Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 68 of 276
Found at i:21083801 original size:14 final size:14
Alignment explanation
Indices: 21083782--21083815 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
21083772 GCTGAGGTAA
*
21083782 TTTCAATTTCTATT
1 TTTCAATTTCTACT
21083796 TTTCAATTTCTACT
1 TTTCAATTTCTACT
21083810 TTTCAA
1 TTTCAA
21083816 AAATCAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTCAATTTCTACT
Found at i:21083915 original size:73 final size:72
Alignment explanation
Indices: 21083796--21083996 Score: 294
Period size: 73 Copynumber: 2.8 Consensus size: 72
21083786 AATTTCTATT
*
21083796 TTTCAATTTCTACTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTCAATTTCTA-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
21083861 TGAGGTAA
65 TGAGGTAA
* * ** *
21083869 TTTCAATTTCTATGTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGGGCCTTGGGGCACGC
1 TTTCAATTTCTAT-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
*
21083934 TGAGGTAT
65 TGAGGTAA
** *
21083942 TTTCAAACTCTATTTTCAAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTC
1 TTTCAATTTCTATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
21083997 GGGTCACATG
Statistics
Matches: 114, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
72 39 0.34
73 75 0.66
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (72 bp):
TTTCAATTTCTATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
GAGGTAA
Found at i:21084136 original size:14 final size:14
Alignment explanation
Indices: 21084117--21084151 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
21084107 CGCTGAGGTA
*
21084117 TTTTCAATTTCTGT
1 TTTTCAATTTCTGC
*
21084131 TTTTCAGTTTCTGC
1 TTTTCAATTTCTGC
21084145 TTTTCAA
1 TTTTCAA
21084152 AAAAAAAAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.14, C:0.17, G:0.09, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGC
Found at i:21084286 original size:87 final size:89
Alignment explanation
Indices: 21084062--21084449 Score: 387
Period size: 87 Copynumber: 4.4 Consensus size: 89
21084052 CTACTTTTCC
* * *
21084062 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--CGCACGCTGAGGTATTTTCAGTT
* * *
21084126 TCTGTTTTTCAGTTTCTGCTTTTCAAAAAA
64 TCTGTTTTTCAATTTATGATTTTC----AA
*
21084156 AAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGG-GCACGCTGAGGTATTTTCAGTTT
1 AAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCGCACGCTGAGGTATTTTCAGTTT
21084220 CTGTTTTTCAATTTAT-ATTTGTC-A
65 CTGTTTTTCAATTTATGATTT-TCAA
* *
21084244 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-GCACGCTGAGGAATTTTCA-TTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCGCACGCTGAGGTATTTTCAGTTTC
* * * *
21084307 TGCTTTTCAATCTCTGCTTTTCAAA
66 TGTTTTTCAATTTATGATTTTC-AA
* * *
21084332 AAAATCAACTCATATTGCGATAGGTGAGTTGAGCCT-TGGCTCACATGCTGAGGTATTTTC-G--
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCGCAC--GCTGAGGTATTTTCAGTT
21084393 ---GTTTTT--ATTTAT-ACTTTTC-A
64 TCTGTTTTTCAATTTATGA-TTTTCAA
* *
21084413 AAAATCAACTCATATGGTGAGAGGTGAGTTGAGCCTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
21084450 GGGTCACATG
Statistics
Matches: 257, Mismatches: 25, Indels: 36
0.81 0.08 0.11
Matches are distributed among these distances:
81 34 0.13
83 9 0.04
85 5 0.02
86 17 0.07
87 58 0.23
88 44 0.17
90 13 0.05
92 3 0.01
93 37 0.14
94 4 0.02
95 31 0.12
96 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (89 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCGCACGCTGAGGTATTTTCAGTTTC
TGTTTTTCAATTTATGATTTTCAA
Found at i:21084363 original size:88 final size:88
Alignment explanation
Indices: 21084062--21084822 Score: 446
Period size: 102 Copynumber: 8.4 Consensus size: 88
21084052 CTACTTTTCC
* *
21084062 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---GCACGCTGAGGTATTTTC-ATT
*
21084126 TCTGTTTTTCAGTTTCTGCTTTTCAAAAAA
62 TCTGTTTTTCAATTTCTGCTTTTC---AAA
*
21084156 AAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGGGCACGCTGAGGTATTTTCAGTTTC
1 AAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA-TTTC
* *
21084221 TGTTTTTCAATTTAT-ATTTGTC--A
64 TGTTTTTCAATTTCTGCTTT-TCAAA
* *
21084244 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGAATTTTCATTTTTG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCATTTCTG
* *
21084309 CTTTTCAATCTCTGCTTTTCAAA
66 TTTTTCAATTTCTGCTTTTCAAA
* * *
21084332 AAAATCAACTCATATTGCGATAGGTGAGTTGAGCCT-TGGCTCACATGCTGAGGTA---T--TTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-GCAC--GCTGAGGTATTTTCATTT
* * *
21084391 CGGTTTTT--ATTTATACTTTTC--A
63 CTGTTTTTCAATTTCTGCTTTTCAAA
* * * * *
21084413 AAAATCAACTCATATGGTGAGAGGTGAGTTGAGCCTC-GGGTCACATGCCGAGATATTTTCAAAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG-CAC--GCTGAGGTATTTTC-ATT
* * * *
21084477 TCTGTTGTTCAAATTCTGTTTTTAATTTCTACTTTTAC
62 TCTGTTTTTCAATTTCTG---CT--TTTC-A-----AA
* * * * *
21084515 AAAATCAACTGATATTGCGAAAGGTGAGTTGAGCCTC-GGGTCACATGCCGAGATATTTTCAAAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG-CAC--GCTGAGGTATTTTC-ATT
* * *
21084579 TCTGTTGTTCAAATTCTG-TTTTTAATTTCTA
62 TCTGTTTTTCAATTTCTGCTTTTCAA-----A
* * * *
21084610 CTTTTCCAAAATCAACTGATATTGCGAAAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGTATT
1 -------AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---GCACGCTGAGGTATT
* *
21084674 TTCAATTTCTGCTTTTCAA-----------AAAA
56 TTC-ATTTCTGTTTTTCAATTTCTGCTTTTCAAA
* * * *
21084697 AAAGTCAATTCATATTACGAGAGGTGAGTTGAGCCTCAGGGCATGCTGAGGTATTTTCAGTTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA-TTTCT
* **
21084762 GTTTTTCAATTTATATTTTTCAAA
65 GTTTTTCAATTTCTGCTTTTCAAA
* *
21084786 AAAATCAGCTCATATTACGAGAGGTGAGTTGAGCCTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
21084823 GGGTCACATG
Statistics
Matches: 542, Mismatches: 63, Indels: 129
0.74 0.09 0.18
Matches are distributed among these distances:
77 1 0.00
78 29 0.05
80 31 0.06
81 50 0.09
83 10 0.02
84 1 0.00
85 8 0.01
86 17 0.03
87 68 0.13
88 44 0.08
89 41 0.08
90 9 0.02
92 7 0.01
93 36 0.07
94 8 0.01
95 32 0.06
96 5 0.01
98 1 0.00
102 141 0.26
104 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (88 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCATTTCTG
TTTTTCAATTTCTGCTTTTCAAA
Found at i:21084489 original size:14 final size:14
Alignment explanation
Indices: 21084470--21084496 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21084460 CCGAGATATT
21084470 TTCAAATTCTGTTG
1 TTCAAATTCTGTTG
21084484 TTCAAATTCTGTT
1 TTCAAATTCTGTT
21084497 TTTAATTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.15, G:0.11, T:0.52
Consensus pattern (14 bp):
TTCAAATTCTGTTG
Found at i:21084580 original size:102 final size:101
Alignment explanation
Indices: 21084393--21084693 Score: 453
Period size: 102 Copynumber: 3.0 Consensus size: 101
21084383 GGTATTTTCG
* * * * *
21084393 GTTTTT-ATTTATACTTTTCAAAAATCAACTCATATGGTGAGAGGTGAGTTGAGCCTCGGGTCAC
1 GTTTTTAATTTCTACTTTTC-AAAATCAACTGATATTGCGAAAGGTGAGTTGAGCCTCGGGTCAC
21084457 ATGCCGAGATATTTTCAAATTCTGTTGTTCAAATTCT
65 ATGCCGAGATATTTTCAAATTCTGTTGTTCAAATTCT
21084494 GTTTTTAATTTCTACTTTTACAAAATCAACTGATATTGCGAAAGGTGAGTTGAGCCTCGGGTCAC
1 GTTTTTAATTTCTACTTTT-CAAAATCAACTGATATTGCGAAAGGTGAGTTGAGCCTCGGGTCAC
21084559 ATGCCGAGATATTTTCAAATTCTGTTGTTCAAATTCT
65 ATGCCGAGATATTTTCAAATTCTGTTGTTCAAATTCT
* *
21084596 GTTTTTAATTTCTACTTTTCCAAAATCAACTGATATTGCGAAAGGTGAGTTGAGCCTTGGCTCAC
1 GTTTTTAATTTCTACTTTT-CAAAATCAACTGATATTGCGAAAGGTGAGTTGAGCCTCGGGTCAC
* * * *
21084661 ACGCTGAGGTATTTTCAATTTCTGCTT-TTCAAA
65 ATGCCGAGATATTTTCAAATTCTG-TTGTTCAAA
21084694 AAAAAAGTCA
Statistics
Matches: 185, Mismatches: 12, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
101 6 0.03
102 176 0.95
103 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.39
Consensus pattern (101 bp):
GTTTTTAATTTCTACTTTTCAAAATCAACTGATATTGCGAAAGGTGAGTTGAGCCTCGGGTCACA
TGCCGAGATATTTTCAAATTCTGTTGTTCAAATTCT
Found at i:21084591 original size:14 final size:14
Alignment explanation
Indices: 21084572--21084598 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21084562 CCGAGATATT
21084572 TTCAAATTCTGTTG
1 TTCAAATTCTGTTG
21084586 TTCAAATTCTGTT
1 TTCAAATTCTGTT
21084599 TTTAATTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.15, G:0.11, T:0.52
Consensus pattern (14 bp):
TTCAAATTCTGTTG
Found at i:21085117 original size:44 final size:44
Alignment explanation
Indices: 21085069--21085160 Score: 139
Period size: 44 Copynumber: 2.1 Consensus size: 44
21085059 AGTTATAGTT
*
21085069 GAGCAGGCCAAAGTTACAAGTCTTGTCTCCCTGAAGTTGCAGCG
1 GAGCAGGCCAAAGTTACAAGTCTTGTCCCCCTGAAGTTGCAGCG
* * * *
21085113 GAGCAGGTCAAAGTTGCAAGTTTTGTCCCCCTGAAGTTGCAGTG
1 GAGCAGGCCAAAGTTACAAGTCTTGTCCCCCTGAAGTTGCAGCG
21085157 GAGC
1 GAGC
21085161 TGATCGAGGA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (44 bp):
GAGCAGGCCAAAGTTACAAGTCTTGTCCCCCTGAAGTTGCAGCG
Found at i:21086986 original size:9 final size:9
Alignment explanation
Indices: 21086942--21087004 Score: 58
Period size: 9 Copynumber: 7.0 Consensus size: 9
21086932 ATAGTTCTTT
21086942 TTATATATA
1 TTATATATA
21086951 TT-TAT-TA
1 TTATATATA
*
21086958 TTATATTAGA
1 TTATA-TATA
*
21086968 TATGTATATA
1 T-TATATATA
21086978 TTATATATA
1 TTATATATA
*
21086987 TTATATATT
1 TTATATATA
*
21086996 TTTTATATA
1 TTATATATA
21087005 CATTATACGT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
7 4 0.09
8 5 0.12
9 25 0.58
10 6 0.14
11 3 0.07
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (9 bp):
TTATATATA
Found at i:21087001 original size:20 final size:20
Alignment explanation
Indices: 21086945--21087011 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
21086935 GTTCTTTTTA
*
21086945 TATATATTTATTAT-TATAT
1 TATATATTTTTTATATATAT
*
21086964 TAGATATGTATATATTATATATAT
1 TATATAT-T-T-T-TTATATATAT
*
21086988 TATATATTTTTTATATACAT
1 TATATATTTTTTATATATAT
21087008 TATA
1 TATA
21087012 CGTATAGATG
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
19 6 0.15
20 14 0.36
21 2 0.05
22 1 0.03
23 5 0.13
24 11 0.28
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (20 bp):
TATATATTTTTTATATATAT
Found at i:21087138 original size:17 final size:18
Alignment explanation
Indices: 21087104--21087140 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
21087094 TATATTTTTT
*
21087104 TTTTATATTATGTATATA
1 TTTTAAATTATGTATATA
21087122 TTTTAAATTAT-TATATA
1 TTTTAAATTATGTATATA
21087139 TT
1 TT
21087141 AAGTATTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTTAAATTATGTATATA
Found at i:21089211 original size:43 final size:43
Alignment explanation
Indices: 21089150--21089322 Score: 346
Period size: 43 Copynumber: 4.0 Consensus size: 43
21089140 ATCATCCGCA
21089150 TAATCGGCATAGCCAATAACCCATAAATCATATGGAAACTATC
1 TAATCGGCATAGCCAATAACCCATAAATCATATGGAAACTATC
21089193 TAATCGGCATAGCCAATAACCCATAAATCATATGGAAACTATC
1 TAATCGGCATAGCCAATAACCCATAAATCATATGGAAACTATC
21089236 TAATCGGCATAGCCAATAACCCATAAATCATATGGAAACTATC
1 TAATCGGCATAGCCAATAACCCATAAATCATATGGAAACTATC
21089279 TAATCGGCATAGCCAATAACCCATAAATCATATGGAAACTATC
1 TAATCGGCATAGCCAATAACCCATAAATCATATGGAAACTATC
21089322 T
1 T
21089323 TAAACAGCTC
Statistics
Matches: 130, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 130 1.00
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.24
Consensus pattern (43 bp):
TAATCGGCATAGCCAATAACCCATAAATCATATGGAAACTATC
Found at i:21097850 original size:6 final size:6
Alignment explanation
Indices: 21097824--21097886 Score: 56
Period size: 6 Copynumber: 10.5 Consensus size: 6
21097814 AATTAGGGAT
* * * * *
21097824 ATTTCG ATTTCAA ATTT-G ATTTCG ATTTTG ATTTTG CTTTCG ATTTCT
1 ATTTCG ATTTC-G ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG
*
21097872 ATTTCG ATTTTG ATT
1 ATTTCG ATTTCG ATT
21097887 ACAATTTTGA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
5 4 0.09
6 38 0.83
7 4 0.09
ACGTcount: A:0.19, C:0.11, G:0.13, T:0.57
Consensus pattern (6 bp):
ATTTCG
Found at i:21097868 original size:12 final size:12
Alignment explanation
Indices: 21097837--21097896 Score: 52
Period size: 12 Copynumber: 5.1 Consensus size: 12
21097827 TCGATTTCAA
*
21097837 ATTT-GATTTCG
1 ATTTCGATTTTG
*
21097848 ATTTTGATTTTG
1 ATTTCGATTTTG
*
21097860 CTTTCGATTTCT-
1 ATTTCGATTT-TG
21097872 ATTTCGATTTTG
1 ATTTCGATTTTG
* *
21097884 ATTACAATTTTG
1 ATTTCGATTTTG
21097896 A
1 A
21097897 AACACTCATT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
11 5 0.12
12 34 0.85
13 1 0.03
ACGTcount: A:0.20, C:0.10, G:0.13, T:0.57
Consensus pattern (12 bp):
ATTTCGATTTTG
Found at i:21097875 original size:18 final size:18
Alignment explanation
Indices: 21097824--21097896 Score: 67
Period size: 18 Copynumber: 4.1 Consensus size: 18
21097814 AATTAGGGAT
* *
21097824 ATTTCGATTTCAAATTTG
1 ATTTCGATTTCTATTTTG
21097842 ATTTCGATTT-TGATTTTG
1 ATTTCGATTTCT-ATTTTG
* *
21097860 CTTTCGATTTCTATTTCG
1 ATTTCGATTTCTATTTTG
* * *
21097878 ATTTTGATTACAATTTTG
1 ATTTCGATTTCTATTTTG
21097896 A
1 A
21097897 AACACTCATT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
18 43 0.98
19 1 0.02
ACGTcount: A:0.22, C:0.11, G:0.12, T:0.55
Consensus pattern (18 bp):
ATTTCGATTTCTATTTTG
Found at i:21098192 original size:64 final size:64
Alignment explanation
Indices: 21098122--21098255 Score: 232
Period size: 64 Copynumber: 2.1 Consensus size: 64
21098112 GATTTTGATG
* * *
21098122 TGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTGTATCTGCCAT
1 TGTTTGTATCTGCCATTATATGAATGCCATTACCAAACTGATCTTTATTGTGTATATCTGCCAT
*
21098186 TGTTTGTATCTGTCATTATATGAATGCCATTACCAAACTGATCTTTATTGTGTATATCTGCCAT
1 TGTTTGTATCTGCCATTATATGAATGCCATTACCAAACTGATCTTTATTGTGTATATCTGCCAT
21098250 TGTTTG
1 TGTTTG
21098256 AATGTCATTA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.45
Consensus pattern (64 bp):
TGTTTGTATCTGCCATTATATGAATGCCATTACCAAACTGATCTTTATTGTGTATATCTGCCAT
Found at i:21098193 original size:16 final size:16
Alignment explanation
Indices: 21098168--21098202 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
21098158 ACTGATCTTT
21098168 ATTGTGTGTATCTGCC
1 ATTGTGTGTATCTGCC
* *
21098184 ATTGTTTGTATCTGTC
1 ATTGTGTGTATCTGCC
21098200 ATT
1 ATT
21098203 ATATGAATGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.51
Consensus pattern (16 bp):
ATTGTGTGTATCTGCC
Found at i:21098299 original size:48 final size:48
Alignment explanation
Indices: 21098192--21098303 Score: 161
Period size: 48 Copynumber: 2.3 Consensus size: 48
21098182 CCATTGTTTG
* * *
21098192 TATCTGTCATTATATGAATGCCATTACCAAACTGATCTTTATTGTGTA
1 TATCTGCCATTGTTTGAATGCCATTACCAAACTGATCTTTATTGTGTA
* * * *
21098240 TATCTGCCATTGTTTGAATGTCATTATCAAATTGATGTTTATTGTGTA
1 TATCTGCCATTGTTTGAATGCCATTACCAAACTGATCTTTATTGTGTA
21098288 TATCTGCCATTGTTTG
1 TATCTGCCATTGTTTG
21098304 TATCTGCCAT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.46
Consensus pattern (48 bp):
TATCTGCCATTGTTTGAATGCCATTACCAAACTGATCTTTATTGTGTA
Found at i:21098343 original size:62 final size:62
Alignment explanation
Indices: 21098261--21098555 Score: 563
Period size: 62 Copynumber: 4.8 Consensus size: 62
21098251 GTTTGAATGT
* *
21098261 CATTATCAAATTGATGTTTATTGTGTATATCTGCCATTGTTTGTATCTGCCATTAAATTATA
1 CATTATTAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGTATCTGCCATTAAATTATA
21098323 CATTATTAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGTATCTGCCATTAAATTATA
1 CATTATTAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGTATCTGCCATTAAATTATA
21098385 CATTATTAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGTATCTGCCATTAAATTATA
1 CATTATTAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGTATCTGCCATTAAATTATA
21098447 CATTATTAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGTATCTGCCATTAAATTATA
1 CATTATTAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGTATCTGCCATTAAATTATA
*
21098509 CATTATTAAACTGATGTTTATTGTGTATATCTGTCATTGTTTGTATC
1 CATTATTAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGTATC
21098556 CAGGCCCCTA
Statistics
Matches: 230, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
62 230 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (62 bp):
CATTATTAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGTATCTGCCATTAAATTATA
Found at i:21098377 original size:112 final size:110
Alignment explanation
Indices: 21098128--21098489 Score: 463
Period size: 124 Copynumber: 3.1 Consensus size: 110
21098118 GATGTGTTTG
* * *
21098128 TATCTGCCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTGTATCTGCCATTGTTTGT
1 TATCTGCCATTGTTTGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGT
* * * * ** *
21098193 ATCTGTCATTATATGAATGCCATTACCAAACTGATCTTTATTGTGTA
66 ATCTGCCATTAAAT-TAT-ACATTATTAAACTGATGTTTATTGTGTA
* *
21098240 TATCTGCCATTGTTTGAATGTCATTATCAAATTGATGTTTATTGTGTATATCTGCCATTGTTTGT
1 TATCTGCCATTGTTTGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGT
21098305 ATCTGCCATTAAATTATACATTATTAAACTGATGTTTATTGTGTA
66 ATCTGCCATTAAATTATACATTATTAAACTGATGTTTATTGTGTA
*
21098350 TATCTGCCATTGTTTGTATCTGCCATTAAATTATACATTATTAAACTGATGTTTATTGTGTATAT
1 TATCTGCCATTGTTTG-A-ATGCC-----ATTAT-C------AAACTGATGTTTATTGTGTATAT
21098415 CTGCCATTGTTTGTATCTGCCATTAAATTATACATTATTAAACTGATGTTTATTGTGTA
52 CTGCCATTGTTTGTATCTGCCATTAAATTATACATTATTAAACTGATGTTTATTGTGTA
21098474 TATCTGCCATTGTTTG
1 TATCTGCCATTGTTTG
21098490 TATCTGCCAT
Statistics
Matches: 221, Mismatches: 15, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
110 40 0.18
111 3 0.01
112 75 0.34
117 5 0.02
118 1 0.00
124 97 0.44
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.46
Consensus pattern (110 bp):
TATCTGCCATTGTTTGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGT
ATCTGCCATTAAATTATACATTATTAAACTGATGTTTATTGTGTA
Found at i:21098865 original size:15 final size:15
Alignment explanation
Indices: 21098841--21098884 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
21098831 GAAGAAAACA
21098841 TGTCTGGTAGTGATG
1 TGTCTGGTAGTGATG
* *
21098856 TGTTTGGTAGTGAAG
1 TGTCTGGTAGTGATG
21098871 TGTCTGGTAGTGAT
1 TGTCTGGTAGTGAT
21098885 AGTGATGCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.16, C:0.05, G:0.39, T:0.41
Consensus pattern (15 bp):
TGTCTGGTAGTGATG
Found at i:21100443 original size:43 final size:43
Alignment explanation
Indices: 21100358--21100526 Score: 220
Period size: 43 Copynumber: 4.0 Consensus size: 43
21100348 TGTTGCTGAT
* *
21100358 ATTGTTGGAAAGTTATTGACT-TTTTTTAATATGTATACAATG
1 ATTGTTGGAAAGTTGTTGACTATTTTTTAATATGCATACAATG
* * **
21100400 ATTATTGGAGAGTTGTTGACTATTTTTTAATATGCATGTAATG
1 ATTGTTGGAAAGTTGTTGACTATTTTTTAATATGCATACAATG
*
21100443 ATTGTTGGAAAGCTGTTGACTATTTTTTAATATGCATACAATG
1 ATTGTTGGAAAGTTGTTGACTATTTTTTAATATGCATACAATG
* * *
21100486 ATTGTTGG-TA--TGTTGCCTATTTTTTAATATGCATGCAATG
1 ATTGTTGGAAAGTTGTTGACTATTTTTTAATATGCATACAATG
21100526 A
1 A
21100527 GTTTTTTTAT
Statistics
Matches: 112, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
40 29 0.26
42 19 0.17
43 64 0.57
ACGTcount: A:0.28, C:0.07, G:0.19, T:0.46
Consensus pattern (43 bp):
ATTGTTGGAAAGTTGTTGACTATTTTTTAATATGCATACAATG
Found at i:21100519 original size:83 final size:84
Alignment explanation
Indices: 21100358--21100526 Score: 243
Period size: 83 Copynumber: 2.0 Consensus size: 84
21100348 TGTTGCTGAT
* *
21100358 ATTGTTGGAAAGTTATTGACTTTTTTTAATATGTATACAATGATTATTGGAGAGTTGTTGACTAT
1 ATTGTTGGAAAGCTATTGACTTTTTTTAATATGCATACAATGATTATTGGAGAG-TGTTGACTAT
*
21100423 TTTTTAATATGCATGTAATG
65 TTTTTAATATGCATGCAATG
* * * *
21100443 ATTGTTGGAAAGCTGTTGACTATTTTTTAATATGCATACAATGATTGTTGG-TA-TGTTGCCTAT
1 ATTGTTGGAAAGCTATTGACT-TTTTTTAATATGCATACAATGATTATTGGAGAGTGTTGACTAT
21100506 TTTTTAATATGCATGCAATG
65 TTTTTAATATGCATGCAATG
21100526 A
1 A
21100527 GTTTTTTTAT
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
83 29 0.38
85 20 0.26
86 27 0.36
ACGTcount: A:0.28, C:0.07, G:0.19, T:0.46
Consensus pattern (84 bp):
ATTGTTGGAAAGCTATTGACTTTTTTTAATATGCATACAATGATTATTGGAGAGTGTTGACTATT
TTTTAATATGCATGCAATG
Found at i:21101238 original size:21 final size:20
Alignment explanation
Indices: 21101214--21101257 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 20
21101204 CCTAAGTTAG
21101214 CAAGAGGGTACCCCAACTCAA
1 CAAGA-GGTACCCCAACTCAA
*
21101235 C-A-AGGTACCCCAACTCAT
1 CAAGAGGTACCCCAACTCAA
21101253 CAAGA
1 CAAGA
21101258 AGCTGTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
18 15 0.75
19 2 0.10
20 2 0.10
21 1 0.05
ACGTcount: A:0.39, C:0.34, G:0.16, T:0.11
Consensus pattern (20 bp):
CAAGAGGTACCCCAACTCAA
Found at i:21101243 original size:18 final size:18
Alignment explanation
Indices: 21101220--21101256 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
21101210 TTAGCAAGAG
21101220 GGTACCCCAACTCAACAA
1 GGTACCCCAACTCAACAA
*
21101238 GGTACCCCAACTCATCAA
1 GGTACCCCAACTCAACAA
21101256 G
1 G
21101257 AAGCTGTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.38, G:0.14, T:0.14
Consensus pattern (18 bp):
GGTACCCCAACTCAACAA
Found at i:21101737 original size:56 final size:56
Alignment explanation
Indices: 21101647--21101757 Score: 179
Period size: 56 Copynumber: 2.0 Consensus size: 56
21101637 TATCATGTTG
* *
21101647 TTTGTTATCCAACTGTTATCTTTTCTAACTAGCAGCCATGTATACCAACTGTTAAA
1 TTTGTTATCCAACTGTTATCTTTTCTAACCAGCAGCCATGTATACCAAATGTTAAA
*
21101703 TTTGTATAT-CAATTGTTATCTTTTCTAACCAGCAGCCATGTATACCAAATGTTAA
1 TTTGT-TATCCAACTGTTATCTTTTCTAACCAGCAGCCATGTATACCAAATGTTAA
21101758 GCAATTTGTA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
56 48 0.94
57 3 0.06
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.40
Consensus pattern (56 bp):
TTTGTTATCCAACTGTTATCTTTTCTAACCAGCAGCCATGTATACCAAATGTTAAA
Found at i:21102337 original size:15 final size:14
Alignment explanation
Indices: 21102317--21102361 Score: 58
Period size: 12 Copynumber: 3.3 Consensus size: 14
21102307 CATTTTTCGA
21102317 TCTTCTCTTTCTTCT
1 TCTTCTC-TTCTTCT
21102332 TCTTCTCTTC--CT
1 TCTTCTCTTCTTCT
*
21102344 ACTTCTCTTCTTCT
1 TCTTCTCTTCTTCT
21102358 TCTT
1 TCTT
21102362 TTTTTTCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 11 0.42
14 8 0.31
15 7 0.27
ACGTcount: A:0.02, C:0.36, G:0.00, T:0.62
Consensus pattern (14 bp):
TCTTCTCTTCTTCT
Found at i:21108609 original size:26 final size:26
Alignment explanation
Indices: 21108569--21108621 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
21108559 AAAAATATAA
*
21108569 ATGTGAGTAAGAGAAGAATCAAACTT
1 ATGTGAGTAAAAGAAGAATCAAACTT
*
21108595 ATGTGAGTAAAAGAAGAATTAAACTT
1 ATGTGAGTAAAAGAAGAATCAAACTT
21108621 A
1 A
21108622 AGACTCAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.49, C:0.06, G:0.21, T:0.25
Consensus pattern (26 bp):
ATGTGAGTAAAAGAAGAATCAAACTT
Found at i:21111174 original size:21 final size:21
Alignment explanation
Indices: 21111148--21111208 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
21111138 ATATCAATTA
*
21111148 ATAAAACATAT-TTAAAATTTT
1 ATAAAA-ATATATTAAAATTCT
*
21111169 ATAAAAATGTATTAAAATTCT
1 ATAAAAATATATTAAAATTCT
*
21111190 ATAAAAAAATATTAAAATT
1 ATAAAAATATATTAAAATT
21111209 GATATAATCT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 3 0.09
21 32 0.91
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (21 bp):
ATAAAAATATATTAAAATTCT
Found at i:21119765 original size:263 final size:263
Alignment explanation
Indices: 21119298--21119809 Score: 943
Period size: 263 Copynumber: 1.9 Consensus size: 263
21119288 ACATAATAAT
21119298 GTTCTTAAAAACAAATGCAGCTTTTCCATCATCTAGTTACTATTTGTAACATCACCATTAGCACC
1 GTTCTTAAAAACAAATGCAGCTTTTCCATCATCTAGTTACTATTTGTAACATCACCATTAGCACC
21119363 AATAAAGAAAATAAGAAAGATGACCTTGATTAAAAGAATGCCTTCCAACAAACAAAATAACAGGA
66 AATAAAGAAAATAAGAAAGATGACCTTGATTAAAAGAATGCCTTCCAACAAACAAAATAACAGGA
21119428 ACACCTTAATGGTCTATTTTACTGAAACTCTTTCTTTTTCTTCTATTCCAACCATGCAAGGTTCA
131 ACACCTTAATGGTCTATTTTACTGAAACTCTTTCTTTTTCTTCTATTCCAACCATGCAAGGTTCA
* *
21119493 TTAACTTCAGAAGAATTTTAAAAGACAGTTACATTATTCTTATTCATCTTTCTTATTCATTAAGA
196 TTAACTTCAGAAGAACTTTAAAAGACAGTTACATTATCCTTATTCATCTTTCTTATTCATTAAGA
21119558 GAC
261 GAC
*
21119561 GTTCTTAAAAACAAATGCAGCTTTTCCATCATCTAGTTACTTTTTGTAACATCACCATTAGCACC
1 GTTCTTAAAAACAAATGCAGCTTTTCCATCATCTAGTTACTATTTGTAACATCACCATTAGCACC
* * * *
21119626 AATAAAGAAAATAAGAAAGATGGCCTTGATTAAAAGAATGCCTTCCAACAAGCCAAATAACAGTA
66 AATAAAGAAAATAAGAAAGATGACCTTGATTAAAAGAATGCCTTCCAACAAACAAAATAACAGGA
21119691 ACACCTTAATGGTCTATTTTACTGAAACTCTTTCTTTTTCTTCTATTCCAACCATGCAAGGTTCA
131 ACACCTTAATGGTCTATTTTACTGAAACTCTTTCTTTTTCTTCTATTCCAACCATGCAAGGTTCA
* *
21119756 TTAACTTCAGAAGAACTTTAAAAGACAGTTATATTCTCCTTATTCATCTTTCTT
196 TTAACTTCAGAAGAACTTTAAAAGACAGTTACATTATCCTTATTCATCTTTCTT
21119810 GTCTCTATGA
Statistics
Matches: 240, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
263 240 1.00
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (263 bp):
GTTCTTAAAAACAAATGCAGCTTTTCCATCATCTAGTTACTATTTGTAACATCACCATTAGCACC
AATAAAGAAAATAAGAAAGATGACCTTGATTAAAAGAATGCCTTCCAACAAACAAAATAACAGGA
ACACCTTAATGGTCTATTTTACTGAAACTCTTTCTTTTTCTTCTATTCCAACCATGCAAGGTTCA
TTAACTTCAGAAGAACTTTAAAAGACAGTTACATTATCCTTATTCATCTTTCTTATTCATTAAGA
GAC
Found at i:21122982 original size:35 final size:35
Alignment explanation
Indices: 21122865--21123092 Score: 257
Period size: 35 Copynumber: 6.6 Consensus size: 35
21122855 CCTCATTGAA
* * * **
21122865 ATACCATACCTACATTTCATA-CTCGGTATGGAAA
1 ATACCATACCTACGTATCATAGCTCAGTATGGACG
* * **
21122899 ATACCATACCTACGTTTCATAACTCAGTAT-GAAA
1 ATACCATACCTACGTATCATAGCTCAGTATGGACG
21122933 ATACCATACCTACGTATCATAGCTCAGTATGGACG
1 ATACCATACCTACGTATCATAGCTCAGTATGGACG
* * *
21122968 ATGCCATACCTACGTATCATAGCTAAGTATGGTCG
1 ATACCATACCTACGTATCATAGCTCAGTATGGACG
*
21123003 ATGCCATACCTACGTATCATAGCTCAGTAT-GATCG
1 ATACCATACCTACGTATCATAGCTCAGTATGGA-CG
* * * **
21123038 ATGCCATACCTACTTATCA-AGCTCGGTATGGTTG
1 ATACCATACCTACGTATCATAGCTCAGTATGGACG
21123072 ATACCATACCTACGTATCATA
1 ATACCATACCTACGTATCATA
21123093 ACTTTGCCAC
Statistics
Matches: 172, Mismatches: 17, Indels: 9
0.87 0.09 0.05
Matches are distributed among these distances:
34 80 0.47
35 92 0.53
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.29
Consensus pattern (35 bp):
ATACCATACCTACGTATCATAGCTCAGTATGGACG
Found at i:21123040 original size:70 final size:69
Alignment explanation
Indices: 21122865--21123092 Score: 255
Period size: 69 Copynumber: 3.3 Consensus size: 69
21122855 CCTCATTGAA
* * * ** * * * *
21122865 ATACCATACCTACATTTCATA-CTCGGTATGGAAAATACCATACCTACGTTTCATAACTCAGTAT
1 ATACCATACCTACGTATCATAGCTCAGTATGGACGATGCCATACCTACGTATCA-AGCTAAGTAT
***
21122929 -GAAA
65 GGTCG
21122933 ATACCATACCTACGTATCATAGCTCAGTATGGACGATGCCATACCTACGTATCATAGCTAAGTAT
1 ATACCATACCTACGTATCATAGCTCAGTATGGACGATGCCATACCTACGTATCA-AGCTAAGTAT
21122998 GGTCG
65 GGTCG
* * **
21123003 ATGCCATACCTACGTATCATAGCTCAGTAT-GATCGATGCCATACCTACTTATCAAGCTCGGTAT
1 ATACCATACCTACGTATCATAGCTCAGTATGGA-CGATGCCATACCTACGTATCAAGCTAAGTAT
*
21123067 GGTTG
65 GGTCG
21123072 ATACCATACCTACGTATCATA
1 ATACCATACCTACGTATCATA
21123093 ACTTTGCCAC
Statistics
Matches: 139, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
68 19 0.14
69 70 0.50
70 50 0.36
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.29
Consensus pattern (69 bp):
ATACCATACCTACGTATCATAGCTCAGTATGGACGATGCCATACCTACGTATCAAGCTAAGTATG
GTCG
Found at i:21123061 original size:104 final size:104
Alignment explanation
Indices: 21122902--21123092 Score: 276
Period size: 104 Copynumber: 1.8 Consensus size: 104
21122892 ATGGAAAATA
*
21122902 CCATACCTACGTTTCATAACTCAGTATGAAAATACCATACCTACGTATCATAGCTCAGTATGGAC
1 CCATACCTACGTATCATAACTCAGTATGAAAATACCATACCTACGTATCATAGCTCAGTATGGAC
*
21122967 GATGCCATACCTACGTATCATAGCTAAGTATGGTCGATG
66 GATACCATACCTACGTATCATAGCTAAGTATGGTCGATG
* ** * * * *
21123006 CCATACCTACGTATCATAGCTCAGTATGATCGATGCCATACCTACTTATCA-AGCTCGGTATGGT
1 CCATACCTACGTATCATAACTCAGTATGA-AAATACCATACCTACGTATCATAGCTCAGTATGGA
*
21123070 TGATACCATACCTACGTATCATA
65 CGATACCATACCTACGTATCATA
21123093 ACTTTGCCAC
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
104 59 0.78
105 17 0.22
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (104 bp):
CCATACCTACGTATCATAACTCAGTATGAAAATACCATACCTACGTATCATAGCTCAGTATGGAC
GATACCATACCTACGTATCATAGCTAAGTATGGTCGATG
Found at i:21125512 original size:43 final size:43
Alignment explanation
Indices: 21125461--21125546 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
21125451 CCCATTTTGT
*
21125461 TTGATTTTGAATTTCGGCCTTCCAATTTCATCCCTAATAAGAA
1 TTGATTTTGAATTTCGGCATTCCAATTTCATCCCTAATAAGAA
*
21125504 TTGATTTTGAATTTCTGCATTCCAATTTCATCCCTAATAAGAA
1 TTGATTTTGAATTTCGGCATTCCAATTTCATCCCTAATAAGAA
21125547 AAACACAAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (43 bp):
TTGATTTTGAATTTCGGCATTCCAATTTCATCCCTAATAAGAA
Found at i:21126033 original size:92 final size:91
Alignment explanation
Indices: 21125888--21126057 Score: 218
Period size: 92 Copynumber: 1.9 Consensus size: 91
21125878 TTTTTAACAT
* * **
21125888 ATTCGAGACATAGTCAATCTTTTTACGTGAAATGAGATGACAATTCATGCACCTCACCATGGTTA
1 ATTCGAGACATAGTCAATCTTTTTACGTCAAATGAGATGACAACTCAAACACCTCACCATGGTTA
*
21125953 CTCGATTTAACATTTTTTTTAAATAA
66 CTCAATTTAACATTTTTTTTAAATAA
* * *
21125979 ATTCGAGACATAGTCAAATCTTTTTACG-CAATATGAGGTGACAAC-CTAAACACCTCACCCTTG
1 ATTCGAGACATAGTC-AATCTTTTTACGTCAA-ATGAGATGACAACTC-AAACACCTCACCATGG
*
21126042 TTACTCAATTTGACAT
63 TTACTCAATTTAACAT
21126058 ATCCCTAACT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
91 18 0.27
92 49 0.73
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.34
Consensus pattern (91 bp):
ATTCGAGACATAGTCAATCTTTTTACGTCAAATGAGATGACAACTCAAACACCTCACCATGGTTA
CTCAATTTAACATTTTTTTTAAATAA
Found at i:21128445 original size:50 final size:50
Alignment explanation
Indices: 21128322--21128505 Score: 217
Period size: 50 Copynumber: 3.7 Consensus size: 50
21128312 CTGGTACGCA
* * *
21128322 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCCGGTACACG
** ** *
21128371 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCCGGTACACG
* * * * * *
21128421 TAGTAGCCTGCACTTAGTACTACACGCGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-TTATCCGGTACACG
*
21128472 TAGTAGCCTGCACTTAGTACTACACAGGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
21128506 CACAATAGAT
Statistics
Matches: 111, Mismatches: 22, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
49 31 0.28
50 43 0.39
51 37 0.33
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCCGGTACACG
Found at i:21128495 original size:101 final size:99
Alignment explanation
Indices: 21128322--21128505 Score: 269
Period size: 101 Copynumber: 1.8 Consensus size: 99
21128312 CTGGTACGCA
* **
21128322 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
21128387 GTACTACACACGTGACCTAACCATTTGATACACG
66 GTACTACACACGTGACCTAACCATTTGATACACG
* * * * *
21128421 TAGTAGCCTGCACTTAGTACTACACGCGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
*
21128486 TAGTACTACACAGGTGACCT
64 TAGTACTACACACGTGACCT
21128506 CACAATAGAT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 28 0.38
100 3 0.04
101 43 0.58
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGTGACCTAACCATTTGATACACG
Found at i:21130882 original size:26 final size:24
Alignment explanation
Indices: 21130853--21130908 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
21130843 TTTTAAATAA
*
21130853 TTTTAGCAATTTTATATTTTTTAAAG
1 TTTTA-CAAATTTATA-TTTTTAAAG
* *
21130879 TTTTCATAAATTTATATTTTTAAAT
1 TTTT-ACAAATTTATATTTTTAAAG
21130904 TTTTA
1 TTTTA
21130909 AATAAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 1 0.04
25 12 0.46
26 12 0.46
27 1 0.04
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.61
Consensus pattern (24 bp):
TTTTACAAATTTATATTTTTAAAG
Found at i:21130913 original size:26 final size:27
Alignment explanation
Indices: 21130863--21130919 Score: 73
Period size: 25 Copynumber: 2.1 Consensus size: 27
21130853 TTTTAGCAAT
*
21130863 TTTATATTTTTTAAAGTTTTCAT-AAA
1 TTTATATTTTTTAAAGTTTTAATAAAA
*
21130889 TTTATA-TTTTTAAATTTTTAAATAAAA
1 TTTATATTTTTTAAAGTTTT-AATAAAA
21130916 TTTA
1 TTTA
21130920 ATGCATGTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 12 0.44
26 8 0.30
27 7 0.26
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (27 bp):
TTTATATTTTTTAAAGTTTTAATAAAA
Found at i:21131636 original size:17 final size:19
Alignment explanation
Indices: 21131599--21131637 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
21131589 AAATATTTAT
*
21131599 AAAATTAGAATTATGCATA
1 AAAATTAAAATTATGCATA
21131618 AAAATTAAAATT-T-CATA
1 AAAATTAAAATTATGCATA
21131635 AAA
1 AAA
21131638 TTCTAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (19 bp):
AAAATTAAAATTATGCATA
Found at i:21140519 original size:11 final size:11
Alignment explanation
Indices: 21140505--21140545 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
21140495 TGTTTTCTCT
21140505 CTATTTTGCTA
1 CTATTTTGCTA
*
21140516 CTATTTTACTA
1 CTATTTTGCTA
* *
21140527 TTATGTTGCTA
1 CTATTTTGCTA
21140538 CTATTTTG
1 CTATTTTG
21140546 TTGTTATTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:21140643 original size:30 final size:30
Alignment explanation
Indices: 21140582--21140644 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
21140572 ATTTATTTTA
* *
21140582 TTGTTAATTTTTTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
21140612 TTGTTAATTTTGTTATTATTTTAGAA-ACAT
1 TTGTTAATTTTGTTATTATTTTA-AAGACAT
21140642 TTG
1 TTG
21140645 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 28 0.93
31 2 0.07
ACGTcount: A:0.27, C:0.03, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:21141976 original size:23 final size:23
Alignment explanation
Indices: 21141945--21141998 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
21141935 TAAATAACCC
21141945 ATATCATTATTTAAAAATAATAAA
1 ATAT-ATTATTTAAAAATAATAAA
* * **
21141969 ATATATTATTTTATAATAATATT
1 ATATATTATTTAAAAATAATAAA
21141992 ATATATT
1 ATATATT
21141999 TTAAAATCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
ATATATTATTTAAAAATAATAAA
Found at i:21141984 original size:20 final size:20
Alignment explanation
Indices: 21141961--21142001 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
21141951 TTATTTAAAA
21141961 ATAATAAAA-TATATTATTTT
1 ATAATAAAATTATA-TATTTT
*
21141981 ATAATAATATTATATATTTT
1 ATAATAAAATTATATATTTT
21142001 A
1 A
21142002 AAATCTTAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATAATAAAATTATATATTTT
Found at i:21143852 original size:15 final size:15
Alignment explanation
Indices: 21143832--21143869 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
21143822 TAACTATACT
21143832 TATCATATATTCTAA
1 TATCATATATTCTAA
*
21143847 TATCAT-TATTTTAA
1 TATCATATATTCTAA
21143861 -ATCATATAT
1 TATCATATAT
21143870 CATTTCATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 5 0.24
14 10 0.48
15 6 0.29
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (15 bp):
TATCATATATTCTAA
Found at i:21158154 original size:13 final size:13
Alignment explanation
Indices: 21158136--21158164 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
21158126 ATGATTGAAT
21158136 TCACATTTCATCA
1 TCACATTTCATCA
21158149 TCACATTTCATCA
1 TCACATTTCATCA
21158162 TCA
1 TCA
21158165 TTTTACCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (13 bp):
TCACATTTCATCA
Found at i:21170130 original size:28 final size:28
Alignment explanation
Indices: 21170098--21170156 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
21170088 CAAGGCTGAC
21170098 TTTT-ATCT-CTTGATTTCAATTTCAATCT
1 TTTTAATCTACTTG-TTT-AATTTCAATCT
*
21170126 TTTTAATTTACTTGTTTAATTTCAATCT
1 TTTTAATCTACTTGTTTAATTTCAATCT
21170154 TTT
1 TTT
21170157 ACTTCAATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 18 0.64
29 6 0.21
30 4 0.14
ACGTcount: A:0.22, C:0.14, G:0.03, T:0.61
Consensus pattern (28 bp):
TTTTAATCTACTTGTTTAATTTCAATCT
Found at i:21171935 original size:7 final size:8
Alignment explanation
Indices: 21171918--21171945 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
21171908 CAATTCAATG
21171918 AAATAAAA
1 AAATAAAA
21171926 AAATAAAA
1 AAATAAAA
21171934 AAATAAAA
1 AAATAAAA
21171942 AAAT
1 AAAT
21171946 TGGTTCAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (8 bp):
AAATAAAA
Found at i:21172156 original size:21 final size:19
Alignment explanation
Indices: 21172125--21172217 Score: 75
Period size: 21 Copynumber: 4.7 Consensus size: 19
21172115 ATAATATATA
21172125 TTTATAATTTTTATGAT-TT
1 TTTATAATTTTTAT-ATGTT
*
21172144 TTTATAGAATTTTAATATGTGT
1 TTTAT--AATTTTTATATGT-T
* *
21172166 TTATAAAATTTTAAATATGTT
1 TT-TATAATTTT-TATATGTT
21172187 TTTATTAA-TTTTATAT-TT
1 TTTA-TAATTTTTATATGTT
21172205 TTTATAATTTTTA
1 TTTATAATTTTTA
21172218 AGTTTATATC
Statistics
Matches: 62, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
17 3 0.05
18 11 0.18
19 9 0.15
20 7 0.11
21 20 0.32
22 10 0.16
23 2 0.03
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTATAATTTTTATATGTT
Found at i:21175671 original size:57 final size:57
Alignment explanation
Indices: 21175545--21175752 Score: 356
Period size: 57 Copynumber: 3.8 Consensus size: 57
21175535 GAAGAAGAGA
* *
21175545 AGCACAAGGGAGAAGCTCATCACGAAGGCGGCCATGGC------TATGGCGCTGCTG
1 AGCACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGGTTATGGCGCCGCTG
21175596 AGCACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGGTTATGGCGCCGCTG
1 AGCACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGGTTATGGCGCCGCTG
21175653 AGCACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGGTTATGGCGCCGCTG
1 AGCACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGGTTATGGCGCCGCTG
21175710 AGCACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGG
1 AGCACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGG
21175753 CGCCGCTGCG
Statistics
Matches: 149, Mismatches: 2, Indels: 6
0.95 0.01 0.04
Matches are distributed among these distances:
51 37 0.25
57 112 0.75
ACGTcount: A:0.26, C:0.23, G:0.35, T:0.16
Consensus pattern (57 bp):
AGCACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGGTTATGGCGCCGCTG
Found at i:21176798 original size:19 final size:19
Alignment explanation
Indices: 21176749--21176802 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
21176739 TGATTTTTAA
*
21176749 TTAATTTTAA-ATATAATTT
1 TTAA-TTTAATATATAAATT
*
21176768 TTAAAATT-ATATATAAATT
1 TT-AATTTAATATATAAATT
21176787 TTAATTTAATATATAA
1 TTAATTTAATATATAA
21176803 CTGTATATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 5 0.17
19 22 0.76
20 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TTAATTTAATATATAAATT
Found at i:21176870 original size:31 final size:30
Alignment explanation
Indices: 21176771--21176879 Score: 98
Period size: 31 Copynumber: 3.6 Consensus size: 30
21176761 ATAATTTTTA
21176771 AAAT-TATATAT-AAATTTTAATTTAATATAT
1 AAATGTATATATGAAATTTTAATTTAAT-T-T
* * *
21176801 AACTGTATATATG-AATTTTAATTTAGTAT
1 AAATGTATATATGAAATTTTAATTTAATTT
* * *
21176830 AATTATATATATGAAATTTTAACTGTAATTT
1 AAATGTATATATGAAATTTTAA-TTTAATTT
* *
21176861 AAATGTATATTTAAAATTT
1 AAATGTATATATGAAATTT
21176880 AATATGATTT
Statistics
Matches: 63, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
29 12 0.19
30 11 0.17
31 40 0.63
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.49
Consensus pattern (30 bp):
AAATGTATATATGAAATTTTAATTTAATTT
Found at i:21177507 original size:26 final size:26
Alignment explanation
Indices: 21177458--21177514 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
21177448 CATTCCTAAG
*
21177458 TGATTCTAACCTATCACTGGAATTAC
1 TGATTCTAACCTATCACTGAAATTAC
* *
21177484 TGATTCTAATCTATCA-TAGAAATTAT
1 TGATTCTAACCTATCACT-GAAATTAC
21177510 TGATT
1 TGATT
21177515 ACAGCTCTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 1 0.04
26 26 0.96
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (26 bp):
TGATTCTAACCTATCACTGAAATTAC
Found at i:21179418 original size:9 final size:9
Alignment explanation
Indices: 21179404--21179428 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
21179394 TTTAAATATC
21179404 TTTTTTCAT
1 TTTTTTCAT
21179413 TTTTTTCAT
1 TTTTTTCAT
21179422 TTTTTTC
1 TTTTTTC
21179429 GTCTTTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTCAT
Found at i:21183196 original size:14 final size:14
Alignment explanation
Indices: 21183160--21183196 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
21183150 TGCTACTATT
*
21183160 TTACTATTATGTTG
1 TTACTATTTTGTTG
21183174 TTACTATTTTGTTG
1 TTACTATTTTGTTG
*
21183188 TTATTATTT
1 TTACTATTT
21183197 GGGTATTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.19, C:0.05, G:0.11, T:0.65
Consensus pattern (14 bp):
TTACTATTTTGTTG
Found at i:21186286 original size:22 final size:22
Alignment explanation
Indices: 21186261--21186324 Score: 53
Period size: 22 Copynumber: 3.0 Consensus size: 22
21186251 CCTATGCCTT
21186261 TGCTATTTTCTTGCTTTGTTTC
1 TGCTATTTTCTTGCTTTGTTTC
* *
21186283 TGCTCTGTTT-TTGCCTTT-TTGC
1 TGCTAT-TTTCTTG-CTTTGTTTC
* *
21186305 T-CTGTTGTCTTGCTTTGTTT
1 TGCTATTTTCTTGCTTTGTTT
21186325 TCTTTTTTCG
Statistics
Matches: 33, Mismatches: 5, Indels: 9
0.70 0.11 0.19
Matches are distributed among these distances:
20 6 0.18
21 8 0.24
22 12 0.36
23 7 0.21
ACGTcount: A:0.02, C:0.19, G:0.17, T:0.62
Consensus pattern (22 bp):
TGCTATTTTCTTGCTTTGTTTC
Found at i:21189337 original size:36 final size:36
Alignment explanation
Indices: 21189282--21189359 Score: 102
Period size: 36 Copynumber: 2.2 Consensus size: 36
21189272 AGTTTCGCCT
*
21189282 AGCATTGGTCGGTAAAACTGACAAATAGATATGCCA
1 AGCACTGGTCGGTAAAACTGACAAATAGATATGCCA
* * * * *
21189318 AGCACTGGTTGGTATAACTGACAAATAGGTGTGCCT
1 AGCACTGGTCGGTAAAACTGACAAATAGATATGCCA
21189354 AGCACT
1 AGCACT
21189360 CCTCGACACG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (36 bp):
AGCACTGGTCGGTAAAACTGACAAATAGATATGCCA
Found at i:21195817 original size:96 final size:96
Alignment explanation
Indices: 21195690--21195883 Score: 289
Period size: 96 Copynumber: 2.0 Consensus size: 96
21195680 TCGCTTCTTT
* *
21195690 TTGCTCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCATT
1 TTGCTCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTAGGCTCAGT
* * * *
21195755 GTCTGCTCCATCGTTCCCTTCGATAATAGAC
66 ATCTGCTCCATCATTCCCATCGATAACAGAC
* * * *
21195786 TTGCTCCTCTTTGCCCTCTTGGCTTTGGCTTTTCCCTTGCTCGAACCAAGCTTCTTAGGCTCCGT
1 TTGCTCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTAGGCTCAGT
*
21195851 ATCTGCTCGATCATTCCCATCGATAACAGAC
66 ATCTGCTCCATCATTCCCATCGATAACAGAC
21195882 TT
1 TT
21195884 CCTTGGACAC
Statistics
Matches: 87, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 87 1.00
ACGTcount: A:0.14, C:0.33, G:0.17, T:0.36
Consensus pattern (96 bp):
TTGCTCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTAGGCTCAGT
ATCTGCTCCATCATTCCCATCGATAACAGAC
Found at i:21196253 original size:30 final size:30
Alignment explanation
Indices: 21196218--21196277 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
21196208 TTCCTCGGAC
*
21196218 TTGGAAGATCCAAGCTTGTCTTTCCCTAGA
1 TTGGAAGATCCAAGCTTGTCTTGCCCTAGA
21196248 TTGGAAGATCCAAGCTTGTCTTGCCCTAGA
1 TTGGAAGATCCAAGCTTGTCTTGCCCTAGA
21196278 CCAAACTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (30 bp):
TTGGAAGATCCAAGCTTGTCTTGCCCTAGA
Found at i:21197924 original size:25 final size:26
Alignment explanation
Indices: 21197891--21197942 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
21197881 TTTTGTTCGG
*
21197891 TTTAGTTTTTGAAAATATTTTATATT
1 TTTAGTTTTAGAAAATATTTTATATT
* * *
21197917 TTTA-TTTTAGGAATTTTTTTATATT
1 TTTAGTTTTAGAAAATATTTTATATT
21197942 T
1 T
21197943 AAATTTTGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (26 bp):
TTTAGTTTTAGAAAATATTTTATATT
Found at i:21200484 original size:26 final size:26
Alignment explanation
Indices: 21200448--21200503 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
21200438 ATCAACCGGT
21200448 CTAGCTATTTCTACCATTATTTTGAG
1 CTAGCTATTTCTACCATTATTTTGAG
21200474 CTAGCTATTTCTACCATTATTTTGAG
1 CTAGCTATTTCTACCATTATTTTGAG
21200500 CTAG
1 CTAG
21200504 GGTTCATGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.23, C:0.20, G:0.12, T:0.45
Consensus pattern (26 bp):
CTAGCTATTTCTACCATTATTTTGAG
Found at i:21203027 original size:16 final size:17
Alignment explanation
Indices: 21203003--21203044 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
21202993 TTATGTTTTG
*
21203003 TCATGTATTTTTT-GTA
1 TCATATATTTTTTAGTA
*
21203019 TCATATATTTTTTATTA
1 TCATATATTTTTTAGTA
21203036 TCATATATT
1 TCATATATT
21203045 CTGTTAACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.26, C:0.07, G:0.05, T:0.62
Consensus pattern (17 bp):
TCATATATTTTTTAGTA
Found at i:21203810 original size:132 final size:131
Alignment explanation
Indices: 21203561--21203846 Score: 369
Period size: 132 Copynumber: 2.2 Consensus size: 131
21203551 AGTATCCATT
* *
21203561 TAAAAATTCTTTAAAACGAAGACGAGATTCGATATTTGGCAACTCGGGAATAGTGCCCTAACGTG
1 TAAAAATTCTTTAAAACGAAGGCGAGATTCGATACTTGGCAACTCGGGAATAGTGCCCTAACGTG
* *
21203626 TTGGGTTGCAATTTCGTGTTTGCTCAAAACAATCGAATATCTCTTCAAAATTTCACTCATACCTT
66 TTGGGTTGCAATTTCGTGTTTGCTCAAAACAATCGAAGATCCCTTCAAAATTTCACTCATACCTT
21203691 -
131 C
* * * * *
21203691 TCAAAAATTCTTCAAAACGAAGGCGATATTCGATACTTGGTAATTCGTGGAATCGTGCCCTAACG
1 T-AAAAATTCTTTAAAACGAAGGCGAGATTCGATACTTGGCAACTCG-GGAATAGTGCCCTAACG
** * * * * **
21203756 TGTTGGGTTGCAATTTC-TCGTTTGCTCAAAGTAATCGAAGGTCCCTTTAGAATTTCACTCGTGT
64 TGTTGGGTTGCAATTTCGT-GTTTGCTCAAAACAATCGAAGATCCCTTCAAAATTTCACTCATAC
21203820 CTTC
128 CTTC
*
21203824 TAAAAATCCTTTAAAACGAAGGC
1 TAAAAATTCTTTAAAACGAAGGC
21203847 AATACTTGGT
Statistics
Matches: 133, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
130 1 0.01
131 40 0.30
132 91 0.68
133 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (131 bp):
TAAAAATTCTTTAAAACGAAGGCGAGATTCGATACTTGGCAACTCGGGAATAGTGCCCTAACGTG
TTGGGTTGCAATTTCGTGTTTGCTCAAAACAATCGAAGATCCCTTCAAAATTTCACTCATACCTT
C
Found at i:21204205 original size:131 final size:130
Alignment explanation
Indices: 21203559--21204206 Score: 574
Period size: 131 Copynumber: 4.9 Consensus size: 130
21203549 TAAGTATCCA
* * * * * * * * **
21203559 TTTAAAAATTCTTTAAAACGAAGACGAGATTCGATATTTGGCAACTCGGGAAT-AGTGCCCTAAC
1 TTTAAAAATCCTTTAAAACGAAGGCAATATTCGATGTTTGACAATTCGAGAATCA-TGCCCTATT
* * * *
21203623 GTGTTGGGTTGCAATTTCGT-GTTTGCTCAAAACAATCGAATATCTCTTCAAAATTTCACTCATA
65 GTGCTGGGTTGCGATTTC-TCGTTTGCTCAAAACAATCGAATATCTCTTTAGAATTTCACTCAT-
**
21203687 CCT
128 GTT
* * * * ** ** * * **
21203690 TTCAAAAATTCTTCAAAACGAAGGCGATATTCGATACTTGGTAATTCGTGGAATCGTGCCCTAAC
1 TTTAAAAATCCTTTAAAACGAAGGCAATATTCGATGTTTGACAATTCG-AGAATCATGCCCTATT
* * ** ** * *
21203755 GTGTTGGGTTGCAATTTCTCGTTTGCTCAAAGTAATCGAAGGTCCCTTTAGAATTTCACTCGTGT
65 GTGCTGGGTTGCGATTTCTCGTTTGCTCAAAACAATCGAATATCTCTTTAGAATTTCACTCATGT
21203820 CT
130 -T
* * *
21203822 TCTAAAAATCCTTTAAAACGAAGGCAATACTT-GGTGTTTAACAATTCGAGAATCATGCCCTATT
1 TTTAAAAATCCTTTAAAACGAAGGCAATA-TTCGATGTTTGACAATTCGAGAATCATGCCCTATT
* **
21203886 GTGCTGGGTTGTGATTTCTCGTTTGCTCAAAACAATCGAATAT-TCCTTTAGGTTTTCACTCATG
65 GTGCTGGGTTGCGATTTCTCGTTTGCTCAAAACAATCGAATATCT-CTTTAGAATTTCACTCATG
21203950 TT
129 TT
* *
21203952 TATTAAAAATCCTTTAAAACGAAGGCAACATTCGGTGTTTGACAATTCGAGAATCATGCCCTATT
1 T-TTAAAAATCCTTTAAAACGAAGGCAATATTCGATGTTTGACAATTCGAGAATCATGCCCTATT
* * **
21204017 GTGCTGGGTTGTGATTCCTCGTTTGCTCAAAACAATCGAATAT-TCCTTTAGGTTTTCACTCATG
65 GTGCTGGGTTGCGATTTCTCGTTTGCTCAAAACAATCGAATATCT-CTTTAGAATTTCACTCATG
21204081 TT
129 TT
* * * * * *
21204083 TATTAAAAAT-CTTTCAAAACGAAGGCGATGTTTGATGTTTGGCGATTTGAGAATCGA-GCCCTA
1 T-TTAAAAATCCTTT-AAAACGAAGGCAATATTCGATGTTTGACAATTCGAGAATC-ATGCCCTA
* * * * * * *
21204146 TTGTGCTGGGTTGCGCTTTTTCATTT-TTCCTAAATAATCGAATATCTCTTCAGAATTTCAC
63 TTGTGCTGGGTTGCGATTTCTCGTTTGCT-CAAAACAATCGAATATCTCTTTAGAATTTCAC
21204207 ACGTATTTTC
Statistics
Matches: 438, Mismatches: 67, Indels: 24
0.83 0.13 0.05
Matches are distributed among these distances:
130 9 0.02
131 323 0.74
132 104 0.24
133 2 0.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (130 bp):
TTTAAAAATCCTTTAAAACGAAGGCAATATTCGATGTTTGACAATTCGAGAATCATGCCCTATTG
TGCTGGGTTGCGATTTCTCGTTTGCTCAAAACAATCGAATATCTCTTTAGAATTTCACTCATGTT
Found at i:21210335 original size:15 final size:15
Alignment explanation
Indices: 21210315--21210344 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
21210305 GTCACTTGTC
21210315 CGTCTGTGACACACG
1 CGTCTGTGACACACG
21210330 CGTCTGTGACACACG
1 CGTCTGTGACACACG
21210345 ACCGTGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.33, G:0.27, T:0.20
Consensus pattern (15 bp):
CGTCTGTGACACACG
Found at i:21232558 original size:20 final size:20
Alignment explanation
Indices: 21232513--21232558 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
21232503 ATACAATTCA
*
21232513 AACAGAACAAAACCAAATAG
1 AACAGAACAAAACAAAATAG
* *
21232533 AGCAGAACAAAACAAAATGG
1 AACAGAACAAAACAAAATAG
21232553 AACAGA
1 AACAGA
21232559 GCAGAGTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.63, C:0.17, G:0.15, T:0.04
Consensus pattern (20 bp):
AACAGAACAAAACAAAATAG
Found at i:21233619 original size:42 final size:42
Alignment explanation
Indices: 21233552--21233659 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 42
21233542 GCTTGGGCCT
** * *
21233552 ACGCCCATGTCCTTGCCTGTATGGCTCAAACA-GTC-TAGGCAC
1 ACGCCCATGTCCTTGCCCATGTGGCTC--ACATGGCTTAGGCAC
*
21233594 ACGTCCATGTCCTTGCCCATGTGGCTCACATGGCTTAGGCAC
1 ACGCCCATGTCCTTGCCCATGTGGCTCACATGGCTTAGGCAC
*
21233636 ATGCCCATGTCCCTTG-CCATGTGG
1 ACGCCCATGT-CCTTGCCCATGTGG
21233660 TTCTAAAGCG
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
40 3 0.05
41 2 0.04
42 46 0.82
43 5 0.09
ACGTcount: A:0.18, C:0.33, G:0.23, T:0.26
Consensus pattern (42 bp):
ACGCCCATGTCCTTGCCCATGTGGCTCACATGGCTTAGGCAC
Found at i:21238569 original size:46 final size:47
Alignment explanation
Indices: 21238465--21238584 Score: 152
Period size: 46 Copynumber: 2.6 Consensus size: 47
21238455 TGTCTTCGAC
** * *
21238465 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCA-ATATATATAAT
* * *
21238513 ATGGGCTTACATGGCTCATTCCTGTCTCTAAAGCC-ATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATAAT
*
21238559 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
21238585 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 34 0.54
48 29 0.46
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.37
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATAAT
Found at i:21243072 original size:24 final size:24
Alignment explanation
Indices: 21243030--21243090 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
21243020 CATTATAAAT
* *
21243030 AAAATAAC-TAAACATATCTATTA
1 AAAATAACTTTAACACATCTATTA
21243053 AAAATAACTTTAACACATCTATTA
1 AAAATAACTTTAACACATCTATTA
21243077 AAACAT-ACTTTAAC
1 AAA-ATAACTTTAAC
21243091 GGAATGATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 8 0.24
24 24 0.71
25 2 0.06
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.31
Consensus pattern (24 bp):
AAAATAACTTTAACACATCTATTA
Found at i:21246128 original size:207 final size:207
Alignment explanation
Indices: 21245709--21246385 Score: 1096
Period size: 207 Copynumber: 3.3 Consensus size: 207
21245699 NNNNNNNNNN
* * *
21245709 CAAATCATCTTAGATTTGCTTCAGCGTAAACACGCGAAAGCCAAATCAGCTATGTCTTCGATTTG
1 CAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTG
* * * * **
21245774 CTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATC-TGCTTCAGTCTAATCATCTGAAGGTT
66 TTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCC
* *
21245838 AGATCTGCTATATGTCTGTCCTCCGTCGAATATGGAGACGCCAAACTTCGATTTGTTCTCTGACA
131 AGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGCCAAACTTCGATTTGTTCTCTGACA
21245903 ATACAGAGATGC
196 ATACAGAGATGC
*
21245915 CAAATCATTTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTG
1 CAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTG
*
21245980 TTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAATATAAACATCTGAAGGCC
66 TTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCC
21246045 AGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGCCAAACTTCGATTTGTTCTCTGACA
131 AGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGCCAAACTTCGATTTGTTCTCTGACA
21246110 ATACAGAGATGC
196 ATACAGAGATGC
21246122 CAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTG
1 CAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTG
*
21246187 TTCCTTGTAAGCACAATGATGCCAAACCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCC
66 TTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCC
* * * *
21246252 AAATCTGCTATGTGTCTACCCT-C--C--ATATGGAGACGCCAAACTTTGATTTGTTCTTTGACA
131 AGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGCCAAACTTCGATTTGTTCTCTGACA
*
21246312 ATACAGAAATGC
196 ATACAGAGATGC
* * * * *
21246324 CAAATCATCTTAGATTTGCTTCATCATAAGCACGTGAAAGCCAAATCAGCTATATCTTCGAT
1 CAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGAT
21246386 CTGCTCTCCG
Statistics
Matches: 444, Mismatches: 26, Indels: 6
0.93 0.05 0.01
Matches are distributed among these distances:
202 102 0.23
204 1 0.00
206 98 0.22
207 243 0.55
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (207 bp):
CAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTG
TTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCC
AGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGCCAAACTTCGATTTGTTCTCTGACA
ATACAGAGATGC
Found at i:21246659 original size:44 final size:44
Alignment explanation
Indices: 21246600--21246799 Score: 131
Period size: 44 Copynumber: 4.7 Consensus size: 44
21246590 CAATTTTAAC
21246600 CTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCATCGTTGAT
1 CTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCATCGTTGAT
* * * * *
21246644 CTGTT-CCGCTACTGCTTAGGGAGA-TAAGATC-TGTAAT--TTTAGC
1 CTGTTACC-CTACTGCTTAGGG-GATTAAG-GCGAGTCATCGTTGA-T
* * *
21246687 CTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCGTCGTCGAT
1 CTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCATCGTTGAT
** * *
21246731 CTACT-CCGCTACTGCTTAAGGAGA-TAA---GA-TC-T-G-TGAAC
1 CTGTTACC-CTACTGCTT-AGGGGATTAAGGCGAGTCATCGTTG-AT
21246769 CTGTTACCCTACTGCTTAGGGGATTAAGGCG
1 CTGTTACCCTACTGCTTAGGGGATTAAGGCG
21246800 CTGAATTTTG
Statistics
Matches: 117, Mismatches: 22, Indels: 37
0.66 0.12 0.21
Matches are distributed among these distances:
37 6 0.05
38 17 0.15
39 3 0.03
40 2 0.02
41 3 0.03
42 5 0.04
43 29 0.25
44 43 0.37
45 9 0.08
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.30
Consensus pattern (44 bp):
CTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCATCGTTGAT
Found at i:21246682 original size:87 final size:86
Alignment explanation
Indices: 21246510--21246799 Score: 407
Period size: 87 Copynumber: 3.4 Consensus size: 86
21246500 TCTGCTATAC
* *
21246510 TTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGC-A--CATC-TTCGATCTGCTCCACTACTG
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCATCGTT-GATCTGCTCCGCTACTG
21246571 CTTAGGGAGATAAGATCTGCAAT
65 CTTAGGGAGATAAGATCTG-AAT
*
21246594 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCATCGTTGATCTGTTCCGCTACTGC
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCATCGTTGATCTGCTCCGCTACTGC
21246659 TTAGGGAGATAAGATCTGTAAT
66 TTAGGGAGATAAGATCTG-AAT
* * * * *
21246681 TTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCGTCGTCGATCTACTCCGCTACTGC
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCATCGTTGATCTGCTCCGCTACTGC
*
21246746 TTAAGGAGATAAGATCTG---
66 TTAGGGAGATAAGATCTGAAT
*
21246764 -TGAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
21246800 CTGAATTTTG
Statistics
Matches: 188, Mismatches: 14, Indels: 10
0.89 0.07 0.05
Matches are distributed among these distances:
82 33 0.18
84 35 0.19
85 1 0.01
87 117 0.62
88 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.31
Consensus pattern (86 bp):
TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCATCGTTGATCTGCTCCGCTACTGC
TTAGGGAGATAAGATCTGAAT
Found at i:21246702 original size:43 final size:43
Alignment explanation
Indices: 21246565--21246707 Score: 150
Period size: 43 Copynumber: 3.3 Consensus size: 43
21246555 ATCTGCTCCA
* *
21246565 CTACTGCTTAGGGAGATAAGATCTGCAATTTTAACCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTTAGCCTGTTACC
* * * * *
21246608 CTACTGCTTAGGG-GATTAAG-GCGAGTCATCGTT-GATCTGTT-CC
1 CTACTGCTTAGGGAGA-TAAGATC-TGTAAT-TTTAG-CCTGTTACC
21246651 GCTACTGCTTAGGGAGATAAGATCTGTAATTTTAGCCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCTGTAATTTTAGCCTGTTACC
21246695 CTACTGCTTAGGG
1 CTACTGCTTAGGG
21246708 GGTTAAGGCG
Statistics
Matches: 79, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
42 3 0.04
43 42 0.53
44 31 0.39
45 3 0.04
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (43 bp):
CTACTGCTTAGGGAGATAAGATCTGTAATTTTAGCCTGTTACC
Found at i:21247756 original size:1 final size:1
Alignment explanation
Indices: 21247746--21247822 Score: 64
Period size: 1 Copynumber: 77.0 Consensus size: 1
21247736 GGCCTCTCCA
* * * * * * * * *
21247746 TTTTTCTTTTTTTTTTCTTTTTTTTTCTTTTTTTTCTCTTTTTCTTTTCTTTTTTTCTTTTTTTC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
21247811 TTCTTTTTTTTT
1 TTTTTTTTTTTT
21247823 GAAATAGAAG
Statistics
Matches: 56, Mismatches: 20, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 56 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (1 bp):
T
Found at i:21247762 original size:11 final size:11
Alignment explanation
Indices: 21247746--21247822 Score: 99
Period size: 11 Copynumber: 7.4 Consensus size: 11
21247736 GGCCTCTCCA
21247746 TTTTTCTTTTT
1 TTTTTCTTTTT
21247757 TTTTTC-TTTT
1 TTTTTCTTTTT
21247767 TTTTTCTTTTT
1 TTTTTCTTTTT
*
21247778 TTTCTCTTTTT
1 TTTTTCTTTTT
*
21247789 CTTTTC---TT
1 TTTTTCTTTTT
21247797 TTTTTCTTTTT
1 TTTTTCTTTTT
*
21247808 TTCTTCTTTTT
1 TTTTTCTTTTT
21247819 TTTT
1 TTTT
21247823 GAAATAGAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
8 7 0.12
10 10 0.18
11 39 0.70
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:21247770 original size:21 final size:21
Alignment explanation
Indices: 21247746--21247822 Score: 106
Period size: 21 Copynumber: 3.7 Consensus size: 21
21247736 GGCCTCTCCA
21247746 TTTTTCTTTTTTTTTTCTTTT
1 TTTTTCTTTTTTTTTTCTTTT
*
21247767 TTTTTCTTTTTTTTCTCTTTT
1 TTTTTCTTTTTTTTTTCTTTT
21247788 TCTTTTC---TTTTTTTCTTTT
1 T-TTTTCTTTTTTTTTTCTTTT
21247807 TTTCTTCTTTTTTTTT
1 TTT-TTCTTTTTTTTT
21247823 GAAATAGAAG
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
18 2 0.04
19 15 0.31
21 21 0.43
22 11 0.22
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (21 bp):
TTTTTCTTTTTTTTTTCTTTT
Found at i:21247776 original size:19 final size:19
Alignment explanation
Indices: 21247754--21247821 Score: 93
Period size: 20 Copynumber: 3.4 Consensus size: 19
21247744 CATTTTTCTT
21247754 TTTTTTTTCTTTTTTTTTC
1 TTTTTTTTCTTTTTTTTTC
21247773 TTTTTTTTCTCTTTTTCTTT-
1 TTTTTTTTCT-TTTTT-TTTC
21247793 TCTTTTTTTCTTTTTTTCTTC
1 T-TTTTTTTCTTTTTTT-TTC
21247814 TTTTTTTT
1 TTTTTTTT
21247822 TGAAATAGAA
Statistics
Matches: 44, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
19 11 0.25
20 20 0.45
21 13 0.30
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (19 bp):
TTTTTTTTCTTTTTTTTTC
Found at i:21255657 original size:18 final size:18
Alignment explanation
Indices: 21255634--21255688 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
21255624 ATGTAAACCT
*
21255634 TTTTGTATTCGAACCCCC
1 TTTTGTATGCGAACCCCC
* *
21255652 TTTTGTCTGCGAACCTCC
1 TTTTGTATGCGAACCCCC
*
21255670 -TTTGTATGCAAACCCCC
1 TTTTGTATGCGAACCCCC
21255687 TT
1 TT
21255689 ACTGCAACCC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
17 14 0.47
18 16 0.53
ACGTcount: A:0.16, C:0.33, G:0.13, T:0.38
Consensus pattern (18 bp):
TTTTGTATGCGAACCCCC
Found at i:21255683 original size:17 final size:17
Alignment explanation
Indices: 21255635--21255688 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
21255625 TGTAAACCTT
* *
21255635 TTTGTATTCGAACCCCC
1 TTTGTATGCAAACCCCC
* * *
21255652 TTTTGTCTGCGAACCTCC
1 -TTTGTATGCAAACCCCC
21255670 TTTGTATGCAAACCCCC
1 TTTGTATGCAAACCCCC
21255687 TT
1 TT
21255689 ACTGCAACCC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 16 0.53
18 14 0.47
ACGTcount: A:0.17, C:0.33, G:0.13, T:0.37
Consensus pattern (17 bp):
TTTGTATGCAAACCCCC
Found at i:21255998 original size:14 final size:14
Alignment explanation
Indices: 21255979--21256005 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21255969 ATATTGTTAT
21255979 TACATGTAAGTCAA
1 TACATGTAAGTCAA
21255993 TACATGTAAGTCA
1 TACATGTAAGTCA
21256006 GAATATTACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (14 bp):
TACATGTAAGTCAA
Found at i:21259629 original size:26 final size:27
Alignment explanation
Indices: 21259595--21259656 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 27
21259585 AAATTGACTT
21259595 TTTTATTTTGTT-TATA-T-TTTTA-AA
1 TTTTATTTT-TTATATATTGTTTTAGAA
*
21259619 TTTTATTTTTTATATATTGTTTTAGAT
1 TTTTATTTTTTATATATTGTTTTAGAA
21259646 TTTTATTTTTT
1 TTTTATTTTTT
21259657 TTAAAAGTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
23 2 0.06
24 13 0.39
25 1 0.03
26 5 0.15
27 12 0.36
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (27 bp):
TTTTATTTTTTATATATTGTTTTAGAA
Found at i:21260886 original size:17 final size:17
Alignment explanation
Indices: 21260861--21260902 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
21260851 TATATATATT
21260861 TTTAATTTTATGAATTA
1 TTTAATTTTATGAATTA
* *
21260878 TTTATTTTTTTGAATT-
1 TTTAATTTTATGAATTA
*
21260894 TTAAATTTT
1 TTTAATTTT
21260903 TATTTTATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (17 bp):
TTTAATTTTATGAATTA
Found at i:21262690 original size:20 final size:22
Alignment explanation
Indices: 21262648--21262690 Score: 54
Period size: 20 Copynumber: 2.0 Consensus size: 22
21262638 TTTAGAAGCA
* *
21262648 AGAAAATAGTAGATGAAAGTGG
1 AGAAAATAGTAGAAGAAAATGG
21262670 AGAAAAT-G-AGAAGAAAATGG
1 AGAAAATAGTAGAAGAAAATGG
21262690 A
1 A
21262691 AGGAAAGTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 11 0.58
21 1 0.05
22 7 0.37
ACGTcount: A:0.56, C:0.00, G:0.30, T:0.14
Consensus pattern (22 bp):
AGAAAATAGTAGAAGAAAATGG
Found at i:21264035 original size:19 final size:17
Alignment explanation
Indices: 21263995--21264027 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
21263985 TTTGTAGAAC
*
21263995 TTTAAAAATTTTGTTAA
1 TTTATAAATTTTGTTAA
21264012 TTTATAAATTTTGTTA
1 TTTATAAATTTTGTTA
21264028 TCTTTTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (17 bp):
TTTATAAATTTTGTTAA
Found at i:21265080 original size:87 final size:87
Alignment explanation
Indices: 21264977--21265150 Score: 339
Period size: 87 Copynumber: 2.0 Consensus size: 87
21264967 TAATTTTAAA
21264977 TATTGCATTTATTTTATAATTTAAATATATGGTTTGAACGTGGATTGCACTGTGAGAGAGATTGT
1 TATTGCATTTATTTTATAATTTAAATATATGGTTTGAACGTGGATTGCACTGTGAGAGAGATTGT
21265042 AAATCACTTTATTTATCTTTAT
66 AAATCACTTTATTTATCTTTAT
*
21265064 TATTGCATTTATTTTATAATTTAAATATATGGTTTGAACGTGGATTGCACTGTGAGAGAGGTTGT
1 TATTGCATTTATTTTATAATTTAAATATATGGTTTGAACGTGGATTGCACTGTGAGAGAGATTGT
21265129 AAATCACTTTATTTATCTTTAT
66 AAATCACTTTATTTATCTTTAT
21265151 AATTAAATTG
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (87 bp):
TATTGCATTTATTTTATAATTTAAATATATGGTTTGAACGTGGATTGCACTGTGAGAGAGATTGT
AAATCACTTTATTTATCTTTAT
Found at i:21274631 original size:6 final size:6
Alignment explanation
Indices: 21274622--21274648 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
21274612 ATGTCAGTAC
21274622 TGGCTG TGGCTG TGGCTG TGGCTG TGG
1 TGGCTG TGGCTG TGGCTG TGGCTG TGG
21274649 ACTGACTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
TGGCTG
Found at i:21275861 original size:31 final size:31
Alignment explanation
Indices: 21275813--21275875 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
21275803 AAATGGTCGC
* *
21275813 TGAACTATTCAAAAATTTTCATTTAAGTCAT
1 TGAACTATTCAAAAATTTTAATTCAAGTCAT
* *
21275844 TGAATTATTTAAAAATTTTAATTCAAGTCAT
1 TGAACTATTCAAAAATTTTAATTCAAGTCAT
21275875 T
1 T
21275876 CAGCTATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (31 bp):
TGAACTATTCAAAAATTTTAATTCAAGTCAT
Found at i:21277626 original size:17 final size:17
Alignment explanation
Indices: 21277604--21277654 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
21277594 TATAATTTTT
*
21277604 TTAAAATAATTAAAAAA
1 TTAAAATTATTAAAAAA
*
21277621 TTAAAATTA-TAGAAAA
1 TTAAAATTATTAAAAAA
21277637 TATAATAATTATTAAAAA
1 T-TAA-AATTATTAAAAA
21277655 TAATTAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 7 0.25
17 11 0.39
18 5 0.18
19 5 0.18
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
TTAAAATTATTAAAAAA
Found at i:21277656 original size:18 final size:17
Alignment explanation
Indices: 21277608--21277656 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
21277598 ATTTTTTTAA
21277608 AATAATTA-AAAAAT-T
1 AATAATTATAAAAATAT
21277623 AA-AATTATAGAAAATAT
1 AATAATTATA-AAAATAT
21277640 AATAATTATTAAAAATA
1 AATAATTA-TAAAAATA
21277657 ATTAAATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.17
15 3 0.10
16 5 0.17
17 3 0.10
18 11 0.38
19 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AATAATTATAAAAATAT
Found at i:21278101 original size:33 final size:35
Alignment explanation
Indices: 21278037--21278103 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 35
21278027 AACAATATCT
* *
21278037 AATTTTTTTCGTTTATTTTTCTATATATATATTTG
1 AATTTTTTTCGTATATTTTTCAATATATATATTTG
* *
21278072 AATTTTTTTC-TATATTTTT-AATTTCTATATTT
1 AATTTTTTTCGTATATTTTTCAATATATATATTT
21278104 TTGTATTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 10 0.36
34 8 0.29
35 10 0.36
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.67
Consensus pattern (35 bp):
AATTTTTTTCGTATATTTTTCAATATATATATTTG
Found at i:21280662 original size:25 final size:25
Alignment explanation
Indices: 21280634--21280744 Score: 114
Period size: 25 Copynumber: 4.4 Consensus size: 25
21280624 ATAGCTTTCT
* * **
21280634 TGAGCTTCTCAATACTTGGCTCTTA
1 TGAGCTTCTCGATACTTAGCTCACA
* * * *
21280659 TGAGATTCCCGATATTTGGCTCACA
1 TGAGCTTCTCGATACTTAGCTCACA
* *
21280684 AGAGCTTCTCGCTACTTAGCTCACA
1 TGAGCTTCTCGATACTTAGCTCACA
* *
21280709 TGAGCTTCCCGTTACTTAGCTCACA
1 TGAGCTTCTCGATACTTAGCTCACA
21280734 TGAGCTTCTCG
1 TGAGCTTCTCG
21280745 TTATATGACT
Statistics
Matches: 70, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 70 1.00
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (25 bp):
TGAGCTTCTCGATACTTAGCTCACA
Found at i:21280712 original size:50 final size:50
Alignment explanation
Indices: 21280635--21280744 Score: 130
Period size: 50 Copynumber: 2.2 Consensus size: 50
21280625 TAGCTTTCTT
* * ** * *
21280635 GAGCTTCTCAATACTTGGCTCTTATGAGATTCCCGATATTTGGCTCACAA
1 GAGCTTCTCGATACTTAGCTCACATGAGATTCCCGATACTTAGCTCACAA
* * * *
21280685 GAGCTTCTCGCTACTTAGCTCACATGAGCTTCCCGTTACTTAGCTCACAT
1 GAGCTTCTCGATACTTAGCTCACATGAGATTCCCGATACTTAGCTCACAA
21280735 GAGCTTCTCG
1 GAGCTTCTCG
21280745 TTATATGACT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (50 bp):
GAGCTTCTCGATACTTAGCTCACATGAGATTCCCGATACTTAGCTCACAA
Found at i:21280746 original size:25 final size:25
Alignment explanation
Indices: 21280677--21280747 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
21280667 CCGATATTTG
* *
21280677 GCTCACAAGAGCTTCTCGCTACTTA
1 GCTCACATGAGCTTCTCGTTACTTA
*
21280702 GCTCACATGAGCTTCCCGTTACTTA
1 GCTCACATGAGCTTCTCGTTACTTA
21280727 GCTCACATGAGCTTCTCGTTA
1 GCTCACATGAGCTTCTCGTTA
21280748 TATGACTTGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.21, C:0.31, G:0.17, T:0.31
Consensus pattern (25 bp):
GCTCACATGAGCTTCTCGTTACTTA
Found at i:21281197 original size:29 final size:29
Alignment explanation
Indices: 21281158--21281215 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
21281148 ATTTCCTTGT
*
21281158 TATATGAACTTACTACGATTAAATGCTTA
1 TATACGAACTTACTACGATTAAATGCTTA
*
21281187 TATACGAACTTACTATGATTAAATGCTTA
1 TATACGAACTTACTACGATTAAATGCTTA
21281216 CTCTGTGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (29 bp):
TATACGAACTTACTACGATTAAATGCTTA
Found at i:21286911 original size:27 final size:27
Alignment explanation
Indices: 21286873--21286924 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
21286863 TGCTCTGTTA
*
21286873 GGGAGCTATAAAAACTTATAAACCTTG
1 GGGACCTATAAAAACTTATAAACCTTG
21286900 GGGACCTATAAAAACTTATAAACCT
1 GGGACCTATAAAAACTTATAAACCT
21286925 CTATTTGGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.25
Consensus pattern (27 bp):
GGGACCTATAAAAACTTATAAACCTTG
Found at i:21291225 original size:39 final size:41
Alignment explanation
Indices: 21291149--21291234 Score: 113
Period size: 39 Copynumber: 2.1 Consensus size: 41
21291139 CCGTGTACAT
* *
21291149 ACTGTATCTGAGATGGGCTAAGGCCCTAAATTATATCTAAA
1 ACTGTATCTGAGATGGGCTAAGGACCTAAACTATATCTAAA
* *
21291190 ACTGTATCTGA-ATGGGCTAA-GACCTAAACTGTATCTGAA
1 ACTGTATCTGAGATGGGCTAAGGACCTAAACTATATCTAAA
*
21291229 TCTGTA
1 ACTGTA
21291235 ATGGGCTTAG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 20 0.50
40 9 0.22
41 11 0.28
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (41 bp):
ACTGTATCTGAGATGGGCTAAGGACCTAAACTATATCTAAA
Found at i:21293068 original size:348 final size:346
Alignment explanation
Indices: 21292433--21293116 Score: 1233
Period size: 348 Copynumber: 2.0 Consensus size: 346
21292423 TTCTAAGAAC
*
21292433 CTTCCAATGAAGTTACCCAGTTGTCATGCTATTCCTTCTGACATGGAACCAATGGGCAAATTGTG
1 CTTCCAATGAAGTTACCCAGTTGTCATGCCATTCCTTCTGACATGGAACCAATGGGCAAATTGTG
* *
21292498 AATTTGTACCCTTCAAGGATACTTGAGTTAGGTTTTCTCCTTTCTCCAATTAGTGGAAAAGAATT
66 AATTTGTACCCTTCAAGGATACTTGAGTTAGGTCTTCTCCTTTCTCCAATTAATGGAAAAGAATT
21292563 AAATGTTTATTAAAGAACCATGGCATTCCTTCCATTACCCTCATTAGGTCCAACTCATTATAAAA
131 AAATGTTTATTAAAGAACCATGGCATTCCTTCCATTACCCTCATTAGGTCCAACTCATTATAAAA
21292628 ACAAAAGAAGACTTTTTTCTCTTCAATTTTTGTTATGTAGACACATTCTATTGGGTGCCATAATT
196 ACAAAAGAAGACTTTTTTCTCTTCAATTTTTGTTATGTAGACACATTCTATTGGGTGCCATAATT
21292693 CAACAAGGACAGATCTCACAAATGGGAAGTGGATTGCACTATTTTTTAGGACTTCTCCTACCAAA
261 CAACAAGGACAGATCTCACAAATGGGAAGTGGATTGCACTATTTTTTAGGACTTCTCCTACCAAA
21292758 CACAAATTAAACACAAATTAA
326 CACAAATTAAACACAAATTAA
21292779 CTTCCAATGAAGTTACCCAGTTGTCATGCCATTCCTTCTGACATGGAACCAATGGGCAAATTGTG
1 CTTCCAATGAAGTTACCCAGTTGTCATGCCATTCCTTCTGACATGGAACCAATGGGCAAATTGTG
* * *
21292844 AATTTGTACCCAATTCAAGGATACTTGATTTGGGTCTTCTCCTTTCTCCAATTAATGGAAGAGAA
66 AATTTGTACCC--TTCAAGGATACTTGAGTTAGGTCTTCTCCTTTCTCCAATTAATGGAAAAGAA
* * *
21292909 TTCAATGTTTATTGAAGAACCATGGCATTCCTTCCATTACCCTCCTTAGGTCCAACTCATTATAA
129 TTAAATGTTTATTAAAGAACCATGGCATTCCTTCCATTACCCTCATTAGGTCCAACTCATTATAA
* *
21292974 AAACAAAAGAAGACTTTTTTGTCTTCAATTTTTGTTATGTAGACACGTTCTATTGGGTGCCATAA
194 AAACAAAAGAAGACTTTTTTCTCTTCAATTTTTGTTATGTAGACACATTCTATTGGGTGCCATAA
* *
21293039 TTCAACAAGGACCGATCTCACAAATGGGAAGTGGATTGCATTATTTTTTAGGACTTCTCCTACCA
259 TTCAACAAGGACAGATCTCACAAATGGGAAGTGGATTGCACTATTTTTTAGGACTTCTCCTACCA
21293104 AACACAAATTAAA
324 AACACAAATTAAA
21293117 TTCATCCCCG
Statistics
Matches: 323, Mismatches: 13, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
346 75 0.23
348 248 0.77
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.33
Consensus pattern (346 bp):
CTTCCAATGAAGTTACCCAGTTGTCATGCCATTCCTTCTGACATGGAACCAATGGGCAAATTGTG
AATTTGTACCCTTCAAGGATACTTGAGTTAGGTCTTCTCCTTTCTCCAATTAATGGAAAAGAATT
AAATGTTTATTAAAGAACCATGGCATTCCTTCCATTACCCTCATTAGGTCCAACTCATTATAAAA
ACAAAAGAAGACTTTTTTCTCTTCAATTTTTGTTATGTAGACACATTCTATTGGGTGCCATAATT
CAACAAGGACAGATCTCACAAATGGGAAGTGGATTGCACTATTTTTTAGGACTTCTCCTACCAAA
CACAAATTAAACACAAATTAA
Found at i:21300570 original size:67 final size:66
Alignment explanation
Indices: 21300488--21300620 Score: 167
Period size: 67 Copynumber: 2.0 Consensus size: 66
21300478 CTTTGAATAC
* * * *
21300488 CGAGTCCGATCCTAATTTTGAGGTTTACCTAAAAACTTATACATTAGTAGGGGGTGAGCTTATGA
1 CGAGTCCGATCCTAATTTCGAGGTTTACCTAAAAACTTAAACACTAGTA-AGGGTGAGCTTATGA
21300553 AA
65 AA
* * * * * *
21300555 CGAGTCTGGTCCTAATTTCGAGGTTTACTTGAAAAGTTAAACACTATTAAGGGTGAGCTTATGAA
1 CGAGTCCGATCCTAATTTCGAGGTTTACCTAAAAACTTAAACACTAGTAAGGGTGAGCTTATGAA
21300620 A
66 A
21300621 AGCTCAGTGT
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
66 16 0.29
67 40 0.71
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (66 bp):
CGAGTCCGATCCTAATTTCGAGGTTTACCTAAAAACTTAAACACTAGTAAGGGTGAGCTTATGAA
A
Found at i:21303769 original size:41 final size:41
Alignment explanation
Indices: 21303672--21303832 Score: 182
Period size: 41 Copynumber: 4.0 Consensus size: 41
21303662 ATACTTGATA
* * * *
21303672 TCTCGCACACTAAGTGCCGTACATAGTCGAAACCATTTCAAA
1 TCTCGCACACTAAGTGCCATACATAGTCGAAACTATCTC-AT
* **
21303714 T-T-GCACACTAAGTGCCATGCATAGTCGAAGTTATCTCAT
1 TCTCGCACACTAAGTGCCATACATAGTCGAAACTATCTCAT
* *
21303753 TCTCGCACACTAAGTGCCATATATAGTCGAAATTATCTCAT
1 TCTCGCACACTAAGTGCCATACATAGTCGAAACTATCTCAT
* * * *
21303794 TCTCTCACACTAAGTGCCATATATAGCCGAAGCTATCTC
1 TCTCGCACACTAAGTGCCATACATAGTCGAAACTATCTC
21303833 GAATCACACA
Statistics
Matches: 103, Mismatches: 14, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 30 0.29
41 70 0.68
42 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (41 bp):
TCTCGCACACTAAGTGCCATACATAGTCGAAACTATCTCAT
Found at i:21304375 original size:21 final size:20
Alignment explanation
Indices: 21304349--21304388 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
21304339 ACTTGTTTAA
21304349 CTATCATCAACCATACAAAAT
1 CTATCATCAACCAT-CAAAAT
*
21304370 CTATCATCAATCATCAAAA
1 CTATCATCAACCATCAAAA
21304389 CTCATACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (20 bp):
CTATCATCAACCATCAAAAT
Found at i:21310278 original size:30 final size:30
Alignment explanation
Indices: 21310242--21310304 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
21310232 CAAGAATTTT
21310242 ACTTACCAATTTGACCAAATACATATATAA
1 ACTTACCAATTTGACCAAATACATATATAA
21310272 ACTTACCAATTTGACCAAATACATATATAA
1 ACTTACCAATTTGACCAAATACATATATAA
21310302 ACT
1 ACT
21310305 CATTTGTACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.30
Consensus pattern (30 bp):
ACTTACCAATTTGACCAAATACATATATAA
Found at i:21311149 original size:24 final size:24
Alignment explanation
Indices: 21311122--21311190 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 24
21311112 CAATATCGGA
*
21311122 AAGCTCTGGAGAGCCATAATTGGG
1 AAGCTCTGAAGAGCCATAATTGGG
* *
21311146 AAGCTCCTGAAAAAGCCTTTAATTGGG
1 AAGCT-CTG-AAGAGCC-ATAATTGGG
*
21311173 AAGCTCCGAAGAGCCATA
1 AAGCTCTGAAGAGCCATA
21311191 TAATAGGACG
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
24 7 0.19
25 9 0.25
26 7 0.19
27 13 0.36
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.20
Consensus pattern (24 bp):
AAGCTCTGAAGAGCCATAATTGGG
Found at i:21313790 original size:34 final size:34
Alignment explanation
Indices: 21313752--21313821 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
21313742 AATTTTGATA
21313752 TATTTTAATGTAAACGCATGATAATCATAAGTAT
1 TATTTTAATGTAAACGCATGATAATCATAAGTAT
* *
21313786 TATTTTAATGTAAACTCATGATAATCATGAGTAT
1 TATTTTAATGTAAACGCATGATAATCATAAGTAT
21313820 TA
1 TA
21313822 AATTGAGTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (34 bp):
TATTTTAATGTAAACGCATGATAATCATAAGTAT
Found at i:21317038 original size:17 final size:17
Alignment explanation
Indices: 21317016--21317069 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
21317006 ATACTCGATT
21317016 GGAAACTGTTATTGTAG
1 GGAAACTGTTATTGTAG
*
21317033 GGAAAC--TCA--G-ATG
1 GGAAACTGTTATTGTA-G
21317046 GGAAACTGTTATTGTAG
1 GGAAACTGTTATTGTAG
21317063 GGAAACT
1 GGAAACT
21317070 CGGCTATCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 12
0.67 0.05 0.28
Matches are distributed among these distances:
12 1 0.03
13 8 0.28
15 4 0.14
17 15 0.52
18 1 0.03
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (17 bp):
GGAAACTGTTATTGTAG
Found at i:21317050 original size:30 final size:29
Alignment explanation
Indices: 21317008--21317071 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
21316998 CCATCTGAAT
*
21317008 ACTCGATTGGAAACTGTTATTGTAGGGAA
1 ACTCGATGGGAAACTGTTATTGTAGGGAA
21317037 ACTCAGATGGGAAACTGTTATTGTAGGGAA
1 ACTC-GATGGGAAACTGTTATTGTAGGGAA
21317067 ACTCG
1 ACTCG
21317072 GCTATCCTCC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
29 5 0.15
30 28 0.85
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.28
Consensus pattern (29 bp):
ACTCGATGGGAAACTGTTATTGTAGGGAA
Found at i:21327023 original size:39 final size:40
Alignment explanation
Indices: 21326926--21327148 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
21326916 TTGAATGATG
*
21326926 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAA-A
* *
21326965 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
* *
21327005 TCCGGGCTAAG-CCTGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
*
21327044 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
*
21327083 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTA-AA
*
21327124 T-CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21327149 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 90 0.55
40 59 0.36
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:21327070 original size:78 final size:80
Alignment explanation
Indices: 21326926--21327148 Score: 255
Period size: 79 Copynumber: 2.8 Consensus size: 80
21326916 TTGAATGATG
* * * *
21326926 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAAT-ATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAAT-CGGGCTAAG-TCCCGAAGGCA
*
21326987 TTTGTGCGAGATACTAAT
63 TTTGTGCGAGATACTAAA
* *
21327005 TCCGGGCTAAG-CCTGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAAT-CGGGCTAAGTCCCGAAGGCAT
*
21327066 TTGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAAA
* *
21327083 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAATCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAATCGGGCTAAGTCCCGAAGGCATTT
21327148 G
66 G
21327149 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 12, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
78 44 0.36
79 55 0.45
80 23 0.19
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAATCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:21327170 original size:79 final size:79
Alignment explanation
Indices: 21326964--21327181 Score: 196
Period size: 79 Copynumber: 2.8 Consensus size: 79
21326954 AAGTGACAAT
* * ** * * * *
21326964 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCT-AAGCCTGAAGGCAT
1 ATCCGGGCTAAG-CCCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAATCCCGAAGGCAT
21327027 TTGTGCGAGATACTAA
64 TTGTGCGAGATACTAA
* ** * *
21327043 TTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 ATCCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTT
21327108 GTGCGA-ATTACTATA
66 GTGCGAGA-TACTA-A
* * *
21327123 AT-CGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 ATCCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
21327182 TACGTGATTT
Statistics
Matches: 117, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
77 1 0.01
78 32 0.27
79 57 0.49
80 27 0.23
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
ATCCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTT
GTGCGAGATACTAA
Found at i:21331172 original size:10 final size:10
Alignment explanation
Indices: 21331142--21331191 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
21331132 TAAAATTCTA
21331142 AAAGATAAAT
1 AAAGATAAAT
*
21331152 ACAA-ATCAAT
1 A-AAGATAAAT
21331162 AAAGATAAAT
1 AAAGATAAAT
21331172 AAAGATAAAT
1 AAAGATAAAT
21331182 GAAA-ATAAAT
1 -AAAGATAAAT
21331192 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.04, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:21331990 original size:96 final size:97
Alignment explanation
Indices: 21331834--21332011 Score: 313
Period size: 96 Copynumber: 1.8 Consensus size: 97
21331824 TTATTAATTT
* * *
21331834 TTTTTACTTAGGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCC
1 TTTTTACTTAAGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCC
21331899 GGTTACTCAGCCCAACATACTCCTAATTTTTA
66 GGTTACTCAGCCCAACATACTCCTAATTTTTA
*
21331931 TTTTT-CTTAAGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCT
1 TTTTTACTTAAGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCC
21331995 GGTTACTCAGCCCAACA
66 GGTTACTCAGCCCAACA
21332012 CATTCTTAAA
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
96 72 0.94
97 5 0.06
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.25
Consensus pattern (97 bp):
TTTTTACTTAAGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCC
GGTTACTCAGCCCAACATACTCCTAATTTTTA
Found at i:21332755 original size:15 final size:14
Alignment explanation
Indices: 21332735--21332820 Score: 72
Period size: 15 Copynumber: 6.0 Consensus size: 14
21332725 TTAATATCTG
21332735 AAAATAATAAATAAT
1 AAAATAATAAA-AAT
*
21332750 AAAATAATAAGAA-
1 AAAATAATAAAAAT
21332763 AAAATAAATAAAAAT
1 AAAAT-AATAAAAAT
*
21332778 AAAATAA-ACTAAACT
1 AAAATAATA--AAAAT
21332793 AAAATAAAATAAAAAT
1 AAAAT--AATAAAAAT
21332809 -AAA-AATAAAAAT
1 AAAATAATAAAAAT
21332821 TGGGTTGCCT
Statistics
Matches: 60, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
12 9 0.15
13 6 0.10
14 11 0.18
15 27 0.45
16 4 0.07
17 2 0.03
18 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.01, T:0.20
Consensus pattern (14 bp):
AAAATAATAAAAAT
Found at i:21332757 original size:28 final size:28
Alignment explanation
Indices: 21332735--21332812 Score: 79
Period size: 31 Copynumber: 2.7 Consensus size: 28
21332725 TTAATATCTG
*
21332735 AAAAT-AATAAATAATAAAATAATAAGAA
1 AAAATAAATAAA-AATAAAATAATAACAA
*
21332763 AAAATAAATAAAAATAAAATAAACTAA-ACT
1 AAAATAAATAAAAATAAAAT-AA-TAACA-A
21332793 AAAATAAAATAAAAATAAAA
1 AAAAT-AAATAAAAATAAAA
21332813 ATAAAAATTG
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
28 13 0.30
29 9 0.20
30 8 0.18
31 14 0.32
ACGTcount: A:0.77, C:0.03, G:0.01, T:0.19
Consensus pattern (28 bp):
AAAATAAATAAAAATAAAATAATAACAA
Found at i:21332783 original size:5 final size:5
Alignment explanation
Indices: 21332747--21332818 Score: 63
Period size: 5 Copynumber: 13.4 Consensus size: 5
21332737 AATAATAAAT
* * * *
21332747 AATAA AATAA TAAGAA AAAATA AATAAA AATAA AATAA ACTAA ACTAA
1 AATAA AATAA -AATAA AATA-A AAT-AA AATAA AATAA AATAA AATAA
21332795 AATAA AATAAA AATAAA AATAA AA
1 AATAA AAT-AA AAT-AA AATAA AA
21332819 ATTGGGTTGC
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
5 35 0.60
6 22 0.38
7 1 0.02
ACGTcount: A:0.78, C:0.03, G:0.01, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:21332783 original size:25 final size:26
Alignment explanation
Indices: 21332734--21332784 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
21332724 ATTAATATCT
*
21332734 GAAAATAATAAATAATAAAATAATAA
1 GAAAATAATAAATAATAAAAAAATAA
21332760 GAAAA-AATAAATAA-AAATAAAATAA
1 GAAAATAATAAATAATAAA-AAAATAA
21332785 ACTAAACTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 3 0.13
25 15 0.65
26 5 0.22
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (26 bp):
GAAAATAATAAATAATAAAAAAATAA
Found at i:21337967 original size:17 final size:18
Alignment explanation
Indices: 21337947--21337980 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21337937 AAGTTAATTG
21337947 AAATTGCA-AAATTAAAT
1 AAATTGCAGAAATTAAAT
*
21337964 AAATTGTAGAAATTAAA
1 AAATTGCAGAAATTAAA
21337981 ATGAGGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.29
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:21338728 original size:10 final size:10
Alignment explanation
Indices: 21338696--21338755 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
21338686 TGAAATTCTA
21338696 AAAGATAAAT
1 AAAGATAAAT
*
21338706 ACAA-ATCAAT
1 A-AAGATAAAT
*
21338716 AAAGATAATT
1 AAAGATAAAT
21338726 AAAGATAAAT
1 AAAGATAAAT
21338736 AAAGATAAAT
1 AAAGATAAAT
21338746 GAAA-ATAAAT
1 -AAAGATAAAT
21338756 CTTAAAATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
9 2 0.05
10 36 0.84
11 5 0.12
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:21345902 original size:13 final size:13
Alignment explanation
Indices: 21345851--21345902 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
21345841 CTTTTCTCTA
21345851 TTTAATTATTATT
1 TTTAATTATTATT
* *
21345864 TTGAA-TATTTATCC
1 TTTAATTA-TTAT-T
21345878 TTT-ATTATTATT
1 TTTAATTATTATT
21345890 TTTAATTATTATT
1 TTTAATTATTATT
21345903 ATTATTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
12 5 0.16
13 22 0.71
14 4 0.13
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (13 bp):
TTTAATTATTATT
Found at i:21345929 original size:19 final size:19
Alignment explanation
Indices: 21345879--21345915 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
21345869 TATTTATCCT
21345879 TTATTATTATTTTTAATTA
1 TTATTATTATTTTTAATTA
21345898 TTATTATTATTTTTAATT
1 TTATTATTATTTTTAATT
21345916 TTCTTTGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTATTATTATTTTTAATTA
Found at i:21346164 original size:30 final size:31
Alignment explanation
Indices: 21346085--21346147 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
21346075 AGCCCAATCA
*
21346085 TTAAATAAAAACTTTTGAATAGTTCAATGAC
1 TTAAATGAAAACTTTTGAATAGTTCAATGAC
21346116 TTAAATGAAAACTTTTGAATAGTTCAATGAC
1 TTAAATGAAAACTTTTGAATAGTTCAATGAC
21346147 T
1 T
21346148 ATTTGTAACT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.37
Consensus pattern (31 bp):
TTAAATGAAAACTTTTGAATAGTTCAATGAC
Done.