16608106 original size:126 final size:127
Alignment explanation
Indices: 16607869--16608174 Score: 309
Period size: 126 Copynumber: 2.4 Consensus size: 127
16607859 CTGTGTGTCC
* * * *
16607869 CAGTATAGATGCTTC-AGTTTACCCGATGAGGTACTATGTGTTCCAATATAGATACCACGATTTA
1 CAGTATAGATACTTCGA-TTTACCCGATGACGCACTATGTGTACCAATATAGATACCACGATTTA
* * * * *
16607933 CCTAATTAGGTAATTTGCGTGCAAGTGTAGATGCCTCGATTTACCCGATAACGCACTCTGTG-
65 CCTAATAACGTAATCTGCGTGCAAGTGTAGATACCTCGATTTACCCGATAACGCACTATGTGT
* * * * *
16607995 CAGTATAGATACTTCGATTTACCCGATGACACATTGTGTGTGCCAATATAGATACCTCGATTTAC
1 CAGTATAGATACTTCGATTTACCCGATGACGCACTATGTGTACCAATATAGATACCACGATTTAC
* * * * * **
16608060 CTGATAACGT-A-CTGCGTGTTTC-AGTGTAGATACTTCGGTTTCCCCGATGATTCACTATGTGT
66 CTAATAACGTAATCTGCGTG---CAAGTGTAGATACCTCGATTTACCCGATAACGCACTATGTGT
* * *
16608122 CAGTATAGATGAC-TCGATTTTCTCGATGACGCACTATGTGTACCAAAATAGAT
1 CAGTATAGAT-ACTTCGATTTACCCGATGACGCACTATGTGTACCAATATAGAT
16608175 GCGTCGGTTT
Statistics
Matches: 147, Mismatches: 27, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
124 6 0.04
125 1 0.01
126 93 0.63
127 45 0.31
128 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (127 bp):
CAGTATAGATACTTCGATTTACCCGATGACGCACTATGTGTACCAATATAGATACCACGATTTAC
CTAATAACGTAATCTGCGTGCAAGTGTAGATACCTCGATTTACCCGATAACGCACTATGTGT
Found at i:16608908 original size:129 final size:129
Alignment explanation
Indices: 16607627--16608959 Score: 503
Period size: 129 Copynumber: 10.4 Consensus size: 129
16607617 ATATGCCTTA
* * * * * * ** * *
16607627 ATTTACTC-GATGATGCATTGTGTGTGCTAGTATAGATGTTTCGGTTTACCCGTTGATGCATTAT
1 ATTTACTCAGATGATACACTGTGTGTGCCAGTATAGATGTCTCGATTTA-CCGATGATATACTGT
* * * * * ** *
16607691 GTGTGCTAGTATAGATGTCTCGATTTACTCGATGACGCATTGTGTGTACCCGTATAGATGCCTC-
65 GTGTGCCAGTATAGATGCCTCGATTTACTCGATGATGCACTGTGTGTGCAAGTATAGATACCTCG
* * * * * ** *
16607755 AGTTTACTC-GATGATGCACTGTGTATGCCAGTATA-ATATCTTCGGTTTACCCAATGATGCATT
1 A-TTTACTCAGATGATACACTGTGTGTGCCAGTATAGATGTC-TCGATTTA-CCGATGATATACT
* * * * * * *
16607818 ATGTGTGCCAGTATAGATGCGTC-AGTTTACTTGATGATGCACTGTGTGTCCCAGTATAGATGCT
63 GTGTGTGCCAGTATAGATGCCTCGA-TTTACTCGATGATGCACTGTGTGTGCAAGTATAGATACC
16607882 TC-
127 TCG
* *** * * * ** * * * ** * *
16607884 AGTTTAC-CCGATGAGGTACTATGTGTTCCAATATAGATACCACGATTTACCTAATTAGGTAATT
1 A-TTTACTCAGATGATACACTGTGTGTGCCAGTATAGATGTCTCGATTTACC-GATGATATACTG
* * * * * * * *
16607948 TGCGTGCAAGTGTAGATGCCTCGATTTACCCGATAACGCAC--TCTGTGC-AGTATAGATACTTC
64 TGTGTGCCAGTATAGATGCCTCGATTTACTCGATGATGCACTGTGTGTGCAAGTATAGATACCTC
16608010 G
129 G
* * * * ** * ** *
16608011 ATTTAC-CCGATGACACATTGTGTGTGCCAATATAGATACCTCGATTTACCTGATAACGTACTGC
1 ATTTACTCAGATGATACACTGTGTGTGCCAGTATAGATGTCTCGATTTACC-GATGATATACTGT
** * * * * * * * *
16608075 GTGTTTCAGTGTAGATACTTCGGTTTCCCCGATGATTCACTATGTGT-C-AGTATAGATGA-CTC
65 GTGTGCCAGTATAGATGCCTCGATTTACTCGATGATGCACTGTGTGTGCAAGTATAGAT-ACCTC
16608137 G
129 G
* ** * * ** * ** ** * *
16608138 ATTTTCTC-GATGACGCACTATGTGTACCAAAATAGATG-CGTCGGTTTAACTAATGACGTATTA
1 ATTTACTCAGATGATACACTGTGTGTGCCAGTATAGATGTC-TCGATTT-ACCGATGATATACTG
* * * * * * *
16608201 TATGTGCCCGTACAGATGCATCGATTT-CTTCGATGATGCA-TAATGTGTACCAGTATAGATGA-
64 TGTGTGCCAGTATAGATGCCTCGATTTAC-TCGATGATGCACT-GTGTGTGCAAGTATAGAT-AC
16608263 CTCG
126 CTCG
* * * * * * * **
16608267 ATTTAC-CCGATGATGCACTTTATGTGTCAGTATAGATG-CTTCGATTTACCAAATGATCTTTTG
1 ATTTACTCAGATGATACACTGTGTGTGCCAGTATAGATGTC-TCGATTTACC-GATGATATACTG
* * * * * *
16608330 TATATTG---GTATAGATGCCTC-AGTTTACCCGATGATGCAGTGTGTGTTTGCTAGTATAAATA
64 TGT-GTGCCAGTATAGATGCCTCGA-TTTACTCGATGATGCACTGTGTG--TGCAAGTATAGATA
*
16608391 TCTC-
125 CCTCG
* ** * * **
16608395 AGTTTACAC-GATG-T--ACTGTGTGTGCCAGTATAGATACCTTGGTTTACTCGATGATGCAC--
1 A-TTTACTCAGATGATACACTGTGTGTGCCAGTATAGATGTCTCGATTTAC-CGATGATATACTG
* * * * * * * ** * *
16608454 TGTGTGACAATATAGATGTCTTGGTTTACCCGATTATGCACTGCATGTGCCAGTATAGATACGTC
64 TGTGTGCCAGTATAGATGCCTCGATTTACTCGATGATGCACTGTGTGTGCAAGTATAGATACCTC
16608519 -
129 G
* * * ** * * *
16608519 AGTTCAGTC-GATTATTTACGGTGTGTGCCAATATAGATGTCTTGATTTACCCGATGATATACTG
1 A-TTTACTCAGATGATACACTGTGTGTGCCAGTATAGATGTCTCGATTTA-CCGATGATATACTG
* * * * *
16608583 TGTGTGCCAATATAGATGTCTAGATTTACTCGATGATGCATTGTGTGTGCAAGTATAGATACCAC
64 TGTGTGCCAGTATAGATGCCTCGATTTACTCGATGATGCACTGTGTGTGCAAGTATAGATACCTC
16608648 G
129 G
* * * * * * * *
16608649 A-TTAATCAGATGATGCACTGTGTGTG-CTGACATAGATGCCTCGATTTACCCACCGATTTACTG
1 ATTTACTCAGATGATACACTGTGTGTGCCAG-TATAGATGTCTCGATTTACCGA-TGATATACTG
* * * * * * * * *
16608712 TGTGTGCCAGGATAGATGCATCGATTTACTCGATGAAGTACTGCGTGTACTATTATAGATGCCTC
64 TGTGTGCCAGTATAGATGCCTCGATTTACTCGATGATGCACTGTGTGTGCAAGTATAGATACCTC
16608777 G
129 G
* * * ** *
16608778 ATTTACT-TGATGATACACTGTGTGTGCCCGTATAGATGTCTCGATTTACTGGATGATGCACTAT
1 ATTTACTCAGATGATACACTGTGTGTGCCAGTATAGATGTCTCGATTTAC-CGATGATATACTGT
* * * * * * *
16608842 GTGTGCCAGTATAGATGCCTCGATGTACTCGATGATGGACTATGTTTGCAAGTATAAATTCTTCG
65 GTGTGCCAGTATAGATGCCTCGATTTACTCGATGATGCACTGTGTGTGCAAGTATAGATACCTCG
* ** * * * *
16608907 ATTTAC-CGGATGATGTATTATGTGTACCAGTATA-ATGCCTCGATTTACTCGAT
1 ATTTACTCAGATGATACACTGTGTGTGCCAGTATAGATGTCTCGATTTAC-CGAT
16608960 AGTATAAATA
Statistics
Matches: 931, Mismatches: 225, Indels: 98
0.74 0.18 0.08
Matches are distributed among these distances:
123 2 0.00
124 25 0.03
125 1 0.00
126 155 0.17
127 160 0.17
128 51 0.05
129 521 0.56
130 16 0.02
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (129 bp):
ATTTACTCAGATGATACACTGTGTGTGCCAGTATAGATGTCTCGATTTACCGATGATATACTGTG
TGTGCCAGTATAGATGCCTCGATTTACTCGATGATGCACTGTGTGTGCAAGTATAGATACCTCG
Found at i:16609126 original size:43 final size:43
Alignment explanation
Indices: 16608974--16609663 Score: 291
Period size: 43 Copynumber: 16.4 Consensus size: 43
16608964 TAAATACCTT
* * * * * * **
16608974 GATTAACCCGATGATGCACTGTGTATCCCAATATAAATACCTC
1 GATTTACCCGATGATGCATTGTGTGTGCCAGTATAGATGTCTC
* * * * * * **
16609017 GGTTTACTCGATAATGCA--CTGTGTACCAGGATAGATACCTC
1 GATTTACCCGATGATGCATTGTGTGTGCCAGTATAGATGTCTC
* * * * *
16609058 GATTTACTCGATAATGTACTCTGTGTGCCAGTATAGATGTCTC
1 GATTTACCCGATGATGCATTGTGTGTGCCAGTATAGATGTCTC
* * * *
16609101 GATTTACCCGATGATGTATTGTGTGTGCCCGTATAAATGCCTTC
1 GATTTACCCGATGATGCATTGTGTGTGCCAGTATAGATGTC-TC
***
16609145 G-TTTATTAGATGATGCATTGTGTGTGCTC-GTATAGATAGGT-TC
1 GATTTACCCGATGATGCATTGTGTGTGC-CAGTATAGAT--GTCTC
** * * *
16609188 G-TTTACCCGATGATG--TACTGTGTGCCCGTATAGATGGTTTT
1 GATTTACCCGATGATGCATTGTGTGTGCCAGTATAGAT-GTCTC
** *
16609229 G-TGCACCCGATGATGCATTGTGTGTG-CACGTATAGATGTTTC
1 GATTTACCCGATGATGCATTGTGTGTGCCA-GTATAGATGTCTC
* * * * * * *
16609271 TG-TTTAGCCGATAATGCACTGTGTATTCCCGTATAGATGATTTC
1 -GATTTACCCGATGATGCATTGTGTGTGCCAGTATAGATG-TCTC
* * * * * *
16609315 -CTTCACCCGATGA--C-TT-TGTGTACCCGTATAGATGCTTTT
1 GATTTACCCGATGATGCATTGTGTGTGCCAGTATAGATG-TCTC
*** * * *
16609354 G-TTTACCCGATGGCACACTGTGTGTGCCCGTATAGATG-CGTT
1 GATTTACCCGATGATGCATTGTGTGTGCCAGTATAGATGTC-TC
** * * * **
16609396 GATTTACTTGAGGATGCA--CTGTGT-CGA-TATAGATCCCTC
1 GATTTACCCGATGATGCATTGTGTGTGCCAGTATAGATGTCTC
*** * * *
16609435 GATTTATTTGGTGATGTACTGTGTGT--CAGTATAGATG-CGTC
1 GATTTACCCGATGATGCATTGTGTGTGCCAGTATAGATGTC-TC
* **
16609476 GATTTACCCGATGATGCATTGTGTGTGCC-GATATTGATCCCTC
1 GATTTACCCGATGATGCATTGTGTGTGCCAG-TATAGATGTCTC
*
16609519 GATTTACCCGATGATGCACTGTGTGTGCCAGTATAGATGTCTC
1 GATTTACCCGATGATGCATTGTGTGTGCCAGTATAGATGTCTC
* * * * * * *
16609562 AATGTACTCGATGATGGACTGTGTTTGCAAGTATAGATG-CATC
1 GATTTACCCGATGATGCATTGTGTGTGCCAGTATAGATGTC-TC
* * * * ** *
16609605 GGTCTATCGGATGATGCATTGTGTGTGCCAGTATAGATACCAC
1 GATTTACCCGATGATGCATTGTGTGTGCCAGTATAGATGTCTC
*
16609648 GGTTTACCCGATGATG
1 GATTTACCCGATGATG
16609664 TATTTTGTAT
Statistics
Matches: 500, Mismatches: 113, Indels: 68
0.73 0.17 0.10
Matches are distributed among these distances:
39 51 0.10
40 9 0.02
41 104 0.21
42 11 0.02
43 312 0.62
44 12 0.02
45 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (43 bp):
GATTTACCCGATGATGCATTGTGTGTGCCAGTATAGATGTCTC
Found at i:16609276 original size:127 final size:125
Alignment explanation
Indices: 16609106--16609392 Score: 301
Period size: 127 Copynumber: 2.3 Consensus size: 125
16609096 GTCTCGATTT
* * ** * * *
16609106 ACCCGATGATGTATTGTGTGTGCCCGTATAAATGCCTTCGTTTATTAGATGATGCATTGTGTGTG
1 ACCCGATGATGCATTGTGTGTGCCCGTATAGATGCCTTCGTTTAGCAGATAATGCACTGTGTATG
* * * * *
16609171 CTCGTATAGAT-AGGTTCGTTTACCCGATGA-TGTACTGTGTGCCCGTATAGATGGTTTTGTGC
66 CCCGTATAGATGA-GTTCCTTCACCCGATGACT-T--TGTGTACCCGTATAGATGCTTTTGTGC
* * *
16609233 ACCCGATGATGCATTGTGTGTGCACGTATAGATG-TTTCTGTTTAGCCGATAATGCACTGTGTAT
1 ACCCGATGATGCATTGTGTGTGCCCGTATAGATGCCTTC-GTTTAGCAGATAATGCACTGTGTAT
* * **
16609297 TCCCGTATAGATGATTTCCTTCACCCGATGACTTTGTGTACCCGTATAGATGCTTTTGTTT
65 GCCCGTATAGATGAGTTCCTTCACCCGATGACTTTGTGTACCCGTATAGATGCTTTTGTGC
*** *
16609358 ACCCGATGGCACACTGTGTGTGCCCGTATAGATGC
1 ACCCGATGATGCATTGTGTGTGCCCGTATAGATGC
16609393 GTTGATTTAC
Statistics
Matches: 132, Mismatches: 24, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
125 52 0.39
126 3 0.02
127 75 0.57
128 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (125 bp):
ACCCGATGATGCATTGTGTGTGCCCGTATAGATGCCTTCGTTTAGCAGATAATGCACTGTGTATG
CCCGTATAGATGAGTTCCTTCACCCGATGACTTTGTGTACCCGTATAGATGCTTTTGTGC
Found at i:16609364 original size:82 final size:84
Alignment explanation
Indices: 16609153--16609391 Score: 238
Period size: 82 Copynumber: 2.8 Consensus size: 84
16609143 TCGTTTATTA
* * * *
16609153 GATGATGCATTGTGTGTGCTCGTATAGATAGGTTC-GTTTACCCGATGATGTACTGTG-TGCCCG
1 GATGA-GCATTGTGTGTACACGTATAGAT-GTTTCTGTTTACCCGATGATGCACTGTGTTGCCCG
* **
16609216 TATAGATGGTTTTGTGCACCC
64 TATAGATGATTTCCTGCACCC
* * * *
16609237 GATGATGCATTGTGTGTGCACGTATAGATGTTTCTGTTTAGCCGATAATGCACTGTGTATTCCCG
1 GATGA-GCATTGTGTGTACACGTATAGATGTTTCTGTTTACCCGATGATGCACTGTGT-TGCCCG
*
16609302 TATAGATGATTTCCTTCACCC
64 TATAGATGATTTCCTGCACCC
* ***
16609323 GATGA-C-TT-TGTGTACCCGTATAGATGCTTT-TGTTTACCCGATGGCACACTGTGTGTGCCCG
1 GATGAGCATTGTGTGTACACGTATAGATG-TTTCTGTTTACCCGATGATGCACTGTGT-TGCCCG
16609384 TATAGATG
64 TATAGATG
16609392 CGTTGATTTA
Statistics
Matches: 132, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
82 48 0.36
83 9 0.07
84 48 0.36
86 27 0.20
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (84 bp):
GATGAGCATTGTGTGTACACGTATAGATGTTTCTGTTTACCCGATGATGCACTGTGTTGCCCGTA
TAGATGATTTCCTGCACCC
Found at i:16609540 original size:84 final size:81
Alignment explanation
Indices: 16609355--16609557 Score: 210
Period size: 84 Copynumber: 2.4 Consensus size: 81
16609345 GATGCTTTTG
*** * * **
16609355 TTTACCCGATGGCACACTGTGTGTGCCCGTATAGATGCGTTGATTTACTTGAGGATGCACTGTGT
1 TTTACCCGATGATGCACTGTGTGT-CCAGTATAGATGCGTCGATTTACCCGAGGATGCACTGTGT
16609420 CGATATAGATCCCTCGA
65 CGATATAGATCCCTCGA
*** * * * *
16609437 TTTATTTGGTGATGTACTGTGTGT-CAGTATAGATGCGTCGATTTACCCGATGATGCATTGTGTG
1 TTTACCCGATGATGCACTGTGTGTCCAGTATAGATGCGTCGATTTACCCGAGGATGCA--CTGTG
*
16609501 TGCCGATATTGATCCCTCGA
64 T--CGATATAGATCCCTCGA
16609521 TTTACCCGATGATGCACTGTGTGTGCCAGTATAGATG
1 TTTACCCGATGATGCACTGTGTGT-CCAGTATAGATG
16609558 TCTCAATGTA
Statistics
Matches: 95, Mismatches: 20, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
80 28 0.29
82 21 0.22
84 35 0.37
86 11 0.12
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.34
Consensus pattern (81 bp):
TTTACCCGATGATGCACTGTGTGTCCAGTATAGATGCGTCGATTTACCCGAGGATGCACTGTGTC
GATATAGATCCCTCGA
Found at i:16609955 original size:42 final size:40
Alignment explanation
Indices: 16609899--16610112 Score: 139
Period size: 41 Copynumber: 5.2 Consensus size: 40
16609889 ATATTGATTG
* * *
16609899 TGTGTGCTCA-TATAGATACCTCT-ATTATCCAATGATGCAT
1 TGTGTG-TCAGTATAGATACCT-TGATTACCCAATGACGCAC
* *
16609939 TGTGTGTCACCGTATAGATGCCTTGGTTACCCAATGACGCAC
1 TGTGTGTCA--GTATAGATACCTTGATTACCCAATGACGCAC
* * * *
16609981 TGTGTGTCAGTATAGAT-GCTTCGATTTACTCGATGATGCAC
1 TGTGTGTCAGTATAGATACCTT-GA-TTACCCAATGACGCAC
* * * *
16610022 TATGTGTGCTAGTATAGATACCTTGATTTACCCGATGATGCAT
1 TGTGTGT-C-AGTATAGATACCTTGA-TTACCCAATGACGCAC
* * * *
16610065 TGT-TCGTAAGTATAGATCCCTCTGTTTACCCAATGATGCAC
1 TGTGT-GTCAGTATAGATACCT-TGATTACCCAATGACGCAC
*
16610106 AGTGTGT
1 TGTGTGT
16610113 GCCATAATAG
Statistics
Matches: 141, Mismatches: 21, Indels: 23
0.76 0.11 0.12
Matches are distributed among these distances:
39 6 0.04
40 15 0.11
41 50 0.35
42 37 0.26
43 30 0.21
44 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (40 bp):
TGTGTGTCAGTATAGATACCTTGATTACCCAATGACGCAC
Found at i:16610036 original size:43 final size:42
Alignment explanation
Indices: 16609972--16612511 Score: 639
Period size: 43 Copynumber: 60.2 Consensus size: 42
16609962 TGGTTACCCA
*
16609972 ATGACGCACTGTGTGT-C-AGTATAGATGCTTCGATTTACTCG
1 ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGATTTA-TCG
* * *
16610013 ATGATGCACTATGTGTGCTAGTATAGATACCTT-GATTTACCCG
1 ATGATGCACTGTGTGTGCTAGTATAGAT-GCTTCGATTTA-TCG
* * * *
16610056 ATGATGCA-T-TGT-T-CGTAAGTATAGATCCCTCTG-TTTACCCA
1 ATGATGCACTGTGTGTGC-T-AGTATAGATGCTTC-GATTTA-TCG
* * **
16610097 ATGATGCACAGTGTGTGCCA-TAATAGATTTTTCGATTTATTCG
1 ATGATGCACTGTGTGTGCTAGT-ATAGATGCTTCGATTTA-TCG
* * * * * *
16610140 ATTATACA-T-TGTGTGCTAGTGTAGATGTTTTCG-TTTTTTG
1 ATGATGCACTGTGTGTGCTAGTATAGATG-CTTCGATTTATCG
* *
16610180 ATGATGCATTGTGTGT-CGA-TATAGATGCTTTC-ATTTATTCG
1 ATGATGCACTGTGTGTGCTAGTATAGATGC-TTCGATTTA-TCG
* * * * * * * ** * *
16610221 GTGATGAAATATATGTG-TCGGTATCGACCCTTCAGTTTTATCCT
1 ATGATGCACTGTGTGTGCT-AGTATAGATGCTTC-GATTTAT-CG
* * * * * * *
16610265 ATTACGCACTGTGTGTGCCAGTATATATGTTTCGGTGTATCTG
1 ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGATTTATC-G
* * ** * * *
16610308 ACGGTATACT-T-TGTGCGTCAGTATAGATGGTTTTG-TTTATCTA
1 ATGATGCACTGTGTGTGC-T-AGTATAGAT-GCTTCGATTTATC-G
* * * * *
16610351 ATGATGCATTTTGTGTG-TCAGTATAGATACTTCCATTTATCCA
1 ATGATGCACTGTGTGTGCT-AGTATAGATGCTTCGATTTAT-CG
* * * * *
16610394 ATAATGCACTTTGTGTGCCAGTATTGATGTTTTCG--TTATCCG
1 ATGATGCACTGTGTGTGCTAGTATAGATG-CTTCGATTTAT-CG
* * * * *
16610436 ATGATGCATTATGTATG-TCAGTATAAATGGTTC-AGTTTACTCG
1 ATGATGCACTGTGTGTGCT-AGTATAGATGCTTCGA-TTTA-TCG
* * *
16610479 AT-ATTACAC--AGTGTGCCAGTATAGATGCTTC-AGTTTATTCG
1 ATGA-TGCACTGTGTGTGCTAGTATAGATGCTTCGA-TTTA-TCG
* * * *
16610520 ATAATGCACAGTGTGTGCTAGTATAAATGCTTCAATTTATTCG
1 ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGATTTA-TCG
* * * ** * * *
16610563 ATGGTGCATTGAGTGTGCCCGTATAGATGTTTCGGTGTATCCG
1 ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGATTTAT-CG
* * * * *
16610606 ATTATGTA-T-TATGT-C-AGTATAGTTGCTTCGATTTACCTG
1 ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGATTTATC-G
* * * * * *
16610645 ATGATGCACTCTGTGTGCGAGCATAAATGCTTCGGTTTATTAG
1 ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGATTTA-TCG
* * * * * *
16610688 ATGATGCAC--TGTGTACCAGCATAGATGCTTTGGTTTATTAG
1 ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGATTTA-TCG
* * * * * *
16610729 ATGATGCACTGTGTGT-C-AATATTGATACTT-TAGTTTTTTG
1 ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGA-TTTATCG
* * * *
16610769 --GATACACTGTGTGT-ATCAGTATAGAT-ATATCGGTTTATCCG
1 ATGATGCACTGTGTGTGCT-AGTATAGATGCT-TCGATTTAT-CG
* * * * **
16610810 ATGATGCGCTGTGTGTGCCAGTATGGATGCTTC-AGTTCATTAA
1 ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGA-TTTA-TCG
* * * * * **
16610853 ATGATACACTATATGTGCCAGTATAAATGCTTCGATTTACTTA
1 ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGATTTA-TCG
* * ** * *
16610896 ATGATGCATTGTGTGTGCCAGTATAGATTTTTTGATTTATTAG
1 ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGATTTA-TCG
* * * *
16610939 ATGAT--ATTGTGTGTGCCAATATA-ATTGCTTCGATTTATTTG
1 ATGATGCACTGTGTGTGCTAGTATAGA-TGCTTCGATTTA-TCG
* * * * *
16610980 ATGATGCACTGT-TGTTCCAATATAAATGCTT-AAGTTTATTCG
1 ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGA-TTTA-TCG
* * *
16611022 ATGATGCATTGTGTGTG-TCAGTATATATGCTTTTG-TTTATTCG
1 ATGATGCACTGTGTGTGCT-AGTATAGATGC-TTCGATTTA-TCG
* *
16611065 ATTATGCACTGTGTGTGCCAGTAT---T--TTC-ATTATATTCG
1 ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGATT-TA-TCG
* * * **
16611103 ATGATGCACGGTGTGTGCCAGTATAGATGTTTC-AGTGCATCCG
1 ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGA-TTTAT-CG
* * * *
16611146 ATGATGCATTGTGTAT-C-AATATAGATGCTTCGATTTACCTG
1 ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGATTTATC-G
* * * * * * * **
16611187 ATGGTGTAATTTATGTGCCAGTATCGATTATTCGATTTATTCG
1 ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGATTTA-TCG
*
16611230 ATTG-TGCACTGTGTGT-TTCAGTATTA-ATGCTTC-AGTTTATC-
1 A-TGATGCACTGTGTGTGCT-AGTA-TAGATGCTTCGA-TTTATCG
* ** * * * * *
16611271 -TTATAAACTCTTTTTGCTAATTTAGATGCTTCGATTTATTCG
1 ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGATTTA-TCG
* *** * * *
16611313 ATGATGGAAAATGTGTGCCAGTATAGGTGCTTCGGTTTATTCG
1 ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGATTTA-TCG
* * * * *
16611356 ATGAAGCATTATGTGTGCCAGTATATATGCTTCGATTTATTCG
1 ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGATTTA-TCG
* * *
16611399 AAGATGCACTGTGTGTACTAGTAT---T--TTC--TGTATCTG
1 ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGATTTATC-G
* * *
16611435 ATGATGCACTGTGTGT-C-AGTATAGATGTTTCAATGTATCCG
1 ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGATTTAT-CG
* **
16611476 ATGATGTACAATGTGTGAC-AGTATAGATGCTTC-AGTTTATCCG
1 ATGATGCACTGTGTGTG-CTAGTATAGATGCTTCGA-TTTAT-CG
* *
16611519 AAGATGCACTGTGTTTGCTAGTATAGATGCTTCGATTTATCTG
1 ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGATTTATC-G
* * * * *
16611562 ATGATGCACTGTGTATGCCAGTATAGGTGCTTCGGTTTATCCA
1 ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGATTTAT-CG
* * * *
16611605 ATGATGCATTATGTGTGCTAGTAT---T--TTCGGTGTATCCG
1 ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGATTTAT-CG
* ** *
16611643 ATGATGCACAATGTGTGT-C-AGTATAGATGCTTCTATTTCCCA
1 ATGATGCAC--TGTGTGTGCTAGTATAGATGCTTCGATTTATCG
* * * * * *
16611685 ATGATGCACTATGTGGGTATCAATATAGATGTTTCGGTTTATCCG
1 ATGATGCACTGTGTGTG-CT-AGTATAGATGCTTCGATTTAT-CG
* * * *
16611730 ATGATGCACTGTGTGGATGCCAGTATAGATTCTTTGATATATCCG
1 ATGATGCACTGTGT-G-TGCTAGTATAGATGCTTCGATTTAT-CG
* ** * * * * *
16611775 TTGATAAACTGTATGTGCCT-GTAT-GGTAACTT-TAGTATAATCG
1 ATGATGCACTGTGTGTG-CTAGTATAGAT-GCTTCGA-T-TTATCG
* * * * * * *
16611818 ATGATGCATTAT-TCGTGTTAGTATCGATGGTTTGGTTT-TCCCG
1 ATGATGCACTGTGT-GTGCTAGTATAGATGCTTCGATTTAT--CG
* * * *
16611861 ATTATGCACTGTGTGTGCCAGTATAGATGCTTCAATTTACCCG
1 ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGATTTA-TCG
* * * * *
16611904 ATGATGCACTTTGTGGATGTCAAG-ATAGATTCTTTGATATATCCG
1 ATGATGCACTGTGT-G-TG-CTAGTATAGATGCTTCGATTTAT-CG
* * * * * * * * * *
16611949 ATAATGAATTGTATGTGCCT-GTATGGTTACTTCGGTATAATCA
1 ATGATGCACTGTGTGTG-CTAGTATAGATGCTTCGAT-TTATCG
* * * * * * * *
16611992 ATGATGCATTAT-TCGTG-TCAGTATCGATGATTTGGTTTTTCTA
1 ATGATGCACTGTGT-GTGCT-AGTATAGATGCTTCGATTTATC-G
* * ** *
16612035 ATTATGCACTGTGTGTGCCAGTATAGATGCTTTAATTTACCCG
1 ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGATTTA-TCG
* ** *
16612078 ATGATGAACTGTAAGTGCTAGTATAGATTCTTCGATTTATCTG
1 ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGATTTATC-G
* * * *
16612121 ATGATGTAC--TATATGCATCAATATAGATGCTTTCG-TTTATCCG
1 ATGATGCACTGTGTGTGC-T-AGTATAGATGC-TTCGATTTAT-CG
* * *
16612164 TTGATGTACTGTTTGTG-TCAGTATAGATGCTTCTG-TTTATCTG
1 ATGATGCACTGTGTGTGCT-AGTATAGATGCTTC-GATTTATC-G
* *
16612207 ATGATGCACTATGTGTGCTAATATAGATGCTTCGATTTATTCG
1 ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGATTTA-TCG
* *
16612250 ATGATGCATTGTGTGTGTCT-GTGTAGATGCTTCGATTTATTCG
1 ATGATGCACTGTGTGTG-CTAGTATAGATGCTTCGATTTA-TCG
* * * *
16612293 ATGATGCATTGTTTGTGCCAGTATAGATGTTTCGATTTATTCG
1 ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGATTTA-TCG
* * * * * *
16612336 ATGATGCAC--TATGTACCAATATAGATGTTTC-AGTGTATC-
1 ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGA-TTTATCG
* * * * *
16612375 -TGATGTACTATTTTTG-TCAGTATAGTTGCTTC-AGTTTATC-
1 ATGATGCACTGTGTGTGCT-AGTATAGATGCTTCGA-TTTATCG
* * * *
16612415 -CGATGCATTGTACGTGTGCTAGTATAGATGATTCGATTTATCCA
1 ATGATGCACTGT--GTGTGCTAGTATAGATGCTTCGATTTAT-CG
* * * * * *
16612459 ATGATACGCTCTGTATGCTAGTATAGATGCTTCAATTTTTTCG
1 ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGA-TTTATCG
16612502 ATGATGCACT
1 ATGATGCACT
16612512 ATGGGCCAGT
Statistics
Matches: 1843, Mismatches: 469, Indels: 372
0.69 0.17 0.14
Matches are distributed among these distances:
34 5 0.00
35 3 0.00
36 19 0.01
37 5 0.00
38 76 0.04
39 31 0.02
40 109 0.06
41 283 0.15
42 150 0.08
43 981 0.53
44 93 0.05
45 83 0.05
46 4 0.00
47 1 0.00
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.40
Consensus pattern (42 bp):
ATGATGCACTGTGTGTGCTAGTATAGATGCTTCGATTTATCG
Found at i:16610153 original size:125 final size:125
Alignment explanation
Indices: 16609899--16610165 Score: 289
Period size: 125 Copynumber: 2.1 Consensus size: 125
16609889 ATATTGATTG
* * *
16609899 TGTGTGCTCA-TATAGATACCTCTATTATCCAATGATGCATTGTGTGTCACCGTATAGATGCCTT
1 TGTGTGCT-AGTATAGATACCTCTATTACCCAATGATGCATTGTGTGTCACAGTATAGATCCCTT
* *
16609963 GGTTACCCAATGACGCACTGTGTGTCAGTATAGATGCTTCGATTTACTCGATGATGCACTA
65 GGTTACCCAATGACGCACTGTGTGCCAGTATAGATGCTTCGATTTACTCGATGATACACTA
*
16610024 TGTGTGCTAGTATAGATACCT-TGATTTACCCGATGATGCATTGT-TCGT-A-AGTATAGATCCC
1 TGTGTGCTAGTATAGATACCTCT-A-TTACCCAATGATGCATTGTGT-GTCACAGTATAGATCCC
* * ** * *
16610085 TCTGTTTACCCAATGATGCACAGTGTGTGCCA-TAATAGATTTTTCGATTTATTCGATTATACA-
63 T-TGGTTACCCAATGACGCAC--TGTGTGCCAGT-ATAGATGCTTCGATTTACTCGATGATACAC
16610148 T-
124 TA
*
16610149 TGTGTGCTAGTGTAGAT
1 TGTGTGCTAGTATAGAT
16610166 GTTTTCGTTT
Statistics
Matches: 121, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
124 13 0.11
125 55 0.45
126 21 0.17
127 32 0.26
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (125 bp):
TGTGTGCTAGTATAGATACCTCTATTACCCAATGATGCATTGTGTGTCACAGTATAGATCCCTTG
GTTACCCAATGACGCACTGTGTGCCAGTATAGATGCTTCGATTTACTCGATGATACACTA
Found at i:16611414 original size:86 final size:86
Alignment explanation
Indices: 16609972--16612526 Score: 813
Period size: 86 Copynumber: 30.3 Consensus size: 86
16609962 TGGTTACCCA
* * * *
16609972 ATGACGCACTGTGTGT--CAGTATAGATGCTTC-GATTTACTCGATGATGCACTATGTGTGCTAG
1 ATGATGCACTGTGTGTGCCAGTATAGATGCTTCAG-TTTATTCGATGATGCATTATGTGTGCCAG
* **
16610034 TATAGATACCTT-GATTTACCCG
65 TATAGAT-GCTTCGATTTATTCG
** * * * ** * *
16610056 ATGATGCA-T-TGT-TCGTAAGTATAGATCCCTCTGTTTACCCAATGATGCA-CAGTGTGTGCCA
1 ATGATGCACTGTGTGT-GCCAGTATAGATGCTTCAGTTTATTCGATGATGCATTA-TGTGTGCCA
**
16610117 -TAATAGATTTTTCGATTTATTCG
64 GT-ATAGATGCTTCGATTTATTCG
* * * * * * * *
16610140 ATTATACA-T-TGTGTGCTAGTGTAGATGTTTTC-GTTT-TTTGATGATGCATTGTGTGT-CGA-
1 ATGATGCACTGTGTGTGCCAGTATAGATG-CTTCAGTTTATTCGATGATGCATTATGTGTGCCAG
16610199 TATAGATGCTTTC-ATTTATTCG
65 TATAGATGC-TTCGATTTATTCG
* * * * * * * * ** * * * * * *
16610221 GTGATGAAATATATGTGTCGGTATCGACCCTTCAGTTTTATCCTATTACGCACTGTGTGTGCCAG
1 ATGATGCACTGTGTGTGCCAGTATAGATGCTTCAG-TTTATTCGATGATGCATTATGTGTGCCAG
* * * *
16610286 TATATATGTTTCGGTGTA-TCTG
65 TATAGATGCTTCGATTTATTC-G
* * ** * * * * ** * * *
16610308 ACGGTATACTTTGTGCGTCAGTATAGATGGTTTTGTTTA-TCTAATGATGCATTTTGTGTGTCAG
1 ATGATGCACTGTGTGTGCCAGTATAGATGCTTCAGTTTATTC-GATGATGCATTATGTGTGCCAG
* * * *
16610372 TATAGATACTTCCATTTATCCA
65 TATAGATGCTTCGATTTATTCG
* * * * * * *
16610394 ATAATGCACTTTGTGTGCCAGTATTGATGTTTTC-G-TTATCCGATGATGCATTATGTATGTCAG
1 ATGATGCACTGTGTGTGCCAGTATAGATG-CTTCAGTTTATTCGATGATGCATTATGTGTGCCAG
* * *
16610457 TATAAATGGTTC-AGTTTACTCG
65 TATAGATGCTTCGA-TTTATTCG
* * * * *
16610479 AT-ATTACAC--AGTGTGCCAGTATAGATGCTTCAGTTTATTCGATAATGCA-CAGTGTGTGCTA
1 ATGA-TGCACTGTGTGTGCCAGTATAGATGCTTCAGTTTATTCGATGATGCATTA-TGTGTGCCA
* *
16610540 GTATAAATGCTTCAATTTATTCG
64 GTATAGATGCTTCGATTTATTCG
* * * * * * * * * *
16610563 ATGGTGCATTGAGTGTGCCCGTATAGATGTTTCGGTGTATCCGATTATGTATTA--TGT--CAGT
1 ATGATGCACTGTGTGTGCCAGTATAGATGCTTCAGTTTATTCGATGATGCATTATGTGTGCCAGT
* *
16610624 ATAGTTGCTTCGATTTA-CCTG
66 ATAGATGCTTCGATTTATTC-G
* * * * * * * * *
16610645 ATGATGCACTCTGTGTGCGAGCATAAATGCTTCGGTTTATTAGATGATGCA--CTGTGTACCAGC
1 ATGATGCACTGTGTGTGCCAGTATAGATGCTTCAGTTTATTCGATGATGCATTATGTGTGCCAGT
* * *
16610708 ATAGATGCTTTGGTTTATTAG
66 ATAGATGCTTCGATTTATTCG
* * * * * * * * **
16610729 ATGATGCACTGTGTGT--CAATATTGATACTTTAGTTT-TTTG--GATACACTGTGTGTATCAGT
1 ATGATGCACTGTGTGTGCCAGTATAGATGCTTCAGTTTATTCGATGATGCATTATGTGTGCCAGT
* * *
16610789 ATAGAT-ATATCGGTTTATCCG
66 ATAGATGCT-TCGATTTATTCG
* * * ** * * *
16610810 ATGATGCGCTGTGTGTGCCAGTATGGATGCTTCAGTTCATTAAATGATACACTATATGTGCCAGT
1 ATGATGCACTGTGTGTGCCAGTATAGATGCTTCAGTTTATTCGATGATGCATTATGTGTGCCAGT
* *
16610875 ATAAATGCTTCGATTTACTT-A
66 ATAGATGCTTCGATTTA-TTCG
* * ** * * *
16610896 ATGATGCATTGTGTGTGCCAGTATAGAT-TTTTTGATTTATTAGATGAT--ATTGTGTGTGCCAA
1 ATGATGCACTGTGTGTGCCAGTATAGATGCTTCAG-TTTATTCGATGATGCATTATGTGTGCCAG
*
16610958 TATA-ATTGCTTCGATTTATTTG
65 TATAGA-TGCTTCGATTTATTCG
* * * * * *
16610980 ATGATGCACTGT-TGTTCCAATATAAATGCTTAAGTTTATTCGATGATGCATTGTGTGTGTCAGT
1 ATGATGCACTGTGTGTGCCAGTATAGATGCTTCAGTTTATTCGATGATGCATTATGTGTGCCAGT
* *
16611044 ATATATGCTTTTG-TTTATTCG
66 ATAGATGC-TTCGATTTATTCG
* ***
16611065 ATTATGCACTGTGTGTGCCAGTAT---T--TTCA-TTATATTCGATGATGCACGGTGTGTGCCAG
1 ATGATGCACTGTGTGTGCCAGTATAGATGCTTCAGTT-TATTCGATGATGCATTATGTGTGCCAG
* ** *
16611124 TATAGATGTTTC-AGTGCATCCG
65 TATAGATGCTTCGA-TTTATTCG
** * * * * *
16611146 ATGATGCA-T-TGTGTATCAATATAGATGCTTC-GATTTA-CCTGATGGTGTAATT-TATGTGCC
1 ATGATGCACTGTGTGTGCCAGTATAGATGCTTCAG-TTTATTC-GATGATG-CATTATGTGTGCC
* **
16611206 AGTATCGATTATTCGATTTATTCG
63 AGTATAGATGCTTCGATTTATTCG
** * ** * * * * *
16611230 ATTG-TGCACTGTGTGTTTCAGTATTA-ATGCTTCAGTTTA-TC--TTATAAACTCTTTTTGCTA
1 A-TGATGCACTGTGTGTGCCAGTA-TAGATGCTTCAGTTTATTCGATGATGCATTATGTGTGCCA
* *
16611290 ATTTAGATGCTTCGATTTATTCG
64 GTATAGATGCTTCGATTTATTCG
* *** * * *
16611313 ATGATGGAAAATGTGTGCCAGTATAGGTGCTTCGGTTTATTCGATGAAGCATTATGTGTGCCAGT
1 ATGATGCACTGTGTGTGCCAGTATAGATGCTTCAGTTTATTCGATGATGCATTATGTGTGCCAGT
*
16611378 ATATATGCTTCGATTTATTCG
66 ATAGATGCTTCGATTTATTCG
* * * * * *
16611399 AAGATGCACTGTGTGTACTAGTAT---T--TTC--TGTA-TCTGATGATGCA--CTGTGTGTCAG
1 ATGATGCACTGTGTGTGCCAGTATAGATGCTTCAGTTTATTC-GATGATGCATTATGTGTGCCAG
* * * *
16611454 TATAGATGTTTCAATGTATCCG
65 TATAGATGCTTCGATTTATTCG
* ** * * * * * * *
16611476 ATGATGTACAATGTGTGACAGTATAGATGCTTCAGTTTATCCGAAGATGCACTGTGTTTGCTAGT
1 ATGATGCACTGTGTGTGCCAGTATAGATGCTTCAGTTTATTCGATGATGCATTATGTGTGCCAGT
16611541 ATAGATGCTTCGATTTA-TCTG
66 ATAGATGCTTCGATTTATTC-G
* * * * * *
16611562 ATGATGCACTGTGTATGCCAGTATAGGTGCTTCGGTTTATCCAATGATGCATTATGTGTGCTAGT
1 ATGATGCACTGTGTGTGCCAGTATAGATGCTTCAGTTTATTCGATGATGCATTATGTGTGCCAGT
* * *
16611627 AT---T--TTCGGTGTATCCG
66 ATAGATGCTTCGATTTATTCG
** * ** * * **
16611643 ATGATGCACAATGTGTGTCAGTATAGATGCTTCTA-TTT-CCCAATGATGCACTATGTGGGTATC
1 ATGATGCACTGTGTGTGCCAGTATAGATGCTTC-AGTTTATTCGATGATGCATTATGT--GTGCC
* * * *
16611706 AATATAGATGTTTCGGTTTATCCG
63 AGTATAGATGCTTCGATTTATTCG
* * * * * ** * * *
16611730 ATGATGCACTGTGTGGATGCCAGTATAGATTCTT-TGATATATCCGTTGATAAACTGTATGTGCC
1 ATGATGCACTGTGT-G-TGCCAGTATAGATGCTTCAG-TTTATTCGATGATGCATTATGTGTGCC
* * * * * *
16611794 TGTAT-GGTAACTT-TAGTATAATCG
63 AGTATAGAT-GCTTCGA-TTTATTCG
* * ** * * ** * * * *
16611818 ATGATGCATTAT-TCGTGTTAGTATCGATGGTTTGGTTT-TCCCGATTATGCACTGTGTGTGCCA
1 ATGATGCACTGTGT-GTGCCAGTATAGATGCTTCAGTTTAT-TCGATGATGCATTATGTGTGCCA
* **
16611881 GTATAGATGCTTCAATTTACCCG
64 GTATAGATGCTTCGATTTATTCG
* * * * * * * * * *
16611904 ATGATGCACTTTGTGGATGTCAAG-ATAGATTCTT-TGATATATCCGATAATGAATTGTATGTGC
1 ATGATGCACTGTGT-G-TG-CCAGTATAGATGCTTCAG-TTTATTCGATGATGCATTATGTGTGC
* * * * * * * *
16611967 CTGTATGGTTACTTCGGTATAATCA
62 CAGTATAGATGCTTCGATTTATTCG
* * * * * ** * * * *
16611992 ATGATGCATTAT-TCGTGTCAGTATCGATGATTTGGTTT-TTCTAATTATGCACTGTGTGTGCCA
1 ATGATGCACTGTGT-GTGCCAGTATAGATGCTTCAGTTTATTC-GATGATGCATTATGTGTGCCA
** **
16612055 GTATAGATGCTTTAATTTACCCG
64 GTATAGATGCTTCGATTTATTCG
* ** * * * * * ***
16612078 ATGATGAACTGTAAGTGCTAGTATAGATTCTTC-GATTTA-TCTGATGATGTACTATATGCATCA
1 ATGATGCACTGTGTGTGCCAGTATAGATGCTTCAG-TTTATTC-GATGATGCATTATGTGTGCCA
* *
16612141 ATATAGATGCTTTCG-TTTATCCG
64 GTATAGATGC-TTCGATTTATTCG
* * * * * * * *
16612164 TTGATGTACTGTTTGTGTCAGTATAGATGCTTCTGTTTA-TCTGATGATGCACTATGTGTGCTAA
1 ATGATGCACTGTGTGTGCCAGTATAGATGCTTCAGTTTATTC-GATGATGCATTATGTGTGCCAG
16612228 TATAGATGCTTCGATTTATTCG
65 TATAGATGCTTCGATTTATTCG
* * * * * *
16612250 ATGATGCATTGTGTGTGTCTGTGTAGATGCTTC-GATTTATTCGATGATGCATTGTTTGTGCCAG
1 ATGATGCACTGTGTGTGCCAGTATAGATGCTTCAG-TTTATTCGATGATGCATTATGTGTGCCAG
*
16612314 TATAGATGTTTCGATTTATTCG
65 TATAGATGCTTCGATTTATTCG
* * * * * * * * * *
16612336 ATGATGCAC--TATGTACCAATATAGATGTTTCAGTGTA-TC--TGATGTACTATTTTTGTCAGT
1 ATGATGCACTGTGTGTGCCAGTATAGATGCTTCAGTTTATTCGATGATGCATTATGTGTGCCAGT
*
16612396 ATAGTTGCTTC-AGTTTA-TC-
66 ATAGATGCTTCGA-TTTATTCG
* * * * * * * ** * * *
16612415 -CGATGCATTGTACGTGTGCTAGTATAGATGATTC-GATTTATCCAATGATACGCTCTGTATGCT
1 ATGATGCACTGT--GTGTGCCAGTATAGATGCTTCAG-TTTATTCGATGATGCATTATGTGTGCC
* *
16612478 AGTATAGATGCTTCAATTTTTTCG
63 AGTATAGATGCTTCGATTTATTCG
*
16612502 ATGATGCACTATG-G-GCCAGTATAGA
1 ATGATGCACTGTGTGTGCCAGTATAGA
16612527 GGCATGATGT
Statistics
Matches: 1802, Mismatches: 524, Indels: 290
0.69 0.20 0.11
Matches are distributed among these distances:
77 43 0.02
78 8 0.00
79 26 0.01
80 27 0.01
81 181 0.10
82 123 0.07
83 147 0.08
84 284 0.16
85 151 0.08
86 614 0.34
87 82 0.05
88 85 0.05
89 20 0.01
90 11 0.01
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.40
Consensus pattern (86 bp):
ATGATGCACTGTGTGTGCCAGTATAGATGCTTCAGTTTATTCGATGATGCATTATGTGTGCCAGT
ATAGATGCTTCGATTTATTCG
Found at i:16611544 original size:206 final size:209
Alignment explanation
Indices: 16611332--16611743 Score: 505
Period size: 206 Copynumber: 2.0 Consensus size: 209
16611322 AATGTGTGCC
* * * * *
16611332 AGTATAGGTGCTTCGGTTTAT-TCGATGAAGCATTATGTGTGCCAGTATATATGCTTCGATTTAT
1 AGTATAGATGCTTCGATTTATCT-GATGAAGCACTATGTATGCCAGTATAGATGCTTCGATTTA-
* * *
16611396 TCGAA-GATGCACTGTGTGTACTAGTATTTTC-TGTATCTGATGATGCAC-TGTGTGTCAGTATA
64 TCCAATGATGCACTATGTGTACTAGTATTTTCGTGTATCCGATGATGCACATGTGTGTCAGTATA
* * * * *
16611458 GATGTTTCAATGTAT-CCGATGATGTACAATGTGTG-A-CAGTATAGATGCTTCAGTTTATCCGA
129 GATGCTTCAAT-T-TCCCAATGATGCACAATGTGGGTATCAATATAGATGCTTCAGTTTATCCGA
16611520 AGATGCACTGTGTTTGCT
192 AGATGCACTGTGTTTGCT
* * * *
16611538 AGTATAGATGCTTCGATTTATCTGATGATGCACTGTGTATGCCAGTATAGGTGCTTCGGTTTATC
1 AGTATAGATGCTTCGATTTATCTGATGAAGCACTATGTATGCCAGTATAGATGCTTCGATTTATC
* *
16611603 CAATGATGCATTATGTGTGCTAGTATTTTCGGTGTATCCGATGATGCACAATGTGTGTCAGTATA
66 CAATGATGCACTATGTGTACTAGTATTTTC-GTGTATCCGATGATGCAC-ATGTGTGTCAGTATA
* * * * *
16611668 GATGCTTCTATTTCCCAATGATGCACTATGTGGGTATCAATATAGATGTTTCGGTTTATCCGATG
129 GATGCTTCAATTTCCCAATGATGCACAATGTGGGTATCAATATAGATGCTTCAGTTTATCCGAAG
16611733 ATGCACTGTGT
194 ATGCACTGTGT
16611744 GGATGCCAGT
Statistics
Matches: 173, Mismatches: 24, Indels: 13
0.82 0.11 0.06
Matches are distributed among these distances:
205 4 0.02
206 75 0.43
207 1 0.01
208 17 0.10
209 17 0.10
210 24 0.14
211 35 0.20
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.38
Consensus pattern (209 bp):
AGTATAGATGCTTCGATTTATCTGATGAAGCACTATGTATGCCAGTATAGATGCTTCGATTTATC
CAATGATGCACTATGTGTACTAGTATTTTCGTGTATCCGATGATGCACATGTGTGTCAGTATAGA
TGCTTCAATTTCCCAATGATGCACAATGTGGGTATCAATATAGATGCTTCAGTTTATCCGAAGAT
GCACTGTGTTTGCT
Found at i:16611737 original size:45 final size:45
Alignment explanation
Indices: 16611629--16611745 Score: 123
Period size: 44 Copynumber: 2.7 Consensus size: 45
16611619 GTGCTAGTAT
* * * *
16611629 TTTCGGTGTATCCGATGATGCACAATGT--GTGTCAGTATAGATG
1 TTTCGGTTTATCCGATGATGCACTATGTGGGTATCAATATAGATG
* ** * *
16611672 CTTCTATTT-CCCAATGATGCACTATGTGGGTATCAATATAGATG
1 TTTCGGTTTATCCGATGATGCACTATGTGGGTATCAATATAGATG
*
16611716 TTTCGGTTTATCCGATGATGCACTGTGTGG
1 TTTCGGTTTATCCGATGATGCACTATGTGG
16611746 ATGCCAGTAT
Statistics
Matches: 56, Mismatches: 15, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
42 15 0.27
43 5 0.09
44 19 0.34
45 17 0.30
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.37
Consensus pattern (45 bp):
TTTCGGTTTATCCGATGATGCACTATGTGGGTATCAATATAGATG
Found at i:16611907 original size:174 final size:174
Alignment explanation
Indices: 16611708--16612089 Score: 559
Period size: 174 Copynumber: 2.2 Consensus size: 174
16611698 TGGGTATCAA
* ** * *
16611708 TATAGATGTTTCGGTTTATCCGATGATGCACTGTGTGGATG-CCAGTATAGATTCTTTGATATAT
1 TATAGATGCTTCAATTTACCCGATGATGCACTGTGTGGATGTCAAG-ATAGATTCTTTGATATAT
* * * * *
16611772 CCGTTGATAAACTGTATGTGCCTGTATGGTAACTTTAGTATAATCGATGATGCATTATTCGTGTT
65 CCGATAATAAACTGTATGTGCCTGTATGGTAACTTCAGTATAATCAATGATGCATTATTCGTGTC
* *
16611837 AGTATCGATGGTTTGGTTTTCCCGATTATGCACTGTGTGTGCCAG
130 AGTATCGATGATTTGGTTTTCCCAATTATGCACTGTGTGTGCCAG
*
16611882 TATAGATGCTTCAATTTACCCGATGATGCACTTTGTGGATGTCAAGATAGATTCTTTGATATATC
1 TATAGATGCTTCAATTTACCCGATGATGCACTGTGTGGATGTCAAGATAGATTCTTTGATATATC
* * * *
16611947 CGATAATGAATTGTATGTGCCTGTATGGTTACTTCGGTATAATCAATGATGCATTATTCGTGTCA
66 CGATAATAAACTGTATGTGCCTGTATGGTAACTTCAGTATAATCAATGATGCATTATTCGTGTCA
* *
16612012 GTATCGATGATTTGGTTTTTCTAATTATGCACTGTGTGTGCCAG
131 GTATCGATGATTTGGTTTTCCCAATTATGCACTGTGTGTGCCAG
* *
16612056 TATAGATGCTTTAATTTACCCGATGATGAACTGT
1 TATAGATGCTTCAATTTACCCGATGATGCACTGT
16612090 AAGTGCTAGT
Statistics
Matches: 185, Mismatches: 22, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
174 182 0.98
175 3 0.02
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.40
Consensus pattern (174 bp):
TATAGATGCTTCAATTTACCCGATGATGCACTGTGTGGATGTCAAGATAGATTCTTTGATATATC
CGATAATAAACTGTATGTGCCTGTATGGTAACTTCAGTATAATCAATGATGCATTATTCGTGTCA
GTATCGATGATTTGGTTTTCCCAATTATGCACTGTGTGTGCCAG
Found at i:16612739 original size:45 final size:43
Alignment explanation
Indices: 16612549--16613099 Score: 253
Period size: 43 Copynumber: 12.9 Consensus size: 43
16612539 TGTGTATTAG
* *
16612549 TATAGATGCTTC-ATTTTATTTGATGATGCA-T-TGTGTGCCAA
1 TATAGATGATTCGA-TTTATTCGATGATGCACTATGTGTGCCAA
* * * * * * *
16612590 TATAGATGATTCGATTTTTTCGATAATGTATTGTGTTTGCCAG
1 TATAGATGATTCGATTTATTCGATGATGCACTATGTGTGCCAA
* * * * *
16612633 TATATATGTTTCGATGTATTCGATGATGTACTATGTGGGCCAA
1 TATAGATGATTCGATTTATTCGATGATGCACTATGTGTGCCAA
* * *
16612676 TATAGATGATTC-AGTTTATCCGATGATGCATTGTGTGGATGCCAA
1 TATAGATGATTCGA-TTTATTCGATGATGCACTATGT-G-TGCCAA
* * * * *
16612721 TATATATGCTTCGATTTATCCGGTGATGCACTATGTGAGTGCCAG
1 TATAGATGATTCGATTTATTCGATGATGCACTATGT--GTGCCAA
* * * * * * *
16612766 TATAAATGCTTCGGTATATTCGATGATGCACTGTATGTGCCAG
1 TATAGATGATTCGATTTATTCGATGATGCACTATGTGTGCCAA
* * * ** *
16612809 TATA-ATTATTTCGATATATTCGATGATGCATTATCCGTGTCAA
1 TATAGATGA-TTCGATTTATTCGATGATGCACTATGTGTGCCAA
* * * * * *
16612852 TATAGAGGCTTCGATTTAGTCGATGATGCACTCTGTGT--TAG
1 TATAGATGATTCGATTTATTCGATGATGCACTATGTGTGCCAA
* * * * * * ****
16612893 TATATATGCTTCGGTTTACTCGATGATGCACTGTATGTGATTG
1 TATAGATGATTCGATTTATTCGATGATGCACTATGTGTGCCAA
* * * * * * *
16612936 TATGGATGTTTCGATGTATTC---GATGCATTATGTATGTCAG
1 TATAGATGATTCGATTTATTCGATGATGCACTATGTGTGCCAA
* * * * * * *
16612976 TATAGATGTTTTGGTGTATTCAATGATTCGCTATGT-TGCCAA
1 TATAGATGATTCGATTTATTCGATGATGCACTATGTGTGCCAA
* * * * * *
16613018 TATAGATGTTTCGA-TTATCCGATGATACATTACGTGTGCCAG
1 TATAGATGATTCGATTTATTCGATGATGCACTATGTGTGCCAA
* * * * * * *
16613060 TATAGATGTTTTGGTTTATCCGTTGATGTACTGTGTGTGC
1 TATAGATGATTCGATTTATTCGATGATGCACTATGTGTGC
16613100 TAGTATATAT
Statistics
Matches: 388, Mismatches: 105, Indels: 32
0.74 0.20 0.06
Matches are distributed among these distances:
40 30 0.08
41 70 0.18
42 38 0.10
43 178 0.46
44 2 0.01
45 68 0.18
46 2 0.01
ACGTcount: A:0.24, C:0.13, G:0.23, T:0.40
Consensus pattern (43 bp):
TATAGATGATTCGATTTATTCGATGATGCACTATGTGTGCCAA
Found at i:16612807 original size:88 final size:88
Alignment explanation
Indices: 16612627--16612838 Score: 216
Period size: 88 Copynumber: 2.4 Consensus size: 88
16612617 GTATTGTGTT
* * * * *
16612627 TGCCAGTATATATGTTTCGATGTATTCGATGATGTACTATGTGGGCCAATATAGATGATTCAGTT
1 TGCCAGTATATATGCTTCGATGTATCCGATGATGCACTATGTGGGCCAATATAAATGATTCAGTA
* *
16612692 TATCCGATGATGCATTGTGTGGA
66 TATCCGATGATGCACTGTATGGA
* * * * * *
16612715 TGCCAATATATATGCTTCGATTTATCCGGTGATGCACTATGTGAGTGCCAGTATAAATGCTTCGG
1 TGCCAGTATATATGCTTCGATGTATCCGATGATGCACTATGTG-G-GCCAATATAAATGATTCAG
*
16612780 TATATTCGATGATGCACTGTAT-G-
64 TATATCCGATGATGCACTGTATGGA
* *
16612803 TGCCAGTATAATTAT--TTCGATATATTCGATGATGCA
1 TGCCAGTAT-A-TATGCTTCGATGTATCCGATGATGCA
16612839 TTATCCGTGT
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
88 63 0.62
89 3 0.03
90 36 0.35
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.37
Consensus pattern (88 bp):
TGCCAGTATATATGCTTCGATGTATCCGATGATGCACTATGTGGGCCAATATAAATGATTCAGTA
TATCCGATGATGCACTGTATGGA
Found at i:16612984 original size:40 final size:39
Alignment explanation
Indices: 16612935--16613070 Score: 105
Period size: 42 Copynumber: 3.3 Consensus size: 39
16612925 GTATGTGATT
* *
16612935 GTATGGATGTTTCGATGTATTCGATGCATTATGTATGTCA
1 GTATAGATGTTTCGATGTATTCGATGCATTATGT-TGCCA
* * *
16612975 GTATAGATGTTTTGGTGTATTCAATG-ATTCGCTATGTTGCCA
1 GTATAGATGTTTCGATGTATTCGATGCA-T---TATGTTGCCA
* * *
16613017 ATATAGATGTTTCGAT-TATCCGATGATACATTACGTGTGCCA
1 GTATAGATGTTTCGATGTATTCGATG---CATTATGT-TGCCA
16613059 GTATAGATGTTT
1 GTATAGATGTTT
16613071 TGGTTTATCC
Statistics
Matches: 75, Mismatches: 12, Indels: 16
0.73 0.12 0.16
Matches are distributed among these distances:
39 1 0.01
40 23 0.31
41 11 0.15
42 33 0.44
43 5 0.07
44 1 0.01
45 1 0.01
ACGTcount: A:0.24, C:0.12, G:0.23, T:0.41
Consensus pattern (39 bp):
GTATAGATGTTTCGATGTATTCGATGCATTATGTTGCCA
Found at i:16613122 original size:23 final size:23
Alignment explanation
Indices: 16613091--16613135 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
16613081 GTTGATGTAC
* * *
16613091 TGTGTGTGCTAGTATATATGCTT
1 TGTGGGTGCCAGTATAGATGCTT
16613114 TGTGGGTGCCAGTATAGATGCT
1 TGTGGGTGCCAGTATAGATGCT
16613136 CTGGTATATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.18, C:0.11, G:0.31, T:0.40
Consensus pattern (23 bp):
TGTGGGTGCCAGTATAGATGCTT
Found at i:16613172 original size:66 final size:66
Alignment explanation
Indices: 16613053--16613179 Score: 166
Period size: 66 Copynumber: 1.9 Consensus size: 66
16613043 TACATTACGT
* * * * ** *
16613053 GTGCCAGTATAGATGTTTTGGTTTATCCGTTGATGTACTGTGTGTGCTAGTATATATGCTTTGTG
1 GTGCCAGTATAGATGCTCTGGTATATCCGATGATACACTGTGTGTGCTAGTATAGATGCTTTGTG
16613118 G
66 G
*
16613119 GTGCCAGTATAGATGCTCTGGTATATCCGATGATACACTGTGTGTG-TCGGTATAGATGCTT
1 GTGCCAGTATAGATGCTCTGGTATATCCGATGATACACTGTGTGTGCT-AGTATAGATGCTT
16613180 CGGTTTATTC
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
65 1 0.02
66 51 0.98
ACGTcount: A:0.19, C:0.13, G:0.28, T:0.39
Consensus pattern (66 bp):
GTGCCAGTATAGATGCTCTGGTATATCCGATGATACACTGTGTGTGCTAGTATAGATGCTTTGTG
G
Found at i:16613193 original size:43 final size:43
Alignment explanation
Indices: 16613114--16614777 Score: 1236
Period size: 43 Copynumber: 38.7 Consensus size: 43
16613104 ATATATGCTT
* * * *
16613114 TGTGGGTGCCAGTATAGATGC-TCTGGTATATCCGATGATACAC
1 TGTGTGTGCCAGTATAGATGCTTC-GGTTTATTCGATGATGCAC
* * *
16613157 TGTGTGTGTCGGTATAGATGCTTCGGTTTATTCGATGATGCAT
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATTCGATGATGCAC
* * * ** * * *
16613200 TATGTGTGCTAGTATATATGCTTCAATTTATTTGATAATGCAT
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATTCGATGATGCAC
* * * * * ** * * *
16613243 TATGTTTGCCAATGTAGATGTTTCAATGTATCCGTTGATGCAC
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATTCGATGATGCAC
* * * *
16613286 TTTGTGTGTCAGTGTAGATGCTTC-GTTTATCCGATGATGCAC
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATTCGATGATGCAC
* * ** * * * *
16613328 TATGTGTGTCAGTAGGGATACTTCAGTTTATCCGATGATGCAT
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATTCGATGATGCAC
* * * * *
16613371 TGTGTGGTGCCAGTATAGAGGCTTCGATATATCCGATGATGCAT
1 TGTGT-GTGCCAGTATAGATGCTTCGGTTTATTCGATGATGCAC
* * * *
16613415 TGTATGTGCCAGTATAGTTGCTTCAGTTTATTTGATGATGCAC
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATTCGATGATGCAC
* ** *
16613458 --TGTGTGCCATTATAGATGCTTCTATTTATTCGATGAGGCAC
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATTCGATGATGCAC
* * *
16613499 TGTGTGT-CCTAGTATATATGCTTTGGTTTATAT-GATGATGCAT
1 TGTGTGTGCC-AGTATAGATGCTTCGGTTTAT-TCGATGATGCAC
* * * * * *
16613542 TGTGTGCGTCAATATAGATGCTTCAGTTTATCCGATTATGCAC
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATTCGATGATGCAC
* * * * * *
16613585 TATGTGTGTCTGTATAGATTCTTCGGTTTATTTGATGATGCAT
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATTCGATGATGCAC
* * *
16613628 TGTGTGTGCCAGCATAAATGTTTCGGTTTATTCGATGATGCAC
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATTCGATGATGCAC
* * * * *
16613671 --TGTGTACTAGTATAAAAGCTTCGGTTTATTCGATGATACAC
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATTCGATGATGCAC
* * * ** * *
16613712 TGTGTGTGCCAATATAGATGCTCCGATTTATTTAAAGATGCAT
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATTCGATGATGCAC
* * * * * ** *
16613755 TCTATGTGTCAGTATAAATACTTTAGTTTATCCGATGATGCAC
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATTCGATGATGCAC
* * * * *
16613798 TGTGTGTGCTAGTATAGATGTTTCGGTGT-GTCTGATGATGTAC
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATTC-GATGATGCAC
* * * ** *
16613841 TATGTGTGCCAGTATAAATGTTTCAATTTATTCGACGATGCAC
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATTCGATGATGCAC
* * * * *
16613884 TTTGTGTGCTAATATAGATGCTTCGATTT-TTCCGATGATGCATTA
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATT-CGATGATGCA--C
* * * *
16613929 TGCGGGTGCCATTATTGATGCTTCGGTTTATTCGATGATGCAC
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATTCGATGATGCAC
* * *
16613972 TGTGTGAGTGCCAGTATAGATGCTTTGGTATATCCGATGATGCAC
1 TGTGT--GTGCCAGTATAGATGCTTCGGTTTATTCGATGATGCAC
* * * * ** * *
16614017 TATTTGTGCGAGTATAGTTATTTCGGTATATTCGATGATGCAT
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATTCGATGATGCAC
* ** * * * * *
16614060 TATCCGTGTCAGTATAGATGTTTCGATTTGTCCGATGATGCAC
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATTCGATGATGCAC
** * *
16614103 TGTGTGTTTCAGAATAGATGCTTTGGTTTACTT-GATGATGCAC
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTA-TTCGATGATGCAC
* * ** ** * *
16614146 TGTGTGTGACAGTATAAATTTTTTTGTTTACTCGATGATACAC
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATTCGATGATGCAC
* ** * * *
16614189 TATGTGTGTTAGTAGAGATGCTTCTGTTTATCCGATGATGCAC
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATTCGATGATGCAC
* * * * * * *
16614232 TGCGTTTGCCAATATAAATGCTTCGATTTATCCGATGATACAC
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATTCGATGATGCAC
* *
16614275 TGTGTGTACCAGTATAGATGCTTCGGTTTATTCGATGATGTA-
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATTCGATGATGCAC
* * * * *
16614317 T-TGTGTGTCTGTATAGATGCTTTGGTTTATCCGATAATGCAC
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATTCGATGATGCAC
* * * * *
16614359 TGTATATGACAGTATAGATGTTTCGGTGTA-TCTGATGATGCAC
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATTC-GATGATGCAC
* ** *
16614402 TGTGTGTGTC-GATATAGATGCTTCAATTTATTTGATGATGCAC
1 TGTGTGTGCCAG-TATAGATGCTTCGGTTTATTCGATGATGCAC
* * * **
16614445 TTTGTATGCCAGTATAGATGCTTCGGTTTA-TCTTACAATGCAC
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATTC-GATGATGCAC
* * * ** *
16614488 TTTGTATGTCAGTATAGATGCTTTAGTTTATCCGATGATGCAC
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATTCGATGATGCAC
* * ** * *
16614531 TTTATGTGTAAGTATAGATGCTTTGGTTTATTTGATGATGCAC
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATTCGATGATGCAC
**
16614574 TGTGTGTGATAGTATAGATGCTTCGGTTTATTCGATGATGCAC
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATTCGATGATGCAC
* * * *
16614617 TATGTGTGCCAATATAGATGTTTCAGTTTATTCGATGATGCAC
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATTCGATGATGCAC
* * * * ** **
16614660 TATTTGTGCTAGTAAAGATGCTTCTATTTATTCGATGATGCGT
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATTCGATGATGCAC
* ** * *
16614703 TGTGTGTGCCAGTATAGTTGCTTCTTTTTATCCGATGATGCAT
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATTCGATGATGCAC
* *
16614746 TGTGTGTGCCAGTATAGATGTTTCGGTGTATT
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATT
16614778 GAAAAAGTAG
Statistics
Matches: 1261, Mismatches: 331, Indels: 58
0.76 0.20 0.04
Matches are distributed among these distances:
41 102 0.08
42 45 0.04
43 1000 0.79
44 44 0.03
45 68 0.05
46 2 0.00
ACGTcount: A:0.22, C:0.14, G:0.23, T:0.40
Consensus pattern (43 bp):
TGTGTGTGCCAGTATAGATGCTTCGGTTTATTCGATGATGCAC
Found at i:16632036 original size:69 final size:70
Alignment explanation
Indices: 16631858--16632036 Score: 270
Period size: 74 Copynumber: 2.5 Consensus size: 70
16631848 AACTTAATGA
* *
16631858 GTAAACATTTACCAAAACGACGTAGTTTTGCCTTTTAACTTAATGATTTTGACTTTTAACTTAAA
1 GTAAACATTTATCAAAACGACGTAGTTTTGCCTTTTAACTTAATGACTTTGACTTTTAACTT---
16631923 AAAAAAAAG
63 -AAAAAAAG
*
16631932 GTAAATATTTATCAAAACGACGTAGTTTTGCCTTTTAACTTAATGACTTTGACTTTTAACTT-AA
1 GTAAACATTTATCAAAACGACGTAGTTTTGCCTTTTAACTTAATGACTTTGACTTTTAACTTAAA
*
16631996 AAAGG
66 AAAAG
*
16632001 GTAAACATTTATCAAAGCGACGTAGTTTTGCCTTTT
1 GTAAACATTTATCAAAACGACGTAGTTTTGCCTTTT
16632037 TTTATTCGGA
Statistics
Matches: 99, Mismatches: 6, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
69 40 0.40
74 59 0.60
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (70 bp):
GTAAACATTTATCAAAACGACGTAGTTTTGCCTTTTAACTTAATGACTTTGACTTTTAACTTAAA
AAAAG
Found at i:16632265 original size:31 final size:31
Alignment explanation
Indices: 16632222--16632300 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
16632212 CACCTCTACC
16632222 AACAGTCACTCAACTTTGATTTCAATAACAA
1 AACAGTCACTCAACTTTGATTTCAATAACAA
*
16632253 AACAGTCGCTCAACTTTGATTTCAATAACAA
1 AACAGTCACTCAACTTTGATTTCAATAACAA
* *
16632284 AGCAATCACTCAACTTT
1 AACAGTCACTCAACTTT
16632301 CGACTCAGTC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (31 bp):
AACAGTCACTCAACTTTGATTTCAATAACAA
Found at i:16632674 original size:27 final size:27
Alignment explanation
Indices: 16632641--16632695 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
16632631 ACTTTCGAAG
*
16632641 TAAGGGTAAGATTGAAGGATTAATATA
1 TAAGGGTAAGATTAAAGGATTAATATA
16632668 TAAGGGTAAGATTAAAGGATTAATATA
1 TAAGGGTAAGATTAAAGGATTAATATA
16632695 T
1 T
16632696 TGGGTTTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.24, T:0.31
Consensus pattern (27 bp):
TAAGGGTAAGATTAAAGGATTAATATA
Found at i:16633450 original size:36 final size:36
Alignment explanation
Indices: 16633407--16633483 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 36
16633397 TAATGTGGCA
***
16633407 TTTTTTTTACTTTTTTACTAAAGCTAGTTTTTTTTT
1 TTTTTTTTACTTTTTTACTAAAGCTAGGCATTTTTT
* *
16633443 TTTTTTTTGCTTTTTTATTAAAGCTAGGCATTTTTT
1 TTTTTTTTACTTTTTTACTAAAGCTAGGCATTTTTT
16633479 TTTTT
1 TTTTT
16633484 ATAATTAGTC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.69
Consensus pattern (36 bp):
TTTTTTTTACTTTTTTACTAAAGCTAGGCATTTTTT
Found at i:16639945 original size:14 final size:14
Alignment explanation
Indices: 16639911--16639945 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
16639901 AGTCCCCCCC
*
16639911 CAAAAAAAAAAAAA
1 CAAAAAGAAAAAAA
16639925 CAAAAAGAAAAAAA
1 CAAAAAGAAAAAAA
*
16639939 GAAAAAG
1 CAAAAAG
16639946 GCCAAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.86, C:0.06, G:0.09, T:0.00
Consensus pattern (14 bp):
CAAAAAGAAAAAAA
Found at i:16647688 original size:14 final size:14
Alignment explanation
Indices: 16647671--16647701 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
16647661 TTAGATTTAA
16647671 AAATTTAATTAATT
1 AAATTTAATTAATT
*
16647685 AAATTTATTTAATT
1 AAATTTAATTAATT
16647699 AAA
1 AAA
16647702 AATCTATTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATTTAATTAATT
Found at i:16647848 original size:15 final size:15
Alignment explanation
Indices: 16647828--16647878 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
16647818 ACAAAACAAT
16647828 AACATAAGTGACTAA
1 AACATAAGTGACTAA
* *
16647843 AACATAA-T-ATTTCA
1 AACATAAGTGA-CTAA
16647857 AACATAAGTGACTAA
1 AACATAAGTGACTAA
*
16647872 AATATAA
1 AACATAA
16647879 TCTGAGATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
13 1 0.04
14 10 0.36
15 16 0.57
16 1 0.04
ACGTcount: A:0.55, C:0.12, G:0.08, T:0.25
Consensus pattern (15 bp):
AACATAAGTGACTAA
Found at i:16651076 original size:15 final size:15
Alignment explanation
Indices: 16651058--16651087 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16651048 ATGCAAGGCA
16651058 AAAACAAAAGCAAAG
1 AAAACAAAAGCAAAG
*
16651073 AAAAGAAAAGCAAAG
1 AAAACAAAAGCAAAG
16651088 CAATGATGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.73, C:0.10, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAACAAAAGCAAAG
Found at i:16655616 original size:12 final size:12
Alignment explanation
Indices: 16655603--16655677 Score: 62
Period size: 12 Copynumber: 6.2 Consensus size: 12
16655593 TCAAATAACC
*
16655603 AAAATAACAACC
1 AAAATAACAACA
* *
16655615 AAAACAACAGCA
1 AAAATAACAACA
*
16655627 AAAATAATAGA-A
1 AAAATAACA-ACA
*
16655639 AAAATAGCAACA
1 AAAATAACAACA
*
16655651 AAAATAACAATA
1 AAAATAACAACA
* *
16655663 AAAACAACACCA
1 AAAATAACAACA
16655675 AAA
1 AAA
16655678 TAGTAAAAAA
Statistics
Matches: 48, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
11 1 0.02
12 47 0.98
ACGTcount: A:0.71, C:0.17, G:0.04, T:0.08
Consensus pattern (12 bp):
AAAATAACAACA
Found at i:16655631 original size:24 final size:23
Alignment explanation
Indices: 16655603--16655692 Score: 74
Period size: 24 Copynumber: 3.7 Consensus size: 23
16655593 TCAAATAACC
* *
16655603 AAAATAACAACCAAAACAACAGCA
1 AAAATAACAA-AAAAACAACAACA
* * *
16655627 AAAATAATAGAAAAAATAGCAACA
1 AAAATAACA-AAAAAACAACAACA
*
16655651 AAAATAACAATAAAAACAACACCA
1 AAAATAACAA-AAAAACAACAACA
16655675 AAATAGTAA-AAAAAAACA
1 AAA-A-TAACAAAAAAACA
16655693 CCAAAACAGT
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
23 1 0.02
24 45 0.85
25 4 0.08
26 3 0.06
ACGTcount: A:0.71, C:0.16, G:0.04, T:0.09
Consensus pattern (23 bp):
AAAATAACAAAAAAACAACAACA
Found at i:16655686 original size:20 final size:20
Alignment explanation
Indices: 16655656--16655704 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
16655646 CAACAAAAAT
* *
16655656 AACAATAAAAACAACACCAA
1 AACAGTAAAAAAAACACCAA
*
16655676 AATAGTAAAAAAAAACACCAA
1 AACAGT-AAAAAAAACACCAA
16655697 AACAGTAA
1 AACAGTAA
16655705 TCAAAACAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.69, C:0.18, G:0.04, T:0.08
Consensus pattern (20 bp):
AACAGTAAAAAAAACACCAA
Found at i:16655686 original size:21 final size:21
Alignment explanation
Indices: 16655662--16655791 Score: 75
Period size: 21 Copynumber: 5.8 Consensus size: 21
16655652 AAATAACAAT
*
16655662 AAAAACAACACCAAAATAGTA
1 AAAAACAACACCAAAACAGTA
*
16655683 AAAAAAAACACCAAAACAGTA
1 AAAAACAACACCAAAACAGTA
* *
16655704 ATCAAAACAATAAAAAAATCAAAACAGTA
1 A--AAAAC------AACACCAAAACAGTA
* * *
16655733 AAACACAATACCAAAACAGCA
1 AAAAACAACACCAAAACAGTA
16655754 AAAAA-ATAGCAACCAAAACAGT-
1 AAAAACA-A-C-ACCAAAACAGTA
*
16655776 AAAAACAGCACCAAAA
1 AAAAACAACACCAAAA
16655792 TAATAATATA
Statistics
Matches: 84, Mismatches: 13, Indels: 25
0.69 0.11 0.20
Matches are distributed among these distances:
20 8 0.10
21 38 0.45
22 5 0.06
23 15 0.18
27 4 0.05
29 14 0.17
ACGTcount: A:0.67, C:0.20, G:0.05, T:0.08
Consensus pattern (21 bp):
AAAAACAACACCAAAACAGTA
Found at i:16655725 original size:17 final size:17
Alignment explanation
Indices: 16655703--16655735 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16655693 CCAAAACAGT
16655703 AATCAAAACAATAAAAA
1 AATCAAAACAATAAAAA
*
16655720 AATCAAAACAGTAAAA
1 AATCAAAACAATAAAA
16655736 CACAATACCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.12, G:0.03, T:0.12
Consensus pattern (17 bp):
AATCAAAACAATAAAAA
Found at i:16655755 original size:29 final size:28
Alignment explanation
Indices: 16655686--16655756 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
16655676 AATAGTAAAA
16655686 AAAAACACCAAAACAGTAATCAAAACAAT
1 AAAAACACCAAAACAGTAA-CAAAACAAT
* * *
16655715 AAAAAAATCAAAACAGTAA-AACACAAT
1 AAAAACACCAAAACAGTAACAAAACAAT
*
16655742 ACCAAAACAGCAAAA
1 A--AAAACACCAAAA
16655757 AAATAGCAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 8 0.23
29 27 0.77
ACGTcount: A:0.68, C:0.20, G:0.04, T:0.08
Consensus pattern (28 bp):
AAAAACACCAAAACAGTAACAAAACAAT
Found at i:16658209 original size:24 final size:23
Alignment explanation
Indices: 16658182--16658226 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
16658172 AATCTAATAT
16658182 TAATCTAACATTAATCTCTAATGC
1 TAATCTAACATTAATC-CTAATGC
*
16658206 TAATCTAACATTTATCCTAAT
1 TAATCTAACATTAATCCTAAT
16658227 ATTGTCGTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.38, C:0.20, G:0.02, T:0.40
Consensus pattern (23 bp):
TAATCTAACATTAATCCTAATGC
Found at i:16673522 original size:21 final size:22
Alignment explanation
Indices: 16673488--16673546 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
16673478 TTAAAAATAA
*
16673488 TAAAAATTTA-ATTTAATCAT-T
1 TAAAAA-TTACATTTAATCATCG
*
16673509 TAAAAATTACATTT-ATTATCG
1 TAAAAATTACATTTAATCATCG
16673530 TAAAAATTACAATTTAA
1 TAAAAATTAC-ATTTAA
16673547 CTTTGACCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 7 0.22
21 20 0.62
22 4 0.12
23 1 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (22 bp):
TAAAAATTACATTTAATCATCG
Found at i:16676505 original size:27 final size:27
Alignment explanation
Indices: 16676474--16676535 Score: 124
Period size: 27 Copynumber: 2.3 Consensus size: 27
16676464 GTATTTTTGG
16676474 GTGGTGCCTGTCTGGTAGGCGGCACCA
1 GTGGTGCCTGTCTGGTAGGCGGCACCA
16676501 GTGGTGCCTGTCTGGTAGGCGGCACCA
1 GTGGTGCCTGTCTGGTAGGCGGCACCA
16676528 GTGGTGCC
1 GTGGTGCC
16676536 AACCTACCAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.10, C:0.26, G:0.42, T:0.23
Consensus pattern (27 bp):
GTGGTGCCTGTCTGGTAGGCGGCACCA
Found at i:16676547 original size:27 final size:27
Alignment explanation
Indices: 16676490--16676553 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
16676480 CCTGTCTGGT
*** ***
16676490 AGGCGGCACCAGTGGTGCCTGTCTGGT
1 AGGCGGCACCAGTGGTGCCAACCTACC
16676517 AGGCGGCACCAGTGGTGCCAACCTACC
1 AGGCGGCACCAGTGGTGCCAACCTACC
16676544 AGGCGGCACC
1 AGGCGGCACC
16676554 TCTCCTCGTG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.17, C:0.33, G:0.36, T:0.14
Consensus pattern (27 bp):
AGGCGGCACCAGTGGTGCCAACCTACC
Found at i:16677537 original size:17 final size:17
Alignment explanation
Indices: 16677504--16677536 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
16677494 AATTCAATTG
16677504 ATATATTTAAATATTTT
1 ATATATTTAAATATTTT
16677521 ATATA-TTAAATATTTT
1 ATATATTTAAATATTTT
16677537 TTAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATATTTAAATATTTT
Found at i:16679515 original size:6 final size:6
Alignment explanation
Indices: 16679504--16679551 Score: 87
Period size: 6 Copynumber: 8.0 Consensus size: 6
16679494 TTTCAGCCGG
*
16679504 CTGAGC CTGAGC CTGAGC TTGAGC CTGAGC CTGAGC CTGAGC CTGAGC
1 CTGAGC CTGAGC CTGAGC CTGAGC CTGAGC CTGAGC CTGAGC CTGAGC
16679552 AGCAGTCGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.17, C:0.31, G:0.33, T:0.19
Consensus pattern (6 bp):
CTGAGC
Found at i:16679996 original size:6 final size:6
Alignment explanation
Indices: 16679985--16680031 Score: 69
Period size: 6 Copynumber: 7.8 Consensus size: 6
16679975 GGCCATTAAA
*
16679985 TATGTT TATGTT TATGTT TATGTT TATGTT CT-TATT TATGTT TATGT
1 TATGTT TATGTT TATGTT TATGTT TATGTT -TATGTT TATGTT TATGT
16680032 ATGCAAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 1 0.03
6 35 0.95
7 1 0.03
ACGTcount: A:0.17, C:0.02, G:0.15, T:0.66
Consensus pattern (6 bp):
TATGTT
Found at i:16680160 original size:26 final size:26
Alignment explanation
Indices: 16680104--16680161 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
16680094 TGCTAAACCT
* *
16680104 AATTAAATTAATTCAAATATAAAAAT
1 AATTAAATAAATTCAAATATAAAAAG
* * *
16680130 TATTAAATAAATTCAAATTTAAATAG
1 AATTAAATAAATTCAAATATAAAAAG
16680156 AATTAA
1 AATTAA
16680162 TTCCAAATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (26 bp):
AATTAAATAAATTCAAATATAAAAAG
Found at i:16683494 original size:27 final size:27
Alignment explanation
Indices: 16683456--16683509 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
16683446 AAATACGAGT
*
16683456 TGGTGCCACCTGAT-AGGTAGGTACCAC
1 TGGTGCCACCTG-TCAGGTAGGCACCAC
*
16683483 TGGTGCCGCCTGTCAGGTAGGCACCAC
1 TGGTGCCACCTGTCAGGTAGGCACCAC
16683510 CCATTTATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.19, C:0.30, G:0.31, T:0.20
Consensus pattern (27 bp):
TGGTGCCACCTGTCAGGTAGGCACCAC
Found at i:16686428 original size:31 final size:29
Alignment explanation
Indices: 16686393--16686462 Score: 68
Period size: 29 Copynumber: 2.3 Consensus size: 29
16686383 ATCTCAAAAT
* * *
16686393 TATACATGAATTTTAGTTTAATGTGTAATTC
1 TATACATGAACTTTAATTT--TGTGCAATTC
* * *
16686424 TATACGTGTACTTTAATTTTGTGCAATTT
1 TATACATGAACTTTAATTTTGTGCAATTC
16686453 TATACATGAA
1 TATACATGAA
16686463 AATTTGATTT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
29 16 0.52
31 15 0.48
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.47
Consensus pattern (29 bp):
TATACATGAACTTTAATTTTGTGCAATTC
Found at i:16686718 original size:31 final size:31
Alignment explanation
Indices: 16686646--16686724 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
16686636 TTTAAACCAC
*
16686646 AATCAAAATTT-TATGTACATAATTACATCA
1 AATCAAAATTTATATATACATAATTACATCA
* *
16686676 AATTAAAATTTATATAT-CA-AATTACATATTA
1 AATCAAAATTTATATATACATAATTAC--ATCA
16686707 AATCAAAATTTATATATA
1 AATCAAAATTTATATATA
16686725 ATTTTGAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 6 0.15
30 12 0.29
31 23 0.56
ACGTcount: A:0.51, C:0.09, G:0.01, T:0.39
Consensus pattern (31 bp):
AATCAAAATTTATATATACATAATTACATCA
Found at i:16686994 original size:11 final size:11
Alignment explanation
Indices: 16686978--16687002 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16686968 AAGTATAATA
16686978 AAATAATTAAG
1 AAATAATTAAG
16686989 AAATAATTAAG
1 AAATAATTAAG
16687000 AAA
1 AAA
16687003 AATACTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (11 bp):
AAATAATTAAG
Found at i:16687612 original size:19 final size:19
Alignment explanation
Indices: 16687588--16687626 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
16687578 TTCTCTCAAC
*
16687588 AAAAATTACAAATATTTAT
1 AAAAATTACAAAAATTTAT
*
16687607 AAAAATTCCAAAAATTTAT
1 AAAAATTACAAAAATTTAT
16687626 A
1 A
16687627 TTTTAATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAATTACAAAAATTTAT
Found at i:16687680 original size:9 final size:9
Alignment explanation
Indices: 16687640--16687692 Score: 54
Period size: 10 Copynumber: 5.6 Consensus size: 9
16687630 TAATATATAT
16687640 AAATTAAAAA
1 AAATT-AAAA
16687650 AAATTATAAA
1 AAATTA-AAA
*
16687660 GAATATATAAA
1 AAAT-TA-AAA
16687671 AAATT-AAA
1 AAATTAAAA
16687679 AAATTAAAA
1 AAATTAAAA
16687688 AAATT
1 AAATT
16687693 TCTACTTCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
8 8 0.21
9 9 0.24
10 12 0.32
11 9 0.24
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (9 bp):
AAATTAAAA
Done.