Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011102.1 Kokia drynarioides strain JFW-HI SEQ_126075, whole genome shotgun sequence
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: 262726
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Warning! 55 characters in sequence are not A, C, G, or T
Found at i:444 original size:59 final size:59
Alignment explanation
Indices: 301--683 Score: 522
Period size: 59 Copynumber: 6.5 Consensus size: 59
291 GGAGGTGATT
* * * *
301 AAACCTTTCAAAAATTACCATTTTACCCTCGAA-TTCCCAAAAATCCCATTTTTTACCACG
1 AAACCTTCCAAAAATTACCATTTTACCCCCGAACTT-CCAAAAATCCCATTTTTGACC-CC
* *
361 AAA-CTT-AAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTTGACCCC
1 AAACCTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCC
*
418 AAACCTTCCAAAAATTACCATTTTACCCCCAAACTTCCAAAAATCCCATTTTTGACCCC
1 AAACCTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCC
** * * *
477 AAACCTTCCAAAAATTACCATTTTACCCCTAAACTTCCAAAAATCTCATTTTTAACCCT
1 AAACCTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCC
* * * *
536 GAACCTTCCAAAAATTACCATTTTACACTCGAACTTCCAAAAATCCCATTTTTGACCTC
1 AAACCTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCC
* * * *
595 GAACCTTTCAAAAATTACCATTTTA-CCCCAAACTTCCAAAAATCCCATTTTTGACCTC
1 AAACCTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCC
* *
653 GAACCTTCCAAAAATTACCATTTTGCCCCCG
1 AAACCTTCCAAAAATTACCATTTTACCCCCG
684 TGCATCCGAA
Statistics
Matches: 291, Mismatches: 28, Indels: 9
0.89 0.09 0.03
Matches are distributed among these distances:
57 4 0.01
58 98 0.34
59 186 0.64
60 3 0.01
ACGTcount: A:0.35, C:0.32, G:0.03, T:0.30
Consensus pattern (59 bp):
AAACCTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCC
Found at i:1646 original size:30 final size:30
Alignment explanation
Indices: 1579--1962 Score: 228
Period size: 30 Copynumber: 13.0 Consensus size: 30
1569 TTCGACACAT
* *
1579 ATTTTAA-CCCTCAAACTTTTCAAAAATCAC
1 ATTTTAACCCCT-AAACTTTCCAAAAATTAC
*
1609 A-TTTAACCCCTAAACTTTCCAAAAATTAT
1 ATTTTAACCCCTAAACTTTCCAAAAATTAC
* * *
1638 ATTTTAACCCCTAAACTTTTCAAAAAATAT
1 ATTTTAACCCCTAAACTTTCCAAAAATTAC
* * * *
1668 ATTTTAACACTCT-AATTTTCCAAAAATCAT
1 ATTTTAAC-CCCTAAACTTTCCAAAAATTAC
* *
1698 ATTTTAA-CCCTCAAACTTTTTC-AAAATCAC
1 ATTTTAACCCCT-AAAC-TTTCCAAAAATTAC
* *
1728 ATTTTAACCCCCAAAC-TTCACAAAGATTAC
1 ATTTTAACCCCTAAACTTTC-CAAAAATTAC
* * *
1758 ACTTTT-TCCCTTAAACTTTACAAAAATTAC
1 A-TTTTAACCCCTAAACTTTCCAAAAATTAC
* * *
1788 ATTTTTACCCTTGAACTTTCCAAAAATTAC
1 ATTTTAACCCCTAAACTTTCCAAAAATTAC
** *
1818 ATTTTTGCTCCC-GAAC-TTCC-AAAATTAC
1 ATTTTAAC-CCCTAAACTTTCCAAAAATTAC
* * * *
1846 CTTTTAACCTCGAATCTTT-CAAAAATTAC
1 ATTTTAACCCCTAAACTTTCCAAAAATTAC
* * *
1875 GATTTT-GCTCCAAAAC-TTCCAAAAATTACC
1 -ATTTTAACCCCTAAACTTTCCAAAAATTA-C
* * *
1905 ATTTTTTAGCCCTAAAC-AT--ATAAAATTAC
1 A-TTTTAACCCCTAAACTTTCCA-AAAATTAC
*
1934 AATTTT-ACCCCTAAAGTTTCC-AAAATTAC
1 -ATTTTAACCCCTAAACTTTCCAAAAATTAC
1963 CGTTTTACCC
Statistics
Matches: 280, Mismatches: 48, Indels: 53
0.73 0.13 0.14
Matches are distributed among these distances:
27 2 0.01
28 31 0.11
29 70 0.25
30 152 0.54
31 25 0.09
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.36
Consensus pattern (30 bp):
ATTTTAACCCCTAAACTTTCCAAAAATTAC
Found at i:1872 original size:57 final size:58
Alignment explanation
Indices: 1778--1909 Score: 162
Period size: 57 Copynumber: 2.3 Consensus size: 58
1768 TTAAACTTTA
* * * **
1778 CAAAAATTACATTTTTACCCTTGAACTTTCCAAAAATTAC-ATTTTTGCTCCCGAACTTC
1 CAAAAATTAC-CTTTTAACCTCGAACTTTCCAAAAATTACGA-TTTTGCTCCAAAACTTC
1837 C-AAAATTACCTTTTAACCTCGAATCTTT-CAAAAATTACGATTTTGCTCCAAAACTTC
1 CAAAAATTACCTTTTAACCTCGAA-CTTTCCAAAAATTACGATTTTGCTCCAAAACTTC
1894 CAAAAATTACCATTTT
1 CAAAAATTACC-TTTT
1910 TTAGCCCTAA
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
57 37 0.58
58 22 0.34
59 5 0.08
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.36
Consensus pattern (58 bp):
CAAAAATTACCTTTTAACCTCGAACTTTCCAAAAATTACGATTTTGCTCCAAAACTTC
Found at i:2014 original size:28 final size:28
Alignment explanation
Indices: 1951--2024 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
1941 CCCCTAAAGT
* *
1951 TTCCAAAATTACCGTTTTACCCCCGAAC
1 TTCCAAAATTCCCATTTTACCCCCGAAC
* * * *
1979 ATCTAAAATTCCCATTTTACCCTCGAGC
1 TTCCAAAATTCCCATTTTACCCCCGAAC
* *
2007 TTCCAAAAATCGCATTTT
1 TTCCAAAATTCCCATTTT
2025 TTACTCCTTT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.32
Consensus pattern (28 bp):
TTCCAAAATTCCCATTTTACCCCCGAAC
Found at i:2016 original size:57 final size:59
Alignment explanation
Indices: 1867--2016 Score: 137
Period size: 57 Copynumber: 2.6 Consensus size: 59
1857 GAATCTTTCA
* * * * * * *
1867 AAAATTACGATTTTGCTCC-AAAACTTCCAAAAATTACCATTTTTTAGCCCTAAACATAT
1 AAAATTACAATTTTACCCCTAAAGCTTCCAAAAATTACCA-GTTTTACCCCCAAACATAT
* * *
1926 AAAATTACAATTTTACCCCTAAAGTTTCC-AAAATTACC-GTTTTACCCCCGAACATCT
1 AAAATTACAATTTTACCCCTAAAGCTTCCAAAAATTACCAGTTTTACCCCCAAACATAT
* * **
1983 AAAATTCCCATTTTA-CCCTCGAGCTTCCAAAAAT
1 AAAATTACAATTTTACCCCTAAAGCTTCCAAAAAT
2017 CGCATTTTTT
Statistics
Matches: 74, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
56 10 0.14
57 32 0.43
59 25 0.34
60 7 0.09
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (59 bp):
AAAATTACAATTTTACCCCTAAAGCTTCCAAAAATTACCAGTTTTACCCCCAAACATAT
Found at i:4090 original size:16 final size:16
Alignment explanation
Indices: 4047--4118 Score: 67
Period size: 15 Copynumber: 4.2 Consensus size: 16
4037 AAAAATAAAT
4047 AAAAAA-GAAAAGAAAG
1 AAAAAAGGAAAA-AAAG
4063 AAAAAAGG-AAAAAAG
1 AAAAAAGGAAAAAAAG
*
4078 GAAAAAGGAAAAAAAATAG
1 AAAAAAGG--AAAAAA-AG
4097 AGAAAAATGGAAAAAAAG
1 A-AAAAA-GGAAAAAAAG
4115 AAAA
1 AAAA
4119 GGAGAGGTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
15 11 0.23
16 9 0.19
17 4 0.09
18 8 0.17
19 8 0.17
20 5 0.11
21 2 0.04
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (16 bp):
AAAAAAGGAAAAAAAG
Found at i:4111 original size:8 final size:8
Alignment explanation
Indices: 4047--4091 Score: 58
Period size: 8 Copynumber: 5.8 Consensus size: 8
4037 AAAAATAAAT
4047 AAAAAA-G
1 AAAAAAGG
*
4054 AAAAGAAAG
1 AAAA-AAGG
4063 AAAAAAGG
1 AAAAAAGG
4071 AAAAAAGG
1 AAAAAAGG
4079 -AAAAAGG
1 AAAAAAGG
4086 AAAAAA
1 AAAAAA
4092 AATAGAGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
7 11 0.32
8 18 0.53
9 5 0.15
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (8 bp):
AAAAAAGG
Found at i:4117 original size:8 final size:8
Alignment explanation
Indices: 4033--4118 Score: 57
Period size: 8 Copynumber: 9.9 Consensus size: 8
4023 AGATTTAATG
4033 AAGAAAAA
1 AAGAAAAA
*
4041 ATAAATAAAA
1 A-AGA-AAAA
4051 AAGAAAAGA
1 AAGAAAA-A
4060 AAGAAAAA
1 AAGAAAAA
*
4068 AGGAAAAA
1 AAGAAAAA
*
4076 AGGAAAAA
1 AAGAAAAA
4084 GGAA-AAAAA
1 --AAGAAAAA
4093 ATAGAGAAAA
1 A-AGA-AAAA
*
4103 ATGGAAAAA
1 A-AGAAAAA
4112 AAGAAAA
1 AAGAAAA
4119 GGAGAGGTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
7 1 0.02
8 26 0.41
9 23 0.36
10 14 0.22
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (8 bp):
AAGAAAAA
Found at i:4118 original size:27 final size:26
Alignment explanation
Indices: 4033--4118 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 26
4023 AGATTTAATG
* * *
4033 AAGAAAAAATAAATAAAAAAGAAAAGA
1 AAGAAAAAATAGAGAAAAAGGAAAA-A
*
4060 AAGAAAAAA-GGA-AAAAAGGAAAAA
1 AAGAAAAAATAGAGAAAAAGGAAAAA
4084 GGAA-AAAAAATAGAGAAAAATGGAAAAA
1 --AAGAAAAAATAGAGAAAAA-GGAAAAA
4112 AAGAAAA
1 AAGAAAA
4119 GGAGAGGTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
24 1 0.02
25 16 0.33
26 7 0.14
27 18 0.37
28 7 0.14
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (26 bp):
AAGAAAAAATAGAGAAAAAGGAAAAA
Found at i:5137 original size:49 final size:49
Alignment explanation
Indices: 5081--5363 Score: 239
Period size: 49 Copynumber: 5.7 Consensus size: 49
5071 AAGATGCAAT
* * * * *
5081 GGGAAAGGTTGAGGCCGCAATGGCGAACCTGGTACCACGAAGATACGAA
1 GGGAAAGGTTGAGGCCGCAACGACGAACCCGGTACCATGAAGATATGAA
** ** * * *
5130 GGGAAAGGTTGAGGTTGCAACGACGAACCCAATACCTAAGAAGATGTGAT
1 GGGAAAGGTTGAGGCCGCAACGACGAACCCGGTACC-ATGAAGATATGAA
* * * *
5180 GGGAAAGGTTGAGGTCGCAAC-AGTGAACCCAGTACCATAAAGATATGAA
1 GGGAAAGGTTGAGGCCGCAACGA-CGAACCCGGTACCATGAAGATATGAA
* * * *
5229 GGGAAAGGTTGAGGCCGCAACGACGAACCCGATACCGTGAAAAGATGAA
1 GGGAAAGGTTGAGGCCGCAACGACGAACCCGGTACCATGAAGATATGAA
* * * * * *
5278 GGGAAAGATTGAGGCTGCAACGACGAATCTGGTACC-TTAAAAGT-TGAGA
1 GGGAAAGGTTGAGGCCGCAACGACGAACCCGGTACCATGAAGA-TATGA-A
* * *
5327 CGAGAAAGGTTGAGGCCACAACGACGAACCCGATACC
1 -GGGAAAGGTTGAGGCCGCAACGACGAACCCGGTACC
5364 TTAAAAAACA
Statistics
Matches: 188, Mismatches: 40, Indels: 11
0.79 0.17 0.05
Matches are distributed among these distances:
48 8 0.04
49 110 0.59
50 70 0.37
ACGTcount: A:0.36, C:0.19, G:0.31, T:0.14
Consensus pattern (49 bp):
GGGAAAGGTTGAGGCCGCAACGACGAACCCGGTACCATGAAGATATGAA
Found at i:5208 original size:99 final size:99
Alignment explanation
Indices: 5079--5364 Score: 269
Period size: 99 Copynumber: 2.9 Consensus size: 99
5069 AAAAGATGCA
** ** *
5079 ATGGGAAAGGTTGAGGCCGCAATGGCGAACCTGGTACCACGAAGATACGAAGGGAAAGGTTGAGG
1 ATGGGAAAGGTTGAGGCCGCAACAGCGAACCCAGTACCACAAAGATACGAAGGGAAAGGTTGAGG
**
5144 TTGCAACGACGAACCCAATACCTAAGAAGATGTG
66 CCGCAACGACGAACCCAATACCTAAGAAGATGTG
* * * *
5178 ATGGGAAAGGTTGAGGTCGCAACAGTGAACCCAGTACCATAAAGATATGAAGGGAAAGGTTGAGG
1 ATGGGAAAGGTTGAGGCCGCAACAGCGAACCCAGTACCACAAAGATACGAAGGGAAAGGTTGAGG
*
5243 CCGCAACGACGAACCCGATACCGTGAA-AAGA--TG
66 CCGCAACGACGAACCCAATACC-T-AAGAAGATGTG
* * * * ** * * *
5276 AAGGGAAAGATTGAGGCTGCAAC-GACGAATCTGGTACCTTA-AAAGTTGA-GACGAGAAAGGTT
1 ATGGGAAAGGTTGAGGCCGCAACAG-CGAACCCAGTACC--ACAAAGAT-ACGAAGGGAAAGGTT
* *
5338 GAGGCCACAACGACGAACCCGATACCT
62 GAGGCCGCAACGACGAACCCAATACCT
5365 TAAAAAACAA
Statistics
Matches: 157, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
97 1 0.01
98 31 0.20
99 116 0.74
100 7 0.04
101 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.30, T:0.15
Consensus pattern (99 bp):
ATGGGAAAGGTTGAGGCCGCAACAGCGAACCCAGTACCACAAAGATACGAAGGGAAAGGTTGAGG
CCGCAACGACGAACCCAATACCTAAGAAGATGTG
Found at i:5356 original size:148 final size:148
Alignment explanation
Indices: 5081--5357 Score: 324
Period size: 148 Copynumber: 1.9 Consensus size: 148
5071 AAGATGCAAT
* * * * * * * *
5081 GGGAAAGGTTGAGGCCGCAATGGCGAACCTGGTACCACGAAGATACGAAGGGAAAGGTTGAGGTT
1 GGGAAAGGTTGAGGCCGCAACGACGAACCCGATACCACGAAAAGACGAAGGGAAAGATTGAGGCT
* * * * * *
5146 GCAACGACGAACCCAATACCTAAGAAGATGTGATGGGAAAGGTTGAGGTCGCAACAGTGAACCCA
66 GCAACGACGAACCCAATACCTAAGAAGATGAGACGAGAAAGGTTGAGGCCACAACAGCGAACCCA
5211 GTACCATAAAGATATGAA
131 GTACCATAAAGATATGAA
** *
5229 GGGAAAGGTTGAGGCCGCAACGACGAACCCGATACCGTGAAAAGATGAAGGGAAAGATTGAGGCT
1 GGGAAAGGTTGAGGCCGCAACGACGAACCCGATACCACGAAAAGACGAAGGGAAAGATTGAGGCT
* *** *
5294 GCAACGACGAATCTGGTACCTTAA-AAGTTGAGACGAGAAAGGTTGAGGCCACAAC-GACGAACC
66 GCAACGACGAACCCAATACC-TAAGAAGATGAGACGAGAAAGGTTGAGGCCACAACAG-CGAACC
5357 C
129 C
5358 GATACCTTAA
Statistics
Matches: 105, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
147 1 0.01
148 101 0.96
149 3 0.03
ACGTcount: A:0.36, C:0.19, G:0.31, T:0.14
Consensus pattern (148 bp):
GGGAAAGGTTGAGGCCGCAACGACGAACCCGATACCACGAAAAGACGAAGGGAAAGATTGAGGCT
GCAACGACGAACCCAATACCTAAGAAGATGAGACGAGAAAGGTTGAGGCCACAACAGCGAACCCA
GTACCATAAAGATATGAA
Found at i:5420 original size:99 final size:99
Alignment explanation
Indices: 5231--5418 Score: 225
Period size: 100 Copynumber: 1.9 Consensus size: 99
5221 GATATGAAGG
* * * * *
5231 GAAAGGTTGAGGCCGCAACGACGAACCCGATACCGTGAAAAGATGAAGGGAAAGATTGAGGCTGC
1 GAAAGGTTGAGGCCACAACGACGAACCCGATACCGTAAAAACAAGAAGGAAAAGATTGAGGCTGC
** *
5296 AACGACGAATCTGGTACCTTAAAAGTTGAGACGA
66 AACGACGAATCTGAAACCATAAAAGTTGAGACGA
* * *
5330 GAAAGGTTGAGGCCACAACGACGAACCCGATACCTTAAAAAACAAGATGGAAAAGATTGAAG-TC
1 GAAAGGTTGAGGCCACAACGACGAACCCGATACCGT-AAAAACAAGAAGGAAAAGATTGAGGCT-
* * *
5394 GCAATGGCGAATCTTAAACCATAAA
64 GCAACGACGAATCTGAAACCATAAA
5419 GTCGAAGAGA
Statistics
Matches: 73, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
99 35 0.48
100 38 0.52
ACGTcount: A:0.40, C:0.19, G:0.26, T:0.15
Consensus pattern (99 bp):
GAAAGGTTGAGGCCACAACGACGAACCCGATACCGTAAAAACAAGAAGGAAAAGATTGAGGCTGC
AACGACGAATCTGAAACCATAAAAGTTGAGACGA
Found at i:5764 original size:78 final size:77
Alignment explanation
Indices: 5635--5789 Score: 292
Period size: 78 Copynumber: 2.0 Consensus size: 77
5625 AAGAAGGGTA
*
5635 GATTGAAGATTTCAATCTTTTACCCTTAATCAAGAGGGGCAAAATGAAAATTCTGATCTCTTGCC
1 GATTGAAGATTCCAATCTTTTACCCTTAATCAAGAGGGGCAAAATGAAAATTCTGATCTCTTGCC
5700 CCGAGCTTGGAG
66 CCGAGCTTGGAG
5712 NGATTGAAGATTCCAATCTTTTACCCTTAATCAAGAGGGGCAAAATGAAAATTCTGATCTCTTGC
1 -GATTGAAGATTCCAATCTTTTACCCTTAATCAAGAGGGGCAAAATGAAAATTCTGATCTCTTGC
5777 CCCGAGCTTGGAG
65 CCCGAGCTTGGAG
5790 CAGATTACAG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (77 bp):
GATTGAAGATTCCAATCTTTTACCCTTAATCAAGAGGGGCAAAATGAAAATTCTGATCTCTTGCC
CCGAGCTTGGAG
Found at i:6266 original size:171 final size:171
Alignment explanation
Indices: 5978--6347 Score: 462
Period size: 171 Copynumber: 2.2 Consensus size: 171
5968 CCAAATTCAT
* *
5978 CTTCCTGATGAGATATAGAGAAGTGGATTGAAACAAGTGGGGCGGTCATCTTCCTGATGACATAC
1 CTTCCTGATGAGATA-AGAGAAGTGGATTAAAACAAGTGAGGCGGTCATCTTCCTGATGACATAC
* * * * *
6043 AGAGAAGTATACCAACTCAATGAAACAAAGATTAATGAGAGTGAAACTTCGAACCC-AGCTTCCT
65 AGAGAAGTAGACCAAATCAATGAAACAAAGATCAAAGAGAGTCAAACTTCGAACCCTAGCTTCCT
* * *
6107 GATGAGATATTGAGAAGCAGGTCGACA-TAATAAAATGGTCAG
130 GATGAGATACTGAGAAGCAGGTCGA-AGCAATAAAATGATCAG
* * * *
6149 CTTCCTGATGAGATACAGAGAAGTGGATTAAAATAGGTGATGCGGTCATCTTCCTGATGAGATAC
1 CTTCCTGATGAGATA-AGAGAAGTGGATTAAAACAAGTGAGGCGGTCATCTTCCTGATGACATAC
* * * *
6214 TA-AG-AGCTAGACCAAATCAATGAAACCAGGCTCAAAGTGAG-CAAATCTTCGAACCCTAGCTT
65 -AGAGAAG-TAGACCAAATCAATGAAACAAAGATCAAAGAGAGTCAAA-CTTCGAACCCTAGCTT
*
6276 CCTGATGAGATACTGAGAAGTAGGTCGAAGCAATAAAATGATCAG
127 CCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGATCAG
*
6321 CTTCCTAATGAGATGAAGAGAAGTGGA
1 CTTCCTGATGAGAT-AAGAGAAGTGGA
6348 CCAAATCTAT
Statistics
Matches: 172, Mismatches: 21, Indels: 11
0.84 0.10 0.05
Matches are distributed among these distances:
170 5 0.03
171 97 0.56
172 69 0.40
173 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (171 bp):
CTTCCTGATGAGATAAGAGAAGTGGATTAAAACAAGTGAGGCGGTCATCTTCCTGATGACATACA
GAGAAGTAGACCAAATCAATGAAACAAAGATCAAAGAGAGTCAAACTTCGAACCCTAGCTTCCTG
ATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGATCAG
Found at i:6514 original size:209 final size:208
Alignment explanation
Indices: 6149--6977 Score: 1097
Period size: 209 Copynumber: 4.0 Consensus size: 208
6139 AAATGGTCAG
* * * *
6149 CTTCCTGATGAGATACAGAGAAGTGGATTAAAATAGGTGATGCGGTCATCTTCCTGATGAGATAC
1 CTTCCTGATGAGACACAGAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGATAC
* * *
6214 TAAG-AGCTAGACCAAATCAATGAAACCAGGCTCAAAGTGAGCAAATCTTCGAACCCTAGCTTCC
66 TGAGAAG-TAGACCAAATCAATGAAACCAGGCTCAAAGTGAGCAAATCTTCGAACCCCAACTTCC
* * * *
6278 TGATGAGATACTGAGAAGTAGGTCGAAGCAATAAAATGATCAGCTTCCTAATGAGATGA-AGAGA
130 TGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAA-GATTACCTTCCTGATGAGAT-ACAGAGA
*
6342 AGTGGACCAAATCTAT
193 AGTGAACCAAATCTAT
* * * * * *
6358 CTTCTTGATGAGATACAGAGAAGTGGATTAAAACAGGTGATGCGGTTATCTTCTTGATGAGATAC
1 CTTCCTGATGAGACACAGAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGATAC
* *
6423 TGAGAAGTAGACCAAATCAATGAAACCAGGTTCAAAGTGAGCAAATCTTCGAACCCCAACTTCTT
66 TGAGAAGTAGACCAAATCAATGAAACCAGGCTCAAAGTGAGCAAATCTTCGAACCCCAACTTCCT
*
6488 GATGAGATACTGAGAAGCAGGTCGAAGCAATAAAAGCGGTTACCTTCCTGATGAGATACAGAGAA
131 GATGAGATACTGAGAAGCAGGTCGAAGCAATAAAA--GATTACCTTCCTGATGAGATACAGAGAA
* **
6553 GTGAACCAGATCCGT
194 GTGAACCAAATCTAT
* * * *
6568 CTTCCTGATAAGACACAGAGAAGTGGATCAAAACAAGTGATACGATCATCTTCCTAATGAGATAC
1 CTTCCTGATGAGACACAGAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGATAC
* * * * * * *
6633 TGAGAAGTAGACCAAATCAATAAAATCATGTTCAAAGTGAGCAAATCTTTGAACCCCAGCTTCTT
66 TGAGAAGTAGACCAAATCAATGAAACCAGGCTCAAAGTGAGCAAATCTTCGAACCCCAACTTCCT
* * *
6698 GATGAGATACTGAGAAGCAGGTCTAAGCAAT-AGAGCAGTTACCTTCCTGATGAGATACAAAGAA
131 GATGAGATACTGAGAAGCAGGTCGAAGCAATAAAAG-A-TTACCTTCCTGATGAGATACAGAGAA
6762 GTGAACCAAATCTAT
194 GTGAACCAAATCTAT
* * *
6777 CTTCCTGATGAGACACAAAGAAGTGGACCAAAACAAGTGATGCGGTCATCTTCCTGATGACATAC
1 CTTCCTGATGAGACACAGAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGATAC
* * **
6842 TGAGAAGTAGGCCAAGTCAATGAAACCAAACTCAAAGTGAGCAAATCTTCGAACCCCAACTTCCT
66 TGAGAAGTAGACCAAATCAATGAAACCAGGCTCAAAGTGAGCAAATCTTCGAACCCCAACTTCCT
* * * * * *
6907 AATGAGATACAGAGAAGCAGGTCGACGTAATAAAGCGGTTACCTTCCTGATGAGATACAGAGAAG
131 GATGAGATACTGAGAAGCAGGTCGAAGCAATAAA-AGATTACCTTCCTGATGAGATACAGAGAAG
*
6972 TAAACC
195 TGAACC
6978 GAGAGATGAA
Statistics
Matches: 545, Mismatches: 68, Indels: 14
0.87 0.11 0.02
Matches are distributed among these distances:
207 1 0.00
209 362 0.66
210 181 0.33
211 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (208 bp):
CTTCCTGATGAGACACAGAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGATAC
TGAGAAGTAGACCAAATCAATGAAACCAGGCTCAAAGTGAGCAAATCTTCGAACCCCAACTTCCT
GATGAGATACTGAGAAGCAGGTCGAAGCAATAAAAGATTACCTTCCTGATGAGATACAGAGAAGT
GAACCAAATCTAT
Found at i:6927 original size:419 final size:418
Alignment explanation
Indices: 6149--6977 Score: 1189
Period size: 419 Copynumber: 2.0 Consensus size: 418
6139 AAATGGTCAG
* * * * * * * *
6149 CTTCCTGATGAGATACAGAGAAGTGGATTAAAATAGGTGATGCGGTCATCTTCCTGATGAGATAC
1 CTTCCTGATAAGACACAGAGAAGTGGATCAAAACAAGTGATACGATCATCTTCCTAATGAGATAC
* *
6214 TAAGAGCTAGACCAAATCAATGAAACCAGGCTCAAAGTGAGCAAATCTTCGAACCCTAGCTTCCT
66 TAAGAGCTAGACCAAATCAATAAAACCAGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCT
* * *
6279 GATGAGATACTGAGAAGTAGGTCGAAGCAATAAAATGATCAGCTTCCTAATGAGATGAAGAGAAG
131 GATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGATCACCTTCCTAATGAGATGAAAAGAAG
* * * * ** * *
6344 TGGACCAAATCTATCTTCTTGATGAGATACAGAGAAGTGGATTAAAACAGGTGATGCGGTTATCT
196 TGAACCAAATCTATCTTCCTGATGAGACACAAAGAAGTGGACCAAAACAAGTGATGCGGTCATCT
* * ***
6409 TCTTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAGGTTCAAAGTGAGCAAATCTTCG
261 TCCTGATGACATACTGAGAAGTAGACCAAATCAATGAAACCAAACTCAAAGTGAGCAAATCTTCG
* * *
6474 AACCCCAACTTCTTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAAGCGGTTACCTTCCTGA
326 AACCCCAACTTCCTAATGAGATACAGAGAAGCAGGTCGAAGCAAT-AAAGCGGTTACCTTCCTGA
*
6539 TGAGATACAGAGAAGTGAACCAGATCCGT
390 TGAGATACAGAGAAGTAAACCAGATCCGT
6568 CTTCCTGATAAGACACAGAGAAGTGGATCAAAACAAGTGATACGATCATCTTCCTAATGAGATAC
1 CTTCCTGATAAGACACAGAGAAGTGGATCAAAACAAGTGATACGATCATCTTCCTAATGAGATAC
* * * * * *
6633 TGAGAAG-TAGACCAAATCAATAAAATCATGTTCAAAGTGAGCAAATCTTTGAACCCCAGCTTCT
66 TAAG-AGCTAGACCAAATCAATAAAACCAGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCC
* * * *
6697 TGATGAGATACTGAGAAGCAGGTCTAAGCAAT-AGA-GCAGTTACCTTCCTGATGAGAT-ACAAA
130 TGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATG-A-TCACCTTCCTAATGAGATGA-AAA
6759 GAAGTGAACCAAATCTATCTTCCTGATGAGACACAAAGAAGTGGACCAAAACAAGTGATGCGGTC
192 GAAGTGAACCAAATCTATCTTCCTGATGAGACACAAAGAAGTGGACCAAAACAAGTGATGCGGTC
* *
6824 ATCTTCCTGATGACATACTGAGAAGTAGGCCAAGTCAATGAAACCAAACTCAAAGTGAGCAAATC
257 ATCTTCCTGATGACATACTGAGAAGTAGACCAAATCAATGAAACCAAACTCAAAGTGAGCAAATC
* *
6889 TTCGAACCCCAACTTCCTAATGAGATACAGAGAAGCAGGTCGACGTAATAAAGCGGTTACCTTCC
322 TTCGAACCCCAACTTCCTAATGAGATACAGAGAAGCAGGTCGAAGCAATAAAGCGGTTACCTTCC
6954 TGATGAGATACAGAGAAGTAAACC
387 TGATGAGATACAGAGAAGTAAACC
6978 GAGAGATGAA
Statistics
Matches: 362, Mismatches: 44, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
417 1 0.00
418 43 0.12
419 316 0.87
420 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (418 bp):
CTTCCTGATAAGACACAGAGAAGTGGATCAAAACAAGTGATACGATCATCTTCCTAATGAGATAC
TAAGAGCTAGACCAAATCAATAAAACCAGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCT
GATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGATCACCTTCCTAATGAGATGAAAAGAAG
TGAACCAAATCTATCTTCCTGATGAGACACAAAGAAGTGGACCAAAACAAGTGATGCGGTCATCT
TCCTGATGACATACTGAGAAGTAGACCAAATCAATGAAACCAAACTCAAAGTGAGCAAATCTTCG
AACCCCAACTTCCTAATGAGATACAGAGAAGCAGGTCGAAGCAATAAAGCGGTTACCTTCCTGAT
GAGATACAGAGAAGTAAACCAGATCCGT
Found at i:7434 original size:16 final size:16
Alignment explanation
Indices: 7413--7450 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
7403 TTAAATCAAG
*
7413 TTTAAATTTATTTGAA
1 TTTAAATTTATTTAAA
7429 TTTAAATTTATTTAAA
1 TTTAAATTTATTTAAA
7445 TTTAAA
1 TTTAAA
7451 ATAAATAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:9291 original size:30 final size:29
Alignment explanation
Indices: 9217--9402 Score: 153
Period size: 30 Copynumber: 6.2 Consensus size: 29
9207 CCTAAAAGGT
*
9217 CCCTAAATTGTT-CAAAAATCATATTTTGA
1 CCCTAAATT-TTCCAAAAATCACATTTTGA
* * * *
9246 CCGTCGAA-CTTCCAAAAATTACATTTTGA
1 CCCT-AAATTTTCCAAAAATCACATTTTGA
9275 CCCTTAAATTTTCCAAAAATCACATTTTGA
1 CCC-TAAATTTTCCAAAAATCACATTTTGA
* * * * *
9305 GCCCTAAACTTACTAAAAATTATATTTTGA
1 -CCCTAAATTTTCCAAAAATCACATTTTGA
* *
9335 CCTCTTAATTTTCCAAAAATCATATTTTGA
1 CC-CTAAATTTTCCAAAAATCACATTTTGA
* *
9365 CCCCCAAAACTTTTCC-AAAATCACATTTTAA
1 --CCCTAAA-TTTTCCAAAAATCACATTTTGA
9396 CCCTAAA
1 CCCTAAA
9403 ACTTCACAAA
Statistics
Matches: 124, Mismatches: 24, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
28 2 0.02
29 30 0.24
30 65 0.52
31 19 0.15
32 8 0.06
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (29 bp):
CCCTAAATTTTCCAAAAATCACATTTTGA
Found at i:9345 original size:60 final size:59
Alignment explanation
Indices: 9220--9399 Score: 197
Period size: 60 Copynumber: 3.0 Consensus size: 59
9210 AAAAGGTCCC
* *
9220 TAAATTGTT-CAAAAATCATATTTTGACCGTCGAACTTCCAAAAATTACATTTTGACCCT
1 TAAATT-TTCCAAAAATCATATTTTGACCCTCAAACTTCCAAAAATTACATTTTGACCCT
* * *
9279 TAAATTTTCCAAAAATCACATTTTGAGCCCT-AAACTTACTAAAAATTATATTTTGACCTCT
1 TAAATTTTCCAAAAATCATATTTTGA-CCCTCAAACTT-CCAAAAATTACATTTTGACC-CT
* * *
9340 T-AATTTTCCAAAAATCATATTTTGACCCCCAAAACTTTTCC-AAAATCACATTTTAACCCT
1 TAAATTTTCCAAAAATCATATTTTGACCCTC-AAAC--TTCCAAAAATTACATTTTGACCCT
9400 AAAACTTCAC
Statistics
Matches: 102, Mismatches: 11, Indels: 15
0.80 0.09 0.12
Matches are distributed among these distances:
58 2 0.02
59 30 0.29
60 46 0.45
61 21 0.21
62 1 0.01
63 2 0.02
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.36
Consensus pattern (59 bp):
TAAATTTTCCAAAAATCATATTTTGACCCTCAAACTTCCAAAAATTACATTTTGACCCT
Found at i:9421 original size:30 final size:30
Alignment explanation
Indices: 9387--9453 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
9377 TTCCAAAATC
9387 ACATTTTAACC-CTAAAACTTCACAAAGA-TT
1 ACATTTTAACCTCT-AAACTTCACAAA-ATTT
**
9417 ACATTTTTTCCTCTAAACTTCACAAAATTT
1 ACATTTTAACCTCTAAACTTCACAAAATTT
9447 ACATTTT
1 ACATTTT
9454 TGCTCCCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 1 0.03
30 30 0.91
31 2 0.06
ACGTcount: A:0.37, C:0.22, G:0.01, T:0.39
Consensus pattern (30 bp):
ACATTTTAACCTCTAAACTTCACAAAATTT
Found at i:9430 original size:91 final size:90
Alignment explanation
Indices: 9255--9539 Score: 218
Period size: 91 Copynumber: 3.2 Consensus size: 90
9245 ACCGTCGAAC
* ** *
9255 TTCCAAAAATTACATTTTGACCCTTAAATTTTCCAAAAATCACATTTTGAGCCCTAAACTTACTA
1 TTCCAAAAATCACATTTTGACCCCAAAATTTTCCAAAAATCACATTTTGAACCCTAAACTTACTA
*
9320 AAAATTATATTTTGACCTCTTAATT
66 AAAATTACATTTTGACCTCTTAATT
*
9345 TTCCAAAAATCATATTTTGACCCCCAAAACTTTTCC-AAAATCACATTTT-AACCCTAAAACTTC
1 TTCCAAAAATCACATTTTGA-CCCCAAAA-TTTTCCAAAAATCACATTTTGAACCCT-AAACTT-
* ** **
9408 AC-AAAGATTACATTTTTTCCTC-TAAAC
62 ACTAAAAATTACATTTTGACCTCTTAATT
* * * * **
9435 TTCACAAAATTTACATTTTTG-CTCCC-AAA-CTTCCAAAAATTACCATTTT--ACCCCGAACTT
1 TTC-CAAAAATCACA-TTTTGAC-CCCAAAATTTTCCAAAAATCA-CATTTTGAACCCTAAACTT
* *
9495 -CTAAAAATTACCATTTT-ACCTTTTAA-C
62 ACTAAAAATTA-CATTTTGACCTCTTAATT
9522 TTCCAAAAAT-ATCATTTT
1 TTCCAAAAATCA-CATTTT
9540 TAACCTCGAA
Statistics
Matches: 160, Mismatches: 22, Indels: 31
0.75 0.10 0.15
Matches are distributed among these distances:
85 5 0.03
86 9 0.06
87 14 0.09
88 18 0.11
89 10 0.06
90 39 0.24
91 52 0.32
92 13 0.08
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.37
Consensus pattern (90 bp):
TTCCAAAAATCACATTTTGACCCCAAAATTTTCCAAAAATCACATTTTGAACCCTAAACTTACTA
AAAATTACATTTTGACCTCTTAATT
Found at i:9454 original size:30 final size:28
Alignment explanation
Indices: 9401--9511 Score: 95
Period size: 30 Copynumber: 3.8 Consensus size: 28
9391 TTTAACCCTA
9401 AAACTTCACAAAGATTACATTTTT-TCCTC
1 AAACTTCACAAA-ATTACATTTTTCTCC-C
9430 TAAACTTCACAAAATTTACATTTTTGCTCCC
1 -AAACTTCACAAAA-TTACATTTTT-CTCCC
*
9461 AAACTTC-CAAAAATTACCATTTTAC-CCC
1 AAACTTCAC-AAAATTA-CATTTTTCTCCC
*
9489 GAACTTCTA-AAAATTACCATTTT
1 AAACTTC-ACAAAATTA-CATTTT
9512 ACCTTTTAAC
Statistics
Matches: 72, Mismatches: 2, Indels: 16
0.80 0.02 0.18
Matches are distributed among these distances:
28 23 0.32
29 6 0.08
30 39 0.54
31 1 0.01
32 3 0.04
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (28 bp):
AAACTTCACAAAATTACATTTTTCTCCC
Found at i:9501 original size:29 final size:29
Alignment explanation
Indices: 9462--9824 Score: 324
Period size: 29 Copynumber: 12.4 Consensus size: 29
9452 TTTGCTCCCA
*
9462 AACTTCCAAAAATTACCATTTTACCC-CG
1 AACTTCTAAAAATTACCATTTTACCCTCG
* **
9490 AACTTCTAAAAATTACCATTTTACCTTTT
1 AACTTCTAAAAATTACCATTTTACCCTCG
* * *
9519 AACTTCCAAAAA-TATCATTTTTAACCTCG
1 AACTTCTAAAAATTACCA-TTTTACCCTCG
* * * *
9548 AATTTTTTGAAAATTACCATTTTGCTCC-CG
1 AA-CTTCTAAAAATTACCATTTTAC-CCTCG
* *
9578 AACTTCCAAAAATTACCATTTTACCC-CTA
1 AACTTCTAAAAATTACCATTTTACCCTC-G
* * * *
9607 AACATCCAAAAATTGCCGTTTTACCCTCG
1 AACTTCTAAAAATTACCATTTTACCCTCG
*
9636 AACATCTAAAAATTACCATTTTCACCCTCG
1 AACTTCTAAAAATTACCATTTT-ACCCTCG
* * * *
9666 -AGTGTCCAAAAATTATCGTTTTACCCTCG
1 AACT-TCTAAAAATTACCATTTTACCCTCG
*
9695 AACCTCTAAAAATTACCATTTTACCCTCG
1 AACTTCTAAAAATTACCATTTTACCCTCG
*
9724 AACATCTAAAAATTACCATTTTCACCCTCG
1 AACTTCTAAAAATTACCATTTT-ACCCTCG
* * * * *
9754 -AGTGTCCAAAAATTATCGTTTTACCCTTG
1 AACT-TCTAAAAATTACCATTTTACCCTCG
*
9783 AACCTCTAAAAATTACCATTTTACCCTCG
1 AACTTCTAAAAATTACCATTTTACCCTCG
* *
9812 AGCTTCCAAAAAT
1 AACTTCTAAAAAT
9825 CGCATTTTGA
Statistics
Matches: 266, Mismatches: 56, Indels: 25
0.77 0.16 0.07
Matches are distributed among these distances:
28 31 0.12
29 168 0.63
30 61 0.23
31 6 0.02
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.33
Consensus pattern (29 bp):
AACTTCTAAAAATTACCATTTTACCCTCG
Found at i:9569 original size:117 final size:115
Alignment explanation
Indices: 9439--9768 Score: 331
Period size: 117 Copynumber: 2.8 Consensus size: 115
9429 CTAAACTTCA
* * *
9439 CAAAATTTACATTTTTGCTCCCAAACTTCCAAAAATTACCATTTTACCCCGAACTTCTAAAAATT
1 CAAAAATTACA-TTTTGCTCCCGAACTTCCAAAAATTACCATTTTACCCCGAACATCTAAAAATT
* ** * * * * * *
9504 ACCATTTTACCTTTTAACTTCCAAAAA-TATCATTTTTAACCTCGAATTTTT
65 ACCATTTTACCCTCGAACATCCAAAAATTACCATTTTCAACCTCG-AGTGTC
** * *
9555 TGAAAATTACCATTTTGCTCCCGAACTTCCAAAAATTACCATTTTACCCCTAAACATCCAAAAAT
1 CAAAAATTA-CATTTTGCTCCCGAACTTCCAAAAATTACCATTTTACCCC-GAACATCTAAAAAT
* * * *
9620 TGCCGTTTTACCCTCGAACATCTAAAAATTACCATTTTCACCCTCGAGTGTC
64 TACCATTTTACCCTCGAACATCCAAAAATTACCATTTTCAACCTCGAGTGTC
* * * *
9672 CAAAAATTATCGTTTTAC-CCTCGAACCTCTAAAAATTACCATTTTACCCTCGAACATCTAAAAA
1 CAAAAATTA-CATTTTGCTCC-CGAACTTCCAAAAATTACCATTTTACCC-CGAACATCTAAAAA
***
9736 TTACCATTTTCACCCTCGAGTGTCCAAAAATTA
63 TTACCATTTT-ACCCTCGAACATCCAAAAATTA
9769 TCGTTTTACC
Statistics
Matches: 173, Mismatches: 35, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
116 45 0.26
117 95 0.55
118 33 0.19
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (115 bp):
CAAAAATTACATTTTGCTCCCGAACTTCCAAAAATTACCATTTTACCCCGAACATCTAAAAATTA
CCATTTTACCCTCGAACATCCAAAAATTACCATTTTCAACCTCGAGTGTC
Found at i:9629 original size:88 final size:87
Alignment explanation
Indices: 9470--9691 Score: 234
Period size: 88 Copynumber: 2.5 Consensus size: 87
9460 CAAACTTCCA
* ** * *
9470 AAAATTACCATTTTACCCCGAACTTCTAAAAATTACCATTTTACCTTTTAACTTCCAAAAATATC
1 AAAATTACCATTTTACCCCGAACTTCCAAAAATTACCATTTTACCCCTAAACATCCAAAAATATC
*
9535 ATTTTTAACCTCGAATTTTTTG
66 AGTTTTAACCTCGAATTTTTTG
*
9557 AAAATTACCATTTTGCTCCCGAACTTCCAAAAATTACCATTTTACCCCTAAACATCCAAAAAT-T
1 AAAATTACCATTTTAC-CCCGAACTTCCAAAAATTACCATTTTACCCCTAAACATCCAAAAATAT
* * ** * *
9621 GCCGTTTTACCCTCGAA-CATCTA
65 -CAGTTTTAACCTCGAATTTTTTG
* * *
9644 AAAATTACCATTTTCACCCTCG-AGTGTCCAAAAATTATCGTTTTACCC
1 AAAATTACCATTTT-ACCC-CGAACT-TCCAAAAATTACCATTTTACCC
9692 TCGAACCTCT
Statistics
Matches: 113, Mismatches: 17, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
87 36 0.32
88 77 0.68
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (87 bp):
AAAATTACCATTTTACCCCGAACTTCCAAAAATTACCATTTTACCCCTAAACATCCAAAAATATC
AGTTTTAACCTCGAATTTTTTG
Found at i:9691 original size:59 final size:58
Alignment explanation
Indices: 9557--9812 Score: 210
Period size: 59 Copynumber: 4.4 Consensus size: 58
9547 GAATTTTTTG
* * * * * ***
9557 AAAATTACCATTTTGCTCC-CGAACTTCCAAAAATTACCATTTTACCC-CTAAACATCCA
1 AAAATTACCGTTTTAC-CCTCGAACATCTAAAAATTACCATTTTACCCTC-GAGTGTCCA
*
9615 AAAATTGCCGTTTTACCCTCGAACATCTAAAAATTACCATTTTCACCCTCGAGTGTCCA
1 AAAATTACCGTTTTACCCTCGAACATCTAAAAATTACCATTTT-ACCCTCGAGTGTCCA
* * *** *
9674 AAAATTATCGTTTTACCCTCGAACCTCTAAAAATTACCATTTTACCCTCGAACATCTA
1 AAAATTACCGTTTTACCCTCGAACATCTAAAAATTACCATTTTACCCTCGAGTGTCCA
* *** * * * * *** *
9732 AAAATTACCATTTTCACCCTCGAGTGTCCAAAAATTATCGTTTTACCCTTGAACCTCTA
1 AAAATTACCGTTTT-ACCCTCGAACATCTAAAAATTACCATTTTACCCTCGAGTGTCCA
*
9791 AAAATTACCATTTTACCCTCGA
1 AAAATTACCGTTTTACCCTCGA
9813 GCTTCCAAAA
Statistics
Matches: 168, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
57 2 0.01
58 66 0.39
59 99 0.59
60 1 0.01
ACGTcount: A:0.33, C:0.29, G:0.07, T:0.32
Consensus pattern (58 bp):
AAAATTACCGTTTTACCCTCGAACATCTAAAAATTACCATTTTACCCTCGAGTGTCCA
Found at i:9824 original size:88 final size:88
Alignment explanation
Indices: 9582--9812 Score: 381
Period size: 88 Copynumber: 2.6 Consensus size: 88
9572 CTCCCGAACT
* * * * * * * *
9582 TCCAAAAATTACCATTTTACCCCTAAACATCCAAAAATTGCCGTTTTACCCTCGAACATCTAAAA
1 TCCAAAAATTATCGTTTTACCCTTGAACCTCTAAAAATTACCATTTTACCCTCGAACATCTAAAA
9647 ATTACCATTTTCACCCTCGAGTG
66 ATTACCATTTTCACCCTCGAGTG
*
9670 TCCAAAAATTATCGTTTTACCCTCGAACCTCTAAAAATTACCATTTTACCCTCGAACATCTAAAA
1 TCCAAAAATTATCGTTTTACCCTTGAACCTCTAAAAATTACCATTTTACCCTCGAACATCTAAAA
9735 ATTACCATTTTCACCCTCGAGTG
66 ATTACCATTTTCACCCTCGAGTG
9758 TCCAAAAATTATCGTTTTACCCTTGAACCTCTAAAAATTACCATTTTACCCTCGA
1 TCCAAAAATTATCGTTTTACCCTTGAACCTCTAAAAATTACCATTTTACCCTCGA
9813 GCTTCCAAAA
Statistics
Matches: 133, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 133 1.00
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.32
Consensus pattern (88 bp):
TCCAAAAATTATCGTTTTACCCTTGAACCTCTAAAAATTACCATTTTACCCTCGAACATCTAAAA
ATTACCATTTTCACCCTCGAGTG
Found at i:14947 original size:20 final size:21
Alignment explanation
Indices: 14911--14954 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
14901 CAGCAAATAA
14911 TTTTTAAAATTATTAAAATTAT
1 TTTTTAAAATTATTAAAATT-T
14933 TTTTTAAAA-TA-TAAAATTT
1 TTTTTAAAATTATTAAAATTT
14952 TTT
1 TTT
14955 AAATTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.18
20 7 0.32
21 2 0.09
22 9 0.41
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTTAAAATTATTAAAATTT
Found at i:15880 original size:11 final size:11
Alignment explanation
Indices: 15864--15938 Score: 60
Period size: 11 Copynumber: 7.6 Consensus size: 11
15854 GATGATGACT
15864 ATAATTTTAAA
1 ATAATTTTAAA
15875 ATAATTTT--A
1 ATAATTTTAAA
15884 ATAATTTT---
1 ATAATTTTAAA
15892 AT-ATTTTAAA
1 ATAATTTTAAA
*
15902 A-AA-ATTAAA
1 ATAATTTTAAA
* *
15911 TTAATTTAAAA
1 ATAATTTTAAA
15922 ATAATTTTAAA
1 ATAATTTTAAA
15933 A-AATTT
1 ATAATTT
15939 ATATTTTAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
7 5 0.10
8 2 0.04
9 14 0.27
10 9 0.17
11 22 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
ATAATTTTAAA
Found at i:15936 original size:13 final size:13
Alignment explanation
Indices: 15918--15960 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 13
15908 AAATTAATTT
15918 AAAAATAATTTTA
1 AAAAATAATTTTA
15931 AAAAATTTATATTTTA
1 AAAAA--TA-ATTTTA
15947 AAAAATAATTTTA
1 AAAAATAATTTTA
15960 A
1 A
15961 TAATTTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 12 0.44
14 2 0.07
15 2 0.07
16 11 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
AAAAATAATTTTA
Found at i:15946 original size:16 final size:16
Alignment explanation
Indices: 15878--15952 Score: 66
Period size: 16 Copynumber: 4.8 Consensus size: 16
15868 TTTTAAAATA
* *
15878 ATTTTAATAATTTTAT
1 ATTTTAAAAAATTTAT
* *
15894 ATTTTAAAAAAATTAA
1 ATTTTAAAAAATTTAT
*
15910 ATTAATTTAAAAA--TA-
1 ATT--TTAAAAAATTTAT
15925 ATTTTAAAAAATTTAT
1 ATTTTAAAAAATTTAT
15941 ATTTTAAAAAAT
1 ATTTTAAAAAAT
15953 AATTTTAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
13 7 0.15
15 5 0.10
16 29 0.60
18 7 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTTTAAAAAATTTAT
Found at i:15950 original size:29 final size:30
Alignment explanation
Indices: 15894--15960 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 30
15884 ATAATTTTAT
*
15894 ATTTTAAAAAAATTAAATTAATTTAAAAATA
1 ATTTTAAAAAAATTAAATT-ATTAAAAAATA
* *
15925 ATTTTAAAAAATTTATATT-TTAAAAAATA
1 ATTTTAAAAAAATTAAATTATTAAAAAATA
15954 ATTTTAA
1 ATTTTAA
15961 TAATTTTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 16 0.48
31 17 0.52
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (30 bp):
ATTTTAAAAAAATTAAATTATTAAAAAATA
Found at i:24868 original size:29 final size:30
Alignment explanation
Indices: 24836--24892 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
24826 AATGGTTCTT
*
24836 TTTAATA-TTAAAAAAATAAAAATATTAAA
1 TTTAATATTTAAAAAAATAAAAAAATTAAA
* *
24865 TTTATTATTTTAAAAAATAAAAAAATTA
1 TTTAATATTTAAAAAAATAAAAAAATTA
24893 TTAAAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (30 bp):
TTTAATATTTAAAAAAATAAAAAAATTAAA
Found at i:25098 original size:18 final size:18
Alignment explanation
Indices: 25071--25105 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25061 TAACAAATGA
25071 ATTTTGAAAAAATTTTAG
1 ATTTTGAAAAAATTTTAG
* *
25089 ATTTTTAAAACATTTTA
1 ATTTTGAAAAAATTTTA
25106 TTTTTGAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (18 bp):
ATTTTGAAAAAATTTTAG
Found at i:31366 original size:24 final size:24
Alignment explanation
Indices: 31321--31366 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
31311 GGTCAACTAA
* *
31321 ATTATGCTAATAAATGTAAAATAT
1 ATTATACTAATAAATATAAAATAT
*
31345 ATTATACTAATAAATATTAAAT
1 ATTATACTAATAAATATAAAAT
31367 CTTCAAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (24 bp):
ATTATACTAATAAATATAAAATAT
Found at i:33376 original size:16 final size:16
Alignment explanation
Indices: 33333--33378 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
33323 GGGGAATGTG
33333 TAAA-AAACAT-AAATA
1 TAAATAAACATGAAA-A
*
33348 TAAATAGACATGAAAA
1 TAAATAAACATGAAAA
*
33364 TAAATAAAGATGAAA
1 TAAATAAACATGAAA
33379 TAAGAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 4 0.15
16 19 0.73
17 3 0.12
ACGTcount: A:0.67, C:0.04, G:0.09, T:0.20
Consensus pattern (16 bp):
TAAATAAACATGAAAA
Found at i:34165 original size:148 final size:148
Alignment explanation
Indices: 33892--34163 Score: 390
Period size: 146 Copynumber: 1.9 Consensus size: 148
33882 ATCAGTACTA
* * * *
33892 TTCTTAAAGATCAAAACTTTTATTTCAAAATAGTTAAAAAAAATCAAAATTTTGTTTAAAATTTT
1 TTCTTAAAAATCAAAACTTTTATTTCAAAATAATTAAAAAAAATAAAAATTTTGTTTAAAAATTT
* ** ** *
33957 AAACATTTTCCTTTAAAATGATTAAAAATTATATTTTTATTTTTAAAAATTTAAAATTTTTGTCT
66 AAACATTTTCATTTAAAATGACAAAAAAACATATTTTTATTTTTAAAAATCTAAAATTTTTGTCT
34022 TTAAAAAAATCATTATTT
131 TTAAAAAAATCATTATTT
*
34040 TTCTTAAAAATCAAAGCTTTTATTT-AGAAATAATT-AAAAAAATAAAAATTTTGTTTAAAAATT
1 TTCTTAAAAATCAAAACTTTTATTTCA-AAATAATTAAAAAAAATAAAAATTTTGTTTAAAAATT
*
34103 TAAAC--TTTCTATTTAAAATGACAAAAAAACATATTTTTATTTTTAAAAATCTAAACTTTTT
65 TAAACATTTTC-ATTTAAAATGACAAAAAAACATATTTTTATTTTTAAAAATCTAAAATTTTT
34164 TTTTATTTCT
Statistics
Matches: 110, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
145 4 0.04
146 44 0.40
147 32 0.29
148 30 0.27
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (148 bp):
TTCTTAAAAATCAAAACTTTTATTTCAAAATAATTAAAAAAAATAAAAATTTTGTTTAAAAATTT
AAACATTTTCATTTAAAATGACAAAAAAACATATTTTTATTTTTAAAAATCTAAAATTTTTGTCT
TTAAAAAAATCATTATTT
Found at i:34211 original size:108 final size:108
Alignment explanation
Indices: 34057--34276 Score: 302
Period size: 109 Copynumber: 2.0 Consensus size: 108
34047 AAATCAAAGC
*
34057 TTTTATTTAGAAATAATTAAAAAAATAAAAATTTTGTTTAAAAATTTAAACTTTCT-ATTTAAAA
1 TTTTATTTAGAAATAATTAAAAAAATAAAAACTTTGTTTAAAAATTTAAACTTTCTCATTTAAAA
*
34121 TGACAAAAAAACATATTTTTATTTTTAAAAATCTAAACTTT-TT
66 TGACAAAAAAACATATTTTTATTTTAAAAAATCT-AACTTTCTT
** * * * *
34164 TTTTATTTCTAAATAGTT-AAAAAATCAAAACTTTGTTTAATAAAATTTAAACTTTTTCCTTTAA
1 TTTTATTTAGAAATAATTAAAAAAATAAAAACTTTGTTT-A-AAAATTTAAACTTTCTCATTTAA
**
34228 AATGATTAAAAAACATATTTTTATTTTAAAAAATCTAACTTTCTT
64 AATGACAAAAAAACATATTTTTATTTTAAAAAATCTAACTTTCTT
34273 TTTT
1 TTTT
34277 TTAAAAAAAA
Statistics
Matches: 99, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
106 18 0.18
107 16 0.16
108 21 0.21
109 44 0.44
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (108 bp):
TTTTATTTAGAAATAATTAAAAAAATAAAAACTTTGTTTAAAAATTTAAACTTTCTCATTTAAAA
TGACAAAAAAACATATTTTTATTTTAAAAAATCTAACTTTCTT
Found at i:34284 original size:26 final size:25
Alignment explanation
Indices: 34243--34308 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
34233 TTAAAAAACA
*
34243 TATTTTTATTTT--AAAAAATCTAAC
1 TATTTTTCTTTTAAAAAAAAT-TAAC
* *
34267 T-TTCTTTTTTTTAAAAAAAATTCAC
1 TATT-TTTCTTTTAAAAAAAATTAAC
34292 TATTTTTCTTTTAAAAA
1 TATTTTTCTTTTAAAAA
34309 TCTTTATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
23 2 0.06
24 8 0.23
25 16 0.46
26 9 0.26
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (25 bp):
TATTTTTCTTTTAAAAAAAATTAAC
Found at i:38613 original size:2 final size:2
Alignment explanation
Indices: 38606--38637 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
38596 CTTTTTAGCA
38606 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
38638 TATGTGACTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39246 original size:18 final size:18
Alignment explanation
Indices: 39217--39260 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
39207 AAATGTACTA
*
39217 ACAAAT-AAAATGCAGTG
1 ACAAATAAAAATGCAATG
39234 ACAAATAAAAATGCAATG
1 ACAAATAAAAATGCAATG
*
39252 ACAACTAAA
1 ACAAATAAA
39261 TGAAATGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.59, C:0.14, G:0.11, T:0.16
Consensus pattern (18 bp):
ACAAATAAAAATGCAATG
Found at i:56104 original size:113 final size:109
Alignment explanation
Indices: 55948--56243 Score: 292
Period size: 104 Copynumber: 2.8 Consensus size: 109
55938 ATTTGGTAAC
* * * *
55948 TCACGATGACATAGAGTCATCGGACCT-TTAATCTGTAATAGGATTCATTTCTCATTTAATACTC
1 TCACGATGACACATAGTCATCGGACCTCATAATCCGTAA-AGGATTCA-TT-TCA--T-ATACTC
* * *
56012 ACGATGACACATAGTCATTGGACCT-ATAATCCGAAAAGGATTAATATAA
60 ACGATGACACATAGTCATCGAACCTCATAATCCGAAAAGAATTAATATAA
* *
56061 TCACGATGGCACATAGTCATCGGACCTCATAATCCGTAAAGG----A-TTCATATACTCATGATG
1 TCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCATTTCATATACTCACGATG
* * *
56121 ACACATAGTCATCGAACCTCATAATCCGTAAAGAATTCATATAC
66 ACACATAGTCATCGAACCTCATAATCCGAAAAGAATTAATATAA
* * * *
56165 TCAAGATGACACATAATCATCGAACCTCATAATCCGTAAAGG----A-TTCATATACTCATGATG
1 TCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCATTTCATATACTCACGATG
* *
56225 ACACATATTCATCGGACCT
66 ACACATAGTCATCGAACCT
56244 TTTGCATTTA
Statistics
Matches: 163, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
103 28 0.17
104 94 0.58
106 3 0.02
107 1 0.01
109 1 0.01
113 27 0.17
114 9 0.06
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (109 bp):
TCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCATTTCATATACTCACGATG
ACACATAGTCATCGAACCTCATAATCCGAAAAGAATTAATATAA
Found at i:56126 original size:52 final size:52
Alignment explanation
Indices: 56006--56243 Score: 352
Period size: 52 Copynumber: 4.6 Consensus size: 52
55996 TTCTCATTTA
* * *
56006 ATACTCACGATGACACATAGTCATTGGACCT-ATAATCCGAAAAGGATTAAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* *
56057 ATAATCACGATGGCACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * *
56109 ATACTCATGATGACACATAGTCATCGAACCTCATAATCCGTAAAGAATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * *
56161 ATACTCAAGATGACACATAATCATCGAACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* *
56213 ATACTCATGATGACACATATTCATCGGACCT
1 ATACTCACGATGACACATAGTCATCGGACCT
56244 TTTGCATTTA
Statistics
Matches: 170, Mismatches: 16, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
51 28 0.16
52 142 0.84
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
Found at i:57255 original size:16 final size:16
Alignment explanation
Indices: 57231--57263 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
57221 TCCTTACAAA
*
57231 TTTATTCCTTTAACAT
1 TTTAGTCCTTTAACAT
57247 TTTAGTCCTTTAACAT
1 TTTAGTCCTTTAACAT
57263 T
1 T
57264 AAAATCATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.18, G:0.03, T:0.55
Consensus pattern (16 bp):
TTTAGTCCTTTAACAT
Found at i:73193 original size:12 final size:12
Alignment explanation
Indices: 73178--73202 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
73168 ATTAAAGAAT
73178 TAATAGCATTCA
1 TAATAGCATTCA
73190 TAATAGCATTCA
1 TAATAGCATTCA
73202 T
1 T
73203 CATGATAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (12 bp):
TAATAGCATTCA
Found at i:79710 original size:67 final size:67
Alignment explanation
Indices: 79600--79728 Score: 215
Period size: 67 Copynumber: 1.9 Consensus size: 67
79590 CCATTGGCAG
* *
79600 GAAGAGGTACTATGAAGGATAATTCAAGTGACAAATATTTCTATCAAGACTATTCCTCTTTGCAC
1 GAAGACGTACTATGAAGGATAATTCAAGTGACAAATATGTCTATCAAGACTATTCCTCTTTGCAC
79665 AA
66 AA
*
79667 GAAGACGTACT-TCGAAGGATAATTCAAGTGACAAATATGTCTATCAAGATTATTCCTCTTTG
1 GAAGACGTACTAT-GAAGGATAATTCAAGTGACAAATATGTCTATCAAGACTATTCCTCTTTG
79729 TGGAAAAACC
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
66 1 0.02
67 57 0.98
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (67 bp):
GAAGACGTACTATGAAGGATAATTCAAGTGACAAATATGTCTATCAAGACTATTCCTCTTTGCAC
AA
Found at i:89127 original size:23 final size:23
Alignment explanation
Indices: 89101--89144 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
89091 TATCTAGAAG
* *
89101 ATTTAGTATTTATTAGTATAAAT
1 ATTTAGCATTTATTAGCATAAAT
89124 ATTTAGCATTTATTAGCATAA
1 ATTTAGCATTTATTAGCATAA
89145 TTTATTGGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.48
Consensus pattern (23 bp):
ATTTAGCATTTATTAGCATAAAT
Found at i:90758 original size:49 final size:51
Alignment explanation
Indices: 90667--90763 Score: 162
Period size: 49 Copynumber: 1.9 Consensus size: 51
90657 TCTATTGTAT
* *
90667 CGCTTCTTTTAATAAAGACTCTGATTCGCATGTTAAGCATGCCCACTATAA
1 CGCTTCTATTAATAAAGACTCTGATACGCATGTTAAGCATGCCCACTATAA
90718 CGCTTCTATTAATAAA-A-TCTGATACGCATGTTAAGCATGCCCACTA
1 CGCTTCTATTAATAAAGACTCTGATACGCATGTTAAGCATGCCCACTA
90764 AAATTTATGT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
49 28 0.64
50 1 0.02
51 15 0.34
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (51 bp):
CGCTTCTATTAATAAAGACTCTGATACGCATGTTAAGCATGCCCACTATAA
Found at i:91427 original size:74 final size:74
Alignment explanation
Indices: 91323--91478 Score: 294
Period size: 74 Copynumber: 2.1 Consensus size: 74
91313 ACCGATACAA
91323 CCAAGACTTCTATCGATAGAACGAACTCCAGTGAGCAAGGAAGTTGTGGCCTGGGACTTCTACCG
1 CCAAGACTTCTATCGATAGAACGAACTCCAGTGAGCAAGGAAGTTGTGGCCTGGGACTTCTACCG
91388 ATACCTTGG
66 ATACCTTGG
*
91397 CCAAGACTTCTATCGATAGAACGAACTCCAGTGAGCAAGGAAGTTGTGGCTTGGGACTTCTACCG
1 CCAAGACTTCTATCGATAGAACGAACTCCAGTGAGCAAGGAAGTTGTGGCCTGGGACTTCTACCG
*
91462 ATATCTTGG
66 ATACCTTGG
91471 CCAAGACT
1 CCAAGACT
91479 ACCGAAACAA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
74 80 1.00
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.24
Consensus pattern (74 bp):
CCAAGACTTCTATCGATAGAACGAACTCCAGTGAGCAAGGAAGTTGTGGCCTGGGACTTCTACCG
ATACCTTGG
Found at i:95602 original size:18 final size:18
Alignment explanation
Indices: 95557--95603 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
95547 TCATAATCAG
95557 ATGCAGTCACATACTCAA
1 ATGCAGTCACATACTCAA
* * *
95575 ATGTAGTCACATGCTCAT
1 ATGCAGTCACATACTCAA
*
95593 ATGCAATCACA
1 ATGCAGTCACA
95604 GCAAATTGTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.26
Consensus pattern (18 bp):
ATGCAGTCACATACTCAA
Found at i:101107 original size:20 final size:20
Alignment explanation
Indices: 101082--101121 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
101072 ATGTCGGAGC
*
101082 AATCAATATTGAAATTAAGT
1 AATCAATAATGAAATTAAGT
101102 AATCAATAATGAAATTAAGT
1 AATCAATAATGAAATTAAGT
101122 GTAATGTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.53, C:0.05, G:0.10, T:0.33
Consensus pattern (20 bp):
AATCAATAATGAAATTAAGT
Found at i:121849 original size:8 final size:8
Alignment explanation
Indices: 121807--121849 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
121797 TATACTGTTT
*
121807 TATATATA
1 TATAGATA
121815 TATAGATA
1 TATAGATA
*
121823 TATATATA
1 TATAGATA
*
121831 TATATATA
1 TATAGATA
*
121839 TATAGACA
1 TATAGATA
121847 TAT
1 TAT
121850 CTATTTTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (8 bp):
TATAGATA
Found at i:121861 original size:2 final size:2
Alignment explanation
Indices: 121719--121842 Score: 80
Period size: 2 Copynumber: 63.0 Consensus size: 2
121709 TACTGTCTTT
* * *
121719 TA TA TA TA TA TA TA TA TA TA -A CA -A TA TA TG TA TA TA -A AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
121758 T- TGA TA TG TA TG TA TA TA TA TA TA TA TA AA T- TA CTT TCA TA
1 TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA T-A TA
* * *
121799 TA CTG T- TT TA TA TA TA TA TA GA TA TA TA TA TA TA TA TA TA TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
121841 TA
1 TA
121843 GACATATCTA
Statistics
Matches: 97, Mismatches: 15, Indels: 20
0.73 0.11 0.15
Matches are distributed among these distances:
1 6 0.06
2 87 0.90
3 4 0.04
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (2 bp):
TA
Found at i:124186 original size:70 final size:69
Alignment explanation
Indices: 124073--124211 Score: 260
Period size: 70 Copynumber: 2.0 Consensus size: 69
124063 CCAATACCTT
124073 GGCCAAGACTACCGAAACAAGTTATGTTCTACCGATACCTTAGAGGCTTTTACTGAAACAAGTCA
1 GGCCAAGACTACCGAAACAAGTTATGTTCTACCGATACCTTAGAGGCTTTTACTGAAACAAGTCA
124138 AGTC
66 AGTC
*
124142 NGGCCAAGACTACCGAAACAAGTTCTGTTCTACCGATACCTTAGAGGCTTTTACTGAAACAAGTC
1 -GGCCAAGACTACCGAAACAAGTTATGTTCTACCGATACCTTAGAGGCTTTTACTGAAACAAGTC
124207 AAGTC
65 AAGTC
124212 AGCAGCCAAA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (69 bp):
GGCCAAGACTACCGAAACAAGTTATGTTCTACCGATACCTTAGAGGCTTTTACTGAAACAAGTCA
AGTC
Found at i:128407 original size:18 final size:17
Alignment explanation
Indices: 128384--128439 Score: 71
Period size: 18 Copynumber: 3.3 Consensus size: 17
128374 CAATAATGAT
128384 AATAATTTTAAAAATAAA
1 AATAA-TTTAAAAATAAA
*
128402 AATAATTT--AAAGAAA
1 AATAATTTAAAAATAAA
128417 AATAATTTAACAAATAAA
1 AATAATTTAA-AAATAAA
128435 AATAA
1 AATAA
128440 GCTAGAATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 14 0.42
17 3 0.09
18 16 0.48
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (17 bp):
AATAATTTAAAAATAAA
Found at i:135085 original size:3 final size:3
Alignment explanation
Indices: 135079--135124 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
135069 TAAGTCTAAT
*
135079 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGG TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
135125 AGAGGTGAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.30, C:0.00, G:0.35, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:136806 original size:129 final size:129
Alignment explanation
Indices: 136576--136833 Score: 498
Period size: 129 Copynumber: 2.0 Consensus size: 129
136566 AAATAACTCG
*
136576 AATAATTCGAATAAACCAAATATCAAACTATAATATTTTACAATTTTACCCCAAACTCTAAATCT
1 AATAATTCGAATAAACCAAATATCAAACTATAATATTTTACAATTTTACCCCAAACTCAAAATCT
*
136641 TTTTACTTTTTCCCCAAAACTTTTACTCCCCTCTCATCTTATCCCCCATCTACCCCAAACCCAT
66 TTTTACTTTTTCCCCAAAACTTTTACTCCCCTCTCATCTCATCCCCCATCTACCCCAAACCCAT
136705 AATAATTCGAATAAACCAAATATCAAACTATAATATTTTACAATTTTACCCCAAACTCAAAATCT
1 AATAATTCGAATAAACCAAATATCAAACTATAATATTTTACAATTTTACCCCAAACTCAAAATCT
136770 TTTTACTTTTTCCCCAAAACTTTTACTCCCCTCTCATCTCATCCCCCATCTACCCCAAACCCAT
66 TTTTACTTTTTCCCCAAAACTTTTACTCCCCTCTCATCTCATCCCCCATCTACCCCAAACCCAT
136834 TTTTCTCCAA
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 127 1.00
ACGTcount: A:0.34, C:0.31, G:0.01, T:0.33
Consensus pattern (129 bp):
AATAATTCGAATAAACCAAATATCAAACTATAATATTTTACAATTTTACCCCAAACTCAAAATCT
TTTTACTTTTTCCCCAAAACTTTTACTCCCCTCTCATCTCATCCCCCATCTACCCCAAACCCAT
Found at i:136955 original size:26 final size:27
Alignment explanation
Indices: 136909--136992 Score: 109
Period size: 26 Copynumber: 3.1 Consensus size: 27
136899 AACCCTCAAA
* * *
136909 ACTCTTTATTTTCCTCC-AAAACTTTT
1 ACTCTCTACTTTCCCCCTAAAACTTTT
136935 ACTCTCT-CTTTCCCCCTAAAACTTTT
1 ACTCTCTACTTTCCCCCTAAAACTTTT
*
136961 ACTCTCTCACTTTCCCACTAAAACTTTT
1 ACTCTCT-ACTTTCCCCCTAAAACTTTT
136989 ACTC
1 ACTC
136993 CCCTCCCATT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.14
26 22 0.43
28 22 0.43
ACGTcount: A:0.23, C:0.35, G:0.00, T:0.43
Consensus pattern (27 bp):
ACTCTCTACTTTCCCCCTAAAACTTTT
Found at i:138226 original size:49 final size:49
Alignment explanation
Indices: 138169--138263 Score: 145
Period size: 49 Copynumber: 1.9 Consensus size: 49
138159 ATTATATAAA
* *
138169 TATTTAAAGTTAAAAAGGTAAAATATATTATATGGAAAAAAGAAATATT
1 TATTTAAAGTTAAAAAAGTAAAATATATGATATGGAAAAAAGAAATATT
* * *
138218 TATTTAAAGTTAAAAAATTAAATTATATGATATGGTAAAAAGAAAT
1 TATTTAAAGTTAAAAAAGTAAAATATATGATATGGAAAAAAGAAAT
138264 TAAAAAAGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.34
Consensus pattern (49 bp):
TATTTAAAGTTAAAAAAGTAAAATATATGATATGGAAAAAAGAAATATT
Found at i:145229 original size:8 final size:8
Alignment explanation
Indices: 145214--145245 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
145204 TAGTATTTTA
145214 TTTT-ATT
1 TTTTAATT
145221 TTTTAATT
1 TTTTAATT
145229 TTTTAA-T
1 TTTTAATT
145236 TTTTAATT
1 TTTTAATT
145244 TT
1 TT
145246 GTGTTACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 11 0.48
8 12 0.52
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTAATT
Found at i:145238 original size:15 final size:15
Alignment explanation
Indices: 145214--145245 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
145204 TAGTATTTTA
*
145214 TTTTATTTTTTAATT
1 TTTTAATTTTTAATT
145229 TTTTAATTTTTAATT
1 TTTTAATTTTTAATT
145244 TT
1 TT
145246 GTGTTACTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTAATTTTTAATT
Found at i:145381 original size:17 final size:18
Alignment explanation
Indices: 145346--145384 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
145336 ATTAATTTTT
* *
145346 AAATTTAAAATTTTCAAA
1 AAATTAAAAATATTCAAA
145364 AAATTAAAAATATT-AAA
1 AAATTAAAAATATTCAAA
145381 AAAT
1 AAAT
145385 ATATTTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATTAAAAATATTCAAA
Found at i:145876 original size:19 final size:21
Alignment explanation
Indices: 145838--145876 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
145828 CCACCTTAAA
*
145838 GTATATTATTTTTTCATTTTT
1 GTATATTATTTTTACATTTTT
145859 GTAT-TTATTTTTAC-TTTT
1 GTATATTATTTTTACATTTT
145877 AAAGTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.72
Consensus pattern (21 bp):
GTATATTATTTTTACATTTTT
Found at i:146691 original size:23 final size:22
Alignment explanation
Indices: 146659--146705 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
146649 CGTTTAATGA
*
146659 ATTTTTAAAGTTTAATGTTCTT
1 ATTTTTAAAGTTTAATGATCTT
146681 ATTTTATAAAGTTTAATGATCTT
1 ATTTT-TAAAGTTTAATGATCTT
146704 AT
1 AT
146706 AACCCCTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.32, C:0.04, G:0.09, T:0.55
Consensus pattern (22 bp):
ATTTTTAAAGTTTAATGATCTT
Found at i:147976 original size:22 final size:22
Alignment explanation
Indices: 147951--147998 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
147941 TTAACGATTC
147951 AATAAC-TAAA-ATATTATAATAT
1 AATAACATAAATA-ATTA-AATAT
147973 AATAACATAAATAATTAAATAT
1 AATAACATAAATAATTAAATAT
147995 AATA
1 AATA
147999 TGAAACAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 15 0.62
23 8 0.33
24 1 0.04
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (22 bp):
AATAACATAAATAATTAAATAT
Found at i:148848 original size:82 final size:83
Alignment explanation
Indices: 148760--148916 Score: 192
Period size: 82 Copynumber: 1.9 Consensus size: 83
148750 TAACTTCCTT
* * * * * *
148760 AAAATAAAAAAAAATTATTTAAGTTTTTTATAATTTAT-AAAATTTTAA-ATTAATAATAATATA
1 AAAATAAAAAAAAATTAATTAAATTTTTTAAAAATTATAAAAATATTAACATTAA-AATAATAAA
148823 ATTACATTTTAACCTCTTA
65 ATTACATTTTAACCTCTTA
* * *
148842 AAAATAATAATAATTTAATTAAATTTTTTAAAAATTATAAAAATATTAACTATTAAAATAATAAA
1 AAAATAAAAAAAAATTAATTAAATTTTTTAAAAATTATAAAAATATTAAC-ATTAAAATAATAAA
*
148907 ATTATATTTT
65 ATTACATTTT
148917 TATTATCATA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
82 31 0.50
83 9 0.15
84 17 0.27
85 5 0.08
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (83 bp):
AAAATAAAAAAAAATTAATTAAATTTTTTAAAAATTATAAAAATATTAACATTAAAATAATAAAA
TTACATTTTAACCTCTTA
Found at i:150711 original size:15 final size:15
Alignment explanation
Indices: 150690--150725 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
150680 ACGTCTCATA
150690 ATTTATCAAATATAT
1 ATTTATCAAATATAT
* *
150705 TTTTATCTAATATAT
1 ATTTATCAAATATAT
150720 ATTTAT
1 ATTTAT
150726 AACACCTCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTATCAAATATAT
Found at i:153742 original size:28 final size:28
Alignment explanation
Indices: 153679--153772 Score: 91
Period size: 28 Copynumber: 3.4 Consensus size: 28
153669 AGTTGATGTA
* * *
153679 TTCTGGCTC-ATAAGAGCAATATTCTAGA
1 TTCTGGCTCGAAAAGAGCATTATTCT-GT
* * * *
153707 CTCCGGCTCGAAAAGAGCGTTATTTTGT
1 TTCTGGCTCGAAAAGAGCATTATTCTGT
*
153735 TTCTGGCTCGAAAGGAGCATTATTCTGT
1 TTCTGGCTCGAAAAGAGCATTATTCTGT
*
153763 TTTTGGCTCG
1 TTCTGGCTCG
153773 TATGAGCGAT
Statistics
Matches: 52, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
28 40 0.77
29 12 0.23
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.35
Consensus pattern (28 bp):
TTCTGGCTCGAAAAGAGCATTATTCTGT
Found at i:156927 original size:35 final size:36
Alignment explanation
Indices: 156855--156933 Score: 90
Period size: 35 Copynumber: 2.2 Consensus size: 36
156845 TGGAGTCTTA
* * *
156855 AAGAGCTCGTATGAGTTGAAATTACTAGTAAATTTG
1 AAGAGTTCGTATGAGTTGAAATTACTAGGAAACTTG
* *
156891 AAGCGTTCGTATGA-TCTG-AATTACTGGGAAACTTG
1 AAGAGTTCGTATGAGT-TGAAATTACTAGGAAACTTG
156926 AAGAGTTC
1 AAGAGTTC
156934 ATTGAGATAC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
35 22 0.61
36 14 0.39
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (36 bp):
AAGAGTTCGTATGAGTTGAAATTACTAGGAAACTTG
Found at i:184408 original size:20 final size:21
Alignment explanation
Indices: 184383--184421 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
184373 AACTCAACTC
184383 GACTTGACTCG-AAATTTTTT
1 GACTTGACTCGAAAATTTTTT
*
184403 GACTTGATTCGAAAATTTT
1 GACTTGACTCGAAAATTTT
184422 CAAATTAAGT
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:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (21 bp):
GACTTGACTCGAAAATTTTTT
Found at i:192867 original size:34 final size:31
Alignment explanation
Indices: 192785--192867 Score: 76
Period size: 32 Copynumber: 2.5 Consensus size: 31
192775 GTAATATGGA
* *
192785 AATTTAATAGTAAGTTTATATTTGGATTTCTT
1 AATTT-ATACTAAGTTTATATTGGGATTTCTT
* * *
192817 AATATTATATTGAGTTTATATTGGGATTTTGTTT
1 AAT-TTATACTAAGTTTATATTGGGA-TTT-CTT
192851 GAATTTATACTAAGTTT
1 -AATTTATACTAAGTTT
192868 TGGTTAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
32 20 0.49
33 5 0.12
34 13 0.32
35 3 0.07
ACGTcount: A:0.30, C:0.02, G:0.14, T:0.53
Consensus pattern (31 bp):
AATTTATACTAAGTTTATATTGGGATTTCTT
Found at i:197912 original size:41 final size:41
Alignment explanation
Indices: 197855--197937 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
197845 AGCATATATG
197855 TTAAAAAATATGATCCAAAAGACATTTCCACCCTTTTCCTT
1 TTAAAAAATATGATCCAAAAGACATTTCCACCCTTTTCCTT
* *
197896 TTAAAAAATCTGATCCAAAAGACTTTTCCACCCTTTTCCTT
1 TTAAAAAATATGATCCAAAAGACATTTCCACCCTTTTCCTT
197937 T
1 T
197938 CACTCCTCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (41 bp):
TTAAAAAATATGATCCAAAAGACATTTCCACCCTTTTCCTT
Found at i:207832 original size:7 final size:7
Alignment explanation
Indices: 207820--207900 Score: 83
Period size: 7 Copynumber: 11.0 Consensus size: 7
207810 CCAAAAAAGG
207820 AGAAAAA
1 AGAAAAA
207827 AGAAAAGAAA
1 AG--AA-AAA
207837 AGAAAAA
1 AGAAAAA
207844 AGAAAAA
1 AGAAAAA
207851 AGAAAAA
1 AGAAAAA
207858 AGAAAAAA
1 AG-AAAAA
207866 AGAAGAAA
1 AGAA-AAA
*
207874 A-AAGAA
1 AGAAAAA
* *
207880 GGAGAAA
1 AGAAAAA
207887 AGAAAAA
1 AGAAAAA
207894 AGAAAAA
1 AGAAAAA
207901 GGAGAGGTAG
Statistics
Matches: 62, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
6 2 0.03
7 40 0.65
8 13 0.21
9 2 0.03
10 5 0.08
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (7 bp):
AGAAAAA
Found at i:207842 original size:25 final size:24
Alignment explanation
Indices: 207820--207900 Score: 110
Period size: 25 Copynumber: 3.3 Consensus size: 24
207810 CCAAAAAAGG
207820 AGAAAAAAGAAAAGAAAAGAAAAA
1 AGAAAAAAGAAAAGAAAAGAAAAA
*
207844 AGAAAAAAGAAAAAAGAAAA-AAAGA
1 AGAAAAAAG--AAAAGAAAAGAAAAA
*
207869 AGAAAAAAGAAGGAGAAAAGAAAAA
1 AGAAAAAAGAA-AAGAAAAGAAAAA
207894 AGAAAAA
1 AGAAAAA
207901 GGAGAGGTAG
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
23 2 0.04
24 15 0.30
25 24 0.48
26 9 0.18
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (24 bp):
AGAAAAAAGAAAAGAAAAGAAAAA
Found at i:207850 original size:18 final size:18
Alignment explanation
Indices: 207820--207901 Score: 95
Period size: 18 Copynumber: 4.8 Consensus size: 18
207810 CCAAAAAAGG
207820 AGAAAAAAG-AAAAGAAA
1 AGAAAAAAGAAAAAGAAA
207837 AGAAAAAAG---AA-AAA
1 AGAAAAAAGAAAAAGAAA
207851 AGAAAAAAGAAAAA-AAGA
1 AGAAAAAAGAAAAAGAA-A
**
207869 AGAAAAAAGAAGGAGAAA
1 AGAAAAAAGAAAAAGAAA
207887 AGAAAAAAGAAAAAG
1 AGAAAAAAGAAAAAG
207902 GAGAGGTAGA
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
14 12 0.21
15 2 0.04
17 13 0.23
18 27 0.48
19 2 0.04
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (18 bp):
AGAAAAAAGAAAAAGAAA
Found at i:208896 original size:99 final size:98
Alignment explanation
Indices: 208756--210038 Score: 1037
Period size: 99 Copynumber: 13.1 Consensus size: 98
208746 TAATAAAGCA
* * *
208756 GATTAAAACAAGTAA-CAGATCTCAATGCCCCTGAGGTTACAGTGGAATGGAGTGAATTTATAAC
1 GATTAAAACAAG-AAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAGTTACAAC
* * * * *
208820 ATCAAATCCTATACCCCTGAAATTGCAGTGGGTTG
65 AACAAATCCTATACTCCTGAAGTTGTAGTGGG-CG
* * * *
208855 GATTAAATCCAGAAGAAGATCTCAATGTCCCTGAGGATACAGTGGAATGGAGTGAAGCTT-CAAC
1 GATTAAAACAAGAAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAG-TTACAAC
* *
208919 AACAAATACTAT-CTTCCTGAAGTTGTAGTGAAGCG
65 AACAAATCCTATAC-TCCTGAAGTTGTAGTG-GGCG
* * *
208954 GATTAAAACAAGTTA-CAAATCTCAATGTCCCTAAGGTTACAGTGGAATGGAGTGAAGTTAC-AC
1 GATTAAAACAAG-AAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAGTTACAAC
* *
209017 -ACTAAATCTTATACTCCTGAAGTTGCAGTGGGTCG
65 AAC-AAATCCTATACTCCTGAAGTTGTAGTGGG-CG
** * * *
209052 GATTAATGCTAGAAGCAGATCTCAATGTCCTTGGGGTT-CAAGTGGAATGGAGTGAAGCTT-CAA
1 GATTAAAACAAGAAGCAGATCTCAATGTCCCTGAGGTTAC-AGTGGAATGGAGTGAAG-TTACAA
* ** * * *
209115 CAAAAAATCCTAT-CTTTTTGAAGTTATAGTGAAGCA
64 CAACAAATCCTATAC-TCCTGAAGTTGTAGTG-GGCG
* * *
209151 GATTAAAACAAGTAGCAGATCTCAATGTCCTTAAGGTTACAGTGGAATGGAGT--AGTTACAACA
1 GATTAAAACAAGAAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAGTTACAACA
*
209214 TCAAATCCTATAC-CCTTGAAGTTGTAGTGGGTCG
66 ACAAATCCTATACTCC-TGAAGTTGTAGTGGG-CG
* * * * * * *
209248 GATTAAAGCTAGAAGCAGATATCAATTTCCCTGAGGTTACAATGGAATGAAGTGAAGCTT-TAAC
1 GATTAAAACAAGAAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAG-TTACAAC
** * *
209312 AACAAATCCTATGTTCCTGAAGTTGTAGTGAAGCC
65 AACAAATCCTATACTCCTGAAGTTGTAGTG-GGCG
* * * * * *
209347 GATTAAAACAACAAGCATATCTTAATGTCCCTGAGATTACAGTAG-ATGGAGTGAAGTTACAATA
1 GATTAAAACAAGAAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAGTTACAACA
* * ** *
209411 ACAAATCATATACCCCTGAAGTTACAGTGGGTCA
66 ACAAATCCTATACTCCTGAAGTTGTAGTGGG-CG
* * * * * *
209445 GATTAAAGCCAGAAGCAAATCTCAATGTCCCTGAGGGTATAGTGGAATGGAGTGAAGCTT-TAAC
1 GATTAAAACAAGAAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAG-TTACAAC
* ** *
209509 AACAAATCCTATATTCCTGAAGTTACAGTGAAGCG
65 AACAAATCCTATACTCCTGAAGTTGTAGTG-GGCG
* * * * *
209544 GATTAAAACAAGTAGCATATCTCAATGTCCCTGAAGTTATAGTGGAATGGAGTGAAGTAACAA-A
1 GATTAAAACAAGAAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAGTTACAACA
* *
209608 ACCAAATCCTATAC-CCTTAAAGTTGTAGTGGGTCA
66 A-CAAATCCTATACTCC-TGAAGTTGTAGTGGG-CG
* * * *
209643 GATT------A-AAGTAGATCTCAATGTCCTTGAGGTTATAGTGGAATGGAGTGAAGCTT-CAAA
1 GATTAAAACAAGAAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAG-TTACAAC
* * * *
209700 AACAAATCCCAT-CTTTCTGAAGTTGCAGTGAAGCG
65 AACAAATCCTATAC-TCCTGAAGTTGTAGTG-GGCG
* * *
209735 GATTAAAACAAGTAGCAGATCTCAATGTCCCTGAGGTTATAGTGGAATGGAATGAAGTTACAAC-
1 GATTAAAACAAGAAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAGTTACAACA
* * * *
209799 ACTAAATCTTATACCCCTGAAGTTGTAATGGGGCT
66 AC-AAATCCTATACTCCTGAAGTTGTAGT-GGGCG
* * *
209834 AATTAAAACTAGAAGCAGATCTCAATG-CCCTTGAGGTTACAGTGGAATGGAGTGAAGCCT-CAA
1 GATTAAAACAAGAAGCAGATCTCAATGTCCC-TGAGGTTACAGTGGAATGGAGTGAAG-TTACAA
* * * * ** * *
209897 TACCAAATCCTAT-CTTCTTTAAGTTACAGTGAAGCA
64 CAACAAATCCTATAC-TCCTGAAGTTGTAGTG-GGCG
* * * * * * *
209933 AATTAAAATAAGTAATG-A-ATCTCAATGTCCCTAAGGTTACAGTTGAAAGGTGTAAAGTTACAA
1 GATTAAAACAAG-AA-GCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAGTTACAA
* * ** *
209996 CACCAAATCCTATACCCCTGAAGTTACAGTGGGTCA
64 CAACAAATCCTATACTCCTGAAGTTGTAGTGGG-CG
210032 GATTAAA
1 GATTAAA
210039 GTTACAAAAG
Statistics
Matches: 946, Mismatches: 176, Indels: 124
0.76 0.14 0.10
Matches are distributed among these distances:
91 1 0.00
92 68 0.07
93 6 0.01
96 3 0.00
97 81 0.09
98 170 0.18
99 590 0.62
100 26 0.03
101 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (98 bp):
GATTAAAACAAGAAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAGTTACAACA
ACAAATCCTATACTCCTGAAGTTGTAGTGGGCG
Found at i:209130 original size:197 final size:198
Alignment explanation
Indices: 208718--210039 Score: 1532
Period size: 197 Copynumber: 6.7 Consensus size: 198
208708 TGGACCAGTG
* * * * *
208718 AACACCAAATCCTATCTTCCTAAAGTTGTAATAAAGCAGATTAAAACAAGTAACAGATCTCAATG
1 AACAACAAATCCTATCTTCCTGAAGTTGTAGTGAAGCAGATTAAAACAAGTAGCAGATCTCAATG
* * * * *
208783 CCCCTGAGGTTACAGTGGAATGGAGTGAATTTATAACA-TCAAATCCTATACCCCTGAAATTGCA
66 TCCCTAAGGTTACAGTGGAATGGAGTGAAGTTACAACACT-AAATCCTATACCCCTGAAGTTGCA
* * * * *
208847 GTGGGTTGGATTAAATCCAGAAGAAGATCTCAATGTCCCTGAGGATACAGTGGAATGGAGTGAAG
130 GTGGGTCGGATTAAAGCTAGAAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAG
208912 CTTC
195 CTTC
* * *
208916 AACAACAAATACTATCTTCCTGAAGTTGTAGTGAAGCGGATTAAAACAAGTTA-CAAATCTCAAT
1 AACAACAAATCCTATCTTCCTGAAGTTGTAGTGAAGCAGATTAAAACAAG-TAGCAGATCTCAAT
* *
208980 GTCCCTAAGGTTACAGTGGAATGGAGTGAAGTTAC-ACACTAAATCTTATACTCCTGAAGTTGCA
65 GTCCCTAAGGTTACAGTGGAATGGAGTGAAGTTACAACACTAAATCCTATACCCCTGAAGTTGCA
* * *
209044 GTGGGTCGGATTAATGCTAGAAGCAGATCTCAATGTCCTTGGGGTT-CAAGTGGAATGGAGTGAA
130 GTGGGTCGGATTAAAGCTAGAAGCAGATCTCAATGTCCCTGAGGTTAC-AGTGGAATGGAGTGAA
209108 GCTTC
194 GCTTC
* ** *
209113 AACAAAAAATCCTATCTTTTTGAAGTTATAGTGAAGCAGATTAAAACAAGTAGCAGATCTCAATG
1 AACAACAAATCCTATCTTCCTGAAGTTGTAGTGAAGCAGATTAAAACAAGTAGCAGATCTCAATG
* * *
209178 TCCTTAAGGTTACAGTGGAATGGAGT--AGTTACAACA-TCAAATCCTATACCCTTGAAGTTGTA
66 TCCCTAAGGTTACAGTGGAATGGAGTGAAGTTACAACACT-AAATCCTATACCCCTGAAGTTGCA
* * * *
209240 GTGGGTCGGATTAAAGCTAGAAGCAGATATCAATTTCCCTGAGGTTACAATGGAATGAAGTGAAG
130 GTGGGTCGGATTAAAGCTAGAAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAG
*
209305 CTTT
195 CTTC
* * ** * *
209309 AACAACAAATCCTATGTTCCTGAAGTTGTAGTGAAGCCGATTAAAACAACAAGCATATCTTAATG
1 AACAACAAATCCTATCTTCCTGAAGTTGTAGTGAAGCAGATTAAAACAAGTAGCAGATCTCAATG
* * * * * *
209374 TCCCTGAGATTACAGTAG-ATGGAGTGAAGTTACAATAAC-AAATCATATACCCCTGAAGTTACA
66 TCCCTAAGGTTACAGTGGAATGGAGTGAAGTTACAA-CACTAAATCCTATACCCCTGAAGTTGCA
* * * * *
209437 GTGGGTCAGATTAAAGCCAGAAGCAAATCTCAATGTCCCTGAGGGTATAGTGGAATGGAGTGAAG
130 GTGGGTCGGATTAAAGCTAGAAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAG
*
209502 CTTT
195 CTTC
* ** * *
209506 AACAACAAATCCTATATTCCTGAAGTTACAGTGAAGCGGATTAAAACAAGTAGCATATCTCAATG
1 AACAACAAATCCTATCTTCCTGAAGTTGTAGTGAAGCAGATTAAAACAAGTAGCAGATCTCAATG
* * * * * * *
209571 TCCCTGAA-GTTATAGTGGAATGGAGTGAAGTAACAAAACCAAATCCTATACCCTTAAAGTTGTA
66 TCCCT-AAGGTTACAGTGGAATGGAGTGAAGTTACAACACTAAATCCTATACCCCTGAAGTTGCA
* * *
209635 GTGGGTCAGATTAAAG-T------AGATCTCAATGTCCTTGAGGTTATAGTGGAATGGAGTGAAG
130 GTGGGTCGGATTAAAGCTAGAAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAG
209693 CTTC
195 CTTC
* * * * *
209697 AAAAACAAATCCCATCTTTCTGAAGTTGCAGTGAAGCGGATTAAAACAAGTAGCAGATCTCAATG
1 AACAACAAATCCTATCTTCCTGAAGTTGTAGTGAAGCAGATTAAAACAAGTAGCAGATCTCAATG
* * * * * *
209762 TCCCTGAGGTTATAGTGGAATGGAATGAAGTTACAACACTAAATCTTATACCCCTGAAGTTGTAA
66 TCCCTAAGGTTACAGTGGAATGGAGTGAAGTTACAACACTAAATCCTATACCCCTGAAGTTGCAG
* ** *
209827 TGGGGCTAATTAAAACTAGAAGCAGATCTCAATG-CCCTTGAGGTTACAGTGGAATGGAGTGAAG
131 TGGGTCGGATTAAAGCTAGAAGCAGATCTCAATGTCCC-TGAGGTTACAGTGGAATGGAGTGAAG
*
209891 CCTC
195 CTTC
* * * * ** * *
209895 AATACCAAATCCTATCTTCTTTAAGTTACAGTGAAGCAAATTAAAATAAGTA--ATGAATCTCAA
1 AACAACAAATCCTATCTTCCTGAAGTTGTAGTGAAGCAGATTAAAACAAGTAGCA-G-ATCTCAA
* * * * * *
209958 TGTCCCTAAGGTTACAGTTGAAAGGTGTAAAGTTACAACACCAAATCCTATACCCCTGAAGTTAC
64 TGTCCCTAAGGTTACAGTGGAATGGAGTGAAGTTACAACACTAAATCCTATACCCCTGAAGTTGC
*
210023 AGTGGGTCAGATTAAAG
129 AGTGGGTCGGATTAAAG
210040 TTACAAAAGT
Statistics
Matches: 959, Mismatches: 140, Indels: 50
0.83 0.12 0.04
Matches are distributed among these distances:
190 1 0.00
191 165 0.17
192 1 0.00
195 14 0.01
196 155 0.16
197 328 0.34
198 293 0.31
199 2 0.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (198 bp):
AACAACAAATCCTATCTTCCTGAAGTTGTAGTGAAGCAGATTAAAACAAGTAGCAGATCTCAATG
TCCCTAAGGTTACAGTGGAATGGAGTGAAGTTACAACACTAAATCCTATACCCCTGAAGTTGCAG
TGGGTCGGATTAAAGCTAGAAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAGC
TTC
Found at i:209461 original size:393 final size:394
Alignment explanation
Indices: 208718--210039 Score: 1607
Period size: 393 Copynumber: 3.4 Consensus size: 394
208708 TGGACCAGTG
* * ** * * *
208718 AACACCAAATCCTATCTTCCTAAAGTTGTAATAAAGCAGATTAAAACAAGTAACAGATCTCAATG
1 AACAACAAATCCTATCTTCCTGAAGTTACAGTGAAGCAGATTAAAACAAGTAGCAGATCTCAATG
* * * * * *
208783 CCCCTGAGGTTACAGTGGAATGGAGTGAATTTATAACATCAAATCCTATACCCCTGAAATTGCAG
66 TCCCTAAGGTTACAGTGGAATGGAGT-AAGTTACAACACCAAATCCTATACCCCTGAAGTTGCAG
** * * *
208848 TGGGTTGGATTAAATCCAGAAGAAGATCTCAATGTCCCTGAGGATACAGTGGAATGGAGTGAAGC
130 TGGGTCAGATTAAAGCTAGAAG-AGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAGC
* *
208913 TTCAACAACAAATACTATCTTCCTGAAGTTGTAGTGAAGCGGATTAAAACAAGTTA-CAAATCTC
194 TTCAACAACAAATCCTATCTTCCTGAAGTTGTAGTGAAGCGGATTAAAACAA-CTAGCAAATCTC
* *
208977 AATGTCCCTAAGGTTACAGTGGAATGGAGTGAAGTTAC-ACACTAAATCTTATACTCCTGAAGTT
258 AATGTCCCTGAGGTTACAGTGGAATGGAGTGAAGTTACAACACTAAATCTTATACCCCTGAAGTT
* *
209041 GCAGTGGGTCGGATTAATGCTAGAAGCAGATCTCAATGTCCTTGGGGTT-CAAGTGGAATGGAGT
323 GCAGTGGGTCAGATTAAAGCTAGAAGCAGATCTCAATGTCCTTGGGGTTAC-AGTGGAATGGAGT
209105 GAAGCTTC
387 GAAGCTTC
* ** *
209113 AACAAAAAATCCTATCTTTTTGAAGTTATAGTGAAGCAGATTAAAACAAGTAGCAGATCTCAATG
1 AACAACAAATCCTATCTTCCTGAAGTTACAGTGAAGCAGATTAAAACAAGTAGCAGATCTCAATG
* * * *
209178 TCCTTAAGGTTACAGTGGAATGGAGT-AGTTACAACATCAAATCCTATACCCTTGAAGTTGTAGT
66 TCCCTAAGGTTACAGTGGAATGGAGTAAGTTACAACACCAAATCCTATACCCCTGAAGTTGCAGT
* * * * *
209242 GGGTCGGATTAAAGCTAGAAGCAGATATCAATTTCCCTGAGGTTACAATGGAATGAAGTGAAGCT
131 GGGTCAGATTAAAGCTAGAAG-AGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAGCT
* * * * * *
209307 TTAACAACAAATCCTATGTTCCTGAAGTTGTAGTGAAGCCGATTAAAACAACAAGCATATCTTAA
195 TCAACAACAAATCCTATCTTCCTGAAGTTGTAGTGAAGCGGATTAAAACAACTAGCAAATCTCAA
* * * * *
209372 TGTCCCTGAGATTACAGTAG-ATGGAGTGAAGTTACAATAAC-AAATCATATACCCCTGAAGTTA
260 TGTCCCTGAGGTTACAGTGGAATGGAGTGAAGTTACAA-CACTAAATCTTATACCCCTGAAGTTG
* * * *
209435 CAGTGGGTCAGATTAAAGCCAGAAGCAAATCTCAATGTCCCTGAGGG-TATAGTGGAATGGAGTG
324 CAGTGGGTCAGATTAAAGCTAGAAGCAGATCTCAATGTCCTTG-GGGTTACAGTGGAATGGAGTG
*
209499 AAGCTTT
388 AAGCTTC
* * *
209506 AACAACAAATCCTATATTCCTGAAGTTACAGTGAAGCGGATTAAAACAAGTAGCATATCTCAATG
1 AACAACAAATCCTATCTTCCTGAAGTTACAGTGAAGCAGATTAAAACAAGTAGCAGATCTCAATG
* * * * * *
209571 TCCCTGAA-GTTATAGTGGAATGGAGTGAAGTAACAAAACCAAATCCTATACCCTTAAAGTTGTA
66 TCCCT-AAGGTTACAGTGGAATGGAGT-AAGTTACAACACCAAATCCTATACCCCTGAAGTTGCA
* *
209635 GTGGGTCAGATTAAAG-T-----AGATCTCAATGTCCTTGAGGTTATAGTGGAATGGAGTGAAGC
129 GTGGGTCAGATTAAAGCTAGAAGAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAGC
* * * * * *
209694 TTCAAAAACAAATCCCATCTTTCTGAAGTTGCAGTGAAGCGGATTAAAACAAGTAGCAGATCTCA
194 TTCAACAACAAATCCTATCTTCCTGAAGTTGTAGTGAAGCGGATTAAAACAACTAGCAAATCTCA
* *
209759 ATGTCCCTGAGGTTATAGTGGAATGGAATGAAGTTACAACACTAAATCTTATACCCCTGAAGTTG
259 ATGTCCCTGAGGTTACAGTGGAATGGAGTGAAGTTACAACACTAAATCTTATACCCCTGAAGTTG
* * * * * *
209824 TAATGGGGCTA-ATTAAAACTAGAAGCAGATCTCAATGCCCTTGAGGTTACAGTGGAATGGAGTG
324 CAGTGGGTC-AGATTAAAGCTAGAAGCAGATCTCAATGTCCTTGGGGTTACAGTGGAATGGAGTG
*
209888 AAGCCTC
388 AAGCTTC
* * * * * *
209895 AATACCAAATCCTATCTTCTTTAAGTTACAGTGAAGCAAATTAAAATAAGTA--ATGAATCTCAA
1 AACAACAAATCCTATCTTCCTGAAGTTACAGTGAAGCAGATTAAAACAAGTAGCA-G-ATCTCAA
* * * *
209958 TGTCCCTAAGGTTACAGTTGAAAGGTGTAAAGTTACAACACCAAATCCTATACCCCTGAAGTTAC
64 TGTCCCTAAGGTTACAGTGGAATGGAGT-AAGTTACAACACCAAATCCTATACCCCTGAAGTTGC
210023 AGTGGGTCAGATTAAAG
128 AGTGGGTCAGATTAAAG
210040 TTACAAAAGT
Statistics
Matches: 794, Mismatches: 118, Indels: 36
0.84 0.12 0.04
Matches are distributed among these distances:
387 1 0.00
388 114 0.14
389 209 0.26
390 1 0.00
392 16 0.02
393 319 0.40
394 8 0.01
395 126 0.16
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (394 bp):
AACAACAAATCCTATCTTCCTGAAGTTACAGTGAAGCAGATTAAAACAAGTAGCAGATCTCAATG
TCCCTAAGGTTACAGTGGAATGGAGTAAGTTACAACACCAAATCCTATACCCCTGAAGTTGCAGT
GGGTCAGATTAAAGCTAGAAGAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAGCTT
CAACAACAAATCCTATCTTCCTGAAGTTGTAGTGAAGCGGATTAAAACAACTAGCAAATCTCAAT
GTCCCTGAGGTTACAGTGGAATGGAGTGAAGTTACAACACTAAATCTTATACCCCTGAAGTTGCA
GTGGGTCAGATTAAAGCTAGAAGCAGATCTCAATGTCCTTGGGGTTACAGTGGAATGGAGTGAAG
CTTC
Found at i:210137 original size:50 final size:50
Alignment explanation
Indices: 210062--210218 Score: 208
Period size: 50 Copynumber: 3.1 Consensus size: 50
210052 TAAAGAGGTT
* *
210062 GATTGAAATCGCAAGGGTGAATCTTATACCCCTAAAGCTATAGAGAAATA
1 GATTGAAATCGCAAGGGTGAATCTTATACCCCTAAAGCTATAGAGGAGTA
* * * ** *
210112 GATTGAAGTTGCAAGGGCGAATCTTATACATCTAAAGCTATTA-AGGGGTA
1 GATTGAAATCGCAAGGGTGAATCTTATACCCCTAAAGCTA-TAGAGGAGTA
* *
210162 GATTGAAACCACAAGGGTGAATCTTATACCCCTAAAGCTATAGAGGAGTA
1 GATTGAAATCGCAAGGGTGAATCTTATACCCCTAAAGCTATAGAGGAGTA
210212 GATTGAA
1 GATTGAA
210219 GCCCACCTAA
Statistics
Matches: 89, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
49 2 0.02
50 85 0.96
51 2 0.02
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.25
Consensus pattern (50 bp):
GATTGAAATCGCAAGGGTGAATCTTATACCCCTAAAGCTATAGAGGAGTA
Found at i:210238 original size:32 final size:32
Alignment explanation
Indices: 210192--210253 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
210182 ATCTTATACC
210192 CCTAAAGCTATAGAGGAGTAGATTGAAGCCCA
1 CCTAAAGCTATAGAGGAGTAGATTGAAGCCCA
*
210224 CCTAAAGC-AGTAGAGGGGTAGATTGAAGCC
1 CCTAAAGCTA-TAGAGGAGTAGATTGAAGCC
210254 GCAAGGATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 1 0.04
32 27 0.96
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.18
Consensus pattern (32 bp):
CCTAAAGCTATAGAGGAGTAGATTGAAGCCCA
Found at i:210369 original size:182 final size:182
Alignment explanation
Indices: 210062--210401 Score: 463
Period size: 182 Copynumber: 1.9 Consensus size: 182
210052 TAAAGAGGTT
* *
210062 GATTGAAATCGCAAGGGTGAATCTTATACCCCTAAAGCTATAGAGAAATAGATTGAAGTTGCAAG
1 GATTGAAACCGCAAGGATGAATCTTATACCCCTAAAGCTATAGAGAAATAGATTGAAGTTGCAAG
* * * *
210127 GGCGAATCTTATACATCTAAAGCTATTAAGGGGTAGATTGAAACCACAAGGGTGAATCTTATACC
66 AGCGAATCTTAGACACCTAAAGCTATTAAGGGGTAGATTGAAACCACAAGGGCGAATCTTATACC
* * *
210192 CCTAAAGCTATAGAGGAGTAGATTGAAGCCCACCTAAAGCAGTAGAGGGGTA
131 CCTAAAGCTATAAAGGAGCAAATTGAAGCCCACCTAAAGCAGTAGAGGGGTA
* * **
210244 GATTGAAGCCGCAAGGATGAATCTTATACCCCTAAAGCTGT-GAATGAGCT-GATTGAAGTTGCA
1 GATTGAAACCGCAAGGATGAATCTTATACCCCTAAAGCTATAG-A-GAAATAGATTGAAGTTGCA
** **
210307 AGAGCGAATCTTAGACACCTAAAG-T-TGTAGAGGGGTAGATTGAAGTCGTAAGGGCGAATCTTA
64 AGAGCGAATCTTAGACACCTAAAGCTAT-TA-AGGGGTAGATTGAAACCACAAGGGCGAATCTTA
210370 TACCCCTAAAGCTATAAAGGAGCAAATTGAAG
127 TACCCCTAAAGCTATAAAGGAGCAAATTGAAG
210402 TCGCAAGGGC
Statistics
Matches: 137, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
180 1 0.01
181 4 0.03
182 129 0.94
183 3 0.02
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (182 bp):
GATTGAAACCGCAAGGATGAATCTTATACCCCTAAAGCTATAGAGAAATAGATTGAAGTTGCAAG
AGCGAATCTTAGACACCTAAAGCTATTAAGGGGTAGATTGAAACCACAAGGGCGAATCTTATACC
CCTAAAGCTATAAAGGAGCAAATTGAAGCCCACCTAAAGCAGTAGAGGGGTA
Found at i:210399 original size:100 final size:100
Alignment explanation
Indices: 210222--210578 Score: 414
Period size: 100 Copynumber: 3.6 Consensus size: 100
210212 GATTGAAGCC
* * * ** * *
210222 CACCTAAAGCAGTAGAGGGGTAGATTGAAGCCGCAAGGATGAATCTTATACCCCTAAAGCTGTGA
1 CACCTAAAGCTGTAGAGGGGCAGATTGAAGCCGTAAGGGCGAATCTTATACCCCTAAAGCTATAA
* * *
210287 ATGAGCTGATTGAAGTTGCAAGAGCGAATCTTAG-A
66 AGGAGCAGATTGAAGTTGCAAGAGCAAATCTT-GTA
* * *
210322 CACCTAAAGTTGTAGAGGGGTAGATTGAAGTCGTAAGGGCGAATCTTATACCCCTAAAGCTATAA
1 CACCTAAAGCTGTAGAGGGGCAGATTGAAGCCGTAAGGGCGAATCTTATACCCCTAAAGCTATAA
* * * *
210387 AGGAGCAAATTGAAGTCGCAAGGGCAAATCTCGTA
66 AGGAGCAGATTGAAGTTGCAAGAGCAAATCTTGTA
* * * * *
210422 CACC-AAAGCTATAGAGGGGCAGATTGAAGCCGTAAGAGTGAATCTTATACCCCTAAAGTTATAG
1 CACCTAAAGCTGTAGAGGGGCAGATTGAAGCCGTAAGGGCGAATCTTATACCCCTAAAGCTATAA
* *
210486 AGGGGCAGATTGAAGCTGCAA-AGGCAAATCTTGTA
66 AGGAGCAGATTGAAGTTGCAAGA-GCAAATCTTGTA
* * * * *
210521 CCCCTAAAGCTGTAGAGGGGCGGATTGAAGCCGTAAGGGCAAATGTTATACCCTTAAA
1 CACCTAAAGCTGTAGAGGGGCAGATTGAAGCCGTAAGGGCGAATCTTATACCCCTAAA
210579 TTTGTAGAGA
Statistics
Matches: 217, Mismatches: 37, Indels: 6
0.83 0.14 0.02
Matches are distributed among these distances:
99 84 0.39
100 133 0.61
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.22
Consensus pattern (100 bp):
CACCTAAAGCTGTAGAGGGGCAGATTGAAGCCGTAAGGGCGAATCTTATACCCCTAAAGCTATAA
AGGAGCAGATTGAAGTTGCAAGAGCAAATCTTGTA
Found at i:210585 original size:50 final size:50
Alignment explanation
Indices: 210224--210587 Score: 291
Period size: 50 Copynumber: 7.3 Consensus size: 50
210214 TTGAAGCCCA
** * * ***
210224 CCTAAAGCAGTAGAGGGGTAGATTGAAGCCGCAAGGATGAATCTTATACC
1 CCTAAAGTTGTAGAGGGGCAGATTGAAGCCGTAAGGGCAAATCTTATACC
* * * * ** * * * * *
210274 CCTAAAGCTGT-GAATGAGCTGATTGAAGTTGCAAGAGCGAATCTTAGACA
1 CCTAAAGTTGTAG-AGGGGCAGATTGAAGCCGTAAGGGCAAATCTTATACC
* * *
210324 CCTAAAGTTGTAGAGGGGTAGATTGAAGTCGTAAGGGCGAATCTTATACC
1 CCTAAAGTTGTAGAGGGGCAGATTGAAGCCGTAAGGGCAAATCTTATACC
* * * * * * * ** *
210374 CCTAAAGCTATAAAGGAGCAAATTGAAGTCGCAAGGGCAAATCTCGTACA
1 CCTAAAGTTGTAGAGGGGCAGATTGAAGCCGTAAGGGCAAATCTTATACC
* * * **
210424 CC-AAAGCTATAGAGGGGCAGATTGAAGCCGTAAGAGTGAATCTTATACC
1 CCTAAAGTTGTAGAGGGGCAGATTGAAGCCGTAAGGGCAAATCTTATACC
* * * * *
210473 CCTAAAGTTATAGAGGGGCAGATTGAAGCTGCAAAGGCAAATCTTGTACC
1 CCTAAAGTTGTAGAGGGGCAGATTGAAGCCGTAAGGGCAAATCTTATACC
* * *
210523 CCTAAAGCTGTAGAGGGGCGGATTGAAGCCGTAAGGGCAAATGTTATACC
1 CCTAAAGTTGTAGAGGGGCAGATTGAAGCCGTAAGGGCAAATCTTATACC
* *
210573 CTTAAATTTGTAGAG
1 CCTAAAGTTGTAGAG
210588 AAGCAGATCC
Statistics
Matches: 248, Mismatches: 63, Indels: 6
0.78 0.20 0.02
Matches are distributed among these distances:
49 39 0.16
50 208 0.84
51 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (50 bp):
CCTAAAGTTGTAGAGGGGCAGATTGAAGCCGTAAGGGCAAATCTTATACC
Found at i:214133 original size:40 final size:40
Alignment explanation
Indices: 214087--214189 Score: 145
Period size: 40 Copynumber: 2.6 Consensus size: 40
214077 AACGCTACAT
* * *
214087 AAGGTAAAGCAATAGCGGCG-TTTTTCTATGAACACCTCAA
1 AAGGTAAAGCAATAGCGACGTTTTTTC-ATAAACACCGCAA
* *
214127 AAGGTAAAGCAATAGCAACATTTTTTCATAAACACCGCAA
1 AAGGTAAAGCAATAGCGACGTTTTTTCATAAACACCGCAA
214167 AAGGTAAAGCAATAGCGACGTTT
1 AAGGTAAAGCAATAGCGACGTTT
214190 ATAGAAAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 49 0.89
41 6 0.11
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.23
Consensus pattern (40 bp):
AAGGTAAAGCAATAGCGACGTTTTTTCATAAACACCGCAA
Found at i:215846 original size:17 final size:16
Alignment explanation
Indices: 215815--215848 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
215805 ATATATAAAA
*
215815 GGATAATATAAAATTT
1 GGATAATAAAAAATTT
215831 GGATATATAAAAAATTT
1 GGATA-ATAAAAAATTT
215848 G
1 G
215849 TTATATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (16 bp):
GGATAATAAAAAATTT
Found at i:215999 original size:41 final size:41
Alignment explanation
Indices: 215954--216091 Score: 134
Period size: 41 Copynumber: 3.3 Consensus size: 41
215944 TGTTTATGGA
* *
215954 AAAAACGCCGCTAAAGGTTAGAGCATTAGCGGCATTTTCTC
1 AAAAATGCCGCTAAAGGTTAGAGCATTAGCGGCGTTTTCTC
* * * * ***
215995 AAAAATGCCACAAAAGGTCCAGAGTATTAGCGGCGTTTATGGG
1 AAAAATGCCGCTAAAGGT-TAGAGCATTAGCGGCGTTT-TCTC
* * *
216038 AAAAATGCCGCTAAATGTTA-AGCAATAGCGTCGTTTTCTC
1 AAAAATGCCGCTAAAGGTTAGAGCATTAGCGGCGTTTTCTC
*
216078 ATAAATGCCGCTAA
1 AAAAATGCCGCTAA
216092 TTTTATTAAT
Statistics
Matches: 75, Mismatches: 20, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
40 14 0.19
41 28 0.37
42 17 0.23
43 16 0.21
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.25
Consensus pattern (41 bp):
AAAAATGCCGCTAAAGGTTAGAGCATTAGCGGCGTTTTCTC
Found at i:216292 original size:47 final size:47
Alignment explanation
Indices: 216172--216292 Score: 188
Period size: 47 Copynumber: 2.6 Consensus size: 47
216162 ACCTGTCCTT
* *
216172 AAACCCCAAATTTCTCTAATCCATAATTCTTAATTTCTCCTCTCTCA
1 AAACCCCAAATTTCTCCAATCCTTAATTCTTAATTTCTCCTCTCTCA
* *
216219 AACCCCCAAATTTCTCCAATCCTTAATTCTTGATTTCTCCTCTCTCA
1 AAACCCCAAATTTCTCCAATCCTTAATTCTTAATTTCTCCTCTCTCA
* *
216266 AAATCCCAAATTTCTCCAATCTTTAAT
1 AAACCCCAAATTTCTCCAATCCTTAAT
216293 CCCTAATTCT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.29, C:0.32, G:0.01, T:0.38
Consensus pattern (47 bp):
AAACCCCAAATTTCTCCAATCCTTAATTCTTAATTTCTCCTCTCTCA
Found at i:218590 original size:110 final size:109
Alignment explanation
Indices: 218392--218796 Score: 444
Period size: 110 Copynumber: 3.8 Consensus size: 109
218382 TCCCATCAAA
* *
218392 ATTTAATTCAAAATATTAAATTATTTAATTATATTTAAATAAATATTAAATTATTAAAAACAACC
1 ATTTAATTAAAAATATTTAATTATTTAATTATATTTAAA-AAATATTAAATTATTAAAAACAACC
* *
218457 GAATTATTTAAATAATTAGTTATTTATTAAACCTTGAACCCAACT
65 GAATTATTTAAATAATTAGTTATTTATTAAACCCTAAACCCAACT
218502 ATTTAATTAAAAATATTTAATTATTTAATTATATTTAAATAAATATTAAATTATTAAAAACAACC
1 ATTTAATTAAAAATATTTAATTATTTAATTATATTTAAA-AAATATTAAATTATTAAAAACAACC
* *
218567 AAATTATTT--A-AA-TAGTTATTTATTAAACCCTAAATCCAACT
65 GAATTATTTAAATAATTAGTTATTTATTAAACCCTAAACCCAACT
* ** ** * * * *** *
218608 ATTTAATTATATTTAAATAAATA-TTAAAT-TA-TTAAAACA-ACCGAATTATTTAAATA-AA--
1 ATTTAATTAAAAATATTTAATTATTTAATTATATTTAAAAAATATTAAATTA-TTAAAAACAACC
* * * * *
218666 TAATTA-TT---TAGTTAGTTAATTATTAAACCCTAAACCTAATT
65 GAATTATTTAAATAATTAGTTATTTATTAAACCCTAAACCCAACT
* *
218707 ATTTAATTAAAAATATTTAATTATTTAATTATATTTAAAAAATATTAAATTGTTATAAACAACCG
1 ATTTAATTAAAAATATTTAATTATTTAATTATATTTAAAAAATATTAAATTATTAAAAACAACCG
*
218772 AATTATTTAAATAATTAATTATTTA
66 AATTATTTAAATAATTAGTTATTTA
218797 ATTAGTTATT
Statistics
Matches: 239, Mismatches: 42, Indels: 29
0.77 0.14 0.09
Matches are distributed among these distances:
98 3 0.01
99 47 0.20
100 5 0.02
101 10 0.04
102 20 0.08
103 12 0.05
104 2 0.01
105 10 0.04
106 45 0.19
107 2 0.01
108 1 0.00
109 11 0.05
110 71 0.30
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.42
Consensus pattern (109 bp):
ATTTAATTAAAAATATTTAATTATTTAATTATATTTAAAAAATATTAAATTATTAAAAACAACCG
AATTATTTAAATAATTAGTTATTTATTAAACCCTAAACCCAACT
Found at i:218737 original size:121 final size:121
Alignment explanation
Indices: 218607--218836 Score: 374
Period size: 121 Copynumber: 1.9 Consensus size: 121
218597 TAAATCCAAC
218607 TATTTAATTATATTTAAATAAATATTAAATTATTA-AAACAACCGAATTATTTAAATAAATAATT
1 TATTTAATTATATTTAAA-AAATATTAAATTATTATAAACAACCGAATTATTTAAATAAATAATT
* * *
218671 ATTTAGTTAGTTAATTATTAAACCCTAAAC-CTAATTATTTAATTAAAAATATTTAAT
65 ATTTAATTAGTTAATTATTAAAACCTAAACTC-AACTATTTAATTAAAAATATTTAAT
* *
218728 TATTTAATTATATTTAAAAAATATTAAATTGTTATAAACAACCGAATTATTTAAATAATTAATTA
1 TATTTAATTATATTTAAAAAATATTAAATTATTATAAACAACCGAATTATTTAAATAAATAATTA
*
218793 TTTAATTAGTTATTTATTAAAACCTAAACTCAACTATTTAATTA
66 TTTAATTAGTTAATTATTAAAACCTAAACTCAACTATTTAATTA
218837 TATTTAAATA
Statistics
Matches: 101, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
120 15 0.15
121 85 0.84
122 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (121 bp):
TATTTAATTATATTTAAAAAATATTAAATTATTATAAACAACCGAATTATTTAAATAAATAATTA
TTTAATTAGTTAATTATTAAAACCTAAACTCAACTATTTAATTAAAAATATTTAAT
Found at i:218858 original size:100 final size:100
Alignment explanation
Indices: 218728--219137 Score: 725
Period size: 100 Copynumber: 4.1 Consensus size: 100
218718 AATATTTAAT
*
218728 TATTTAATTATATTTAAA-AAATATTAAATTGTTATAAACAACCGAATTATTTAAATAATTAATT
1 TATTTAATTATATTTAAATAAATATTAAATTGTTATAAACAACCGAATTATTTAAAAAATTAATT
218792 ATTTAATTAGTTATTTATTAAAACCTAAACTCAAC
66 ATTTAATTAGTTATTTATTAAAACCTAAACTCAAC
218827 TATTTAATTATATTTAAATAAATATTAAATTGTTATAAACAACCGAATTATTTAAAAAATTAATT
1 TATTTAATTATATTTAAATAAATATTAAATTGTTATAAACAACCGAATTATTTAAAAAATTAATT
*
218892 ATATAATTAGTTATTTATTAAAACCTAAACTCAAC
66 ATTTAATTAGTTATTTATTAAAACCTAAACTCAAC
* *
218927 TATTTAATTATATTTAAATAAATATTAAATTATTATAAAAAACCGAATTATTTAAAAAATTAATT
1 TATTTAATTATATTTAAATAAATATTAAATTGTTATAAACAACCGAATTATTTAAAAAATTAATT
218992 ATTTAATTAGTTATTTATTAAAACCTAAACTCAAC
66 ATTTAATTAGTTATTTATTAAAACCTAAACTCAAC
* *
219027 TATTTAATTATATTTAAATAAATATTAAATTGTTATAAACAACCGAATTATTTATATAATTAATT
1 TATTTAATTATATTTAAATAAATATTAAATTGTTATAAACAACCGAATTATTTAAAAAATTAATT
* *
219092 ATTTAATTAATTATTTATTAAACCCTAAA-TCCAAC
66 ATTTAATTAGTTATTTATTAAAACCTAAACT-CAAC
219127 TATTTAATTAT
1 TATTTAATTAT
219138 TAAAAACAAC
Statistics
Matches: 298, Mismatches: 11, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
99 19 0.06
100 279 0.94
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.43
Consensus pattern (100 bp):
TATTTAATTATATTTAAATAAATATTAAATTGTTATAAACAACCGAATTATTTAAAAAATTAATT
ATTTAATTAGTTATTTATTAAAACCTAAACTCAAC
Found at i:219093 original size:16 final size:16
Alignment explanation
Indices: 219072--219110 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
219062 TAAACAACCG
219072 AATTATTT-ATATAATT
1 AATTATTTAAT-TAATT
219088 AATTATTTAATTAATT
1 AATTATTTAATTAATT
*
219104 ATTTATT
1 AATTATT
219111 AAACCCTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 19 0.90
17 2 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
AATTATTTAATTAATT
Found at i:219106 original size:12 final size:12
Alignment explanation
Indices: 219072--219112 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
219062 TAAACAACCG
* *
219072 AATTATTTATAT
1 AATTAATTATTT
219084 AATTAATTATTT
1 AATTAATTATTT
219096 AATTAATTATTT
1 AATTAATTATTT
219108 -ATTAA
1 AATTAA
219113 ACCCTAAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 5 0.19
12 22 0.81
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AATTAATTATTT
Found at i:219207 original size:13 final size:14
Alignment explanation
Indices: 219189--219219 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
219179 TTAAACCCTA
219189 AATTC-AAATATTT
1 AATTCAAAATATTT
219202 AATTCAAAATATTT
1 AATTCAAAATATTT
219216 AATT
1 AATT
219220 ATTTAATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (14 bp):
AATTCAAAATATTT
Found at i:223899 original size:51 final size:51
Alignment explanation
Indices: 223727--223897 Score: 261
Period size: 51 Copynumber: 3.4 Consensus size: 51
223717 CGAAAGGGTT
*
223727 CGATGACTAAGTGTCATCATGAGTAAATGAATCCTTTACGAATTAAAAGTC
1 CGATGACTAAGTGTCATCATGAGTAAATGAATCCTTTACGGATTAAAAGTC
*
223778 CGATGACTAAGTGTCATCATGAGTAAATGAATCCTTTACGGATAAAAAGTC
1 CGATGACTAAGTGTCATCATGAGTAAATGAATCCTTTACGGATTAAAAGTC
* * * * *
223829 CGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGATGGATTAAATGTC
1 CGATGACTAAGTGTCATCATGAGTAAATGAATCCTTTACGGATTAAAAGTC
**
223880 CGATGACTCCGTGTCATC
1 CGATGACTAAGTGTCATC
223898 GTAAGTATGA
Statistics
Matches: 110, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 110 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (51 bp):
CGATGACTAAGTGTCATCATGAGTAAATGAATCCTTTACGGATTAAAAGTC
Found at i:223935 original size:102 final size:101
Alignment explanation
Indices: 223723--223955 Score: 249
Period size: 102 Copynumber: 2.3 Consensus size: 101
223713 TAAACGAAAG
* * *
223723 GGTTCGATGACTAAGTGTCATCATGAGTAAATGAATCCTTTACGAATTAAAAGTCCGATGACTAA
1 GGTTCGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACGAATTAAAAGTCCGATGACTAA
* * *
223788 GTGTCATCATGAGTAAATGAATCCTTTACGGATAAAAA
66 GTGTCATCATAAGT-AATGAATCCTATAC-GAAAAAAA
* * * * **
223826 -GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGATGGATTAAATGTCCGATGACTCC
1 GGTTCGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACGAATTAAAAGTCCGATGACTAA
*
223890 GTGTCATCGTAAGT-ATGAATTCCTATAC-AAAACAAGA
66 GTGTCATCATAAGTAATGAA-TCCTATACGAAAA-AA-A
* *
223927 GGTTCGATGTCTATA-TGTCATTGTGAGTA
1 GGTTCGATGACTA-AGTGTCATCGTGAGTA
223956 TTAAATGAAA
Statistics
Matches: 109, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
99 3 0.03
100 7 0.06
101 8 0.07
102 90 0.83
103 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.30
Consensus pattern (101 bp):
GGTTCGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACGAATTAAAAGTCCGATGACTAA
GTGTCATCATAAGTAATGAATCCTATACGAAAAAAA
Found at i:230535 original size:51 final size:51
Alignment explanation
Indices: 230459--230584 Score: 182
Period size: 51 Copynumber: 2.5 Consensus size: 51
230449 GAAAGGGTCT
* * * *
230459 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAAGTTC
1 GATGACTATGTGTCATCGTGAGTAAATGAATCCATGACGGATTAAAAGTCC
* *
230510 GATGACTATGTGTCATCGTGAGTAAATGAATCCATGATGGATTAAAGGTCC
1 GATGACTATGTGTCATCGTGAGTAAATGAATCCATGACGGATTAAAAGTCC
230561 GATGACT-TCGTGTCATCGTGAGTA
1 GATGACTAT-GTGTCATCGTGAGTA
230585 TGAATTCCTA
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 1 0.01
51 67 0.99
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (51 bp):
GATGACTATGTGTCATCGTGAGTAAATGAATCCATGACGGATTAAAAGTCC
Found at i:233914 original size:21 final size:21
Alignment explanation
Indices: 233890--233942 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
233880 CTACAACTTA
233890 AAGTAGAGGCAGCAGCGAGGG
1 AAGTAGAGGCAGCAGCGAGGG
* *
233911 AAGTGGAGGTAGCAGCGAGGG
1 AAGTAGAGGCAGCAGCGAGGG
*
233932 AAGCAGAGGCA
1 AAGTAGAGGCA
233943 ACAAGAAAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.34, C:0.13, G:0.47, T:0.06
Consensus pattern (21 bp):
AAGTAGAGGCAGCAGCGAGGG
Found at i:234317 original size:43 final size:43
Alignment explanation
Indices: 234245--234428 Score: 255
Period size: 43 Copynumber: 4.3 Consensus size: 43
234235 ATCTGTTAAT
*
234245 TTTAGTGGTGTTTGT-GGGAGAAGCACCGCTAAAGACCATGTTC
1 TTTAGTGGCGTTTGTGGGGA-AAGCACCGCTAAAGACCATGTTC
* *
234288 TTTAGTGGCGTTTGTGGGGAATGCGCCGCTAAAGACCATGTTC
1 TTTAGTGGCGTTTGTGGGGAAAGCACCGCTAAAGACCATGTTC
* * *
234331 TTTAGCGGCGTTTGT-GGGAAAGCACTGCTAAAGACCATGTTT
1 TTTAGTGGCGTTTGTGGGGAAAGCACCGCTAAAGACCATGTTC
* *
234373 TTTAGTGGCGTTTGTGGGAAAAGCATCGCTAAAGACCATGTTC
1 TTTAGTGGCGTTTGTGGGGAAAGCACCGCTAAAGACCATGTTC
* *
234416 TATAGCGGCGTTT
1 TTTAGTGGCGTTT
234429 TTCCACATAA
Statistics
Matches: 124, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
42 37 0.30
43 83 0.67
44 4 0.03
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (43 bp):
TTTAGTGGCGTTTGTGGGGAAAGCACCGCTAAAGACCATGTTC
Found at i:234389 original size:85 final size:86
Alignment explanation
Indices: 234245--234428 Score: 280
Period size: 85 Copynumber: 2.2 Consensus size: 86
234235 ATCTGTTAAT
* * * *
234245 TTTAGTGGTGTTTGTGGGAGAAGCACCGCTAAAGACCATGTTCTTTAGTGGCGTTTGTGGGGAAT
1 TTTAGCGGCGTTTGTGGGAGAAGCACCGCTAAAGACCATGTTCTTTAGTGGCGTTTGTGGGAAAA
*
234310 GCGCCGCTAAAGACCATGTTC
66 GCACCGCTAAAGACCATGTTC
* *
234331 TTTAGCGGCGTTTGTGGGA-AAGCACTGCTAAAGACCATGTTTTTTAGTGGCGTTTGTGGGAAAA
1 TTTAGCGGCGTTTGTGGGAGAAGCACCGCTAAAGACCATGTTCTTTAGTGGCGTTTGTGGGAAAA
*
234395 GCATCGCTAAAGACCATGTTC
66 GCACCGCTAAAGACCATGTTC
*
234416 TATAGCGGCGTTT
1 TTTAGCGGCGTTT
234429 TTCCACATAA
Statistics
Matches: 89, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
85 72 0.81
86 17 0.19
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (86 bp):
TTTAGCGGCGTTTGTGGGAGAAGCACCGCTAAAGACCATGTTCTTTAGTGGCGTTTGTGGGAAAA
GCACCGCTAAAGACCATGTTC
Found at i:238953 original size:52 final size:52
Alignment explanation
Indices: 238610--238952 Score: 587
Period size: 52 Copynumber: 6.6 Consensus size: 52
238600 TTCTAATTTG
* * *
238610 ATACTCACGATGGCACATAGTCATCGGACCTCATAATCTGAAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * * *
238662 ATGCTCACGATGACATATAGTCATCGGACCTCAAAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
*
238714 ATACTCACGATGACACATAGTCATAGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
*
238766 ATACTCACGATGGCACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
238818 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* *
238870 ATACTCACGTTGACACATAGTCATCGGACCTTATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
238922 ATACTCACGATGACACATAGTCATCGGACCT
1 ATACTCACGATGACACATAGTCATCGGACCT
238953 TTTGCATTTA
Statistics
Matches: 273, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 273 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.25
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
Found at i:241561 original size:112 final size:112
Alignment explanation
Indices: 241311--241542 Score: 322
Period size: 112 Copynumber: 2.1 Consensus size: 112
241301 CATCGAAGAA
* * * * * *
241311 TACACCATGAACATTCATATAATCAAAATCTTTGCCATGGGTCTCAGCCACATGGACTTACACAC
1 TACACCATGAACATTCATACAATCATAATTTTTTCCATGGGTCTCAACCACATGGAATTACACAC
* * * *
241376 ATTCACGTATCATGTTTTGCCATTCCAGTCTTCATTTTACTGAAGGC
66 AGTCACGTATCATGATTTGCCATTCCAATATTCATTTTACTGAAGGC
*
241423 TACACCATGAACATTCATACAATCATAATTTTTTCCATGGGTCTCAACCACATTGAATTACACAC
1 TACACCATGAACATTCATACAATCATAATTTTTTCCATGGGTCTCAACCACATGGAATTACACAC
* * *
241488 AGTCATGTATCATGATTTGCCAATT-CAATATTCATTTTATTGGAGGC
66 AGTCACGTATCATGATTTGCC-ATTCCAATATTCATTTTACTGAAGGC
241535 TACACCAT
1 TACACCAT
241543 AATTGTTTTT
Statistics
Matches: 105, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
112 102 0.97
113 3 0.03
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (112 bp):
TACACCATGAACATTCATACAATCATAATTTTTTCCATGGGTCTCAACCACATGGAATTACACAC
AGTCACGTATCATGATTTGCCATTCCAATATTCATTTTACTGAAGGC
Found at i:243983 original size:20 final size:20
Alignment explanation
Indices: 243946--243984 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
243936 AAACTAAAGC
*
243946 AAAGAGATTTAATTTTAATT
1 AAAGAGATTTAATATTAATT
243966 AAAGAGATTTTAA-ATTAAT
1 AAAGAGA-TTTAATATTAAT
243985 GTACTCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (20 bp):
AAAGAGATTTAATATTAATT
Found at i:244016 original size:103 final size:103
Alignment explanation
Indices: 243772--244080 Score: 374
Period size: 103 Copynumber: 3.0 Consensus size: 103
243762 TCTTTAATTA
* * * *
243772 AAATTAGTGTACTCAATTTTGTACATTTGTCTTACATGCATGTAACTGTATATTTATTATTCAAA
1 AAATTAATGTACTCAATTTTGTACATTTGTCTTACATGCATATAGCTGTATATTTATTAGTCAAA
* * * * *
243837 CCAAATCAACGTGCATTAATTTTAATTGAA-ATATTTT
66 CTAAATCAAAGAGCATTAATTTTAATTAAAGAGATTTT
* * * *
243874 AAATTAATGTATTCAATTTTGTATATTTTTCTTACATGCATATAGTTGTATATTTATTAGTCAAA
1 AAATTAATGTACTCAATTTTGTACATTTGTCTTACATGCATATAGCTGTATATTTATTAGTCAAA
*
243939 CTAAAGCAAAGAG-ATTTAATTTTAATTAAAGAGATTTT
66 CTAAATCAAAGAGCA-TTAATTTTAATTAAAGAGATTTT
* *** * *
243977 AAATTAATGTACTCAATTTTGTACATTTGTCCTACATGCATCCGGGTGTATATTTAGTAGTCAAA
1 AAATTAATGTACTCAATTTTGTACATTTGTCTTACATGCATATAGCTGTATATTTATTAGTCAAA
*
244042 CCT-AATCAATA-AGCATTACTTTTAATTAAAGAGATTTT
66 -CTAAATCAA-AGAGCATTAATTTTAATTAAAGAGATTTT
244080 A
1 A
244081 TTTTTCCAAC
Statistics
Matches: 177, Mismatches: 25, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
101 1 0.01
102 80 0.45
103 92 0.52
104 4 0.02
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (103 bp):
AAATTAATGTACTCAATTTTGTACATTTGTCTTACATGCATATAGCTGTATATTTATTAGTCAAA
CTAAATCAAAGAGCATTAATTTTAATTAAAGAGATTTT
Found at i:244288 original size:18 final size:17
Alignment explanation
Indices: 244265--244307 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
244255 GGATAAGCCT
* *
244265 TTTTTTTTATTTTTTATC
1 TTTTTTTTACTTTCTA-C
*
244283 TTTTTTTAACTTTCTAC
1 TTTTTTTTACTTTCTAC
244300 TTTTTTTT
1 TTTTTTTT
244308 TTTCTTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTTTACTTTCTAC
Found at i:244596 original size:15 final size:15
Alignment explanation
Indices: 244576--244606 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
244566 CATTTAAAAA
244576 AAATAATTAAATACG
1 AAATAATTAAATACG
*
244591 AAATAATTACATACG
1 AAATAATTAAATACG
244606 A
1 A
244607 GCATGCATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.10, G:0.06, T:0.26
Consensus pattern (15 bp):
AAATAATTAAATACG
Found at i:245570 original size:29 final size:29
Alignment explanation
Indices: 245528--245627 Score: 130
Period size: 29 Copynumber: 3.4 Consensus size: 29
245518 AATAATCTTA
245528 AAATTATTAAAATTATTTTTTTAGAATAT
1 AAATTATTAAAATTATTTTTTTAGAATAT
* * *
245557 AAATTTTTTAAATTA-TTTTTTAAAATAT
1 AAATTATTAAAATTATTTTTTTAGAATAT
*
245585 AAAATTATTAAAATTATTTTTTTGGAATAAT
1 -AAATTATTAAAATTATTTTTTTAGAAT-AT
245616 AAAATTATTAAA
1 -AAATTATTAAA
245628 TAATTTTAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
28 12 0.20
29 26 0.43
30 9 0.15
31 14 0.23
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (29 bp):
AAATTATTAAAATTATTTTTTTAGAATAT
Found at i:247160 original size:29 final size:29
Alignment explanation
Indices: 247098--247446 Score: 348
Period size: 30 Copynumber: 11.9 Consensus size: 29
247088 ATTTGAGGTC
* *
247098 AAAATGCAATTTTGGAAAAG-TTA-AGGTT
1 AAAATGTAATTTTGG-AAAGTTTAGGGGTT
* *
247126 AAAATGTTATTTTGGAAAGTTTGGGGGTT
1 AAAATGTAATTTTGGAAAGTTTAGGGGTT
*
247155 AAAATGTAATTTTGGAAAATTTA-GGGTT
1 AAAATGTAATTTTGGAAAGTTTAGGGGTT
* * *
247183 AAAATGTGATTTTAAGAAAATTTAGGGGTT
1 AAAATGTAATTTT-GGAAAGTTTAGGGGTT
* * *
247213 AAAATGTGATTTTAAGAAAATTTAGGGGTT
1 AAAATGTAATTTT-GGAAAGTTTAGGGGTT
* *
247243 AAAATGTGATTTT-GAGATGTTTAGGGGTT
1 AAAATGTAATTTTGGA-AAGTTTAGGGGTT
* * *
247272 -AAATGTAATTTTGGAAAAGTTTATGAGTC
1 AAAATGTAATTTTGG-AAAGTTTAGGGGTT
* *
247301 AAAATGTAATTTTGGGAAAGTTTATGGGTC
1 AAAATGTAATTTT-GGAAAGTTTAGGGGTT
* *
247331 AAAATGTAATTTTGGGAAAGTTTATGGGTC
1 AAAATGTAATTTT-GGAAAGTTTAGGGGTT
* * *
247361 AAAATGTAATTTTGAAAAGTTTATGGGTC
1 AAAATGTAATTTTGGAAAGTTTAGGGGTT
*
247390 AAAATGTAATTTTGGAAAAGTTTAAGGGTT
1 AAAATGTAATTTTGG-AAAGTTTAGGGGTT
* *
247420 AAAATATAATTTCTAGAAAGTTTAGGG
1 AAAATGTAATTT-TGGAAAGTTTAGGG
247447 TCCAAAATAT
Statistics
Matches: 286, Mismatches: 24, Indels: 20
0.87 0.07 0.06
Matches are distributed among these distances:
27 4 0.01
28 45 0.16
29 83 0.29
30 150 0.52
31 4 0.01
ACGTcount: A:0.37, C:0.02, G:0.24, T:0.37
Consensus pattern (29 bp):
AAAATGTAATTTTGGAAAGTTTAGGGGTT
Found at i:247267 original size:59 final size:59
Alignment explanation
Indices: 247098--247446 Score: 388
Period size: 59 Copynumber: 5.9 Consensus size: 59
247088 ATTTGAGGTC
* * * * *
247098 AAAATGCAATTTTGGAAAAGTTA-AGGTTAAAATGTTATTTTG-GAAAGTTTGGGGGTT
1 AAAATGTAATTTTGGAAAATTTATGGGTTAAAATGTAATTTTGAGAAAGTTTAGGGGTT
* * *
247155 AAAATGTAATTTTGGAAAATTTA-GGGTTAAAATGTGATTTTAAGAAAATTTAGGGGTT
1 AAAATGTAATTTTGGAAAATTTATGGGTTAAAATGTAATTTTGAGAAAGTTTAGGGGTT
* * * * *
247213 AAAATGTGATTTTAAGAAAATTTAGGGGTTAAAATGTGATTTTGAG-ATGTTTAGGGGTT
1 AAAATGTAATTTT-GGAAAATTTATGGGTTAAAATGTAATTTTGAGAAAGTTTAGGGGTT
* * * * *
247272 -AAATGTAATTTTGGAAAAGTTTATGAGTCAAAATGTAATTTTGGGAAAGTTTATGGGTC
1 AAAATGTAATTTTGGAAAA-TTTATGGGTTAAAATGTAATTTTGAGAAAGTTTAGGGGTT
* * * *
247331 AAAATGTAATTTTGGGAAAGTTTATGGGTCAAAATGTAATTTTGA-AAAGTTTATGGGTC
1 AAAATGTAATTTT-GGAAAATTTATGGGTTAAAATGTAATTTTGAGAAAGTTTAGGGGTT
* *
247390 AAAATGTAATTTTGGAAAAGTTTAAGGGTTAAAATATAATTTCT-AGAAAGTTTAGGG
1 AAAATGTAATTTTGGAAAA-TTTATGGGTTAAAATGTAATTT-TGAGAAAGTTTAGGG
247447 TCCAAAATAT
Statistics
Matches: 252, Mismatches: 30, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
57 42 0.17
58 62 0.25
59 77 0.31
60 66 0.26
61 5 0.02
ACGTcount: A:0.37, C:0.02, G:0.24, T:0.37
Consensus pattern (59 bp):
AAAATGTAATTTTGGAAAATTTATGGGTTAAAATGTAATTTTGAGAAAGTTTAGGGGTT
Found at i:247470 original size:30 final size:29
Alignment explanation
Indices: 247272--247476 Score: 151
Period size: 30 Copynumber: 6.9 Consensus size: 29
247262 TTTAGGGGTT
* ** *
247272 AAATGTAATTTTGGAAAAGTTTATGAGTCA
1 AAATATAATTTTTAAAAAGTTTA-GGGTCA
* ***
247302 AAATGTAATTTTGGGAAAGTTTATGGGTCA
1 AAATATAATTTTTAAAAAGTTTA-GGGTCA
* ***
247332 AAATGTAATTTTGGGAAAGTTTATGGGTCA
1 AAATATAATTTTTAAAAAGTTTA-GGGTCA
* *
247362 AAATGTAA-TTTTGAAAAGTTTATGGGTCA
1 AAATATAATTTTTAAAAAGTTTA-GGGTCA
* ** *
247391 AAATGTAATTTTGGAAAAGTTTAAGGGTTA
1 AAATATAATTTTTAAAAAGTTT-AGGGTCA
* *
247421 AAATATAATTTCTAGAAAGTTTAGGGTCCA
1 AAATATAATTTTTAAAAAGTTTAGGGT-CA
* *
247451 AAATATGATTTTTAAAAAGTTCAGGG
1 AAATATAATTTTTAAAAAGTTTAGGG
247477 ACCAATTAGA
Statistics
Matches: 156, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
29 32 0.21
30 123 0.79
31 1 0.01
ACGTcount: A:0.38, C:0.04, G:0.22, T:0.36
Consensus pattern (29 bp):
AAATATAATTTTTAAAAAGTTTAGGGTCA
Found at i:249451 original size:14 final size:15
Alignment explanation
Indices: 249434--249467 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
249424 GGAAATTAAA
*
249434 ATGATGAAGAAG-AG
1 ATGAAGAAGAAGAAG
249448 ATGAAGAAGAAGAAG
1 ATGAAGAAGAAGAAG
249463 ATGAA
1 ATGAA
249468 ATTGAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.56, C:0.00, G:0.32, T:0.12
Consensus pattern (15 bp):
ATGAAGAAGAAGAAG
Found at i:249519 original size:31 final size:30
Alignment explanation
Indices: 249484--249557 Score: 130
Period size: 30 Copynumber: 2.4 Consensus size: 30
249474 ATTAAAATTA
249484 TTTAATAATTTTATTATTTCAAAAAAATAAT
1 TTTAATAATTTTA-TATTTCAAAAAAATAAT
*
249515 TTTAATAATTTTATATTTTAAAAAAATAAT
1 TTTAATAATTTTATATTTCAAAAAAATAAT
249545 TTTAATAATTTTA
1 TTTAATAATTTTA
249558 AAATTATTTG
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
30 29 0.69
31 13 0.31
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (30 bp):
TTTAATAATTTTATATTTCAAAAAAATAAT
Found at i:249523 original size:9 final size:9
Alignment explanation
Indices: 249509--249562 Score: 50
Period size: 9 Copynumber: 6.8 Consensus size: 9
249499 ATTTCAAAAA
249509 AATAATTTT
1 AATAATTTT
249518 AATAATTTT
1 AATAATTTT
249527 -AT-ATTTT
1 AATAATTTT
*
249534 AA-AA---A
1 AATAATTTT
249539 AATAATTTT
1 AATAATTTT
249548 AATAATTTT
1 AATAATTTT
249557 AA-AATT
1 AATAATT
249563 ATTTGTTGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
5 2 0.05
6 2 0.05
7 5 0.14
8 8 0.22
9 20 0.54
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
AATAATTTT
Found at i:249542 original size:21 final size:23
Alignment explanation
Indices: 249518--249560 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
249508 AAATAATTTT
249518 AATAATTTT-AT-ATTTTAAAAA
1 AATAATTTTAATAATTTTAAAAA
249539 AATAATTTTAATAATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
249561 TTATTTGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 9 0.45
22 2 0.10
23 9 0.45
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
AATAATTTTAATAATTTTAAAAA
Found at i:250256 original size:36 final size:37
Alignment explanation
Indices: 250226--250302 Score: 113
Period size: 36 Copynumber: 2.1 Consensus size: 37
250216 TAAAACTGAT
* *
250226 AAATAAATGTGCCCAGCACTAGTTGGTAAAA-TCAAC
1 AAATAAATGTGCCAAGCACTAGTTGATAAAACTCAAC
*
250262 AAATAAATGTGCCAAGCACTGGTTGATAAAAC-CAAC
1 AAATAAATGTGCCAAGCACTAGTTGATAAAACTCAAC
250298 AAATA
1 AAATA
250303 GGGTGCCTAG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.21
Consensus pattern (37 bp):
AAATAAATGTGCCAAGCACTAGTTGATAAAACTCAAC
Found at i:254700 original size:24 final size:24
Alignment explanation
Indices: 254673--254798 Score: 189
Period size: 24 Copynumber: 5.2 Consensus size: 24
254663 TTATTCTCAT
*
254673 CAGCTAATATACGTTTACGCTCGC
1 CAGCTAATATGCGTTTACGCTCGC
*
254697 CAGCTAATATGCATTTACGCTCGC
1 CAGCTAATATGCGTTTACGCTCGC
*
254721 CAGCTAATATGCATTTACGCTCGC
1 CAGCTAATATGCGTTTACGCTCGC
* * *
254745 TAGTTAATATGCGTTTACACTCGC
1 CAGCTAATATGCGTTTACGCTCGC
*
254769 CAACTAATATGCGTTTACGCTCGC
1 CAGCTAATATGCGTTTACGCTCGC
254793 CAGCTA
1 CAGCTA
254799 TTCAGATTAA
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 91 1.00
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (24 bp):
CAGCTAATATGCGTTTACGCTCGC
Found at i:259714 original size:32 final size:32
Alignment explanation
Indices: 259677--259739 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
259667 GTTTTACCAA
* *
259677 AAATAGTGCCCACGTGGAAGCGCTTTCGCCCT
1 AAATAGCGCACACGTGGAAGCGCTTTCGCCCT
* * *
259709 AAATAGCGTACATGTGGAAGCGCTTTTGCCC
1 AAATAGCGCACACGTGGAAGCGCTTTCGCCC
259740 ATGTTTCTGC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (32 bp):
AAATAGCGCACACGTGGAAGCGCTTTCGCCCT
Found at i:260072 original size:15 final size:18
Alignment explanation
Indices: 260043--260078 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
260033 TTAATTTTAT
260043 TTTTTATATTATTTA-AA
1 TTTTTATATTATTTATAA
260060 TTTTTAT-TT-TTTATAA
1 TTTTTATATTATTTATAA
260076 TTT
1 TTT
260079 AATTATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 4 0.22
16 7 0.39
17 7 0.39
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTTATATTATTTATAA
Found at i:260102 original size:27 final size:24
Alignment explanation
Indices: 260037--260110 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 24
260027 TAAGAGTTAA
*
260037 TTTTATTTTTTAT-A-TTATTTAAAT
1 TTTTATTTTTTATAAGTTAATT--AT
*
260061 TTTTATTTTTTATAATTTAATTAT
1 TTTTATTTTTTATAAGTTAATTAT
260085 TTTATATTATTTTCATAAGTTAATTA
1 TTT-TATT-TTTT-ATAAGTTAATTA
260111 ATATTTTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
24 18 0.42
25 5 0.12
26 9 0.21
27 11 0.26
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (24 bp):
TTTTATTTTTTATAAGTTAATTAT
Done.