Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 244 of 444
Found at i:69200923 original size:28 final size:27
Alignment explanation
Indices: 69200891--69200945 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
69200881 TGAAATTTAA
*
69200891 AAAAATAATAAAATATTATAAAAATCATG
1 AAAAAT-ATAAAAAATT-TAAAAATCATG
*
69200920 AAAAATATAAAAAATTTAAAATTCAT
1 AAAAATATAAAAAATTTAAAAATCAT
69200946 TATCAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 9 0.38
28 9 0.38
29 6 0.25
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (27 bp):
AAAAATATAAAAAATTTAAAAATCATG
Found at i:69204146 original size:3 final size:3
Alignment explanation
Indices: 69204140--69204185 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
69204130 AAAACTATAT
69204140 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
69204186 AACAGTAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:69206201 original size:29 final size:28
Alignment explanation
Indices: 69206140--69206213 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 28
69206130 CCCTCGAGCT
** * *
69206140 CGCACACCCAGTGCCGTATTTTCCAGCT
1 CGCACACTTAGTGCCATATTTTCCAGCA
*
69206168 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATAT-TTTCCAGCA
69206197 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
69206214 CTCGTCACCG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 15 0.38
29 24 0.62
ACGTcount: A:0.23, C:0.34, G:0.16, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATTTTCCAGCA
Found at i:69214030 original size:29 final size:28
Alignment explanation
Indices: 69213979--69214048 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 28
69213969 CCCTCGAGCT
* *
69213979 CGCACAC--AGTGCCGTATTTTCCAGCT
1 CGCACACTTAGTGCCATATTTTCCAGCA
*
69214005 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATAT-TTTCCAGCA
69214034 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
69214049 GATCTCGTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 6 0.16
28 9 0.24
29 22 0.59
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATTTTCCAGCA
Found at i:69228482 original size:29 final size:29
Alignment explanation
Indices: 69228448--69228550 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
69228438 TAATCAGCCG
** *
69228448 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
69228477 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
69228506 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
69228535 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
69228551 ATCTCTCAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:69233341 original size:29 final size:29
Alignment explanation
Indices: 69233309--69233444 Score: 184
Period size: 29 Copynumber: 4.7 Consensus size: 29
69233299 ATAGCCTTCG
* *
69233309 AGCTCGCACACCCAGTGCCGTATATTTCC
1 AGCTCGCACACTCAGTGCCATATATTTCC
* *
69233338 AGCTTGCACACTCAGTGCCACATATTTCC
1 AGCTCGCACACTCAGTGCCATATATTTCC
69233367 AGCAT-GCACACTCAGTGCCATATATTTCC
1 AGC-TCGCACACTCAGTGCCATATATTTCC
* *
69233396 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTCAGTGCCATATATTTCC
* *
69233425 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACTCAGTGCCA
69233445 ATCTCGTCAC
Statistics
Matches: 98, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
29 97 0.99
30 1 0.01
ACGTcount: A:0.26, C:0.34, G:0.15, T:0.25
Consensus pattern (29 bp):
AGCTCGCACACTCAGTGCCATATATTTCC
Found at i:69233347 original size:58 final size:57
Alignment explanation
Indices: 69233284--69233444 Score: 153
Period size: 58 Copynumber: 2.8 Consensus size: 57
69233274 GATTTAAGCC
* * * *
69233284 CGCACACATAGTGCCATAGCCTTCGAGC-TCGCACACCCAGTGCCGTATATTTCCAGCT
1 CGCACAC-TAGTGCCATAGACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCA
* * * * *
69233342 TGCACACTCAGTGCCACATATTTCCAGCATGCACACTCAGTGCCATATATTTCCAGCA
1 CGCACACT-AGTGCCATAGACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
* * * **
69233400 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 CGCACAC-TAGTGCCATAGACTTCCAGCATGCACACCCAGTGCCA
69233445 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
57 1 0.01
58 84 0.97
59 2 0.02
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.24
Consensus pattern (57 bp):
CGCACACTAGTGCCATAGACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
Found at i:69233376 original size:87 final size:87
Alignment explanation
Indices: 69233285--69233444 Score: 205
Period size: 87 Copynumber: 1.8 Consensus size: 87
69233275 ATTTAAGCCC
* * * * **
69233285 GCACACAT-AGTGCCATAGCCTTCGAGCTCGCACACCCAGTGCCGTATATTTCCAGCTTGCACAC
1 GCACAC-TCAGTGCCATAGACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
69233349 TCAGTGCCACATATTTCCAGCAT
65 TCAGTGCCACATATTTCCAGCAT
* * **
69233372 GCACACTCAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACACT
1 GCACACTCAGTGCCATAGACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACACT
*
69233437 TAGTGCCA
66 CAGTGCCA
69233445 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
86 1 0.02
87 60 0.98
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.24
Consensus pattern (87 bp):
GCACACTCAGTGCCATAGACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACACT
CAGTGCCACATATTTCCAGCAT
Found at i:69237697 original size:21 final size:21
Alignment explanation
Indices: 69237673--69237714 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
69237663 TCATCAAATC
*
69237673 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
69237694 TACAGGTTGAGGAATCGGGGG
1 TACACCTTGAGGAATCGGGGG
69237715 AGGTGGGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.17, G:0.43, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:69240267 original size:15 final size:15
Alignment explanation
Indices: 69240249--69240281 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
69240239 GAAGCCCAGA
69240249 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
69240264 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
69240279 ATA
1 ATA
69240282 CGAGAATCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.18
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:69243433 original size:49 final size:49
Alignment explanation
Indices: 69243374--69243548 Score: 201
Period size: 49 Copynumber: 3.5 Consensus size: 49
69243364 CTAGTACGCA
* *
69243374 TAGTAGCCTGCACTTACTACTACACATGCAACCAATTATCCGTTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACG
* * * * * *
69243423 TAGTATCCTGCACTTAGTACTACACGCGTG-ATA-GAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACA--CATGCA-ACCAA-TTATCCGGTACACG
*
69243474 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACG
**
69243523 TAGTAGTTTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
69243549 CATGGCCTCA
Statistics
Matches: 103, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
49 61 0.59
50 5 0.05
51 37 0.36
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACG
Found at i:69243502 original size:100 final size:100
Alignment explanation
Indices: 69243367--69243547 Score: 310
Period size: 100 Copynumber: 1.8 Consensus size: 100
69243357 AGGCTATCTA
*
69243367 GTACGCATAGTAGCCTGCACTTACTACTACACATGCAACCAATTATCCGTTACACGTAGTA-TCC
1 GTACGCATAGTAGCCTGCACTTACTACTACACATGCAACCAATTATCCGGTACACGTAGTAGT-C
69243431 TGCACTTAGTACTACACGCGTGATAGAAGTTATCAG
65 TGCACTTAGTACTACACGCGTGATAGAAGTTATCAG
* * *
69243467 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGTTT
1 GTACGCATAGTAGCCTGCACTTACTACTACACATGCAACCAATTATCCGGTACACGTAGTAGTCT
69243532 GCACTTAGTACTACAC
66 GCACTTAGTACTACAC
69243548 ACATGGCCTC
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
100 75 0.99
101 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (100 bp):
GTACGCATAGTAGCCTGCACTTACTACTACACATGCAACCAATTATCCGGTACACGTAGTAGTCT
GCACTTAGTACTACACGCGTGATAGAAGTTATCAG
Found at i:69250716 original size:41 final size:40
Alignment explanation
Indices: 69250669--69250916 Score: 203
Period size: 41 Copynumber: 6.1 Consensus size: 40
69250659 CGGAGTGTAA
* *
69250669 AGGGCACGTATTTGTAATTCAAGGGTACCAAAGTACAAAC
1 AGGGCACGTATGTGAAATTCAAGGGTACCAAAGTACAAAC
* * ***
69250709 AGCGGCACGTATATGAAATTCAGGGGTATTGAAGTACAAAC
1 AG-GGCACGTATGTGAAATTCAAGGGTACCAAAGTACAAAC
* *
69250750 AGGGACACGCATGTGAAATTCAAGGGTACCAAAGTACAAATA
1 AGGG-CACGTATGTGAAATTCAAGGGTACCAAAGTACAAA-C
* * *
69250792 AGGGCACGTATGTGCAATTCAAAGGTACCGAAGTACAAAC
1 AGGGCACGTATGTGAAATTCAAGGGTACCAAAGTACAAAC
** * * * * * * *
69250832 ACATGTACATATGTGCAATTTAGGGGTACCGAAGTACAAAT
1 A-GGGCACGTATGTGAAATTCAAGGGTACCAAAGTACAAAC
* **
69250873 AGGGGCATGTATGT-ACAATTC-AGGAGTACTGAAGTACAAAC
1 A-GGGCACGTATGTGA-AATTCAAGG-GTACCAAAGTACAAAC
69250914 AGG
1 AGG
69250917 TAATCACATA
Statistics
Matches: 165, Mismatches: 37, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
40 9 0.05
41 152 0.92
42 4 0.02
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (40 bp):
AGGGCACGTATGTGAAATTCAAGGGTACCAAAGTACAAAC
Found at i:69250825 original size:82 final size:80
Alignment explanation
Indices: 69250684--69250916 Score: 245
Period size: 82 Copynumber: 2.9 Consensus size: 80
69250674 ACGTATTTGT
* * * * *
69250684 AATTCAAGGGTACCAAAGTACAAA-CAGCGGCACGTATATGAAATTCAGGGGTATTGAAGTACAA
1 AATTCAAGGGTACCAAAGTACAAATAAG-GGCACGTATGTGCAATTCAAGGGTACTGAAGTACAA
69250748 ACAGGGACACGCATGTGA
65 ACAGGGACA--CATGTGA
* *
69250766 AATTCAAGGGTACCAAAGTACAAATAAGGGCACGTATGTGCAATTCAAAGGTACCGAAGTACAAA
1 AATTCAAGGGTACCAAAGTACAAATAAGGGCACGTATGTGCAATTCAAGGGTACTGAAGTAC-AA
* * * *
69250831 CACATGTACATATGTGC
65 -ACAGGGACACATGTGA
* * * * * *
69250848 AATTTAGGGGTACCGAAGTACAAATAGGGGCATGTATGTACAATTC-AGGAGTACTGAAGTACAA
1 AATTCAAGGGTACCAAAGTACAAATAAGGGCACGTATGTGCAATTCAAGG-GTACTGAAGTACAA
69250912 ACAGG
65 ACAGG
69250917 TAATCACATA
Statistics
Matches: 127, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
80 4 0.03
81 4 0.03
82 108 0.85
83 4 0.03
84 7 0.06
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.20
Consensus pattern (80 bp):
AATTCAAGGGTACCAAAGTACAAATAAGGGCACGTATGTGCAATTCAAGGGTACTGAAGTACAAA
CAGGGACACATGTGA
Found at i:69250893 original size:123 final size:123
Alignment explanation
Indices: 69250668--69250912 Score: 280
Period size: 123 Copynumber: 2.0 Consensus size: 123
69250658 CCGGAGTGTA
* * * *
69250668 AAGGGCACGTATTTGTAATTCAAGGGTACCAAAGTACAAACAGCGGCACGTATATGAAATTCAGG
1 AAGGGCACGTATGTGCAATTCAAAGGTACCAAAGTACAAACAGCGGCACATATATGAAATTCAGG
**
69250733 GGTATTGAAGTACAAACAGGGACACGCATGTGAAATTCAAGG-GTACCAAAGTACAAAT
66 GGTACCGAAGTACAAACAGGGACACGCATGTGAAATTC-AGGAGTACCAAAGTACAAAT
* * * * * *
69250791 AAGGGCACGTATGTGCAATTCAAAGGTACCGAAGTACAAACA-CATGTACATATGTGCAATTTAG
1 AAGGGCACGTATGTGCAATTCAAAGGTACCAAAGTACAAACAGC-GGCACATATATGAAATTCAG
* * * * **
69250855 GGGTACCGAAGTACAAATAGGGGCATGTATGT-ACAATTCAGGAGTACTGAAGTACAAA
65 GGGTACCGAAGTACAAACAGGGACACGCATGTGA-AATTCAGGAGTACCAAAGTACAAA
69250913 CAGGTAATCA
Statistics
Matches: 101, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
122 5 0.05
123 96 0.95
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.21
Consensus pattern (123 bp):
AAGGGCACGTATGTGCAATTCAAAGGTACCAAAGTACAAACAGCGGCACATATATGAAATTCAGG
GGTACCGAAGTACAAACAGGGACACGCATGTGAAATTCAGGAGTACCAAAGTACAAAT
Found at i:69253214 original size:30 final size:30
Alignment explanation
Indices: 69253178--69253308 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
69253168 GACAAGATTG
* * * * *
69253178 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
69253208 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
69253236 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
69253266 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
69253295 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
69253309 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:69253269 original size:58 final size:58
Alignment explanation
Indices: 69253178--69253308 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
69253168 GACAAGATTG
* * * * * *
69253178 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
69253236 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
69253295 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
69253309 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:69261171 original size:30 final size:30
Alignment explanation
Indices: 69261135--69261265 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
69261125 GACAAGATTG
* * * * *
69261135 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
69261165 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
69261193 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
69261223 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
69261252 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
69261266 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:69261226 original size:58 final size:58
Alignment explanation
Indices: 69261135--69261265 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
69261125 GACAAGATTG
* * * * * *
69261135 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
69261193 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
69261252 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
69261266 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:69263863 original size:19 final size:19
Alignment explanation
Indices: 69263839--69263876 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
69263829 AAATGGGATA
69263839 GAGTGAAGATGGATTTTGT
1 GAGTGAAGATGGATTTTGT
*
69263858 GAGTGACGATGGATTTTGT
1 GAGTGAAGATGGATTTTGT
69263877 TTCGAGTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.03, G:0.37, T:0.37
Consensus pattern (19 bp):
GAGTGAAGATGGATTTTGT
Found at i:69265183 original size:12 final size:12
Alignment explanation
Indices: 69265166--69265191 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
69265156 CTATTTGCTA
69265166 TGTCTTTATAAT
1 TGTCTTTATAAT
69265178 TGTCTTTATAAT
1 TGTCTTTATAAT
69265190 TG
1 TG
69265192 ATAGGTCCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.12, T:0.58
Consensus pattern (12 bp):
TGTCTTTATAAT
Found at i:69266263 original size:44 final size:42
Alignment explanation
Indices: 69266190--69266329 Score: 131
Period size: 44 Copynumber: 3.3 Consensus size: 42
69266180 ATGTGTTTTT
* ** **
69266190 GTGTAAGACCATGCCTAGGATGTTGGCATCG-ACTTATGATTTAC
1 GTGTAAGACCATGCCTGGGACATCAGCATCGTA-TT-TGATTT-C
69266234 GTGTAAGACCATGCCTGGGACATCAGCATCGTATTTGATTTC
1 GTGTAAGACCATGCCTGGGACATCAGCATCGTATTTGATTTC
* * * *
69266276 GTGTAAGACCCTGTCTGGGACAGT-GGCATCGATATTTGATTAC
1 GTGTAAGACCATGCCTGGGACA-TCAGCATCG-TATTTGATTTC
*
69266319 ATGTAAGACCA
1 GTGTAAGACCA
69266330 CGTCTAGGAT
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
42 27 0.33
43 26 0.32
44 28 0.34
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATGCCTGGGACATCAGCATCGTATTTGATTTC
Found at i:69266312 original size:43 final size:42
Alignment explanation
Indices: 69266176--69266329 Score: 141
Period size: 43 Copynumber: 3.6 Consensus size: 42
69266166 ACATAGAATC
* * * * **
69266176 CGATATGTGTTTTTGTGTAAGACCATGCCTAGGATGTTGGCAT
1 CGATATTTGATTTCGTGTAAGACCATGCCTGGGA-CATGGCAT
* *
69266219 CGACT-TATGATTTACGTGTAAGACCATGCCTGGGACATCAGCAT
1 CGA-TATTTGATTT-CGTGTAAGACCATGCCTGGGACAT-GGCAT
* *
69266263 CG-TATTTGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCAT
1 CGATATTTGATTTCGTGTAAGACCATGCCTGGGACA-TGGCAT
* *
69266305 CGATATTTGATTACATGTAAGACCA
1 CGATATTTGATTTCGTGTAAGACCA
69266330 CGTCTAGGAT
Statistics
Matches: 91, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
42 28 0.31
43 37 0.41
44 26 0.29
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
CGATATTTGATTTCGTGTAAGACCATGCCTGGGACATGGCAT
Found at i:69266346 original size:43 final size:43
Alignment explanation
Indices: 69266190--69266347 Score: 126
Period size: 43 Copynumber: 3.7 Consensus size: 43
69266180 ATGTGTTTTT
* *
69266190 GTGTAAGACCATGCCTAGGATGTTGGCATCGACT-TATGATTTAC
1 GTGTAAGACCACGCCTAGGATGTTGGCATCGA-TATTTGA-TTAC
* * ** ** *
69266234 GTGTAAGACCATGCCTGGGACATCAGCATCG-TATTTGATTTC
1 GTGTAAGACCACGCCTAGGATGTTGGCATCGATATTTGATTAC
* * *
69266276 GTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTAC
1 GTGTAAGACCAC-GCCTAGGA-TGTTGGCATCGATATTTGATTAC
* *
69266319 ATGTAAGACCACGTCTAGGATGTTGGCAT
1 GTGTAAGACCACGCCTAGGATGTTGGCAT
69266348 TGTACGGGCT
Statistics
Matches: 91, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
42 28 0.31
43 36 0.40
44 27 0.30
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCACGCCTAGGATGTTGGCATCGATATTTGATTAC
Found at i:69269222 original size:24 final size:24
Alignment explanation
Indices: 69269162--69269227 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
69269152 TATGACCTAT
*
69269162 AGCTCGTGAGAGCATACCGATTAT
1 AGCTCGTGAGAGCATACCGATTAC
* *
69269186 AGATTC-TGAGAGCATACTGATTAC
1 AG-CTCGTGAGAGCATACCGATTAC
*
69269210 AGCTCGTGTGAGCATACC
1 AGCTCGTGAGAGCATACC
69269228 TGTACAGGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
23 2 0.06
24 30 0.88
25 2 0.06
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (24 bp):
AGCTCGTGAGAGCATACCGATTAC
Found at i:69277348 original size:44 final size:44
Alignment explanation
Indices: 69277281--69277411 Score: 171
Period size: 44 Copynumber: 3.0 Consensus size: 44
69277271 GTTGGTATTA
**
69277281 ATCT-AAATTTTCGTGTAAGACCGTGTCTGGGACATTGGCATCG
1 ATCTGAAATTTTCGTGTAAGACCGTGTCTGGGACACAGGCATCG
*
69277324 ATTTGAAATTTTCGTGTAAGACCGTGTCTGGGACACAGGCATCG
1 ATCTGAAATTTTCGTGTAAGACCGTGTCTGGGACACAGGCATCG
* * *
69277368 TATCTG--ATTTT-GTATAAGACCTTGTCTGGGACAGAGGCATCG
1 -ATCTGAAATTTTCGTGTAAGACCGTGTCTGGGACACAGGCATCG
69277410 AT
1 AT
69277412 ATAGAATTAC
Statistics
Matches: 79, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
41 2 0.03
42 28 0.35
43 8 0.10
44 37 0.47
45 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (44 bp):
ATCTGAAATTTTCGTGTAAGACCGTGTCTGGGACACAGGCATCG
Found at i:69278253 original size:13 final size:13
Alignment explanation
Indices: 69278235--69278269 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
69278225 TATGGCACAC
69278235 GGCCGTGTTTGTT
1 GGCCGTGTTTGTT
69278248 GGCCGTGTTTGTT
1 GGCCGTGTTTGTT
69278261 GGCCGTGTT
1 GGCCGTGTT
69278270 AAAAAGTCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.00, C:0.17, G:0.40, T:0.43
Consensus pattern (13 bp):
GGCCGTGTTTGTT
Found at i:69279471 original size:24 final size:24
Alignment explanation
Indices: 69279423--69279487 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
69279413 ATTCCAACCC
* **
69279423 ATAGCTTGTGAGAGCATACTGATT
1 ATAGCTCGTGAGAGCATACCAATT
*
69279447 ATAGCTCGTGAGAGCTTACCAATT
1 ATAGCTCGTGAGAGCATACCAATT
* *
69279471 ACAGCTCGTGTGAGCAT
1 ATAGCTCGTGAGAGCAT
69279488 TCATCTATAG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (24 bp):
ATAGCTCGTGAGAGCATACCAATT
Found at i:69279637 original size:17 final size:17
Alignment explanation
Indices: 69279614--69279652 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
69279604 GTAAGAGTTC
69279614 AATATGAACTACATGGA
1 AATATGAACTACATGGA
* *
69279631 GATATGAATTACATGGA
1 AATATGAACTACATGGA
69279648 AATAT
1 AATAT
69279653 TGTTACATGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.46, C:0.08, G:0.18, T:0.28
Consensus pattern (17 bp):
AATATGAACTACATGGA
Found at i:69287103 original size:46 final size:45
Alignment explanation
Indices: 69287052--69287218 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 45
69287042 GACGAGGGCT
69287052 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAG-ATGAGAGCC
* * *
69287098 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGATGAGAGCC
* * * * * *
69287144 AGTGTCAGACATGTCTGGGACATGCGTCGGCTAC-GA-GATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATGA-GAGCC
* *
69287188 AGTGTAAGACATGTATGGGACATGCGTCAGC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC
69287219 ACGGTTACAT
Statistics
Matches: 106, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
43 2 0.02
44 32 0.30
46 70 0.66
47 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATGAGAGCC
Found at i:69287148 original size:92 final size:90
Alignment explanation
Indices: 69287001--69287212 Score: 246
Period size: 92 Copynumber: 2.3 Consensus size: 90
69286991 AGATTTGTGT
* * * *
69287001 GCCAGTGTAAGACCATGTATGAGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACATGT
1 GCCAGTGTAAGA-CATGTATGGGACAT-GCATCGGCATCGAGACGAGAGCCAGTGTAAGACATGT
69287066 CTGGGACATGCATCAGCCAC-AGTATGAGA
64 CTGGGACATGCATCAGCCACGAG-AT--GA
* * * * *
69287095 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGATAGCCAGTGTCAGACATGTCT
1 GCCAGTGTAAGACATGTATGGGACATGCATCGGCATCGAGACGAGAGCCAGTGTAAGACATGTCT
* * * *
69287160 GGGACATGCGTCGGCTACGAGATGT
66 GGGACATGCATCAGCCACGAGATGA
*
69287185 GCTAGTGTAAGACATGTATGGGACATGC
1 GCCAGTGTAAGACATGTATGGGACATGC
69287213 GTCAGCACGG
Statistics
Matches: 102, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
90 27 0.26
92 49 0.48
93 14 0.14
94 12 0.12
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.22
Consensus pattern (90 bp):
GCCAGTGTAAGACATGTATGGGACATGCATCGGCATCGAGACGAGAGCCAGTGTAAGACATGTCT
GGGACATGCATCAGCCACGAGATGA
Found at i:69287253 original size:46 final size:43
Alignment explanation
Indices: 69287052--69287255 Score: 162
Period size: 46 Copynumber: 4.5 Consensus size: 43
69287042 GACGAGGGCT
* * * *
69287052 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCGTCAGCTACGA-CAT--GTG-C
* * *
69287098 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCGTCAG-CTACGACATG-T-G-C
* * *
69287144 AGTGTCAGACATGTCTGGGACATGCGTCGGCTACGAGATGTGC
1 AGTGTAAGACATGTCTGGGACATGCGTCAGCTACGACATGTGC
*
69287187 TAGTGTAAGACATGTATGGGACATGCGTCAGC-ACGGTTACATGTGTC
1 -AGTGTAAGACATGTCTGGGACATGCGTCAGCTAC-G--ACATGTG-C
*
69287234 AGTGTAAGACCTGTCTGGGACA
1 AGTGTAAGACATGTCTGGGACA
69287256 CGGCATCGAC
Statistics
Matches: 136, Mismatches: 12, Indels: 20
0.81 0.07 0.12
Matches are distributed among these distances:
43 3 0.02
44 31 0.23
45 3 0.02
46 96 0.71
47 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (43 bp):
AGTGTAAGACATGTCTGGGACATGCGTCAGCTACGACATGTGC
Found at i:69294198 original size:37 final size:37
Alignment explanation
Indices: 69294119--69294201 Score: 121
Period size: 37 Copynumber: 2.2 Consensus size: 37
69294109 AACCTTTAGT
* * * *
69294119 TCGGGGCTTACCCGGACAAAATCTCCACCCGTGGTCA
1 TCGGGTCTTACCCAGACAAAATCTCCACACGTAGTCA
*
69294156 TCGGGTCTTACCCAGACATAATCTCCACACGTAGTCA
1 TCGGGTCTTACCCAGACAAAATCTCCACACGTAGTCA
69294193 TCGGGTCTT
1 TCGGGTCTT
69294202 TAGAGCTCGG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.22, C:0.33, G:0.22, T:0.24
Consensus pattern (37 bp):
TCGGGTCTTACCCAGACAAAATCTCCACACGTAGTCA
Found at i:69294388 original size:47 final size:47
Alignment explanation
Indices: 69294319--69294447 Score: 222
Period size: 47 Copynumber: 2.7 Consensus size: 47
69294309 CCCTTCGGGA
* *
69294319 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
*
69294366 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
*
69294413 CTTATCACATATATGCACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
69294448 GGGCTGTGAC
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 78 1.00
ACGTcount: A:0.28, C:0.31, G:0.07, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
Found at i:69294397 original size:25 final size:25
Alignment explanation
Indices: 69294369--69294447 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
69294359 ACTCGGCCTT
*
69294369 ATCACATATATACACTTTCACATTC
1 ATCACATATATGCACTTTCACATTC
* * * *
69294394 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACTTTC-ACATTC
69294416 ATCACATATATGCACTTTCACATTC
1 ATCACATATATGCACTTTCACATTC
69294441 ATCACAT
1 ATCACAT
69294448 GGGCTGTGAC
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.12
24 6 0.15
25 18 0.45
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACTTTCACATTC
Found at i:69296178 original size:29 final size:29
Alignment explanation
Indices: 69296119--69296221 Score: 104
Period size: 29 Copynumber: 3.6 Consensus size: 29
69296109 GTGACAAGAT
69296119 TGGCACTAAGTGTGC-AAGCTTGAAA--AGTA
1 TGGCACTAAGTGTGCGAA-CTT-AAATCA-TA
* * *
69296148 TGGCACTAAGTGTGTGAATTTAAATTATA
1 TGGCACTAAGTGTGCGAACTTAAATCATA
* * *
69296177 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAACTTAAATCATA
69296206 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
69296222 TGATCGATTA
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
28 3 0.05
29 56 0.90
30 3 0.05
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAACTTAAATCATA
Found at i:69297788 original size:47 final size:47
Alignment explanation
Indices: 69297714--69298026 Score: 509
Period size: 47 Copynumber: 6.7 Consensus size: 47
69297704 TGGGGGTGTT
* *
69297714 ACATGGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
* *
69297761 ACATCGGCCATTAGGCCTTATCTCATATATGCACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
* * * *
69297808 ACATTGGCCATTAGGCCTTGTCGCATATATACACTATCACATTCATC
1 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
* *
69297855 ACATCGGCCATTAGGCCTTGTCGCATATATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
69297902 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
*
69297949 ACATCGGCCATTAGGCCTTATCACATATATGCACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
* *
69297996 ACATTGGCCATTCGGCCTTATCACATATATA
1 ACATCGGCCATTAGGCCTTATCACATATATA
69298027 TATCTCATAC
Statistics
Matches: 249, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 249 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (47 bp):
ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
Found at i:69303626 original size:39 final size:39
Alignment explanation
Indices: 69303546--69303707 Score: 243
Period size: 39 Copynumber: 4.1 Consensus size: 39
69303536 ACGCCTTCGG
* * *
69303546 GCACAAATGCCTTTGGGACTTAACCCGGATATCACAACTC
1 GCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACTC
***
69303586 GCACAATTGCCTTCGGGCTTAGCCCGGATATCATGGCTC
1 GCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTC
*
69303625 GCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACTC
1 GCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTC
*
69303664 GCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATTC
1 GCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTC
69303703 GCACA
1 GCACA
69303708 TTCATACACA
Statistics
Matches: 110, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 95 0.86
40 15 0.14
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTC
Found at i:69311496 original size:40 final size:40
Alignment explanation
Indices: 69311432--69311619 Score: 199
Period size: 39 Copynumber: 4.8 Consensus size: 40
69311422 GCTACTCGTT
* * * ***
69311432 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
69311472 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* **
69311512 CAATTGCCTTCGGG-CTTAGCCCGGATAT--C-ATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * *
69311548 CCATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
*
69311587 CAATTGCCTTCGGG-CTTAGCCCGGATATCACAA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAA
69311620 TTCGCACATT
Statistics
Matches: 131, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
36 33 0.25
37 1 0.01
38 1 0.01
39 51 0.39
40 45 0.34
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
Found at i:69311581 original size:75 final size:76
Alignment explanation
Indices: 69311476--69311616 Score: 266
Period size: 75 Copynumber: 1.9 Consensus size: 76
69311466 CCCGCACAAA
69311476 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
1 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
69311541 ATTCGCACCAT
66 ATTCGCACCAT
*
69311552 TGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
1 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
69311616 A
66 A
69311617 CAATTCGCAC
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
75 54 0.84
76 10 0.16
ACGTcount: A:0.21, C:0.33, G:0.21, T:0.25
Consensus pattern (76 bp):
TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
ATTCGCACCAT
Found at i:69311597 original size:39 final size:39
Alignment explanation
Indices: 69311468--69311627 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
69311458 TATGGTAACC
* *
69311468 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
*
69311508 CGCACAATTGCCTTCGGGCTTAGCCCGGATAT--C-ATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
69311544 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
69311583 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
69311622 CGCACA
1 CGCACA
69311628 TTCATACACA
Statistics
Matches: 110, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
36 33 0.30
37 1 0.01
38 1 0.01
39 58 0.53
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:69317282 original size:20 final size:18
Alignment explanation
Indices: 69317245--69317295 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
69317235 CTATAGCAAC
69317245 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
69317262 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
69317282 TTACAACTTTACAA
1 TCACAA-TTTACAA
69317296 AATAACTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:69320135 original size:19 final size:19
Alignment explanation
Indices: 69320111--69320147 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
69320101 CATACTTAGT
69320111 GACAGTCATTCGGCCCTGA
1 GACAGTCATTCGGCCCTGA
69320130 GACAGTCATTCGGCCCTG
1 GACAGTCATTCGGCCCTG
69320148 TTTCAATTCC
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:0.19, C:0.32, G:0.27, T:0.22
Consensus pattern (19 bp):
GACAGTCATTCGGCCCTGA
Found at i:69321894 original size:27 final size:27
Alignment explanation
Indices: 69321874--69322095 Score: 311
Period size: 27 Copynumber: 8.2 Consensus size: 27
69321864 GGGTAGCTCG
*
69321874 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
69321901 GTATTTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
69321928 GTAATTCTACCCTACAGGGTTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
69321955 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
69321982 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
69322009 GTAATTCTACCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
69322035 GATAATTCTACCTTGCAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
*
69322063 ATAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
69322090 GTAATT
1 GTAATT
69322096 TTACAAATTA
Statistics
Matches: 173, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 172 0.99
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:69322126 original size:28 final size:26
Alignment explanation
Indices: 69322080--69322178 Score: 108
Period size: 27 Copynumber: 3.7 Consensus size: 26
69322070 TACCCTACAG
** *
69322080 GGGTATTTCAGTAATTTTACAAATTA
1 GGGTATTTTGGTAATTTTACAAATCA
*
69322106 GGGATATTTTTGGTAATTTTACAAACCA
1 GGG-TA-TTTTGGTAATTTTACAAATCA
* *
69322134 GGGGTATTTTGGTAATTTTGCTAATCGA
1 -GGGTATTTTGGTAATTTTACAAATC-A
69322162 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
69322179 GGTAAACTAA
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
26 3 0.05
27 36 0.58
28 20 0.32
29 3 0.05
ACGTcount: A:0.27, C:0.07, G:0.22, T:0.43
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAATCA
Found at i:69324289 original size:27 final size:28
Alignment explanation
Indices: 69324259--69324489 Score: 228
Period size: 27 Copynumber: 8.5 Consensus size: 28
69324249 ACCACACGAA
*
69324259 GGTATCTCGGTAATTCTACCCTA-AAGG
1 GGTATTTCGGTAATTCTACCCTACAAGG
* * *
69324286 GGTATTTTGATATTTCTACCCTACAA-G
1 GGTATTTCGGTAATTCTACCCTACAAGG
* * *
69324313 GGTATTTTGGTAATTTTACCCTATAA-G
1 GGTATTTCGGTAATTCTACCCTACAAGG
* *
69324340 GGTGTTTCGGTAATTCTACCTTAC-AGG
1 GGTATTTCGGTAATTCTACCCTACAAGG
* * *
69324367 GGTTTTTCAGTAATTCTACCCTACAA-A
1 GGTATTTCGGTAATTCTACCCTACAAGG
* *
69324394 GGTATTTCGGTAATTCTACCGTAC-GGG
1 GGTATTTCGGTAATTCTACCCTACAAGG
* * *
69324421 GGTATTTTGATAATTCTACCTTAC-AGG
1 GGTATTTCGGTAATTCTACCCTACAAGG
*
69324448 GGTATTTCAGTAATTCTACCCTACAA-G
1 GGTATTTCGGTAATTCTACCCTACAAGG
69324475 GGTATTT-GAGTAATT
1 GGTATTTCG-GTAATT
69324490 TTACAAATTA
Statistics
Matches: 167, Mismatches: 31, Indels: 12
0.80 0.15 0.06
Matches are distributed among these distances:
26 1 0.01
27 162 0.97
28 4 0.02
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (28 bp):
GGTATTTCGGTAATTCTACCCTACAAGG
Found at i:69324368 original size:81 final size:82
Alignment explanation
Indices: 69324239--69324493 Score: 306
Period size: 81 Copynumber: 3.1 Consensus size: 82
69324229 AGGGGTAAAA
* * * * *
69324239 TGGTAATTTTACCAC-ACGAA-GGTATCTCGGTAATTCTACCCTAAAGGGGTATTTTGA-TATTT
1 TGGTAATTTTACC-CTAC-AAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTTCAGTAATT
69324301 CTACCCTACAAGGGTATTT
64 CTACCCTACAAGGGTATTT
* *
69324320 TGGTAATTTTACCCTATAAGGGTGTTTCGGTAATTCTACCTTACAGGGGT-TTTTCAGTAATTCT
1 TGGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTTCAGTAATTCT
*
69324384 ACCCTACAAAGGTATTT
66 ACCCTACAAGGGTATTT
* * * ** * *
69324401 CGGTAATTCTACCGTACGGGGGTATTTTGATAATTCTACCTTACAGGGGTA-TTTCAGTAATTCT
1 TGGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTTCAGTAATTCT
69324465 ACCCTACAAGGGTA-TT
66 ACCCTACAAGGGTATTT
69324481 TGAGTAATTTTAC
1 TG-GTAATTTTAC
69324494 AAATTAGGGG
Statistics
Matches: 149, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
80 11 0.07
81 138 0.93
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (82 bp):
TGGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTTCAGTAATTCT
ACCCTACAAGGGTATTT
Found at i:69324504 original size:27 final size:27
Alignment explanation
Indices: 69324474--69324571 Score: 119
Period size: 27 Copynumber: 3.6 Consensus size: 27
69324464 TACCCTACAA
*
69324474 GGGTA-TTTGAGTAATTTTACAAATTAG
1 GGGTATTTTG-GTAATTTTACAAACTAG
*
69324501 GGGTATTTTGGTAATATTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
69324528 GGGTATTTTGGTAATTTTTCTAA-TCG
1 GGGTATTTTGGTAATTTTACAAACTAG
69324554 AGGGTATTTTGGTAATTT
1 -GGGTATTTTGGTAATTT
69324572 GGTAAACTAA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
26 2 0.03
27 57 0.90
28 4 0.06
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.44
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:69324515 original size:54 final size:55
Alignment explanation
Indices: 69324268--69324515 Score: 245
Period size: 54 Copynumber: 4.6 Consensus size: 55
69324258 AGGTATCTCG
* * * *
69324268 GTAATTCTACCCTAAAGGGGTATTTTGATATTTCTACCCTACAAGGGTATTTTG-
1 GTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTGA
* * * * * *
69324322 GTAATTTTACCCTATAAGGGTGTTTCGGTAATTCTACCTTACAGGGGT-TTTTCA
1 GTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTGA
* ** * **
69324376 GTAATTCTACCCTACAAAGGTATTTCGGTAATTCTACCGTACGGGGGTATTTTGA
1 GTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTGA
* * *
69324431 -TAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTA-TTTGA
1 GTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTGA
* ** *
69324484 GTAATTTTA-CAAATTAGGGGTATTTTGGTAAT
1 GTAATTCTACCCTA-TAGGGGTATTTCGGTAAT
69324516 ATTACAAACT
Statistics
Matches: 160, Mismatches: 30, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
53 11 0.07
54 144 0.90
55 5 0.03
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (55 bp):
GTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTGA
Found at i:69326683 original size:47 final size:47
Alignment explanation
Indices: 69326582--69326691 Score: 130
Period size: 47 Copynumber: 2.3 Consensus size: 47
69326572 AATTGATAAG
* * * * * *
69326582 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCGAAG
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTAAATCATCACAAAA
* *
69326629 TACCTATATCATGGCCCATAGCCAAATCAAGGTAAATCCTCACAAAA
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTAAATCATCACAAAA
* *
69326676 TATCTATACCGTGGCC
1 TACCTATACCATGGCC
69326692 TGAAGCCAAT
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.34, C:0.29, G:0.15, T:0.23
Consensus pattern (47 bp):
TACCTATACCATGGCCCATAGCCAAATCAAGGTAAATCATCACAAAA
Found at i:69334735 original size:22 final size:23
Alignment explanation
Indices: 69334681--69334732 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
69334671 TATAAATCCT
69334681 AATAAAAA-TAAG-CTTAAAGAAA
1 AATAAAAAGT-AGTCTTAAAGAAA
69334703 AATAAAAAGTAGTCTTAAA-ATAA
1 AATAAAAAGTAGTCTTAAAGA-AA
69334726 AATAAAA
1 AATAAAA
69334733 GTAAAAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 11 0.41
23 16 0.59
ACGTcount: A:0.67, C:0.04, G:0.08, T:0.21
Consensus pattern (23 bp):
AATAAAAAGTAGTCTTAAAGAAA
Found at i:69339200 original size:38 final size:38
Alignment explanation
Indices: 69339151--69339226 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
69339141 AAAGAAGAAA
69339151 AAAAAAGAGCTTCATTCTTTGGTTCTTCTTGGCCGAAT
1 AAAAAAGAGCTTCATTCTTTGGTTCTTCTTGGCCGAAT
69339189 AAAAAAGAGCTTCATTCTTTGGTTCTTCTTGGCCGAAT
1 AAAAAAGAGCTTCATTCTTTGGTTCTTCTTGGCCGAAT
69339227 TGAAGAAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (38 bp):
AAAAAAGAGCTTCATTCTTTGGTTCTTCTTGGCCGAAT
Found at i:69340642 original size:40 final size:40
Alignment explanation
Indices: 69340441--69340628 Score: 315
Period size: 40 Copynumber: 4.7 Consensus size: 40
69340431 ATTCGGATTG
69340441 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
69340480 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
69340520 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
69340560 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGTGAGCTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
69340600 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
69340629 AGCTAGTAGC
Statistics
Matches: 140, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 13 0.09
40 127 0.91
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:69340642 original size:80 final size:80
Alignment explanation
Indices: 69340441--69340661 Score: 322
Period size: 80 Copynumber: 2.8 Consensus size: 80
69340431 ATTCGGATTG
69340441 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
* *
69340505 TTTGTGCGAGTTACT
66 ATTGTGCGAGCTACT
* * *
69340520 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
*
69340585 ATTGTGTGAGCTACT
66 ATTGTGCGAGCTACT
* * **
69340600 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
69340662 TACTTGGTTT
Statistics
Matches: 127, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
79 29 0.23
80 98 0.77
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
ATTGTGCGAGCTACT
Found at i:69347908 original size:40 final size:40
Alignment explanation
Indices: 69347842--69348008 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
69347832 AAATTGAATG
* * *
69347842 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
69347881 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
69347921 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
69347961 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
69348001 ATATCCGG
1 ATATCCGG
69348009 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:69355632 original size:15 final size:15
Alignment explanation
Indices: 69355612--69355641 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
69355602 ATGAAATATG
*
69355612 GTGTGTATGATTATT
1 GTGTGTATGAGTATT
69355627 GTGTGTATGAGTATT
1 GTGTGTATGAGTATT
69355642 TGAATTCCAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (15 bp):
GTGTGTATGAGTATT
Found at i:69355838 original size:40 final size:40
Alignment explanation
Indices: 69355772--69355938 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
69355762 AAATTGAATG
* * *
69355772 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
69355811 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
69355851 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
69355891 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
69355931 ATATCCGG
1 ATATCCGG
69355939 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:69362960 original size:29 final size:29
Alignment explanation
Indices: 69362928--69363005 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
69362918 ATACCCTCCG
** *
69362928 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
* *
69362957 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
69362986 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
69363006 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATATTTCC
Found at i:69365874 original size:40 final size:40
Alignment explanation
Indices: 69365817--69366014 Score: 231
Period size: 40 Copynumber: 5.0 Consensus size: 40
69365807 TCGAATGATG
* * * *
69365817 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
69365857 TCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
69365897 TCCAGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
* *
69365937 TCCGGACTAAGATCTGAAAGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
* ** * *
69365977 TTCGGGTTAAG-TCCCAAAGGCATTTGTGCGAGCTACTA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
69366015 TAACCGGGCT
Statistics
Matches: 138, Mismatches: 17, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
39 1 0.01
40 130 0.94
41 7 0.05
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:69366031 original size:40 final size:40
Alignment explanation
Indices: 69365817--69366042 Score: 201
Period size: 40 Copynumber: 5.7 Consensus size: 40
69365807 TCGAATGATG
* * * *
69365817 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCAAAGGCATTTGTGC-GAGTTACTAAA
* * *
69365857 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCAAAGGCATTTGTGCGAGTTACTAAA
* * *
69365897 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCAAAGGCATTTGTGCGAGTTACTAAA
* **
69365937 TCCGGACTAAGATCTGAAA-GCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCAAAGGCATTTGTGCGAGTTACTAAA
* * *
69365977 TTCGGGTTAAGTCCCAAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTA-AA
* * *
69366018 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCAAAGGCATTTG
69366043 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
39 5 0.03
40 143 0.90
41 11 0.07
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTAAA
Found at i:69366042 original size:80 final size:79
Alignment explanation
Indices: 69365817--69366049 Score: 249
Period size: 80 Copynumber: 2.9 Consensus size: 79
69365807 TCGAATGATG
* *
69365817 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAACCGGACTAAGATCCGAAGGCATT
69365881 TGTACGAGTTACTAAA
64 TGTACGAGTTACTAAA
* * * *
69365897 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGACTAAGATCTGAAAGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATAA-CCGGACTAAGATCCGAAGGCAT
*
69365960 TTGTGCGAGTTACTAAA
63 TTGTACGAGTTACTAAA
* * * * * *
69365977 TTCGGGTTAAGTCCCAAAGGCATTTGTGCGAGCTACTATAACCGGGCTATG-TCCCGAAGGTATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAACCGGACTAAGAT-CCGAAGGCATT
*
69366041 TGAACGAGT
64 TGTACGAGT
69366050 AGCTATATCC
Statistics
Matches: 126, Mismatches: 20, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
79 3 0.02
80 112 0.89
81 11 0.09
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAACCGGACTAAGATCCGAAGGCATTTG
TACGAGTTACTAAA
Found at i:69367943 original size:13 final size:13
Alignment explanation
Indices: 69367925--69367949 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69367915 TGTTACATCA
69367925 AGTATATTAATTC
1 AGTATATTAATTC
69367938 AGTATATTAATT
1 AGTATATTAATT
69367950 TAGTTGTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (13 bp):
AGTATATTAATTC
Found at i:69368102 original size:24 final size:24
Alignment explanation
Indices: 69368074--69368122 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
69368064 CCAAAACAAC
69368074 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
*
69368098 AATTAATTTTTGTATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
69368122 A
1 A
69368123 TAAATATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (24 bp):
AATTAATTTTTATATAAACTTTTA
Found at i:69368846 original size:40 final size:41
Alignment explanation
Indices: 69368704--69368838 Score: 200
Period size: 41 Copynumber: 3.3 Consensus size: 41
69368694 TTATATGACT
* * * *
69368704 TTTAGTGGCGTTTTATCAAAAGCGCCGCGAATGCTCTGGTC
1 TTTAGCGGCGTTTCACCAAAAGCGCCGCTAATGCTCTGGTC
*
69368745 TTTAGCGGCGTTTCGCCAAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTCACCAAAAGCGCCGCTAATGCTCTGGTC
* *
69368786 TTTAGCGGCGTTTCGCCAAAAGCGCCGCTAATGCTCT-GTT
1 TTTAGCGGCGTTTCACCAAAAGCGCCGCTAATGCTCTGGTC
69368826 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
69368839 TAACAAAAAA
Statistics
Matches: 88, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
40 15 0.17
41 73 0.83
ACGTcount: A:0.17, C:0.25, G:0.27, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCGTTTCACCAAAAGCGCCGCTAATGCTCTGGTC
Found at i:69368855 original size:41 final size:40
Alignment explanation
Indices: 69368728--69368871 Score: 117
Period size: 41 Copynumber: 3.5 Consensus size: 40
69368718 ATCAAAAGCG
* * ** * * *
69368728 CCGCGAATGCTCTGGTCTTTAGCGGCGTTTCGCCAAAAGCG
1 CCGCTAATGCTCT-GTTTTTAGCGGCGTTTAACAAAAAACA
* ** * * *
69368769 CCGCTAATGCTCTGGTCTTTAGCGGCGTTTCGCCAAAAGCG
1 CCGCTAATGCTCT-GTTTTTAGCGGCGTTTAACAAAAAACA
*
69368810 CCGCTAATGCTCTGTTTTTAGCGGCGTTTTAACAAAAAATA
1 CCGCTAATGCTCTGTTTTTAGCGGCG-TTTAACAAAAAACA
*
69368851 CCGCTATTGCTCTGTGTTTTA
1 CCGCTAATGCTCTGT-TTTTA
69368872 CAATTTTTGC
Statistics
Matches: 92, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
40 12 0.13
41 75 0.82
42 5 0.05
ACGTcount: A:0.19, C:0.26, G:0.24, T:0.31
Consensus pattern (40 bp):
CCGCTAATGCTCTGTTTTTAGCGGCGTTTAACAAAAAACA
Found at i:69368912 original size:12 final size:12
Alignment explanation
Indices: 69368895--69368920 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
69368885 GTTTTCTAAT
69368895 AAAACGCCGCTA
1 AAAACGCCGCTA
69368907 AAAACGCCGCTA
1 AAAACGCCGCTA
69368919 AA
1 AA
69368921 GGCCTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:69369643 original size:88 final size:87
Alignment explanation
Indices: 69369458--69369706 Score: 308
Period size: 88 Copynumber: 2.9 Consensus size: 87
69369448 ACCGACATTC
* * *
69369458 AGCCTGCTAGGTTTAAAAGCCCGAAT--TCAT-TCACCAGTATTTCGCCTGCTAGGCTCAAAGCC
1 AGCCTGCTAGGCTTAAAAGCCCGAATAGT-ATCTCACCGGCATTTCGCCTGCTAGGCTCAAAGCC
*
69369520 CAATA-TCATTTCACCGGCATTAT
65 CAATAGT-ATCTCACCGGCATTAT
* * * *
69369543 AGCCTGCTAGGCTTGAAAGCCTGAATAGTATCTCACCGGCATTTCGCCTGCTAGGGTCGAAGCCC
1 AGCCTGCTAGGCTTAAAAGCCCGAATAGTATCTCACCGGCATTTCGCCTGCTAGGCTCAAAGCCC
69369608 GAATAGTATCTCACCGGCATTAT
66 -AATAGTATCTCACCGGCATTAT
* * * *
69369631 AGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACTGGCATTATAGCCTGCTAGGCTCAAAGGC
1 AGCCTGCTAGGCTTAAAAGCCCGAATAGTATCTCACCGGCATT-TCGCCTGCTAGGCTCAAA-GC
*
69369696 CAAATAGTATC
64 CCAATAGTATC
69369707 GTGCGATATT
Statistics
Matches: 140, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
85 23 0.16
86 2 0.01
87 30 0.21
88 57 0.41
89 25 0.18
90 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (87 bp):
AGCCTGCTAGGCTTAAAAGCCCGAATAGTATCTCACCGGCATTTCGCCTGCTAGGCTCAAAGCCC
AATAGTATCTCACCGGCATTAT
Found at i:69369672 original size:45 final size:44
Alignment explanation
Indices: 69369501--69369706 Score: 283
Period size: 45 Copynumber: 4.7 Consensus size: 44
69369491 CCAGTATTTC
*
69369501 GCCTGCTAGGCTCAAAGCCC-AATA-TCATTTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAGCCCGAATAGT-ATCTCACCGGCATTATA
* * *
69369544 GCCTGCTAGGCTTGAAAGCCTGAATAGTATCTCACCGGCATT-TC
1 GCCTGCTAGGC-TCAAAGCCCGAATAGTATCTCACCGGCATTATA
* *
69369588 GCCTGCTAGGGTCGAAGCCCGAATAGTATCTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAGCCCGAATAGTATCTCACCGGCATTATA
*
69369632 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACTGGCATTATA
1 GCCTGCTAGGCTCAAA-GCCCGAATAGTATCTCACCGGCATTATA
* *
69369677 GCCTGCTAGGCTCAAAGGCCAAATAGTATC
1 GCCTGCTAGGCTCAAAGCCCGAATAGTATC
69369707 GTGCGATATT
Statistics
Matches: 144, Mismatches: 14, Indels: 9
0.86 0.08 0.05
Matches are distributed among these distances:
43 38 0.26
44 45 0.31
45 60 0.42
46 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (44 bp):
GCCTGCTAGGCTCAAAGCCCGAATAGTATCTCACCGGCATTATA
Found at i:69370565 original size:47 final size:46
Alignment explanation
Indices: 69370510--69370650 Score: 212
Period size: 47 Copynumber: 3.0 Consensus size: 46
69370500 AAAATTTTCT
*
69370510 TTAACTAAGTAACTTATCCGAAAATAATAACGGAAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGAAAATATTAA-GGAAAATTTAACAAGC
*
69370557 TTAACTAAGTAACTTATCCGAAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGAAAATATTAAG-GAAAATTTAACAAGC
* *
69370604 TTAACTAAGTAACTTATCCGGAAATATTAA-GAGCAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGAAAATATTAAGGA-AAATTTAACAAGC
69370650 T
1 T
69370651 CTAAATTCAA
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
45 1 0.01
46 14 0.16
47 72 0.83
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (46 bp):
TTAACTAAGTAACTTATCCGAAAATATTAAGGAAAATTTAACAAGC
Found at i:69377237 original size:45 final size:44
Alignment explanation
Indices: 69377061--69377279 Score: 232
Period size: 45 Copynumber: 5.0 Consensus size: 44
69377051 CCGAATTCAT
* * * * *
69377061 TCACTGGCATT-TCGCCTGCTAGGCTCGAAGACAG-ATA-TCATT
1 TCACTGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATAGT-ATC
* *
69377103 TCACAGGCATTATAGCCTGCTAGGCTCGAAAACCCGAATAGTATC
1 TCACTGGCATTATAGCCTGCTAGGCTC-AAAGCCCGAATAGTATC
** **
69377148 TCACCAGCATT-TCA-CCTGCTAGGCTCAAAGCTTGAATAGTATC
1 TCACTGGCATTAT-AGCCTGCTAGGCTCAAAGCCCGAATAGTATC
* *
69377191 TCACTGGCATTATAGCCTGCTAGGCTTAAAGGCTCGAATAGTATC
1 TCACTGGCATTATAGCCTGCTAGGCTCAAA-GCCCGAATAGTATC
*
69377236 TCACTGGCATTATAGCCTGCTAGGCTCAGAGGCCCGAATAGTAT
1 TCACTGGCATTATAGCCTGCTAGGCTCA-AAGCCCGAATAGTAT
69377280 TGTGCGATAT
Statistics
Matches: 149, Mismatches: 19, Indels: 15
0.81 0.10 0.08
Matches are distributed among these distances:
42 10 0.07
43 38 0.26
44 32 0.21
45 67 0.45
46 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (44 bp):
TCACTGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATAGTATC
Found at i:69378140 original size:47 final size:47
Alignment explanation
Indices: 69378084--69378224 Score: 239
Period size: 47 Copynumber: 3.0 Consensus size: 47
69378074 AAAATTTTCT
* * *
69378084 TTAACTAAGTAACTTATCCGAAAATAATAAGGGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
69378131 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
*
69378178 TTAACTAAGTAACTTATTCGGAAATATTAAGAGC-AATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
69378224 T
1 T
69378225 CTAAATTCAA
Statistics
Matches: 90, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 13 0.14
47 77 0.86
ACGTcount: A:0.45, C:0.14, G:0.13, T:0.28
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
Found at i:69382442 original size:21 final size:20
Alignment explanation
Indices: 69382414--69382452 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
69382404 TATTAAAAGG
* *
69382414 TTAATATGGTAAATTAGTTA
1 TTAATATGATAAAATAGTTA
69382434 TTAATTATGATAAAATAGT
1 TTAA-TATGATAAAATAGT
69382453 AAAACAAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (20 bp):
TTAATATGATAAAATAGTTA
Found at i:69387784 original size:39 final size:39
Alignment explanation
Indices: 69387730--69387884 Score: 247
Period size: 39 Copynumber: 3.9 Consensus size: 39
69387720 AATGTGTGAA
69387730 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
*
69387769 TTGTGATATCCGGGCTAAGCCCGAAGGCAATGGTGCGAG
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
* * *
69387808 CTATGATATCCGGGCTAAGCCCGAAGGCAATTGTGTGAG
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
* *
69387847 TTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
69387885 GGTTACCATA
Statistics
Matches: 105, Mismatches: 10, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
39 89 0.85
40 16 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.25
Consensus pattern (39 bp):
TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
Found at i:69387900 original size:40 final size:39
Alignment explanation
Indices: 69387733--69387915 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
69387723 GTGTGAATTG
*
69387733 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
69387772 TGATATCCGGGCTAAGCCCGAAGGCAATGGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
69387811 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGTGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
69387850 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
69387890 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
69387916 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 86 0.68
40 40 0.32
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:69401015 original size:36 final size:36
Alignment explanation
Indices: 69400968--69401081 Score: 151
Period size: 36 Copynumber: 3.2 Consensus size: 36
69400958 AAATGTATAT
* * *
69400968 ATATATATATTCACCTTCGGTTATATCAAACCATAC
1 ATATATATATTCACCTTCGATTATACCAAGCCATAC
* *
69401004 ATATATATATTCACTTTCGATTATACCAAGCTATAC
1 ATATATATATTCACCTTCGATTATACCAAGCCATAC
* *
69401040 ATATATA-A-ACACCTTCGATTATGCCAAGCCATAC
1 ATATATATATTCACCTTCGATTATACCAAGCCATAC
69401074 ATATATAT
1 ATATATAT
69401082 TTATGTACTT
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
34 29 0.43
35 1 0.01
36 38 0.56
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (36 bp):
ATATATATATTCACCTTCGATTATACCAAGCCATAC
Found at i:69401044 original size:34 final size:34
Alignment explanation
Indices: 69400970--69401082 Score: 136
Period size: 34 Copynumber: 3.3 Consensus size: 34
69400960 ATGTATATAT
* * *
69400970 ATATATATTCACCTTCGGTTATATCAAACCATAC
1 ATATATATTCACCTTCGATTATACCAAGCCATAC
* *
69401004 ATATATATATTCACTTTCGATTATACCAAGCTATAC
1 --ATATATATTCACCTTCGATTATACCAAGCCATAC
** *
69401040 ATATATAAACACCTTCGATTATGCCAAGCCATAC
1 ATATATATTCACCTTCGATTATACCAAGCCATAC
69401074 ATATATATT
1 ATATATATT
69401083 TATGTACTTC
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
34 36 0.55
36 29 0.45
ACGTcount: A:0.37, C:0.21, G:0.06, T:0.35
Consensus pattern (34 bp):
ATATATATTCACCTTCGATTATACCAAGCCATAC
Found at i:69407674 original size:80 final size:80
Alignment explanation
Indices: 69407590--69407738 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
69407580 TATGGTAACC
* * * *
69407590 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
69407654 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
69407670 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
69407735 CCGG
66 CCGG
69407739 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:69407680 original size:40 final size:38
Alignment explanation
Indices: 69407631--69407738 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
69407621 ATCACGATTT
*
69407631 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
69407671 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
69407711 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
69407739 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:69415798 original size:80 final size:80
Alignment explanation
Indices: 69415714--69415862 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
69415704 TATGGTAACC
* * * *
69415714 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
69415778 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
69415794 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
69415859 CCGG
66 CCGG
69415863 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:69415804 original size:40 final size:38
Alignment explanation
Indices: 69415755--69415862 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
69415745 ATCACGATTT
*
69415755 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
69415795 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
69415835 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
69415863 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:69419597 original size:36 final size:36
Alignment explanation
Indices: 69419553--69419666 Score: 151
Period size: 36 Copynumber: 3.2 Consensus size: 36
69419543 ATAAATGTAT
* * *
69419553 ATATATATATTCACCTTCGGTTATATCAAACCATAC
1 ATATATATATTCACCTTCGATTATACCAAGCCATAC
* * *
69419589 ATATATATATTCACTTTCGATTATAGCAAGCTATAC
1 ATATATATATTCACCTTCGATTATACCAAGCCATAC
*
69419625 ATATATA-A-TCACCTTCGATTATGCCAAGCCATAC
1 ATATATATATTCACCTTCGATTATACCAAGCCATAC
69419659 ATATATAT
1 ATATATAT
69419667 TTATGTACTT
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
34 29 0.43
35 1 0.01
36 38 0.56
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.36
Consensus pattern (36 bp):
ATATATATATTCACCTTCGATTATACCAAGCCATAC
Found at i:69419629 original size:34 final size:34
Alignment explanation
Indices: 69419555--69419667 Score: 138
Period size: 34 Copynumber: 3.3 Consensus size: 34
69419545 AAATGTATAT
* * *
69419555 ATATATATTCACCTTCGGTTATATCAAACCATAC
1 ATATATATTCACCTTCGATTATAGCAAGCCATAC
* *
69419589 ATATATATATTCACTTTCGATTATAGCAAGCTATAC
1 --ATATATATTCACCTTCGATTATAGCAAGCCATAC
*
69419625 ATATATAATCACCTTCGATTAT-GCCAAGCCATAC
1 ATATATATTCACCTTCGATTATAG-CAAGCCATAC
69419659 ATATATATT
1 ATATATATT
69419668 TATGTACTTC
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
33 1 0.01
34 37 0.55
36 29 0.43
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.36
Consensus pattern (34 bp):
ATATATATTCACCTTCGATTATAGCAAGCCATAC
Found at i:69421513 original size:43 final size:43
Alignment explanation
Indices: 69421301--69421502 Score: 271
Period size: 43 Copynumber: 4.7 Consensus size: 43
69421291 ATATCGTACA
* * *
69421301 ATGCCATCGTCCCAGACATGGTCTTACATGCAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
* * **
69421344 ATGCC-ACTGTCCTAGACGGGGTCTTACAAATAATCACATATCG
1 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCACATATCG
* * *
69421387 ATGCCAACGTCCCAAACGTGGTCTTATAGGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
* *
69421430 ATGCCAACGTCCCAGATGTGGTTTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
*
69421473 ATGCCAACGTCCTAGACGTGGTCTTACATG
1 ATGCCAACGTCCCAGACGTGGTCTTACATG
69421503 CACACACATA
Statistics
Matches: 136, Mismatches: 21, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
42 1 0.01
43 133 0.98
44 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
Found at i:69422276 original size:28 final size:26
Alignment explanation
Indices: 69422219--69422270 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
69422209 CAATTATTAT
*
69422219 ATTAACATTATTTAATATATGAAAAA
1 ATTAACATTATTTAAAATATGAAAAA
*
69422245 ATTAACCATTGTTATAAAATATGAAA
1 ATTAA-CATTATT-TAAAATATGAAA
69422271 CCATTATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 6 0.27
28 11 0.50
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.37
Consensus pattern (26 bp):
ATTAACATTATTTAAAATATGAAAAA
Found at i:69423336 original size:31 final size:31
Alignment explanation
Indices: 69423293--69423371 Score: 133
Period size: 31 Copynumber: 2.6 Consensus size: 31
69423283 TTTAACGGTT
*
69423293 ACTGCGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
69423324 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
69423355 ATTGGGCCGAAG-CTTTT
1 ACTGGGCCGAAGCCTTTT
69423372 ACTATAAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 5 0.11
31 41 0.89
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:69423454 original size:42 final size:42
Alignment explanation
Indices: 69423395--69423486 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
69423385 TGGCCCTTAG
* ** *
69423395 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
69423437 GCCCATTTCAGTATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
69423479 GCCCATTT
1 GCCCATTT
69423487 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:69423708 original size:26 final size:26
Alignment explanation
Indices: 69423631--69423805 Score: 266
Period size: 26 Copynumber: 6.8 Consensus size: 26
69423621 CCTCTTTAAT
69423631 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
69423656 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
69423681 AACTGGGGCATAAGCCCCTTTT-GGTA
1 AACTGGGGCATAAG-CCCTTTTCGGTA
*
69423707 AACTGGGGCATAAGCCATTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
69423733 AACTGGGGCATAAGCCATTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
69423759 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
69423785 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
69423806 GCACTTCCTC
Statistics
Matches: 139, Mismatches: 8, Indels: 5
0.91 0.05 0.03
Matches are distributed among these distances:
25 39 0.28
26 93 0.67
27 7 0.05
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:69424638 original size:27 final size:26
Alignment explanation
Indices: 69424608--69424686 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 26
69424598 GGGTATATTC
69424608 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACC-TACAGGGGTATTACG
* *
69424635 GTCACTTTACCCTACAAGGGCT-TTACG
1 GTCATTTTA-CCTAC-AGGGGTATTACG
* *
69424662 GTCTTTTTTACCTAATAGGGGTATT
1 GTC-ATTTTACCT-ACAGGGGTATT
69424687 TTAGTCATTC
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
27 27 0.66
28 14 0.34
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGTATTACG
Found at i:69424996 original size:27 final size:27
Alignment explanation
Indices: 69424712--69425009 Score: 176
Period size: 27 Copynumber: 11.0 Consensus size: 27
69424702 TACAAGGATG
* * * *
69424712 TTTTGGTAAATCTACAAACCAAGGGTA
1 TTTTGGTAATTTTATAAATCAAGGGTA
** * * *
69424739 TTTCAGTAATTTTGTAAAGCAATGGTA
1 TTTTGGTAATTTTATAAATCAAGGGTA
*** *
69424766 TTTCCATAATTTTTAGAAAGTCAAGGGTA
1 TTTTGGTAA-TTTTATAAA-TCAAGGGTA
* * *
69424795 TTTCT-GTAACTTTGTAAATCAGGGGTA
1 TTT-TGGTAATTTTATAAATCAAGGGTA
* **
69424822 TTTTGGTAATTTTACAAATTGAGGGTA
1 TTTTGGTAATTTTATAAATCAAGGGTA
* * * *
69424849 TTTCGGTAATTTCACAAA-CTAGTGGTA
1 TTTTGGTAATTTTATAAATCAAG-GGTA
* *
69424876 TTTTGGTAATTTTACAAA-CCAGTGGTA
1 TTTTGGTAATTTTATAAATCAAG-GGTA
* * *
69424903 TTTTAGCAATTTTATAGA-CTAA-GGTA
1 TTTTGGTAATTTTATAAATC-AAGGGTA
* *
69424929 TTTTGGTAATTTTACT-GATCGAGGGTA
1 TTTTGGTAATTTTA-TAAATCAAGGGTA
* *
69424956 TTTTGGTAATTTTGTAAACCAAGGGTA
1 TTTTGGTAATTTTATAAATCAAGGGTA
* * *
69424983 TTTTAGTAATTTTGTAAATCGAGGGTA
1 TTTTGGTAATTTTATAAATCAAGGGTA
69425010 AAACGATAAT
Statistics
Matches: 213, Mismatches: 48, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
26 23 0.11
27 163 0.77
28 14 0.07
29 13 0.06
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
TTTTGGTAATTTTATAAATCAAGGGTA
Found at i:69425019 original size:27 final size:27
Alignment explanation
Indices: 69424989--69425116 Score: 161
Period size: 27 Copynumber: 4.8 Consensus size: 27
69424979 GGTATTTTAG
*
69424989 TAATTTTGTAAATCGAGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAACGA
* *
69425016 TAATTCTGTAAAT-AAGGGTAAAACAA
1 TAATTCTGTAAATCGAGGGTAAAACGA
* *
69425042 TAATTCTATAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACGA
*
69425069 TAATTCTGTAAATCGAGGGCAAAAC-A
1 TAATTCTGTAAATCGAGGGTAAAACGA
* *
69425095 GTAATTCTATAAATCGACGGTA
1 -TAATTCTGTAAATCGAGGGTA
69425117 CTTTGGTAAT
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
26 23 0.27
27 63 0.73
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.27
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAACGA
Found at i:69425056 original size:53 final size:54
Alignment explanation
Indices: 69424997--69425116 Score: 188
Period size: 53 Copynumber: 2.2 Consensus size: 54
69424987 AGTAATTTTG
*
69424997 TAAATCGAGGGTAAAACGATAATTCTGTAAAT-AAGGGTAAAACAATAATTCTA
1 TAAATCGAGGGTAAAACGATAATTCTGTAAATCAAGGGCAAAACAATAATTCTA
* * *
69425050 TAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGCAAAACAGTAATTCTA
1 TAAATCGAGGGTAAAACGATAATTCTGTAAATCAAGGGCAAAACAATAATTCTA
*
69425104 TAAATCGACGGTA
1 TAAATCGAGGGTA
69425117 CTTTGGTAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
53 31 0.51
54 30 0.49
ACGTcount: A:0.43, C:0.12, G:0.20, T:0.25
Consensus pattern (54 bp):
TAAATCGAGGGTAAAACGATAATTCTGTAAATCAAGGGCAAAACAATAATTCTA
Found at i:69428346 original size:33 final size:33
Alignment explanation
Indices: 69428284--69428638 Score: 321
Period size: 33 Copynumber: 11.0 Consensus size: 33
69428274 TTTCTTTCCG
* * ** *
69428284 AATGGTACACACAAAGTATTCCTCTCCTTTTTA
1 AATGGTATACACAAAGTATACCTAACCTTTTCA
* *
69428317 AATGGTATACACAAAGTATACCTGACC-TTTCC
1 AATGGTATACACAAAGTATACCTAACCTTTTCA
* ** * ** *
69428349 AA--GTGTACAC--TTTATTCCTTTCCTTTTTA
1 AATGGTATACACAAAGTATACCTAACCTTTTCA
* *
69428378 AATGGTATACACAAAGTATACCTGACCTTTCCA
1 AATGGTATACACAAAGTATACCTAACCTTTTCA
* * ** * *
69428411 AGT-GTACACGTAAAGTGTACATAACCTTTTCA
1 AATGGTATACACAAAGTATACCTAACCTTTTCA
*
69428443 AATGGTATACACAAAGTATACCTAACCTTTCCA
1 AATGGTATACACAAAGTATACCTAACCTTTTCA
* * * *
69428476 AGT-GTACACACAAAGTGTACATAACCTTTTCA
1 AATGGTATACACAAAGTATACCTAACCTTTTCA
*
69428508 AATGGTATACACAAAGTATACCTAACCTTTCCA
1 AATGGTATACACAAAGTATACCTAACCTTTTCA
** * * *
69428541 GGT-GTACACACAAAGTGTACATAACCTTTTCA
1 AATGGTATACACAAAGTATACCTAACCTTTTCA
* *
69428573 AATGGTATACACAAAGTATACCTAATCTTTCCA
1 AATGGTATACACAAAGTATACCTAACCTTTTCA
**
69428606 AATGGTATACACAAAGTATACCTTTCCTTTTCA
1 AATGGTATACACAAAGTATACCTAACCTTTTCA
69428639 CATTCAATTG
Statistics
Matches: 250, Mismatches: 64, Indels: 16
0.76 0.19 0.05
Matches are distributed among these distances:
28 8 0.03
29 5 0.02
30 7 0.03
31 7 0.03
32 82 0.33
33 141 0.56
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.32
Consensus pattern (33 bp):
AATGGTATACACAAAGTATACCTAACCTTTTCA
Found at i:69428357 original size:65 final size:65
Alignment explanation
Indices: 69428288--69428626 Score: 434
Period size: 65 Copynumber: 5.3 Consensus size: 65
69428278 TTTCCGAATG
* * ** * *
69428288 GTACACACAAAGTATTCCTCTCCTTTTTAAATGGTATACACAAAGTATACCTGACCTTTCCAAGT
1 GTACACACAAAGTATACATAACCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCCAAGT
** * * ** * *
69428353 GT--ACAC--TTTATTCCTTTCCTTTTTAAATGGTATACACAAAGTATACCTGACCTTTCCAAGT
1 GTACACACAAAGTATACATAACCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCCAAGT
** *
69428414 GTACACGTAAAGTGTACATAACCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCCAAGT
1 GTACACACAAAGTATACATAACCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCCAAGT
* *
69428479 GTACACACAAAGTGTACATAACCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCCAGGT
1 GTACACACAAAGTATACATAACCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCCAAGT
* * *
69428544 GTACACACAAAGTGTACATAACCTTTTCAAATGGTATACACAAAGTATACCTAATCTTTCCAAAT
1 GTACACACAAAGTATACATAACCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCCAAGT
*
69428609 GGTATACACAAAGTATAC
1 -GTACACACAAAGTATAC
69428627 CTTTCCTTTT
Statistics
Matches: 247, Mismatches: 22, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
61 54 0.22
63 6 0.02
65 172 0.70
66 15 0.06
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.31
Consensus pattern (65 bp):
GTACACACAAAGTATACATAACCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCCAAGT
Found at i:69428374 original size:61 final size:65
Alignment explanation
Indices: 69428309--69428606 Score: 442
Period size: 65 Copynumber: 4.6 Consensus size: 65
69428299 GTATTCCTCT
* * ** * **
69428309 CCTTTTTAAATGGTATACACAAAGTATACCTGACCTTTCCAAGTGTACAC-TTTA-T-T-CCTTT
1 CCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCCAAGTGTACACATAAAGTGTACATAA
* * *
69428370 CCTTTTTAAATGGTATACACAAAGTATACCTGACCTTTCCAAGTGTACACGTAAAGTGTACATAA
1 CCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCCAAGTGTACACATAAAGTGTACATAA
*
69428435 CCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCCAAGTGTACACACAAAGTGTACATAA
1 CCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCCAAGTGTACACATAAAGTGTACATAA
* *
69428500 CCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCCAGGTGTACACACAAAGTGTACATAA
1 CCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCCAAGTGTACACATAAAGTGTACATAA
*
69428565 CCTTTTCAAATGGTATACACAAAGTATACCTAATCTTTCCAA
1 CCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCCAA
69428607 ATGGTATACA
Statistics
Matches: 221, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
61 50 0.23
62 2 0.01
63 1 0.00
64 1 0.00
65 167 0.76
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (65 bp):
CCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCCAAGTGTACACATAAAGTGTACATAA
Found at i:69428534 original size:98 final size:98
Alignment explanation
Indices: 69428277--69428638 Score: 295
Period size: 98 Copynumber: 3.7 Consensus size: 98
69428267 GTGTACGTTT
* * * ** ** *
69428277 CTTTCCGAATGGTACACACAAAGTATTCCTCTCCTTTTTAAATGGTATACACAAAGTATACCTGA
1 CTTTCCAAATGGTACACACAAAGTATACATAACCTTTCCAAATGGTATACACAAAGTATACCTAA
* * ** * * **
69428342 CCTTTCCAAGTGT--ACAC--TTTATTCCTTTC
66 CCTTTTCAAATGTACACACAAAGTATACATAAC
** * * * * * ** * *
69428371 CTTTTTAAATGGTATACACAAAGTATACCTGACCTTTCCAAGT-GTACACGTAAAGTGTACATAA
1 CTTTCCAAATGGTACACACAAAGTATACATAACCTTTCCAAATGGTATACACAAAGTATACCTAA
* *
69428435 CCTTTTCAAATGGTATACACAAAGTATACCTAAC
66 CCTTTTCAAAT-GTACACACAAAGTATACATAAC
* * *
69428469 CTTTCCAAGT-GTACACACAAAGTGTACATAACCTTTTCAAATGGTATACACAAAGTATACCTAA
1 CTTTCCAAATGGTACACACAAAGTATACATAACCTTTCCAAATGGTATACACAAAGTATACCTAA
* ** *
69428533 CCTTTCCAGGTGTACACACAAAGTGTACATAAC
66 CCTTTTCAAATGTACACACAAAGTATACATAAC
* * * * **
69428566 CTTTTCAAATGGTATACACAAAGTATACCTAATCTTTCCAAATGGTATACACAAAGTATACCTTT
1 CTTTCCAAATGGTACACACAAAGTATACATAACCTTTCCAAATGGTATACACAAAGTATACCTAA
69428631 CCTTTTCA
66 CCTTTTCA
69428639 CATTCAATTG
Statistics
Matches: 208, Mismatches: 53, Indels: 10
0.77 0.20 0.04
Matches are distributed among these distances:
93 24 0.12
94 35 0.17
96 4 0.02
97 53 0.25
98 92 0.44
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (98 bp):
CTTTCCAAATGGTACACACAAAGTATACATAACCTTTCCAAATGGTATACACAAAGTATACCTAA
CCTTTTCAAATGTACACACAAAGTATACATAAC
Found at i:69428673 original size:29 final size:29
Alignment explanation
Indices: 69428631--69428700 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
69428621 GTATACCTTT
* * *
69428631 CCTTTTCACATTCAATTGCTGAAGCTATC
1 CCTTTTCACATTCAATAGCCGAAACTATC
**
69428660 CCTTTTCGTATTCAATAGCCGAAACTATC
1 CCTTTTCACATTCAATAGCCGAAACTATC
69428689 CCTTTTCACATT
1 CCTTTTCACATT
69428701 ATACATACAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.24, C:0.29, G:0.09, T:0.39
Consensus pattern (29 bp):
CCTTTTCACATTCAATAGCCGAAACTATC
Found at i:69436639 original size:27 final size:26
Alignment explanation
Indices: 69436579--69436641 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 26
69436569 TAGACCTCCG
*
69436579 ATCTAAGATCATCTTGACGGGCTTCC
1 ATCTAAGATCATCCTGACGGGCTTCC
* *
69436605 ATATTAAGATCATCCTGATGGGCTTTCC
1 AT-CTAAGATCATCCTGACGGGC-TTCC
69436633 ATCTAAGAT
1 ATCTAAGAT
69436642 TGTCCTGGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 2 0.06
27 23 0.74
28 6 0.19
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.33
Consensus pattern (26 bp):
ATCTAAGATCATCCTGACGGGCTTCC
Found at i:69441312 original size:20 final size:18
Alignment explanation
Indices: 69441287--69441325 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 18
69441277 TATATGATAT
69441287 ATATTAAGTTAATAAAGTAA
1 ATATTAAG-TAATAAA-TAA
69441307 ATATTAAGTAATAAATAA
1 ATATTAAGTAATAAATAA
69441325 A
1 A
69441326 GAAAAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 7 0.37
20 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (18 bp):
ATATTAAGTAATAAATAA
Found at i:69444463 original size:49 final size:49
Alignment explanation
Indices: 69444249--69444577 Score: 416
Period size: 49 Copynumber: 6.8 Consensus size: 49
69444239 GAGGTCGCAT
* ** * * *
69444249 TGTAGTACTAAGTGCAGGCTACTATGCATACCCGAAAACTGTGATCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACGTG
* * **
69444300 TGTAGTACTAAGTGCAGGCTACTACGTGTAACAGATGGTTAGGTCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACGTG
*
69444350 TGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATT-G----GTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACGTG
69444394 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACGTG
*
69444443 TGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACGTG
* * * * *
69444492 TGTAGCACTAAGTGCAGGCTACTATGCGTACCGGATAATTGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACGTG
* * *
69444541 TGTAGTACTATGTGCAGGCTACTATGTGTACCAGATA
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATA
69444578 GCTTTGGCTA
Statistics
Matches: 246, Mismatches: 26, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
44 42 0.17
45 1 0.00
48 1 0.00
49 128 0.52
50 44 0.18
51 30 0.12
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACGTG
Found at i:69456857 original size:20 final size:20
Alignment explanation
Indices: 69456843--69456902 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
69456833 AATTTATTTT
69456843 CTTACCATTCCATTTACTTA
1 CTTACCATTCCATTTACTTA
*
69456863 CTTTA-CATTTCATTTACTTA
1 C-TTACCATTCCATTTACTTA
* *
69456883 CTTTCCATTCCATTCACTTA
1 CTTACCATTCCATTTACTTA
69456903 GCATTAGCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
19 2 0.06
20 29 0.85
21 3 0.09
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.48
Consensus pattern (20 bp):
CTTACCATTCCATTTACTTA
Found at i:69458789 original size:16 final size:16
Alignment explanation
Indices: 69458751--69458789 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
69458741 ATGTATCAGC
* *
69458751 AAAAGCCGAAATGCCG
1 AAAAGCTGAAACGCCG
69458767 AAAAGCTGAAACGCCG
1 AAAAGCTGAAACGCCG
69458783 AAAAGCT
1 AAAAGCT
69458790 AAAAGTTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.46, C:0.23, G:0.23, T:0.08
Consensus pattern (16 bp):
AAAAGCTGAAACGCCG
Found at i:69459106 original size:28 final size:29
Alignment explanation
Indices: 69459004--69459116 Score: 131
Period size: 29 Copynumber: 4.0 Consensus size: 29
69458994 ATGAGCATGA
* * *
69459004 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
*
69459032 ATATAAATGTGATTTGGGGCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* *
69459061 ATATATAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * *
69459090 ATACAAATATGA-TTGGGCTTAATGGGC
1 ATATAAATGTGATTTGGGCCTAATGGGC
69459117 TAGATAAAGG
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 25 0.35
29 47 0.65
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.28
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:69460666 original size:35 final size:35
Alignment explanation
Indices: 69460625--69460695 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
69460615 AAACATCGGG
69460625 TTAATTATTAAACTAACTAAAACTTCATAAAATTT
1 TTAATTATTAAACTAACTAAAACTTCATAAAATTT
69460660 TTAATTATTAAACTAACTAAAACTTCATAAAATTT
1 TTAATTATTAAACTAACTAAAACTTCATAAAATTT
69460695 T
1 T
69460696 GAATCCAGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (35 bp):
TTAATTATTAAACTAACTAAAACTTCATAAAATTT
Found at i:69462077 original size:30 final size:30
Alignment explanation
Indices: 69462042--69462101 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
69462032 CAAGAAAATC
*
69462042 GAATAAAGAAATCCAAGATAGAA-AAACCCA
1 GAATAAAGAAATCCAAAATA-AAGAAACCCA
69462072 GAATAAAGAAATCCAAAATAAAGAAACCCA
1 GAATAAAGAAATCCAAAATAAAGAAACCCA
69462102 AGATACGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 2 0.07
30 26 0.93
ACGTcount: A:0.62, C:0.17, G:0.12, T:0.10
Consensus pattern (30 bp):
GAATAAAGAAATCCAAAATAAAGAAACCCA
Found at i:69462093 original size:15 final size:15
Alignment explanation
Indices: 69462043--69462102 Score: 68
Period size: 15 Copynumber: 4.0 Consensus size: 15
69462033 AAGAAAATCG
*
69462043 AATAAAGAAATCCAA
1 AATAAAGAAACCCAA
* *
69462058 GATAGAA-AAACCCAG
1 AATA-AAGAAACCCAA
*
69462073 AATAAAGAAATCCAA
1 AATAAAGAAACCCAA
69462088 AATAAAGAAACCCAA
1 AATAAAGAAACCCAA
69462103 GATACGATAC
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
14 2 0.06
15 32 0.89
16 2 0.06
ACGTcount: A:0.63, C:0.17, G:0.10, T:0.10
Consensus pattern (15 bp):
AATAAAGAAACCCAA
Found at i:69465169 original size:49 final size:49
Alignment explanation
Indices: 69465115--69465381 Score: 391
Period size: 49 Copynumber: 5.5 Consensus size: 49
69465105 CTAGTACGCA
* *
69465115 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* * *
69465164 TAGTAGCCTGCACTTAGTTCTACACACGTGACCAATTATCCGGTACAAG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
*
69465213 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
69465262 TAGTAGCCTGCACTTAGTACT--ACA--C-ACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* ** * *
69465306 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGTTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGGTACACG
69465356 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
69465382 TACGACCTTA
Statistics
Matches: 199, Mismatches: 13, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
44 40 0.20
46 3 0.02
47 3 0.02
49 115 0.58
50 38 0.19
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:69471372 original size:42 final size:43
Alignment explanation
Indices: 69471326--69471466 Score: 200
Period size: 43 Copynumber: 3.3 Consensus size: 43
69471316 TAAAAAACAC
69471326 CGCTAAAGGTCATGACCTTTAGCGGCGC-TTTCCCACAAACAT-
1 CGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCACAAA-ATG
* *
69471368 CGCTAAAAGTCATGACCTTTAGTGGCGCTTTTCCCAC-AAATG
1 CGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCACAAAATG
*
69471410 CGGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCTA-AAAATG
1 C-GCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCACAAAATG
69471453 CCGCTAAAGGTCAT
1 -CGCTAAAGGTCAT
69471467 AAAATTAAAA
Statistics
Matches: 89, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
41 2 0.02
42 29 0.33
43 57 0.64
44 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (43 bp):
CGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCACAAAATG
Found at i:69478717 original size:6 final size:6
Alignment explanation
Indices: 69478700--69478732 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
69478690 ATTTTCTTTC
69478700 AATGATA AATGAA AATGAA AATGAA AATGAA AA
1 AATGA-A AATGAA AATGAA AATGAA AATGAA AA
69478733 AAAAAGAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.18
Consensus pattern (6 bp):
AATGAA
Found at i:69479065 original size:3 final size:3
Alignment explanation
Indices: 69479059--69479099 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
69479049 TTTCTCTTTT
69479059 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
69479100 TACTAAAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:69479902 original size:8 final size:7
Alignment explanation
Indices: 69479878--69480036 Score: 68
Period size: 7 Copynumber: 21.7 Consensus size: 7
69479868 CTAATTTCCT
69479878 TAAACCC
1 TAAACCC
69479885 TAAACCC
1 TAAACCC
69479892 TAAACCCC
1 TAAA-CCC
69479900 T-AACCC
1 TAAACCC
* *
69479906 TTAACCT
1 TAAACCC
* **
69479913 TTAACTG
1 TAAACCC
*
69479920 TTAACCC
1 TAAACCC
***
69479927 ATGTCCCC
1 -TAAACCC
69479935 TAAGACCC
1 TAA-ACCC
*
69479943 ATACACACC
1 -TAAAC-CC
*
69479952 TAAATCC
1 TAAACCC
69479959 TAAACCC
1 TAAACCC
69479966 TAAACCC
1 TAAACCC
*
69479973 TATAACCTG
1 TA-AACC-C
69479982 TAAACCC
1 TAAACCC
* *
69479989 TTAACTCT
1 TAAAC-CC
*
69479997 TAACCCC
1 TAAACCC
69480004 TAAACCC
1 TAAACCC
* *
69480011 TAAGCCA
1 TAAACCC
* *
69480018 TAAAACA
1 TAAACCC
69480025 TAAACCC
1 TAAACCC
69480032 TAAAC
1 TAAAC
69480037 TTCTACCCTT
Statistics
Matches: 114, Mismatches: 29, Indels: 18
0.71 0.18 0.11
Matches are distributed among these distances:
6 4 0.04
7 76 0.67
8 28 0.25
9 6 0.05
ACGTcount: A:0.38, C:0.37, G:0.03, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:69481882 original size:29 final size:29
Alignment explanation
Indices: 69481850--69481955 Score: 167
Period size: 29 Copynumber: 3.7 Consensus size: 29
69481840 GCTTGGAAGG
69481850 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
69481879 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* * **
69481908 TATGGTACTATGTGTGCGAACTTAAATCG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
69481937 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
69481956 GATCGTTTAT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 70 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Found at i:69489247 original size:71 final size:71
Alignment explanation
Indices: 69489161--69489324 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
69489151 CGATTTGTCT
69489161 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
69489226 CTTTCA
66 CTTTCA
69489232 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
69489297 CTTTCA
66 CTTTCA
69489303 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
69489325 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:69489362 original size:71 final size:70
Alignment explanation
Indices: 69489161--69489358 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
69489151 CGATTTGTCT
* * * *
69489161 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
69489226 CTTTCA
65 CTTTCA
* * * *
69489232 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
69489297 CTTTCA
65 CTTTCA
* *
69489303 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
69489359 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:69492186 original size:19 final size:19
Alignment explanation
Indices: 69492162--69492200 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
69492152 AGTAAAAAAA
69492162 ATTTTCTGCTCAAGGCGTC
1 ATTTTCTGCTCAAGGCGTC
69492181 ATTTTCTGCTCAAGGCGTC
1 ATTTTCTGCTCAAGGCGTC
69492200 A
1 A
69492201 GCAACTACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.36
Consensus pattern (19 bp):
ATTTTCTGCTCAAGGCGTC
Found at i:69500171 original size:29 final size:29
Alignment explanation
Indices: 69500139--69500244 Score: 176
Period size: 29 Copynumber: 3.7 Consensus size: 29
69500129 GCTTGGAAGG
69500139 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
69500168 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* **
69500197 TATGGCACTATGTGTGCGAACTTAAATCG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
69500226 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
69500245 GATCGTTTAT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 72 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Found at i:69501879 original size:14 final size:15
Alignment explanation
Indices: 69501834--69501884 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
69501824 ATACCCATGG
* *
69501834 CCATTAAACTTTAAA
1 CCATAAAACCTTAAA
*
69501849 CCATAAAACCCTAAA
1 CCATAAAACCTTAAA
*
69501864 CCAT-AGACCTTAAA
1 CCATAAAACCTTAAA
*
69501878 CCTTAAA
1 CCATAAA
69501885 TATTAAACCC
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.24
Consensus pattern (15 bp):
CCATAAAACCTTAAA
Found at i:69502108 original size:38 final size:38
Alignment explanation
Indices: 69502023--69502106 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 38
69502013 GGTTTAAGGT
* * * *
69502023 TTTAGGGGTTATAGTTTTGTCTTTATGGTTTTTTAGGG
1 TTTAGGGGTTATAGATTAGTCTTTATGATTTTTGAGGG
* *
69502061 TTTAGGGGTTATAGATTAGTGTTTATGATTTTTGGGGGG
1 TTTAGGGGTTATAGATTAGTCTTTATGATTTTT-GAGGG
69502100 TTTAGGG
1 TTTAGGG
69502107 TTTTAGGGAT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
38 29 0.74
39 10 0.26
ACGTcount: A:0.15, C:0.01, G:0.33, T:0.50
Consensus pattern (38 bp):
TTTAGGGGTTATAGATTAGTCTTTATGATTTTTGAGGG
Found at i:69502241 original size:41 final size:41
Alignment explanation
Indices: 69502125--69502260 Score: 152
Period size: 41 Copynumber: 3.4 Consensus size: 41
69502115 ATTATATGAC
* ** *
69502125 TTTTAGCGGCATTTTGACCACAAACGCCATTATTGCTTTATT
1 TTTTAGCGGCATTTT-ACCAAAAACGCCGCTATTGCTCTATT
* * **
69502167 TTTTAGCGGCGTTTT---AAAAACACCGCTATTGCTCTGGT
1 TTTTAGCGGCATTTTACCAAAAACGCCGCTATTGCTCTATT
*
69502205 TTTTAGCGGCATTTTACCAAAAACGCCGCTAATGCTCTATT
1 TTTTAGCGGCATTTTACCAAAAACGCCGCTATTGCTCTATT
*
69502246 TTTTAGCGGCGTTTT
1 TTTTAGCGGCATTTT
69502261 TGGTAAAACG
Statistics
Matches: 77, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
38 30 0.39
41 33 0.43
42 14 0.18
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (41 bp):
TTTTAGCGGCATTTTACCAAAAACGCCGCTATTGCTCTATT
Found at i:69502269 original size:41 final size:39
Alignment explanation
Indices: 69502158--69502277 Score: 125
Period size: 41 Copynumber: 3.0 Consensus size: 39
69502148 ACGCCATTAT
* * *
69502158 TGCTTTATTTTTTAGCGGCG-TTTTAAAAACACCGCTAT
1 TGCTCTATTTTTTAGCGGCGTTTTTAAAAACGCCGCTAA
** * *
69502196 TGCTCTGGTTTTTAGCGGCATTTTACCAAAAACGCCGCTAA
1 TGCTCTATTTTTTAGCGGCGTTTT--TAAAAACGCCGCTAA
*
69502237 TGCTCTATTTTTTAGCGGCGTTTTTGGTAAAACGCCGCTAA
1 TGCTCTATTTTTTAGCGGCGTTTTT--AAAAACGCCGCTAA
69502278 ACGCCGCTAT
Statistics
Matches: 65, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
38 16 0.25
39 3 0.05
41 46 0.71
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (39 bp):
TGCTCTATTTTTTAGCGGCGTTTTTAAAAACGCCGCTAA
Found at i:69502316 original size:23 final size:23
Alignment explanation
Indices: 69502285--69502328 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
69502275 TAAACGCCGC
*
69502285 TATTACTCTATTTTTAGCGGCGT
1 TATTACTCTATTTTGAGCGGCGT
* *
69502308 TATTGCTCTGTTTTGAGCGGC
1 TATTACTCTATTTTGAGCGGC
69502329 TTTTTTCTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.14, C:0.18, G:0.23, T:0.45
Consensus pattern (23 bp):
TATTACTCTATTTTGAGCGGCGT
Done.