Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 177 of 253
Found at i:57657869 original size:47 final size:47
Alignment explanation
Indices: 57657792--57658436 Score: 1179
Period size: 47 Copynumber: 13.7 Consensus size: 47
57657782 ATAGGATTCT
57657792 ATGTGATG-ATGTGAAA--GTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
57657836 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
57657883 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
57657930 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
57657977 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
57658024 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
57658071 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
57658118 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
57658167 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
57658214 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
57658261 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
57658308 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
57658355 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
57658402 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
57658437 TCCCGAAGGG
Statistics
Matches: 586, Mismatches: 10, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
44 8 0.01
45 8 0.01
47 523 0.89
49 47 0.08
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:57658608 original size:36 final size:36
Alignment explanation
Indices: 57658553--57658630 Score: 104
Period size: 36 Copynumber: 2.1 Consensus size: 36
57658543 CCGAGCTCTA
* *
57658553 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGA-CCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
57658590 AAGACCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCGATAACTACGTGTGGAGATTATGTCCGGGT
57658626 AAGAC
1 AAGAC
57658631 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 32 0.86
37 5 0.14
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (36 bp):
AAGACCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:57664525 original size:36 final size:36
Alignment explanation
Indices: 57664477--57664546 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
57664467 TTAGGGAAAC
*
57664477 ATAAAGCTAAAATATAACCATAAAAAAATTTAAAAT
1 ATAAAGCAAAAATATAACCATAAAAAAATTTAAAAT
*
57664513 ATAAAGCAAAAATATAACCATAAAAAATTTTAAA
1 ATAAAGCAAAAATATAACCATAAAAAAATTTAAA
57664547 CAAATTGAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.64, C:0.09, G:0.03, T:0.24
Consensus pattern (36 bp):
ATAAAGCAAAAATATAACCATAAAAAAATTTAAAAT
Found at i:57664678 original size:41 final size:42
Alignment explanation
Indices: 57664627--57664726 Score: 98
Period size: 41 Copynumber: 2.4 Consensus size: 42
57664617 AAAATGCCTT
* * *
57664627 TATTACTTTACCTTTTGCAACGT-TTATGAGAAAAACGTAGC
1 TATTGCTTTACCTTTTGCAACGTCTTATAAGAAAAACGCAGC
* ** * *
57664668 TATTGGTTTA-CTTTT-TTAGGTGCTTATAAGAAAAACGCCGC
1 TATTGCTTTACCTTTTGCAACGT-CTTATAAGAAAAACGCAGC
57664709 TATTGCTTTACCTTTTGC
1 TATTGCTTTACCTTTTGC
57664727 GTCATTTATG
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
39 3 0.07
40 5 0.11
41 32 0.71
42 5 0.11
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (42 bp):
TATTGCTTTACCTTTTGCAACGTCTTATAAGAAAAACGCAGC
Found at i:57666553 original size:43 final size:44
Alignment explanation
Indices: 57666492--57666693 Score: 261
Period size: 43 Copynumber: 4.7 Consensus size: 44
57666482 CAATGTCATA
* * *
57666492 TCCTAGATATGGTATTACATGCT-ATCACATAT-CGATGCCAATG
1 TCCTAGACATGGTCTTACATG-TAATCACATATACAATGCCAATG
*** * *
57666535 TCCTAGACATGGTCTTACACAAAATCATATA-ACGATGCCAATG
1 TCCTAGACATGGTCTTACATGTAATCACATATACAATGCCAATG
*
57666578 TCCTAGACATGGTCTTACACGTAATCACA-ATACAATGCCAATG
1 TCCTAGACATGGTCTTACATGTAATCACATATACAATGCCAATG
*
57666621 TCCCAGACATGGTCTTACATGTAATCACA-ATACAATGCCAATG
1 TCCTAGACATGGTCTTACATGTAATCACATATACAATGCCAATG
*
57666664 TCCCAGACATGGTCTTACATGTAATCACAT
1 TCCTAGACATGGTCTTACATGTAATCACAT
57666694 CTCGGTAATC
Statistics
Matches: 143, Mismatches: 12, Indels: 7
0.88 0.07 0.04
Matches are distributed among these distances:
42 1 0.01
43 142 0.99
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (44 bp):
TCCTAGACATGGTCTTACATGTAATCACATATACAATGCCAATG
Found at i:57669660 original size:48 final size:47
Alignment explanation
Indices: 57669600--57669819 Score: 197
Period size: 48 Copynumber: 4.6 Consensus size: 47
57669590 TGTGTGCTAA
* *
57669600 TGTAAGACCATGTGTGGGACATGGCATCAGACACATTATGTGAGCCAG
1 TGTAAGACCATGTTTGGGACATGGCATCAGACTCA-TATGTGAGCCAG
* * * * *
57669648 TGTAAGACCATGTTTGGGACATGGCATCGGTATTGATATGTGTGCTAG
1 TGTAAGACCATGTTTGGGACATGGCATCAG-ACTCATATGTGAGCCAG
* * * * * * * * *
57669696 TGTAAGACAATGTCTGGGACATGACATCAGCATTGAGACGAGAGCTAG
1 TGTAAGACCATGTTTGGGACATGGCATCAG-ACTCATATGTGAGCCAG
* * ** * **
57669744 TGTAAGACCTTGTTTGGGATATGGCATTGGCCTCGACGTGTGAGCCAG
1 TGTAAGACCATGTTTGGGACATGGCATCAGACTC-ATATGTGAGCCAG
57669792 TGTAAGACCATGTTTGGGACATGGCATC
1 TGTAAGACCATGTTTGGGACATGGCATC
57669820 GGCAATTTAC
Statistics
Matches: 136, Mismatches: 34, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
47 1 0.01
48 133 0.98
49 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (47 bp):
TGTAAGACCATGTTTGGGACATGGCATCAGACTCATATGTGAGCCAG
Found at i:57669758 original size:96 final size:94
Alignment explanation
Indices: 57669584--57669770 Score: 232
Period size: 96 Copynumber: 1.9 Consensus size: 94
57669574 TGACATTTGG
* * * * *
57669584 TTGACATGTGTGCTAATGTAAGACCATGTGTGGGACATGGCATCAGACACATTATGTGAGCCAGT
1 TTGACATGTGTGCTAATGTAAGACAATGTCTGGGACATGACATCAG--ACATTACGAGAGCCAGT
57669649 GTAAGACCATGTTTGGGACATGGCATCGGTA
64 GTAAGACCATGTTTGGGACATGGCATCGGTA
* * *
57669680 TTGATATGTGTGCTAGTGTAAGACAATGTCTGGGACATGACATCAG-CATTGAGACGAGAGCTAG
1 TTGACATGTGTGCTAATGTAAGACAATGTCTGGGACATGACATCAGACATT---ACGAGAGCCAG
* *
57669744 TGTAAGACCTTGTTTGGGATATGGCAT
63 TGTAAGACCATGTTTGGGACATGGCAT
57669771 TGGCCTCGAC
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
93 4 0.05
96 74 0.95
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.28
Consensus pattern (94 bp):
TTGACATGTGTGCTAATGTAAGACAATGTCTGGGACATGACATCAGACATTACGAGAGCCAGTGT
AAGACCATGTTTGGGACATGGCATCGGTA
Found at i:57669794 original size:96 final size:96
Alignment explanation
Indices: 57669641--57669819 Score: 232
Period size: 96 Copynumber: 1.9 Consensus size: 96
57669631 CACATTATGT
* * * * *
57669641 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGTATTGATATGTGTGCTAGTGTAAGACAA
1 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCGACATGTGAGCCAGTGTAAGACAA
57669706 TGTCTGGGACATGACATCAGCATTGAGACGA
66 TGTCTGGGACATGACATCAGCATTGAGACGA
* * * * * * *
57669737 GAGCTAGTGTAAGACCTTGTTTGGGATATGGCATTGGCCTCGACGTGTGAGCCAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCGACATGTGAGCCAGTGTAAGACAA
* *
57669802 TGTTTGGGACATGGCATC
66 TGTCTGGGACATGACATC
57669820 GGCAATTTAC
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
96 69 1.00
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (96 bp):
GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCGACATGTGAGCCAGTGTAAGACAA
TGTCTGGGACATGACATCAGCATTGAGACGA
Found at i:57678303 original size:21 final size:21
Alignment explanation
Indices: 57678279--57678318 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
57678269 TAAGAAAATA
57678279 GCAACAAAACAATAAAAAACG
1 GCAACAAAACAATAAAAAACG
* * *
57678300 GCAAGAAAATAGTAAAAAA
1 GCAACAAAACAATAAAAAA
57678319 AAACTTTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.68, C:0.12, G:0.12, T:0.07
Consensus pattern (21 bp):
GCAACAAAACAATAAAAAACG
Found at i:57683359 original size:14 final size:16
Alignment explanation
Indices: 57683340--57683383 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
57683330 GGCAACCTAT
57683340 ATTTATTT-ATTTT-A
1 ATTTATTTAATTTTGA
57683354 ATTTATTTAATTTTGA
1 ATTTATTTAATTTTGA
*
57683370 ATTCAGTTTAATTT
1 ATTTA-TTTAATTT
57683384 ATATTGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 8 0.31
15 5 0.19
16 5 0.19
17 8 0.31
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (16 bp):
ATTTATTTAATTTTGA
Found at i:57685725 original size:6 final size:6
Alignment explanation
Indices: 57685716--57685749 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
57685706 TCGAAGCATA
57685716 CTGAGG CTGAGG CTGAGG CTGAGG CTGAGG CTGA
1 CTGAGG CTGAGG CTGAGG CTGAGG CTGAGG CTGA
57685750 ATTTTAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.18, C:0.18, G:0.47, T:0.18
Consensus pattern (6 bp):
CTGAGG
Found at i:57687122 original size:17 final size:17
Alignment explanation
Indices: 57687096--57687130 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
57687086 GGTAACGGTA
57687096 AATTTTAATAT-ATTCT
1 AATTTTAATATAATTCT
57687112 AATTGTTAATATAATTCT
1 AATT-TTAATATAATTCT
57687130 A
1 A
57687131 GAATTATAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 7 0.41
18 6 0.35
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (17 bp):
AATTTTAATATAATTCT
Found at i:57687361 original size:16 final size:15
Alignment explanation
Indices: 57687340--57687370 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
57687330 AGGTTTTCTC
57687340 AAAAGAAAAAAGAAAA
1 AAAAGAAAAAA-AAAA
57687356 AAAAGAAAAAAAAAA
1 AAAAGAAAAAAAAAA
57687371 GAGATAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAAAAAA
Found at i:57692917 original size:37 final size:37
Alignment explanation
Indices: 57692862--57692933 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
57692852 AAGTGTTAAA
* * *
57692862 TGTAGATAGAGAGTTTCTTATGGTTTGGAATTTAGTT
1 TGTAGACAGAGAGTTTCTTATAGTTTAGAATTTAGTT
*
57692899 TGTAGACAGAGAAG-TTCTTATAGTTTAGAGTTTAG
1 TGTAGACAGAG-AGTTTCTTATAGTTTAGAATTTAG
57692934 GGTTTTAGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 28 0.93
38 2 0.07
ACGTcount: A:0.28, C:0.04, G:0.26, T:0.42
Consensus pattern (37 bp):
TGTAGACAGAGAGTTTCTTATAGTTTAGAATTTAGTT
Found at i:57694827 original size:23 final size:25
Alignment explanation
Indices: 57694801--57694848 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
57694791 TAAATTTTAT
57694801 CAGTTTAAAATTT-AA-TTATTAAA
1 CAGTTTAAAATTTCAATTTATTAAA
**
57694824 CAGTTTATTATTTCAATTTATTAAA
1 CAGTTTAAAATTTCAATTTATTAAA
57694849 GATGCACCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 11 0.52
24 2 0.10
25 8 0.38
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (25 bp):
CAGTTTAAAATTTCAATTTATTAAA
Found at i:57695131 original size:30 final size:30
Alignment explanation
Indices: 57695097--57695155 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
57695087 TTAAATTTAA
* *
57695097 AAAAATAAAAAAATTATAAAAATTATTTTC
1 AAAAATAAAAAAATAATAAAAATAATTTTC
**
57695127 AAAAATTTAAAAATAATAAAAATAATTTT
1 AAAAATAAAAAAATAATAAAAATAATTTT
57695156 AAATTTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (30 bp):
AAAAATAAAAAAATAATAAAAATAATTTTC
Found at i:57695166 original size:30 final size:31
Alignment explanation
Indices: 57695104--57695174 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
57695094 TAAAAAAATA
* *
57695104 AAAAAATTATAAAAATTATTTTCAAAAATTT
1 AAAAAATAATAAAAATAATTTTCAAAAATTT
**
57695135 -AAAAATAATAAAAATAATTTT-AAATTTTTT
1 AAAAAATAATAAAAATAATTTTCAAA-AATTT
57695165 AAAAAATAAT
1 AAAAAATAAT
57695175 TAATTGCTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
29 3 0.09
30 22 0.65
31 9 0.26
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (31 bp):
AAAAAATAATAAAAATAATTTTCAAAAATTT
Found at i:57700011 original size:22 final size:22
Alignment explanation
Indices: 57699963--57700013 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
57699953 AACTAGTAAC
**
57699963 AAATTATGTAATTTTTTAAAAA
1 AAATTATGTAATTTTAAAAAAA
*
57699985 TAATTATGTAA-TTTAAAATAAA
1 AAATTATGTAATTTTAAAA-AAA
57700007 AAATTAT
1 AAATTAT
57700014 TAAAAATTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (22 bp):
AAATTATGTAATTTTAAAAAAA
Found at i:57704501 original size:26 final size:26
Alignment explanation
Indices: 57704456--57704540 Score: 100
Period size: 26 Copynumber: 3.2 Consensus size: 26
57704446 CATTAGGGTA
*
57704456 TAGCAGGCTTTGTA-CCGGTGTATATT
1 TAGCAGGCTTTG-AGCTGGTGTATATT
* *
57704482 TAGTAGGCTTTGAGTTGGTGTATATT
1 TAGCAGGCTTTGAGCTGGTGTATATT
* *
57704508 TAGCAGGCTTTGTGCTGGTGTTTTATT
1 TAGCAGGCTTTGAGCTGGTG-TATATT
57704535 TAGCAG
1 TAGCAG
57704541 TACTATGCAC
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
25 1 0.02
26 38 0.76
27 11 0.22
ACGTcount: A:0.18, C:0.11, G:0.29, T:0.42
Consensus pattern (26 bp):
TAGCAGGCTTTGAGCTGGTGTATATT
Found at i:57710137 original size:27 final size:27
Alignment explanation
Indices: 57710102--57710153 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
57710092 CCACTGAATC
* *
57710102 GGGGAATCATCACTTAGCAACCCCTCG
1 GGGGAATCAGCACATAGCAACCCCTCG
57710129 GGGGAATCAGCACATAGCAACCCCT
1 GGGGAATCAGCACATAGCAACCCCT
57710154 TTTCATTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.29, C:0.33, G:0.23, T:0.15
Consensus pattern (27 bp):
GGGGAATCAGCACATAGCAACCCCTCG
Found at i:57710227 original size:69 final size:71
Alignment explanation
Indices: 57710112--57710261 Score: 232
Period size: 71 Copynumber: 2.1 Consensus size: 71
57710102 GGGGAATCAT
* *
57710112 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAA-CCCCTTTTCATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGG
57710176 ATATCG
66 ATATCG
***
57710182 CACTTAGCAA-CCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATACAATG
57710246 GATATCG
65 GATATCG
57710253 CACTTAGCA
1 CACTTAGCA
57710262 CCACCAATGA
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
69 26 0.36
70 17 0.23
71 30 0.41
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (71 bp):
CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGG
ATATCG
Found at i:57710365 original size:104 final size:104
Alignment explanation
Indices: 57710181--57710403 Score: 369
Period size: 104 Copynumber: 2.2 Consensus size: 104
57710171 AATGGATATC
57710181 GCACTTAGCAA-CCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
57710245 GGATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
57710284 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
57710349 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
**
57710388 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
57710404 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 11 0.10
104 100 0.89
105 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:57710765 original size:29 final size:29
Alignment explanation
Indices: 57710732--57710795 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
57710722 TAATCCACCA
57710732 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
57710761 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
57710791 CCCAA
1 CCCAA
57710796 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:57710769 original size:30 final size:30
Alignment explanation
Indices: 57710739--57710795 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
57710729 CCACCCAACT
57710739 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
57710768 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
57710796 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:57712705 original size:45 final size:45
Alignment explanation
Indices: 57712641--57712731 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
57712631 CTAGGAATTT
* * *
57712641 AGAAATCCGAGCTCGTTGAGTTGGTCCAAGTTTGTGATATATGTG
1 AGAAATCCGAACTCGTTGAGCTGGTCCAAGTTCGTGATATATGTG
* *
57712686 AGAAATTCGAACTTGTTGAGCTGGTCCAAGTTCGTGATATATGTG
1 AGAAATCCGAACTCGTTGAGCTGGTCCAAGTTCGTGATATATGTG
57712731 A
1 A
57712732 AGCATCTGCG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.33
Consensus pattern (45 bp):
AGAAATCCGAACTCGTTGAGCTGGTCCAAGTTCGTGATATATGTG
Found at i:57712763 original size:45 final size:43
Alignment explanation
Indices: 57712651--57712755 Score: 122
Period size: 45 Copynumber: 2.3 Consensus size: 43
57712641 AGAAATCCGA
*
57712651 GCTCGTTGAGTTGGTCCAAGTTTGTGATATATGTGAGAAATTC
1 GCTCGTTGAGTTGGTCCAAGTTCGTGATATATGTGAGAAATTC
* * *
57712694 GAACTTGTTGAGCTGGTCCAAGTTCGTGATATATGTGA-AGCATCTGC
1 G--CTCGTTGAGTTGGTCCAAGTTCGTGATATATGTGAGA-AAT-T-C
57712741 GCTCGTTGAGTTGGT
1 GCTCGTTGAGTTGGT
57712756 ATAAGTTCAT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
43 1 0.02
44 1 0.02
45 46 0.90
46 1 0.02
47 2 0.04
ACGTcount: A:0.21, C:0.14, G:0.30, T:0.35
Consensus pattern (43 bp):
GCTCGTTGAGTTGGTCCAAGTTCGTGATATATGTGAGAAATTC
Found at i:57712840 original size:52 final size:52
Alignment explanation
Indices: 57712771--57712878 Score: 128
Period size: 52 Copynumber: 2.1 Consensus size: 52
57712761 TTCATTATGA
* * *
57712771 ATGTGAGCATCCGAGCTCACTGAGTTTATCCGAGTTTATTATGGATGTGATGC
1 ATGTGAGCATCCGAGCTCACTGAGTTGATCCGAGTTCATTATGGATGT-ATAC
* ** * *
57712824 ATGTGA-CATCTGAGCTCGTTGAGTTGGTTCGAGTTCATTATGGATGTATAC
1 ATGTGAGCATCCGAGCTCACTGAGTTGATCCGAGTTCATTATGGATGTATAC
57712875 ATGT
1 ATGT
57712879 TATGAGGTAG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
51 7 0.15
52 34 0.72
53 6 0.13
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.36
Consensus pattern (52 bp):
ATGTGAGCATCCGAGCTCACTGAGTTGATCCGAGTTCATTATGGATGTATAC
Found at i:57723224 original size:47 final size:47
Alignment explanation
Indices: 57723153--57723314 Score: 236
Period size: 47 Copynumber: 3.4 Consensus size: 47
57723143 TATCACAGTT
* * * *
57723153 ATACACTTCCAC-TTCCATCCCATTGACCATTCGGCCTTATCATATAT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCATATAC
* *
57723200 ATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCATATAC
57723247 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTAT--CATATAC
57723296 ATACACTTTCACATTCATC
1 ATACACTTTCACATTCATC
57723315 GTAACAAAAT
Statistics
Matches: 104, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
47 77 0.74
48 2 0.02
49 25 0.24
ACGTcount: A:0.28, C:0.31, G:0.07, T:0.34
Consensus pattern (47 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCATATAC
Found at i:57731705 original size:21 final size:20
Alignment explanation
Indices: 57731654--57731705 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
57731644 AAATTCAAAT
* *
57731654 TAAAATACTAAAATTTAGGA
1 TAAAATACTGAAATTTAAGA
*
57731674 TAAAATTCTGAAATTTAAGA
1 TAAAATACTGAAATTTAAGA
57731694 TAAAAATACTGA
1 T-AAAATACTGA
57731706 TGTGACATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.31
Consensus pattern (20 bp):
TAAAATACTGAAATTTAAGA
Found at i:57737824 original size:55 final size:55
Alignment explanation
Indices: 57737719--57737826 Score: 126
Period size: 55 Copynumber: 2.0 Consensus size: 55
57737709 TCCCAACACG
* ** * *
57737719 GGCGTGCGACACGCCCGTGCCTTGAAACTGTGGCCAAACTTGTCAAATTAACATT
1 GGCGTGCAACACGCCCGTGCCAAGAAACCGTGGCCAAACCTGTCAAATTAACATT
* * * * *
57737774 GGCGTGCAACACGCCCGTGCCAAGCAACCGTGGTCGAACCTGTTAGATTAACA
1 GGCGTGCAACACGCCCGTGCCAAGAAACCGTGGCCAAACCTGTCAAATTAACA
57737827 CGGGTGTGGG
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.26, C:0.29, G:0.25, T:0.20
Consensus pattern (55 bp):
GGCGTGCAACACGCCCGTGCCAAGAAACCGTGGCCAAACCTGTCAAATTAACATT
Found at i:57738371 original size:23 final size:23
Alignment explanation
Indices: 57738345--57738391 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
57738335 CATTCTATTT
*
57738345 TCATACCCATGCCATTACTATGC
1 TCATACCCATGCCATTACCATGC
* * *
57738368 TCATTCTCATGCTATTACCATGC
1 TCATACCCATGCCATTACCATGC
57738391 T
1 T
57738392 AATGTCACGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.36
Consensus pattern (23 bp):
TCATACCCATGCCATTACCATGC
Found at i:57739931 original size:15 final size:15
Alignment explanation
Indices: 57739911--57739945 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
57739901 TCACTAACCA
*
57739911 ATACTTTTCTCGTTT
1 ATACTTTTCTCATTT
57739926 ATACTTTTCTCATTT
1 ATACTTTTCTCATTT
57739941 A-ACTT
1 ATACTT
57739946 AAACTGTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.20, C:0.20, G:0.03, T:0.57
Consensus pattern (15 bp):
ATACTTTTCTCATTT
Found at i:57740139 original size:49 final size:47
Alignment explanation
Indices: 57740021--57740429 Score: 274
Period size: 48 Copynumber: 8.7 Consensus size: 47
57740011 GGGTATACTA
* * *
57740021 CCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCATCCATCAAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAG
** *
57740068 TTGATGCCATGTCCTAGACATGGTCTTACACTGACT-ATCGAAATCAAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATC--AATCAA-G
* * * **
57740117 CCGACGCCATGTCCCAAACATGGTCTTACACTAGCTCTCA-CATATTCGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACTCATCA-A-TCAAG
* * * ** * **
57740167 CCGATGCCATGTCCTATACATGGTTTTACACTGAAACCTCTATAT-GTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATC-A-ATCAAG
* * * *
57740215 TCGGTGCCATGTCCCAGACATGGTCTTACACTGACACATC--TCGTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCAATC-AAG
*
57740261 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATC--TCAAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGAC-T-CATCAATCAAG
* *
57740306 GCGATG-CATGTCCCAGACAT-GTCTTACACT-AGCTC-TCATCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCATCA-ATCAA-G
* * ***
57740352 CCGATGCCATGTCCTAGACATGGTCTTACACTGGCTC-TCATAATGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATC--AATCAAG
57740400 CCGATG-CATGTCCCAGACAT-GTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
57740430 AGCACACAAA
Statistics
Matches: 292, Mismatches: 46, Indels: 49
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.01
43 1 0.00
44 14 0.05
45 50 0.17
46 30 0.10
47 57 0.20
48 64 0.22
49 33 0.11
50 35 0.12
51 5 0.02
52 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAG
Found at i:57740389 original size:48 final size:48
Alignment explanation
Indices: 57740021--57740429 Score: 293
Period size: 45 Copynumber: 8.7 Consensus size: 48
57740011 GGGTATACTA
*
57740021 CCGATGCCATGTCCCAGACATGGTCTTACATTGG--CTCATCCATCAA-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-C-TCAATG
** * * * ** *
57740068 TTGATGCCATGTCCTAGACATGGTCTTACACTGACTATCGAAATCAAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATCTCAATG
* * * * *
57740117 CCGACGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATATTC-GTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--CAT-CTCAATG
* * * * * *
57740167 CCGATGCCATGTCCTATACATGGTTTTACACTGAAAC-CTC-TAT-ATGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTG--GCTCTCATCTCA-ATG
* * * * *
57740215 TCGGTGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTC-GTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAAT-G
57740261 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTCAA-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATCTCAATG
* *
57740306 GCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAATG
*
57740352 CCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCA--T-AATGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAA--T-G
57740400 CCGATG-CATGTCCCAGACAT-GTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
57740430 AGCACACAAA
Statistics
Matches: 290, Mismatches: 46, Indels: 53
0.75 0.12 0.14
Matches are distributed among these distances:
44 10 0.03
45 62 0.21
46 31 0.11
47 57 0.20
48 59 0.20
49 34 0.12
50 31 0.11
51 5 0.02
52 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAATG
Found at i:57740804 original size:30 final size:30
Alignment explanation
Indices: 57740768--57740824 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
57740758 CATAATTGGG
* *
57740768 CAAAATGACCATTTTGCCCTTAGACTTTCA
1 CAAAATGACCATTTTACCCCTAGACTTTCA
57740798 CAAAATGACCATTTTACCCCTAGACTT
1 CAAAATGACCATTTTACCCCTAGACTT
57740825 AAAAATCACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.32
Consensus pattern (30 bp):
CAAAATGACCATTTTACCCCTAGACTTTCA
Found at i:57746388 original size:18 final size:20
Alignment explanation
Indices: 57746367--57746409 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
57746357 AAAATATTAA
*
57746367 AAAATAAAA-AGG-AAAAGT
1 AAAATAAAAGAGGTAAAAGC
57746385 AAAA-AAAAGAGGTAAAAGC
1 AAAATAAAAGAGGTAAAAGC
57746404 AAAATA
1 AAAATA
57746410 TAATTAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 4 0.19
18 7 0.33
19 9 0.43
20 1 0.05
ACGTcount: A:0.72, C:0.02, G:0.16, T:0.09
Consensus pattern (20 bp):
AAAATAAAAGAGGTAAAAGC
Found at i:57750545 original size:16 final size:16
Alignment explanation
Indices: 57750524--57750557 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
57750514 GGAGAGAAAG
57750524 AAAAAAATAAAAAATA
1 AAAAAAATAAAAAATA
57750540 AAAAAAATAAAAAATA
1 AAAAAAATAAAAAATA
57750556 AA
1 AA
57750558 TGATGATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (16 bp):
AAAAAAATAAAAAATA
Found at i:57751474 original size:17 final size:17
Alignment explanation
Indices: 57751449--57751484 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
57751439 TGTAGTGTTT
57751449 GAGTCCTATTTTACTGA
1 GAGTCCTATTTTACTGA
*
57751466 GAGTTCTATTTTACTGA
1 GAGTCCTATTTTACTGA
57751483 GA
1 GA
57751485 TACAATTGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (17 bp):
GAGTCCTATTTTACTGA
Found at i:57755483 original size:46 final size:46
Alignment explanation
Indices: 57755433--57755608 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
57755423 TGATTGAGCA
57755433 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
57755479 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
57755524 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
57755572 -CCTAAGCTCGTTGAGTTGAGTTCGAGTTCGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57755609 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 7 0.06
46 58 0.53
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:57755589 original size:93 final size:93
Alignment explanation
Indices: 57755430--57755601 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
57755420 GGATGATTGA
*
57755430 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
57755495 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
57755523 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAA-CTCGTTGAG
*
57755587 TTGAGTTCGAGTTCG
65 TTGAGTCCGAGTTCG
57755602 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 4 0.05
93 71 0.95
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:57763036 original size:47 final size:46
Alignment explanation
Indices: 57762923--57763090 Score: 174
Period size: 43 Copynumber: 3.7 Consensus size: 46
57762913 CTAGGATGAT
*
57762923 TGGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTGGATGCGAA
1 TGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGGATGCGAA
* *
57762969 T-G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATG-TAA
1 TGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTG-GATGCGAA
57763011 CTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 -T-GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC---TGGATGCGAA
* *
57763062 T-GC--CTGAGCTCGTTGAGTTGAGT-CGAGTT
1 TGGCATCCGAACTCGTTGAGTTGAGTCCGAGTT
57763091 TGCTTATGGG
Statistics
Matches: 104, Mismatches: 7, Indels: 23
0.78 0.05 0.17
Matches are distributed among these distances:
42 4 0.04
43 33 0.32
45 8 0.08
46 19 0.18
47 29 0.28
48 2 0.02
50 5 0.05
51 4 0.04
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGGATGCGAA
Found at i:57770840 original size:19 final size:21
Alignment explanation
Indices: 57770813--57770859 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
57770803 GAGCATAAGA
*
57770813 GGGCGAAAAAAT-GAG-AAAC
1 GGGCCAAAAAATGGAGAAAAC
*
57770832 GGGCC-AAAAATGGAGAAAAT
1 GGGCCAAAAAATGGAGAAAAC
57770852 GGGCCAAA
1 GGGCCAAA
57770860 GTACGAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 6 0.26
19 7 0.30
20 8 0.35
21 2 0.09
ACGTcount: A:0.49, C:0.13, G:0.32, T:0.06
Consensus pattern (21 bp):
GGGCCAAAAAATGGAGAAAAC
Found at i:57775053 original size:21 final size:21
Alignment explanation
Indices: 57775027--57775070 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
57775017 CAAACTGAAG
57775027 TAAAAATATTTATTTTATTAT
1 TAAAAATATTTATTTTATTAT
57775048 TAAAAATATTTATTTTATTAT
1 TAAAAATATTTATTTTATTAT
57775069 TA
1 TA
57775071 TTTTAATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TAAAAATATTTATTTTATTAT
Found at i:57776264 original size:48 final size:49
Alignment explanation
Indices: 57776203--57776333 Score: 160
Period size: 48 Copynumber: 2.7 Consensus size: 49
57776193 TTAGGGGACA
* *
57776203 CATTGATTTGGCTTCGGGCCATGATATTGACACTTCGGGCGCAAGCT-T
1 CATTGATTTGGCTTTGGGCCATGATATTGACACTTCGGGCGCAAGATAT
* * *
57776251 CATTTATTTGGCTTTGGGCCATGATATT-AGTACTTCGGGTGCAAGATAT
1 CATTGATTTGGCTTTGGGCCATGATATTGA-CACTTCGGGCGCAAGATAT
* * *
57776300 -ATTGAGTTGGCTTTGGGCCATGATAGTGGCACTT
1 CATTGATTTGGCTTTGGGCCATGATATTGACACTT
57776334 AGTATGCAAG
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
47 1 0.01
48 68 0.97
49 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (49 bp):
CATTGATTTGGCTTTGGGCCATGATATTGACACTTCGGGCGCAAGATAT
Found at i:57781573 original size:26 final size:26
Alignment explanation
Indices: 57781537--57781644 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
57781527 TGATACAAAT
57781537 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
57781563 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
57781589 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
57781615 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
57781641 TGAT
1 TGAT
57781645 TAGAATTTCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:57783307 original size:27 final size:27
Alignment explanation
Indices: 57783266--57783379 Score: 131
Period size: 27 Copynumber: 4.2 Consensus size: 27
57783256 GAGGAAGCGT
*
57783266 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
57783293 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
57783320 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
57783348 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
57783374 TCTGGT
1 TCTGGT
57783380 AGTCATGCTA
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 6 0.08
27 55 0.72
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.37
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:57783371 original size:54 final size:54
Alignment explanation
Indices: 57783264--57783379 Score: 171
Period size: 54 Copynumber: 2.1 Consensus size: 54
57783254 TGGAGGAAGC
*
57783264 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
57783318 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
57783372 GTTCTGGT
1 GTTCTGGT
57783380 AGTCATGCTA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 38 0.68
55 18 0.32
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:57787116 original size:26 final size:26
Alignment explanation
Indices: 57787080--57787189 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
57787070 TGATACAAAT
57787080 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
57787106 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
57787132 TGATAATGGGTTAGGTAAATGTTACA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
57787158 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
57787184 TGATAA
1 TGATAA
57787190 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:57788846 original size:27 final size:27
Alignment explanation
Indices: 57788808--57788916 Score: 121
Period size: 27 Copynumber: 4.0 Consensus size: 27
57788798 AAGCGTTCTA
*
57788808 GTGGCTATGCCACAAATATCTGATCTG
1 GTGGCTCTGCCACAAATATCTGATCTG
* *
57788835 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAAATATCTGATCTG
* *
57788862 GTGGCTCTGCCACGATTATCTGTATCTG
1 GTGGCTCTGCCACAAATATCTG-ATCTG
* * * *
57788890 GTGACTCTGTCAC-ATTATCTGTTCTG
1 GTGGCTCTGCCACAAATATCTGATCTG
57788916 G
1 G
57788917 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
26 5 0.07
27 51 0.72
28 15 0.21
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAAATATCTGATCTG
Found at i:57788909 original size:54 final size:54
Alignment explanation
Indices: 57788802--57788916 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
57788792 TGGAGGAAGC
* *
57788802 GTTCTAGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
57788856 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
57788910 GTTCTGG
1 GTTCTGG
57788917 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:57820347 original size:21 final size:20
Alignment explanation
Indices: 57820319--57820361 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
57820309 AGATCTTCAG
*
57820319 TCTTGATGG-TGAATCCAGCT
1 TCTTGATGGATCAAT-CAGCT
57820339 TCTTAGATGGATCAATCAGCT
1 TCTT-GATGGATCAATCAGCT
57820360 TC
1 TC
57820362 CTTGGAGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (20 bp):
TCTTGATGGATCAATCAGCT
Found at i:57821407 original size:42 final size:43
Alignment explanation
Indices: 57821353--57821466 Score: 119
Period size: 44 Copynumber: 2.7 Consensus size: 43
57821343 TAAAATATCA
*
57821353 ATGCC-ACTGTCCCATACAGGGTCTTACACG-AAATCAGATA-CG
1 ATGCCAAC-GTCCCAGACAGGGTCTTACACGTAAATCAGA-AGCG
* * *
57821395 ATGCCAACGTCCCAGACATGGTCTTGCACGTAAATCATAAGTCG
1 ATGCCAACGTCCCAGACAGGGTCTTACACGTAAATCAGAAG-CG
*
57821439 ATGCCAACGTACCAGAC-GTGGTCTTACA
1 ATGCCAACGTCCCAGACAG-GGTCTTACA
57821467 TGATATCACA
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
42 25 0.42
43 9 0.15
44 26 0.43
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAGGGTCTTACACGTAAATCAGAAGCG
Found at i:57828427 original size:40 final size:40
Alignment explanation
Indices: 57828382--57828526 Score: 281
Period size: 40 Copynumber: 3.6 Consensus size: 40
57828372 ACTACTTGCT
*
57828382 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
57828422 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
57828462 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
57828502 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
57828527 TTATCATCCG
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 104 1.00
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:57836407 original size:40 final size:39
Alignment explanation
Indices: 57836356--57836501 Score: 195
Period size: 40 Copynumber: 3.7 Consensus size: 39
57836346 TACTTGCTCT
*
57836356 AATGCCTTCGGGACTTAGCACGGTTAGAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGTTA-AGTAACTCGCACA
* *
57836396 AATGCCTTCGGGACTTAGCCCGGATATAGTGACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGTTA-AGTAACTCGCACA
* *
57836436 AATGCCTTCGGGACTTAGCCCGGAATT-AGTCACTAGCACA
1 AATGCCTTCGGGACTTAGCCCGG--TTAAGTAACTCGCACA
*
57836476 AATGCCTTCGGGACATAGCCCGGTTA
1 AATGCCTTCGGGACTTAGCCCGGTTA
57836502 TCATCCGAAT
Statistics
Matches: 95, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
38 2 0.02
40 92 0.97
42 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.25, T:0.23
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGTTAAGTAACTCGCACA
Found at i:57839707 original size:42 final size:42
Alignment explanation
Indices: 57839607--57839771 Score: 113
Period size: 43 Copynumber: 3.9 Consensus size: 42
57839597 AGATCGTACA
* * * * *
57839607 ATGCCAACGTCCCAGAC-GTGGTCTTACATGTAATAAAATATCG
1 ATGCCAACGTCCCAGACAG-GGTCTTACACGAAATCAGA-AGCG
* * *
57839650 ATGAC-ACTATCCCAGACAGGGTATTACACGAAATCAGATA-CG
1 ATGCCAAC-GTCCCAGACAGGGTCTTACACGAAATCAGA-AGCG
* * *
57839692 ATGCCAATGTCCCAGAC-GTGGTCTTACACATAAATCATAAGTCG
1 ATGCCAACGTCCCAGACAG-GGTCTTACAC-GAAATCAGAAG-CG
* * *
57839736 ATGCCAACGTACCAGACATGGTCTTACACGATATCA
1 ATGCCAACGTCCCAGACAGGGTCTTACACGAAATCA
57839772 TATATCGGAT
Statistics
Matches: 96, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
41 1 0.01
42 26 0.27
43 41 0.43
44 28 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACAGGGTCTTACACGAAATCAGAAGCG
Found at i:57843165 original size:5 final size:5
Alignment explanation
Indices: 57843157--57843199 Score: 50
Period size: 5 Copynumber: 7.8 Consensus size: 5
57843147 AGAAGGGAGG
57843157 AAGAA AAGAA AAGGTAA AAGAA AAGAAA AGAGAA AAGAA AAGA
1 AAGAA AAGAA AA-G-AA AAGAA AAG-AA A-AGAA AAGAA AAGA
57843200 GGAAGAAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
5 20 0.59
6 8 0.24
7 6 0.18
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.02
Consensus pattern (5 bp):
AAGAA
Found at i:57843179 original size:17 final size:17
Alignment explanation
Indices: 57843157--57843199 Score: 70
Period size: 17 Copynumber: 2.5 Consensus size: 17
57843147 AGAAGGGAGG
57843157 AAGAAAAGAAAAG-GTAA
1 AAGAAAAGAAAAGAG-AA
57843174 AAGAAAAGAAAAGAGAA
1 AAGAAAAGAAAAGAGAA
57843191 AAGAAAAGA
1 AAGAAAAGA
57843200 GGAAGAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 24 0.96
18 1 0.04
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.02
Consensus pattern (17 bp):
AAGAAAAGAAAAGAGAA
Found at i:57843190 original size:12 final size:12
Alignment explanation
Indices: 57843157--57843213 Score: 57
Period size: 11 Copynumber: 4.9 Consensus size: 12
57843147 AGAAGGGAGG
57843157 AAGAAAAGA-AA
1 AAGAAAAGAGAA
* *
57843168 AGGTAAA-AGAA
1 AAGAAAAGAGAA
57843179 AAGAAAAGAGAA
1 AAGAAAAGAGAA
*
57843191 AAGAAAAGAG-G
1 AAGAAAAGAGAA
57843202 AAGAAAGAGAGA
1 AAGAAA-AGAGA
57843214 GGTGCATCAG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
10 1 0.03
11 18 0.49
12 18 0.49
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (12 bp):
AAGAAAAGAGAA
Found at i:57844277 original size:16 final size:16
Alignment explanation
Indices: 57844256--57844289 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
57844246 AAGTATGATA
57844256 TCTCATATAAACTTAT
1 TCTCATATAAACTTAT
57844272 TCTCATATAAACTTAT
1 TCTCATATAAACTTAT
57844288 TC
1 TC
57844290 GAGCATGGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (16 bp):
TCTCATATAAACTTAT
Found at i:57845926 original size:49 final size:46
Alignment explanation
Indices: 57845827--57846088 Score: 194
Period size: 49 Copynumber: 5.5 Consensus size: 46
57845817 GATGCCGACT
* * * * *
57845827 CCATGTTCCAAACATGGTCTTACACTGGCTC-TGACATCTAAGTCGATG
1 CCATGTCCCAGACA-GGTCTTACACTGACTCAT-ACATC-AGGCCGATG
* *
57845875 CCATGTCCCAGAAAGGTCTTACACTGACTTCTATACATCGAGGCTGATG
1 CCATGTCCCAGACAGGTCTTACACTGAC-TC-ATACATC-AGGCCGATG
* *
57845924 CCATGTCCCAGACAGGTCTTACACT-AGCTC-TCACTTACCTGTGCCGATG
1 CCATGTCCCAGACAGGTCTTACACTGA-CTCAT-AC--ATCAG-GCCGATG
* * * *
57845973 CCATGTCCCAGACAGGTCTTACATTGACACA-AC-TCAAGCCAATG
1 CCATGTCCCAGACAGGTCTTACACTGACTCATACATCAGGCCGATG
***
57846017 CCATGTCCCAGACAGGTCTTACACTGGCACTCAT-CTATCAGTATTGATG
1 CCATGTCCCAGACAGGTCTTACACT-G-ACTCATAC-ATCAG-GCCGATG
*
57846066 CCATGTCCCAGATAGGTCTTACA
1 CCATGTCCCAGACAGGTCTTACA
57846089 ATAGCACACA
Statistics
Matches: 172, Mismatches: 26, Indels: 31
0.75 0.11 0.14
Matches are distributed among these distances:
44 30 0.17
45 2 0.01
46 6 0.03
47 15 0.09
48 22 0.13
49 95 0.55
50 2 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (46 bp):
CCATGTCCCAGACAGGTCTTACACTGACTCATACATCAGGCCGATG
Found at i:57846040 original size:93 final size:98
Alignment explanation
Indices: 57845870--57846088 Score: 261
Period size: 93 Copynumber: 2.3 Consensus size: 98
57845860 ACATCTAAGT
* * **
57845870 CGATGCCATGTCCCAGAAAGGTCTTACACTGACTTCTATACATCGAGGCTGATGCCATGTCCCAG
1 CGATGCCATGTCCCAGAAAGGTCTTACACTGACTACTATACATCGAAGCCAATGCCATGTCCCAG
* * *
57845935 ACAGGTCTTACACTAGCTCTCA-CTTACCTGTGC
66 ACAGGTCTTACACTAGCACTCATC-TACCAGTAC
* *
57845968 CGATGCCATGTCCCAGACAGGTCTTACATTGAC-AC-A-AC-TC-AAGCCAATGCCATGTCCCAG
1 CGATGCCATGTCCCAGAAAGGTCTTACACTGACTACTATACATCGAAGCCAATGCCATGTCCCAG
* * *
57846028 ACAGGTCTTACACTGGCACTCATCTATCAGTAT
66 ACAGGTCTTACACTAGCACTCATCTACCAGTAC
* *
57846061 TGATGCCATGTCCCAGATAGGTCTTACA
1 CGATGCCATGTCCCAGAAAGGTCTTACA
57846089 ATAGCACACA
Statistics
Matches: 106, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
93 68 0.64
94 3 0.03
95 2 0.02
96 1 0.01
97 1 0.01
98 31 0.29
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (98 bp):
CGATGCCATGTCCCAGAAAGGTCTTACACTGACTACTATACATCGAAGCCAATGCCATGTCCCAG
ACAGGTCTTACACTAGCACTCATCTACCAGTAC
Found at i:57848741 original size:18 final size:18
Alignment explanation
Indices: 57848718--57848767 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
57848708 CGGGTGGTAG
57848718 TCGATTATCAACTCATAA
1 TCGATTATCAACTCATAA
*
57848736 TCGATTATCAACTCATAG
1 TCGATTATCAACTCATAA
**
57848754 TCTTTTATCAACTC
1 TCGATTATCAACTC
57848768 TAACCATCGC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (18 bp):
TCGATTATCAACTCATAA
Found at i:57853072 original size:95 final size:95
Alignment explanation
Indices: 57852967--57853156 Score: 380
Period size: 95 Copynumber: 2.0 Consensus size: 95
57852957 ACCATGGCGT
57852967 AAAAAAAATAAAGAAGGTTTTCATCCCAAGCCAACACAATTGGCTAACTTAACAATATGACACAT
1 AAAAAAAATAAAGAAGGTTTTCATCCCAAGCCAACACAATTGGCTAACTTAACAATATGACACAT
57853032 AACAAAAAGACTCAATCCCTATACATGCCA
66 AACAAAAAGACTCAATCCCTATACATGCCA
57853062 AAAAAAAATAAAGAAGGTTTTCATCCCAAGCCAACACAATTGGCTAACTTAACAATATGACACAT
1 AAAAAAAATAAAGAAGGTTTTCATCCCAAGCCAACACAATTGGCTAACTTAACAATATGACACAT
57853127 AACAAAAAGACTCAATCCCTATACATGCCA
66 AACAAAAAGACTCAATCCCTATACATGCCA
57853157 TACTCAAGAT
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.47, C:0.23, G:0.09, T:0.20
Consensus pattern (95 bp):
AAAAAAAATAAAGAAGGTTTTCATCCCAAGCCAACACAATTGGCTAACTTAACAATATGACACAT
AACAAAAAGACTCAATCCCTATACATGCCA
Found at i:57853708 original size:49 final size:47
Alignment explanation
Indices: 57853608--57853714 Score: 142
Period size: 49 Copynumber: 2.2 Consensus size: 47
57853598 TCCAAACATG
* * *
57853608 GTCTTACACTGGCTCTCACATCTAAGTCGATACCATGTCCCAGACAG
1 GTCTTACACTGGCTCTCACATATAAGTCGATACAATGTCCCAGACAA
** *
57853655 GTCTTACACTGGCTCTCACTTATATGTGTCGATGCAATGTCCCAGACAA
1 GTCTTACACTGGCTCTCAC--ATATAAGTCGATACAATGTCCCAGACAA
57853704 GTCTTACACTG
1 GTCTTACACTG
57853715 ACAGACATCA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
47 19 0.37
49 33 0.63
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (47 bp):
GTCTTACACTGGCTCTCACATATAAGTCGATACAATGTCCCAGACAA
Found at i:57856139 original size:23 final size:22
Alignment explanation
Indices: 57856100--57856144 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
57856090 CTAACTTGCA
57856100 AAAAATCAATTGAAGTAATAGAG
1 AAAAATCAATTGAAGT-ATAGAG
*
57856123 AAAAA-CAATTAGGAGTATAGAG
1 AAAAATCAATT-GAAGTATAGAG
57856145 GCAATAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.56, C:0.04, G:0.20, T:0.20
Consensus pattern (22 bp):
AAAAATCAATTGAAGTATAGAG
Found at i:57857747 original size:25 final size:25
Alignment explanation
Indices: 57857713--57857762 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
57857703 TATCCCATCA
57857713 TTAGGAAAGAGAGAGCAAATATTCT
1 TTAGGAAAGAGAGAGCAAATATTCT
57857738 TTAGGAAAGAGAGAGCAAATATTCT
1 TTAGGAAAGAGAGAGCAAATATTCT
57857763 CTAAATTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.24, T:0.24
Consensus pattern (25 bp):
TTAGGAAAGAGAGAGCAAATATTCT
Found at i:57861646 original size:13 final size:13
Alignment explanation
Indices: 57861622--57861655 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
57861612 TTTTTTTTAT
57861622 TATATAATTGTGTG
1 TATAT-ATTGTGTG
57861636 TATATATTGTGTG
1 TATATATTGTGTG
57861649 TATATAT
1 TATATAT
57861656 ATTATATGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.75
14 5 0.25
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (13 bp):
TATATATTGTGTG
Found at i:57864233 original size:37 final size:37
Alignment explanation
Indices: 57864183--57864261 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
57864173 TTATTACGAA
* * *
57864183 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
57864220 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
57864257 GTCTT
1 GTCTT
57864262 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:57864496 original size:47 final size:47
Alignment explanation
Indices: 57864379--57864757 Score: 645
Period size: 47 Copynumber: 8.0 Consensus size: 47
57864369 CCCTTCGGGA
* * * * * *
57864379 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57864426 C-TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57864472 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57864519 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57864568 C-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57864616 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57864663 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57864710 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57864757 C
1 C
57864758 ATACTATCAT
Statistics
Matches: 320, Mismatches: 8, Indels: 8
0.95 0.02 0.02
Matches are distributed among these distances:
46 39 0.12
47 187 0.58
48 48 0.15
49 46 0.14
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:57864766 original size:144 final size:140
Alignment explanation
Indices: 57864379--57864757 Score: 650
Period size: 144 Copynumber: 2.7 Consensus size: 140
57864369 CCCTTCGGGA
* * * * * * *
57864379 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCTGTCACATATATACACT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACT
57864444 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
66 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
57864509 GCCATTAGGC
131 GCCATTAGGC
57864519 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATATA
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCAC--ATATATA
57864584 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
62 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
57864649 ATCGGCCATTAGGC
127 ATCGGCCATTAGGC
57864663 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATACAC
57864728 TTTCACATTCATCACATCGGCCATTAGGCC
65 TTTCACATTCATCACATCGGCCATTAGGCC
57864758 ATACTATCAT
Statistics
Matches: 227, Mismatches: 7, Indels: 9
0.93 0.03 0.04
Matches are distributed among these distances:
140 8 0.04
141 40 0.18
142 79 0.35
143 6 0.03
144 94 0.41
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (140 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACT
TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
GCCATTAGGC
Found at i:57874401 original size:47 final size:47
Alignment explanation
Indices: 57874345--57874442 Score: 178
Period size: 47 Copynumber: 2.1 Consensus size: 47
57874335 AAGTTGAATT
*
57874345 TTAAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAG
1 TTAAGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAG
*
57874392 TTAAGCTTGTTAAATTTGCCCTTATTATTTCCGGATAAGTTACTTAG
1 TTAAGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAG
57874439 TTAA
1 TTAA
57874443 AGAAAATTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.45
Consensus pattern (47 bp):
TTAAGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAG
Found at i:57875259 original size:45 final size:45
Alignment explanation
Indices: 57875208--57875370 Score: 274
Period size: 45 Copynumber: 3.6 Consensus size: 45
57875198 TTTTATCCTA
*
57875208 TGAGCCTAGCAGGCTATAATGCCAGTGAGATACTATTTGGGCCTT
1 TGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTTGGGCCTT
*
57875253 TGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGGCCTT
1 TGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTTGGGCCTT
*
57875298 TGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTTGAG-CTT
1 TGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTTGGGCCTT
*
57875342 TCGATCCTAGCAGGCTATAATGCCGGTGA
1 T-GAGCCTAGCAGGCTATAATGCCGGTGA
57875371 AATGATATCA
Statistics
Matches: 112, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
44 4 0.04
45 108 0.96
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (45 bp):
TGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTTGGGCCTT
Found at i:57875441 original size:42 final size:41
Alignment explanation
Indices: 57875347--57875454 Score: 101
Period size: 42 Copynumber: 2.6 Consensus size: 41
57875337 AGCTTTCGAT
* * *
57875347 CCTAGCAGGCTATAATGCCGGTGAAATGATATCAGGCTTCGAG
1 CCTAGCAGGC-AAAATGCCGGTG-AATGATATCAGGCTTCAAA
* * *
57875390 CCTAACAGGCAAAATGCCGGTGAATGA-ATTCAGGTTTTTAAA
1 CCTAGCAGGCAAAATGCCGGTGAATGATA-TCAGG-CTTCAAA
**
57875432 CCTAGCAGGCTGAATGCCGGTGA
1 CCTAGCAGGCAAAATGCCGGTGA
57875455 TTTGATAAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
40 1 0.02
41 10 0.19
42 34 0.63
43 9 0.17
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (41 bp):
CCTAGCAGGCAAAATGCCGGTGAATGATATCAGGCTTCAAA
Found at i:57879093 original size:43 final size:42
Alignment explanation
Indices: 57879046--57879183 Score: 197
Period size: 43 Copynumber: 3.2 Consensus size: 42
57879036 CTGAAAAAGG
*
57879046 CACCGCTAGAGACCAGGACTTTTAGCGGCGCTTTTAAAAAAA
1 CACCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTAAAAAAA
57879088 TCACCGCTAAAGACCAGGACTTTTAGCGGCGC-TTTAAAAAAA
1 -CACCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTAAAAAAA
* *
57879130 AAGGCCGCTAAAGACCAGGACTTTTAGCGGTGCTTTTAGAAAAAA
1 CA--CCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTA-AAAAAA
*
57879175 CGCCGCTAA
1 CACCGCTAA
57879184 TTTGCCCAGT
Statistics
Matches: 86, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
41 1 0.01
42 10 0.12
43 65 0.76
44 4 0.05
45 6 0.07
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.21
Consensus pattern (42 bp):
CACCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTAAAAAAA
Found at i:57879501 original size:21 final size:21
Alignment explanation
Indices: 57879477--57879524 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
57879467 TTCTGTTCTG
*
57879477 CTCCGCCTCCCTCGCTGCTGC
1 CTCCGCCTCCCGCGCTGCTGC
*
57879498 CTCCGCCTCTCGCGCTGCTGC
1 CTCCGCCTCCCGCGCTGCTGC
57879519 CTCCGC
1 CTCCGC
57879525 TCTAAGTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.00, C:0.56, G:0.21, T:0.23
Consensus pattern (21 bp):
CTCCGCCTCCCGCGCTGCTGC
Found at i:57885080 original size:9 final size:9
Alignment explanation
Indices: 57885066--57885232 Score: 136
Period size: 9 Copynumber: 17.6 Consensus size: 9
57885056 ATGTATTAGT
57885066 TAAGTTATG
1 TAAGTTATG
57885075 TAAGTTGTTATG
1 TAA---GTTATG
*
57885087 TACGTTATG
1 TAAGTTATG
*
57885096 TGAGTTATG
1 TAAGTTATG
*
57885105 TAAATTATG
1 TAAGTTATG
57885114 TAAGTTATG
1 TAAGTTATG
*
57885123 TGAGTTATG
1 TAAGTTATG
57885132 TAAGTTGTTATG
1 TAA---GTTATG
* *
57885144 TAAATTATA
1 TAAGTTATG
57885153 TAAGTTATG
1 TAAGTTATG
*
57885162 TGAGTTATG
1 TAAGTTATG
57885171 TAAGTTGTTATG
1 TAA---GTTATG
*
57885183 TAAATTATG
1 TAAGTTATG
*
57885192 TAAGTTATA
1 TAAGTTATG
* *
57885201 TGAGTTATT
1 TAAGTTATG
57885210 TAAGTTATG
1 TAAGTTATG
* *
57885219 TAATTTATT
1 TAAGTTATG
57885228 TAAGT
1 TAAGT
57885233 AATGATCAAT
Statistics
Matches: 125, Mismatches: 24, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
9 99 0.79
12 26 0.21
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:57885113 original size:39 final size:40
Alignment explanation
Indices: 57885070--57885232 Score: 150
Period size: 39 Copynumber: 4.2 Consensus size: 40
57885060 ATTAGTTAAG
57885070 TTATGTAAGTTGTTATGT-ACGTTATGT-G-AGTTATGTAAA
1 TTATGTAAG-TGTTATGTGA-GTTATGTAGTAGTTATGTAAA
*
57885109 TTATGTAA--GTTATGTGAGTTATGTAAGTTGTTATGTAAA
1 TTATGTAAGTGTTATGTGAGTTATGT-AGTAGTTATGTAAA
* *
57885148 TTATATAA--GTTATGTGAGTTATGTAAGTTGTTATGTAAA
1 TTATGTAAGTGTTATGTGAGTTATGT-AGTAGTTATGTAAA
* * *
57885187 TTATGTAA--GTTATATGAGTTATTTA--AGTTATGTAAT
1 TTATGTAAGTGTTATGTGAGTTATGTAGTAGTTATGTAAA
*
57885223 TTATTTAAGT
1 TTATGTAAGT
57885233 AATGATCAAT
Statistics
Matches: 110, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
36 30 0.27
37 1 0.01
38 2 0.02
39 77 0.70
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.48
Consensus pattern (40 bp):
TTATGTAAGTGTTATGTGAGTTATGTAGTAGTTATGTAAA
Found at i:57885142 original size:48 final size:44
Alignment explanation
Indices: 57885081--57885220 Score: 156
Period size: 39 Copynumber: 3.4 Consensus size: 44
57885071 TATGTAAGTT
* *
57885081 GTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATGTGA
1 GTTATGTAAGTTATGT-AGTTATGTAAATTATATAAGTTATGTGA
57885126 GTTATGTAAG---T-T-GTTATGTAAATTATATAAGTTATGTGA
1 GTTATGTAAGTTATGTAGTTATGTAAATTATATAAGTTATGTGA
* *
57885165 GTTATGTAAG---T-T-GTTATGTAAATTATGTAAGTTATATGA
1 GTTATGTAAGTTATGTAGTTATGTAAATTATATAAGTTATGTGA
*
57885204 GTTATTTAAGTTATGTA
1 GTTATGTAAGTTATGTA
57885221 ATTTATTTAA
Statistics
Matches: 85, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
39 72 0.85
41 1 0.01
42 2 0.02
43 1 0.01
45 9 0.11
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.46
Consensus pattern (44 bp):
GTTATGTAAGTTATGTAGTTATGTAAATTATATAAGTTATGTGA
Found at i:57885159 original size:57 final size:57
Alignment explanation
Indices: 57885066--57885232 Score: 178
Period size: 57 Copynumber: 2.9 Consensus size: 57
57885056 ATGTATTAGT
* * *
57885066 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATATAAGTTATGTAAATTATGTAAGTTATG
* * * *
57885123 TGAGTTATGTAAGTTGTTATGTAAATTATATAAGTTATGTGAGTTATGTAAGTTGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATATAAGTTATGTAAATTATGTAA---GTTATG
* * * * *
57885183 TAAATTATGTAAGTT-ATATG--AGTTATTTAAGTTATGTAATTTATTTAAGT
1 TAAGTTATGTAAGTTGTTATGTAAGTTATATAAGTTATGTAAATTATGTAAGT
57885233 AATGATCAAT
Statistics
Matches: 92, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
54 2 0.02
57 67 0.73
59 4 0.04
60 19 0.21
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGTTATGTAAGTTATATAAGTTATGTAAATTATGTAAGTTATG
Found at i:57885221 original size:48 final size:48
Alignment explanation
Indices: 57885066--57885221 Score: 179
Period size: 48 Copynumber: 3.2 Consensus size: 48
57885056 ATGTATTAGT
* * * *
57885066 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATATAAGTTATG
* * * * *
57885114 TAAGTTATGTGAGTTATGTAAGT-TGTTATGTAAATTATATAAGTTATG
1 TAAGTTATGTAAGTTGT-TATGTAAGTTATGTAAGTTATATAAGTTATG
* * * *
57885162 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATT
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATATAAGTTATG
57885210 TAAGTTATGTAA
1 TAAGTTATGTAA
57885222 TTTATTTAAG
Statistics
Matches: 88, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
47 4 0.05
48 80 0.91
49 4 0.05
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.46
Consensus pattern (48 bp):
TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATATAAGTTATG
Found at i:57886974 original size:183 final size:183
Alignment explanation
Indices: 57886661--57887034 Score: 685
Period size: 183 Copynumber: 2.0 Consensus size: 183
57886651 TAGTACCTAG
* * *
57886661 AACAGATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTA
1 AACACATGTAAGATTATAAGAGTAGCACCAAATATATTTCAATTTAAGAAAATATAAAAACTTTA
*
57886726 TCTATATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCA
66 TCTATATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAAACAATAGTTGCA
*
57886791 GTAGGAGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACA
131 GGAGGAGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACA
*
57886844 GACACATGTAAGATTATAAGAGTAGCACCAAATATATTTCAATTTAAGAAAATATAAAAACTTTA
1 AACACATGTAAGATTATAAGAGTAGCACCAAATATATTTCAATTTAAGAAAATATAAAAACTTTA
57886909 TCTATATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAAACAATAGTTGCA
66 TCTATATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAAACAATAGTTGCA
*
57886974 GGAGGAGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAGTACA
131 GGAGGAGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACA
57887027 AACACATG
1 AACACATG
57887035 GAACTATATC
Statistics
Matches: 183, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
183 183 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.27
Consensus pattern (183 bp):
AACACATGTAAGATTATAAGAGTAGCACCAAATATATTTCAATTTAAGAAAATATAAAAACTTTA
TCTATATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAAACAATAGTTGCA
GGAGGAGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACA
Found at i:57887121 original size:14 final size:13
Alignment explanation
Indices: 57887102--57887131 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
57887092 AAATATAATT
57887102 TTACTTCATATATA
1 TTACTTCATATA-A
57887116 TTACTTCATATAA
1 TTACTTCATATAA
57887129 TTA
1 TTA
57887132 TTATAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (13 bp):
TTACTTCATATAA
Found at i:57889450 original size:28 final size:29
Alignment explanation
Indices: 57889396--57889465 Score: 108
Period size: 28 Copynumber: 2.4 Consensus size: 29
57889386 AATCAAAACT
57889396 CTAAACCTTAAACCATTAAACTATAT-CC
1 CTAAACCTTAAACCATTAAACTATATCCC
*
57889424 CTATAACCTTAAACC-TTAAAGTATATCCC
1 CTA-AACCTTAAACCATTAAACTATATCCC
57889453 CTAAACCTTAAAC
1 CTAAACCTTAAAC
57889466 TATATCCCCT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 23 0.59
29 16 0.41
ACGTcount: A:0.41, C:0.29, G:0.01, T:0.29
Consensus pattern (29 bp):
CTAAACCTTAAACCATTAAACTATATCCC
Found at i:57889484 original size:20 final size:21
Alignment explanation
Indices: 57889433--57889485 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
57889423 CCTATAACCT
*
57889433 TAAACCTTAAAGTATATCCCC
1 TAAACCTTAAACTATATCCCC
57889454 TAAACCTTAAACTATATCCCC
1 TAAACCTTAAACTATATCCCC
*
57889475 T-AACCATAAAC
1 TAAACCTTAAAC
57889486 CACAAAACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 9 0.30
21 21 0.70
ACGTcount: A:0.42, C:0.30, G:0.02, T:0.26
Consensus pattern (21 bp):
TAAACCTTAAACTATATCCCC
Found at i:57889652 original size:28 final size:27
Alignment explanation
Indices: 57889602--57889747 Score: 121
Period size: 28 Copynumber: 5.6 Consensus size: 27
57889592 CAAAATTGTA
*
57889602 AACCTTAAACCATTAAACTATATCCCGAT
1 AACCTTAAACC-CTAAACTATATCCC-AT
*
57889631 AACCTTGAACCCTAAACTATATCCC--
1 AACCTTAAACCCTAAACTATATCCCAT
57889656 -A---TAAACCCTAAACTATATCCCTAT
1 AACCTTAAACCCTAAACTATATCCC-AT
* *
57889680 AACCTTAAACTCTAAAGTATAT---AT
1 AACCTTAAACCCTAAACTATATCCCAT
* *
57889704 ATCCCTTAAACCCTAAACTATATCCCCT
1 A-ACCTTAAACCCTAAACTATATCCCAT
* *
57889732 AACCATAAACCATAAA
1 AACCTTAAACCCTAAA
57889748 ATAATAACCC
Statistics
Matches: 94, Mismatches: 12, Indels: 24
0.72 0.09 0.18
Matches are distributed among these distances:
21 19 0.20
24 4 0.04
25 19 0.20
27 12 0.13
28 30 0.32
29 10 0.11
ACGTcount: A:0.42, C:0.29, G:0.02, T:0.27
Consensus pattern (27 bp):
AACCTTAAACCCTAAACTATATCCCAT
Found at i:57889664 original size:21 final size:21
Alignment explanation
Indices: 57889638--57889690 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
57889628 GATAACCTTG
57889638 AACCCTAAACTATATCCC-AT
1 AACCCTAAACTATATCCCTAT
57889658 AAACCCTAAACTATATCCCTAT
1 -AACCCTAAACTATATCCCTAT
*
57889680 AACCTTAAACT
1 AACCCTAAACT
57889691 CTAAAGTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (21 bp):
AACCCTAAACTATATCCCTAT
Found at i:57889671 original size:49 final size:52
Alignment explanation
Indices: 57889615--57889747 Score: 157
Period size: 53 Copynumber: 2.6 Consensus size: 52
57889605 CTTAAACCAT
* *
57889615 TAAACTATATCCCGATAACCTTGAACCCT-AA-A-CTATATCCCATAAACCC
1 TAAACTATATCCCGATAACCTTAAACCCTAAAGATATATATCCCATAAACCC
* * *
57889664 TAAACTATATCCCTATAACCTTAAACTCTAAAGTATATATATCCCTTAAACCC
1 TAAACTATATCCCGATAACCTTAAACCCTAAAG-ATATATATCCCATAAACCC
* * *
57889717 TAAACTATATCCC-CTAACCATAAACCATAAA
1 TAAACTATATCCCGATAACCTTAAACCCTAAA
57889748 ATAATAACCC
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
49 26 0.37
50 2 0.03
52 15 0.21
53 28 0.39
ACGTcount: A:0.41, C:0.29, G:0.02, T:0.27
Consensus pattern (52 bp):
TAAACTATATCCCGATAACCTTAAACCCTAAAGATATATATCCCATAAACCC
Found at i:57889740 original size:20 final size:21
Alignment explanation
Indices: 57889701--57889741 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
57889691 CTAAAGTATA
* *
57889701 TATATCCCTTAAACCCTAAAC
1 TATATCCCCTAAACCATAAAC
57889722 TATATCCCCT-AACCATAAAC
1 TATATCCCCTAAACCATAAAC
57889742 CATAAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.39, C:0.34, G:0.00, T:0.27
Consensus pattern (21 bp):
TATATCCCCTAAACCATAAAC
Found at i:57889863 original size:256 final size:252
Alignment explanation
Indices: 57889412--57889883 Score: 802
Period size: 256 Copynumber: 1.9 Consensus size: 252
57889402 CTTAAACCAT
*
57889412 TAAACTATATCCCTATAACCTTAAACCTTAAAGTATATCCCCTAAACCTTAAACTATATCCCCTA
1 TAAACTATATCCCTATAACCTTAAACCTTAAAGTATATCCCCTAAACCCTAAACTATATCCCCTA
57889477 ACCATAAACCACAAAACAATAACCCCAAAGCCTTAACCACAAAATGTATGAATTAATCATAACCC
66 ACCATAAACCACAAAACAATAACCCCAAAGCCTTAACCACAAAATGTATGAATTAATCATAACCC
* * * *
57889542 TAAACTATATCCTTTGATCCTTAAACCACAAAATAATAACACTAATTAATCAAAATTGTAAACCT
131 TAAACTATATCCCTTAATCCTTAAACCACAAAATAATAACACTAATTAATCAAAACTCTAAACCT
57889607 TAAACCATTAAACTATATCCCGATAACCTTGAACCCTAAACTATATCCCATAAACCC
196 TAAACCATTAAACTATATCCCGATAACCTTGAACCCTAAACTATATCCCATAAACCC
*
57889664 TAAACTATATCCCTATAACCTTAAA-CTCTAAAGTATATATATCCCTTAAACCCTAAACTATATC
1 TAAACTATATCCCTATAACCTTAAACCT-TAAAG----TATATCCCCTAAACCCTAAACTATATC
* * *
57889728 CCCTAACCATAAACCATAAAATAATAACCCCTAAGCCTTAACCACAAAATGTATGAATTAATCAT
61 CCCTAACCATAAACCACAAAACAATAACCCCAAAGCCTTAACCACAAAATGTATGAATTAATCAT
*
57889793 AACCCTAAACTATATCCCTTAATCCTTAAACCACAAAATAATAACACTAATTAATCAATACTCTA
126 AACCCTAAACTATATCCCTTAATCCTTAAACCACAAAATAATAACACTAATTAATCAAAACTCTA
57889858 AACCTTAAACCATTAAACTATATCCC
191 AACCTTAAACCATTAAACTATATCCC
57889884 CTACTAAAGT
Statistics
Matches: 205, Mismatches: 10, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
251 2 0.01
252 30 0.15
256 173 0.84
ACGTcount: A:0.44, C:0.27, G:0.03, T:0.27
Consensus pattern (252 bp):
TAAACTATATCCCTATAACCTTAAACCTTAAAGTATATCCCCTAAACCCTAAACTATATCCCCTA
ACCATAAACCACAAAACAATAACCCCAAAGCCTTAACCACAAAATGTATGAATTAATCATAACCC
TAAACTATATCCCTTAATCCTTAAACCACAAAATAATAACACTAATTAATCAAAACTCTAAACCT
TAAACCATTAAACTATATCCCGATAACCTTGAACCCTAAACTATATCCCATAAACCC
Found at i:57889973 original size:22 final size:22
Alignment explanation
Indices: 57889947--57890026 Score: 67
Period size: 22 Copynumber: 3.7 Consensus size: 22
57889937 CCCTAAGCAT
*
57889947 TAACCCCTAAACCATTAACCCA
1 TAACCCATAAACCATTAACCCA
*
57889969 TAACCCATAAACCCTTAA-CCA
1 TAACCCATAAACCATTAACCCA
* *
57889990 CTAGCCCAT-AACCCTTAAACCC-
1 -TAACCCATAAACCATT-AACCCA
* *
57890012 CAACCCTTAAACCAT
1 TAACCCATAAACCAT
57890027 AAGCCGTAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
21 15 0.32
22 30 0.64
23 2 0.04
ACGTcount: A:0.39, C:0.41, G:0.01, T:0.19
Consensus pattern (22 bp):
TAACCCATAAACCATTAACCCA
Found at i:57890072 original size:15 final size:15
Alignment explanation
Indices: 57889948--57890066 Score: 58
Period size: 15 Copynumber: 8.3 Consensus size: 15
57889938 CCTAAGCATT
* * *
57889948 AACCCCTAAACCATT
1 AACCCATAAACCCTA
57889963 AACCCAT-AACCCATA
1 AACCCATAAACCC-TA
*
57889978 AACCC-TTAACCACT-
1 AACCCATAAACC-CTA
*
57889992 AGCCCAT-AACCCTTA
1 AACCCATAAACCC-TA
*
57890007 AACCC--CAACCCTTA
1 AACCCATAAACCC-TA
* *
57890021 AA-CCATAAGCCGTA
1 AACCCATAAACCCTA
*
57890035 AA--CATAATCCCTA
1 AACCCATAAACCCTA
57890048 AACCCATAAACCCTA
1 AACCCATAAACCCTA
57890063 AACC
1 AACC
57890067 TTTAAATAGT
Statistics
Matches: 82, Mismatches: 11, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
13 14 0.17
14 28 0.34
15 39 0.48
16 1 0.01
ACGTcount: A:0.41, C:0.39, G:0.03, T:0.17
Consensus pattern (15 bp):
AACCCATAAACCCTA
Found at i:57890682 original size:41 final size:41
Alignment explanation
Indices: 57890637--57890761 Score: 200
Period size: 40 Copynumber: 3.1 Consensus size: 41
57890627 GGCGTTTTCT
*
57890637 ATCTTTAGCGGCGCATTCTTAAAAACGCCGCTAATGCTCAG
1 ATCTTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTCAG
* *
57890678 ATCTTTAGCGGCGCTTTCTTAAAAATGCCGTTAATGCTC-G
1 ATCTTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTCAG
*
57890718 ATCTTTAGCGGCGCTTTGTTAAAAACGCCGCTAATGCTCA-
1 ATCTTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTCAG
57890758 ATCT
1 ATCT
57890762 ATTCGATTTT
Statistics
Matches: 77, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
40 41 0.53
41 36 0.47
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (41 bp):
ATCTTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTCAG
Found at i:57892642 original size:19 final size:19
Alignment explanation
Indices: 57892618--57892654 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
57892608 ACCACTGTCA
57892618 CCCACCGTAATAAAATTTG
1 CCCACCGTAATAAAATTTG
*
57892637 CCCACCGTAATCAAATTT
1 CCCACCGTAATAAAATTT
57892655 TTTATTAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.30, G:0.08, T:0.27
Consensus pattern (19 bp):
CCCACCGTAATAAAATTTG
Found at i:57893265 original size:28 final size:28
Alignment explanation
Indices: 57893205--57893265 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
57893195 GAGGTGGGAT
*
57893205 GGGAAGGGAAGGGAGTAAAAGTTTTAGG
1 GGGAAGGGAAGGGAGTAAAAGATTTAGG
* * *
57893233 AGGAAGTGAGAGGGAGTAAAA-ATTTGGG
1 GGGAAGGGA-AGGGAGTAAAAGATTTAGG
57893261 GGGAA
1 GGGAA
57893266 AATAAAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
28 16 0.59
29 11 0.41
ACGTcount: A:0.38, C:0.00, G:0.46, T:0.16
Consensus pattern (28 bp):
GGGAAGGGAAGGGAGTAAAAGATTTAGG
Found at i:57893771 original size:15 final size:16
Alignment explanation
Indices: 57893751--57893784 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
57893741 AGAGTAAAAC
57893751 ATAATT-TTTTTTAAA
1 ATAATTGTTTTTTAAA
*
57893766 ATAATTGTTTTTTTAA
1 ATAATTGTTTTTTAAA
57893782 ATA
1 ATA
57893785 CGGAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
ATAATTGTTTTTTAAA
Found at i:57893963 original size:93 final size:93
Alignment explanation
Indices: 57893829--57894010 Score: 312
Period size: 93 Copynumber: 1.9 Consensus size: 93
57893819 ATAAAGTAGG
*
57893829 TTTTTTTAGTGAGTGGTTTTTTTTTTCACTAAAAAATAGTTATTTTATATCTAGTTAAAAACTTT
1 TTTTTTTAGTGAGTGG-TTCTTTTTTCACTAAAAAATAGTTATTTTATATCTAGTTAAAAACTTT
57893894 AATAATCCATCAATTATATTCACATAGTT
65 AATAATCCATCAATTATATTCACATAGTT
*
57893923 TTTTTTTAGTGGGTGG-TCTTTTTTCACTAAAAAAGTAGTTATTTTATATCTAGTTAAAAACTTT
1 TTTTTTTAGTGAGTGGTTCTTTTTTCACTAAAAAA-TAGTTATTTTATATCTAGTTAAAAACTTT
*
57893987 AATAATCTATCAATTATATTCACA
65 AATAATCCATCAATTATATTCACA
57894011 AACACATTAA
Statistics
Matches: 84, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
92 17 0.20
93 52 0.62
94 15 0.18
ACGTcount: A:0.33, C:0.10, G:0.09, T:0.48
Consensus pattern (93 bp):
TTTTTTTAGTGAGTGGTTCTTTTTTCACTAAAAAATAGTTATTTTATATCTAGTTAAAAACTTTA
ATAATCCATCAATTATATTCACATAGTT
Found at i:57896552 original size:26 final size:26
Alignment explanation
Indices: 57896523--57896573 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
57896513 ACATCATTGA
* *
57896523 AGGTGTATTCGAACACAATTTGACTT
1 AGGTGTATTCAAACACAATCTGACTT
57896549 AGGTGTATTCAAACACAATCTGACT
1 AGGTGTATTCAAACACAATCTGACT
57896574 CAATAAATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (26 bp):
AGGTGTATTCAAACACAATCTGACTT
Found at i:57902692 original size:5 final size:5
Alignment explanation
Indices: 57902677--57902717 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
57902667 ATATGACTAG
*
57902677 TTATAT TTATT TTATT TTATT TTATC TTATT TTATAT TTAT
1 TTAT-T TTATT TTATT TTATT TTATT TTATT TTAT-T TTAT
57902718 GAGTTTTGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 23 0.72
6 9 0.28
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (5 bp):
TTATT
Found at i:57902706 original size:15 final size:16
Alignment explanation
Indices: 57902677--57902717 Score: 66
Period size: 15 Copynumber: 2.6 Consensus size: 16
57902667 ATATGACTAG
*
57902677 TTATATTTATTTTATT
1 TTATATTTATCTTATT
57902693 TTAT-TTTATCTTATT
1 TTATATTTATCTTATT
57902708 TTATATTTAT
1 TTATATTTAT
57902718 GAGTTTTGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (16 bp):
TTATATTTATCTTATT
Found at i:57908784 original size:18 final size:19
Alignment explanation
Indices: 57908761--57908796 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
57908751 AACTTGGCAC
*
57908761 CATAA-TCATTTAATTTAA
1 CATAATTCAATTAATTTAA
57908779 CATAATTCAATTAATTTA
1 CATAATTCAATTAATTTA
57908797 CTAAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (19 bp):
CATAATTCAATTAATTTAA
Found at i:57960999 original size:15 final size:14
Alignment explanation
Indices: 57960975--57961004 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
57960965 AATGGCAAAC
57960975 TATGTATATGAAAA
1 TATGTATATGAAAA
57960989 TATGATATATGAAAA
1 TATG-TATATGAAAA
57961004 T
1 T
57961005 TAAAATGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (14 bp):
TATGTATATGAAAA
Found at i:57964098 original size:40 final size:40
Alignment explanation
Indices: 57964004--57964148 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
57963994 TACTCGAATG
*
57964004 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
57964045 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
57964085 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
57964125 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
57964149 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:57970820 original size:37 final size:38
Alignment explanation
Indices: 57970779--57970853 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
57970769 TTCATCCTTT
57970779 TTCATTTCTTTTGGCCG-AAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
57970816 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
57970854 GGAGTTCTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 17 0.46
38 20 0.54
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:57970862 original size:37 final size:37
Alignment explanation
Indices: 57970784--57970862 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 37
57970774 CCTTTTTCAT
* *
57970784 TTCTTTTGGCCGAAATTCTAAGGAAGGAGGAATTCAT
1 TTCTTTTGGCCGAAATTCTAAGGAAGGAGGAATGCAG
*
57970821 TTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA-GGAG
1 TTCTTTTGGCCG-AAATTCTAAGGAAGGAGGAATGCAG
57970858 TTCTT
1 TTCTT
57970863 GCTTCATGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 18 0.47
38 20 0.53
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.32
Consensus pattern (37 bp):
TTCTTTTGGCCGAAATTCTAAGGAAGGAGGAATGCAG
Found at i:57981165 original size:17 final size:17
Alignment explanation
Indices: 57981145--57981186 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
57981135 TAAAGACAAA
57981145 TTTAAAAATAATAATAT
1 TTTAAAAATAATAATAT
* * *
57981162 TTTAAAAGTCATTATAT
1 TTTAAAAATAATAATAT
57981179 TTTAAAAA
1 TTTAAAAA
57981187 ATAAAGAGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TTTAAAAATAATAATAT
Found at i:57994079 original size:43 final size:42
Alignment explanation
Indices: 57993984--57994093 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
57993974 GATTTGAGAT
* *
57993984 TTACGTGTAAGACCATGTCTGGGACATCTGCATCATATTTGA
1 TTACGTGTAAGACCATGTCTGGGACATCGGCATCATATTCGA
* * *
57994026 TTTCGTGTAAGACCCTGTCTGGGATAGT-GGCATCGATATTCGA
1 TTACGTGTAAGACCATGTCTGGGACA-TCGGCATC-ATATTCGA
* * *
57994069 TTACATGTAAGACTACGTCTGGGAC
1 TTACGTGTAAGACCATGTCTGGGAC
57994094 GTTGGCATTG
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
42 28 0.51
43 27 0.49
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCTGGGACATCGGCATCATATTCGA
Found at i:57994100 original size:43 final size:43
Alignment explanation
Indices: 57993930--57994101 Score: 131
Period size: 43 Copynumber: 4.0 Consensus size: 43
57993920 CATAGGATTC
* * *
57993930 CGATATGTA-ATTTCGTGTAAGACTACATCTGGGATGTTGGCAT
1 CGATAT-TAGATTACGTGTAAGACTACGTCTGGGACGTTGGCAT
* * * *
57993973 TGAT-TTGAGATTTACGTGTAAGACCATGTCTGGGACATCT-GCAT
1 CGATATT-AGA-TTACGTGTAAGACTACGTCTGGGACGT-TGGCAT
* * * *
57994017 C-ATATTTGATTTCGTGTAAGAC-CCTGTCTGGGATAG-TGGCAT
1 CGATATTAGATTACGTGTAAGACTAC-GTCTGGGA-CGTTGGCAT
* *
57994059 CGATATTCGATTACATGTAAGACTACGTCTGGGACGTTGGCAT
1 CGATATTAGATTACGTGTAAGACTACGTCTGGGACGTTGGCAT
57994102 TGTACGAGCT
Statistics
Matches: 99, Mismatches: 19, Indels: 22
0.71 0.14 0.16
Matches are distributed among these distances:
41 2 0.02
42 28 0.28
43 40 0.40
44 28 0.28
45 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (43 bp):
CGATATTAGATTACGTGTAAGACTACGTCTGGGACGTTGGCAT
Found at i:57997479 original size:21 final size:20
Alignment explanation
Indices: 57997454--57997518 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
57997444 TAGCCTTCGG
57997454 GCTTCCGTTTAGCACTTGTGT
1 GCTTCCGTTTAGCACTT-TGT
* * *
57997475 GCTTCAG-CTAGC-CTTTGG
1 GCTTCCGTTTAGCACTTTGT
*
57997493 GCTTTCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTT-TGT
57997514 GCTTC
1 GCTTC
57997519 AGCTAGACTT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 7 0.21
19 7 0.21
20 7 0.21
21 12 0.36
ACGTcount: A:0.11, C:0.25, G:0.23, T:0.42
Consensus pattern (20 bp):
GCTTCCGTTTAGCACTTTGT
Found at i:57997495 original size:39 final size:39
Alignment explanation
Indices: 57997436--57997536 Score: 157
Period size: 39 Copynumber: 2.6 Consensus size: 39
57997426 GCTCTGATGA
* *
57997436 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGCTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
57997475 GCTTCAGCTAGCCTTTGGGCTTTCGTTTAGCACTTATGT
1 GCTTCAGCTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
57997514 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGCTAGCCTTCGGGCTTC
57997537 AGATCACGAT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.12, C:0.26, G:0.25, T:0.38
Consensus pattern (39 bp):
GCTTCAGCTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:58001178 original size:49 final size:50
Alignment explanation
Indices: 58001116--58001234 Score: 138
Period size: 50 Copynumber: 2.4 Consensus size: 50
58001106 GCCATCTTCC
58001116 AGACATGGTCTTACACTGACTATCA-AAAT-CGAGGCCGACGCCATGTCCCA
1 AGACATGGTCTTACACTGACTATCACAAATCCG-GGCCGACGCCATGT-CCA
* * * *
58001166 A-ACATGGTCTTACACT-AGCTCTCACATATCCGTGCCGATGCCATGTCCA
1 AGACATGGTCTTACACTGA-CTATCACAAATCCGGGCCGACGCCATGTCCA
*
58001215 AGACATGGTCTTACATTGAC
1 AGACATGGTCTTACACTGAC
58001235 ACCTCTATAT
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
48 1 0.02
49 24 0.41
50 31 0.53
51 3 0.05
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.24
Consensus pattern (50 bp):
AGACATGGTCTTACACTGACTATCACAAATCCGGGCCGACGCCATGTCCA
Found at i:58001392 original size:47 final size:45
Alignment explanation
Indices: 58001054--58001459 Score: 150
Period size: 47 Copynumber: 8.7 Consensus size: 45
58001044 GTGTATAATA
*
58001054 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGT--
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-T-CAT-AAGTGG
* * * * * *
58001102 -CAATGCCATCTTCCAGACATGGTCTTACACT-GACTATCAAAATCGAGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCTCATAA--GTGG
* * *
58001150 CCGACGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATA-TCCGTG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATA-AGT--G-G
* * * *
58001200 CCGATGCCATGTCCAAGACATGGTCTTACA-TTGACACCTCTATATGT-G
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAG-C-TCTC-ATAAGTGG
* * * *
58001248 CTGATGCCATGTCCCAGACATCGTCTTACACTGACACATCTCGTAACT-G
1 CCGATG-CATGTCCCAGACAT-GTCTTACACT-A-GC-TCTCATAAGTGG
* * *
58001297 --G-TGCATGTCTCAGACATCTCTTACACTAG--CTC----GAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAAGTGG
* *
58001333 CCAATGCATGTCCCAAACATGTCTTACACTAGCTCTTGTC-TCAA-T-G
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTC---TCAT-AAGTGG
* *
58001379 CCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATGTGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATAA-GTGG
58001427 CCGATGCATGTCCCAGACATGTCTTACACTAGC
1 CCGATGCATGTCCCAGACATGTCTTACACTAGC
58001460 ACACAAATAA
Statistics
Matches: 275, Mismatches: 46, Indels: 76
0.69 0.12 0.19
Matches are distributed among these distances:
36 1 0.00
39 28 0.10
41 1 0.00
43 1 0.00
44 13 0.05
45 19 0.07
46 24 0.09
47 57 0.21
48 49 0.18
49 40 0.15
50 36 0.13
51 3 0.01
52 3 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.27
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAAGTGG
Found at i:58004123 original size:24 final size:26
Alignment explanation
Indices: 58004096--58004148 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
58004086 TATCATTTCC
* *
58004096 GCTCTTTC-GAGCT-ATGATCAGTAA
1 GCTCCTTCTGAGCTGATGAACAGTAA
58004120 GCTCCTTCTGAGCTGATGAACAGTAA
1 GCTCCTTCTGAGCTGATGAACAGTAA
58004146 GCT
1 GCT
58004149 TTATTAAGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 7 0.28
25 5 0.20
26 13 0.52
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (26 bp):
GCTCCTTCTGAGCTGATGAACAGTAA
Found at i:58004193 original size:24 final size:24
Alignment explanation
Indices: 58004154--58004207 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
58004144 AAGCTTTATT
58004154 AAGCT-AAAACAATAAGCTCTAAC
1 AAGCTAAAAACAATAAGCTCTAAC
* * *
58004177 GAGCTAAAAACAGTAAGCTCTTAC
1 AAGCTAAAAACAATAAGCTCTAAC
58004201 AAGCTAA
1 AAGCTAA
58004208 TATATTGGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 4 0.15
24 22 0.85
ACGTcount: A:0.48, C:0.20, G:0.13, T:0.19
Consensus pattern (24 bp):
AAGCTAAAAACAATAAGCTCTAAC
Found at i:58008284 original size:43 final size:42
Alignment explanation
Indices: 58008221--58008378 Score: 137
Period size: 43 Copynumber: 3.7 Consensus size: 42
58008211 TATGTGTTAT
*
58008221 CGTGTAAGACCAC-GTTTGGGACATTGGCATCGACTTATGATTTA
1 CGTGTAAGACCACTGTCTGGGACATTGGCATCGA-TT-TGA-TTA
* * * *
58008265 CGTGTAAGA-CACT-TCTGGGACGTTGCCATCGTATTTAATTC
1 CGTGTAAGACCACTGTCTGGGACATTGGCATCG-ATTTGATTA
* *
58008306 CGTGTAAGACC-CTGTCTAGGACAGTGGCATCGATATTTGATTA
1 CGTGTAAGACCACTGTCTGGGACATTGGCATCG--ATTTGATTA
* * *
58008349 CATGTAAGATCA-TGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACTGTCTGGGACATTGGCAT
58008379 TGTACGAGAT
Statistics
Matches: 92, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
41 13 0.14
42 17 0.18
43 52 0.57
44 10 0.11
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (42 bp):
CGTGTAAGACCACTGTCTGGGACATTGGCATCGATTTGATTA
Found at i:58018413 original size:45 final size:45
Alignment explanation
Indices: 58018325--58018448 Score: 131
Period size: 45 Copynumber: 2.7 Consensus size: 45
58018315 TCGTTAGTAT
* * *
58018325 AGTATGAATAAACCACTTATTGTTGTAGATAAAAACTACTAATAC
1 AGTATGGATAAACCACTCATTGGTGTAGATAAAAACTACTAATAC
* ** **
58018370 GGTATGGATAAACCACTCATTGGTGTAGATAAAAGTTGTTAATAC
1 AGTATGGATAAACCACTCATTGGTGTAGATAAAAACTACTAATAC
* ** *
58018415 AGTAAGGATAAACTGCTCATATGGTGTGGATAAA
1 AGTATGGATAAACCACTCAT-TGGTGTAGATAAA
58018449 CCATTCAACA
Statistics
Matches: 65, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
45 53 0.82
46 12 0.18
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (45 bp):
AGTATGGATAAACCACTCATTGGTGTAGATAAAAACTACTAATAC
Found at i:58027871 original size:21 final size:21
Alignment explanation
Indices: 58027842--58027889 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
58027832 TGGGGAGACT
*
58027842 ACTCAACCC-ACCAACCACTAC
1 ACTCCACCCTACCAACC-CTAC
**
58027863 ACTCCACCCTACCAGTCCTAC
1 ACTCCACCCTACCAACCCTAC
58027884 ACTCCA
1 ACTCCA
58027890 TGTGGGGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.31, C:0.52, G:0.02, T:0.15
Consensus pattern (21 bp):
ACTCCACCCTACCAACCCTAC
Found at i:58029651 original size:26 final size:26
Alignment explanation
Indices: 58029620--58029727 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
58029610 TGAAATGCCC
*
58029620 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
58029646 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
58029672 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
58029698 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
58029724 ATCA
1 ATCA
58029728 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:58031450 original size:17 final size:17
Alignment explanation
Indices: 58031428--58031462 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
58031418 ACTATTTAAG
58031428 CAGAACTCAGAAGTTTC
1 CAGAACTCAGAAGTTTC
58031445 CAGAACTCAGAAGTTTC
1 CAGAACTCAGAAGTTTC
58031462 C
1 C
58031463 CCTTCCTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (17 bp):
CAGAACTCAGAAGTTTC
Found at i:58033200 original size:29 final size:29
Alignment explanation
Indices: 58033158--58033216 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
58033148 AATCCAGGGT
58033158 CGCCTTATGCTTAACAAGCCAGTCCATTC
1 CGCCTTATGCTTAACAAGCCAGTCCATTC
58033187 CGCCTTATGCTTAACAAGCCAGTCCATTC
1 CGCCTTATGCTTAACAAGCCAGTCCATTC
58033216 C
1 C
58033217 CAAAATGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.36, G:0.14, T:0.27
Consensus pattern (29 bp):
CGCCTTATGCTTAACAAGCCAGTCCATTC
Found at i:58035160 original size:26 final size:26
Alignment explanation
Indices: 58035131--58035238 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
58035121 TGGTACAAAT
58035131 TGATAATGGGTTAGGTAAATGCTT-CA
1 TGATAATGGGTTAGGTAAATG-TTCCA
* *
58035157 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58035183 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
58035209 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58035235 TGAT
1 TGAT
58035239 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 2 0.03
26 74 0.97
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Done.