Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 43 of 770
Found at i:12228493 original size:18 final size:18
Alignment explanation
Indices: 12228466--12228507 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
12228456 GACAAATCTT
* *
12228466 AAAATCTTTAATAGTTTC
1 AAAATTTTTAACAGTTTC
12228484 AAAATTTTTAACAGTTTC
1 AAAATTTTTAACAGTTTC
12228502 AAAATT
1 AAAATT
12228508 AAAGGTACAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.43
Consensus pattern (18 bp):
AAAATTTTTAACAGTTTC
Found at i:12241740 original size:34 final size:34
Alignment explanation
Indices: 12241697--12241765 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
12241687 ACATCGACTC
*
12241697 TACCACGAGAATAAAACATGAAAGAGAGGGGTGT
1 TACCACGAGAATAAAACACGAAAGAGAGGGGTGT
12241731 TACCACGAGAATAAAACACGAAAGAGAGGGGTGT
1 TACCACGAGAATAAAACACGAAAGAGAGGGGTGT
12241765 T
1 T
12241766 TTAGTCTGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.43, C:0.13, G:0.29, T:0.14
Consensus pattern (34 bp):
TACCACGAGAATAAAACACGAAAGAGAGGGGTGT
Found at i:12243558 original size:45 final size:45
Alignment explanation
Indices: 12243509--12243741 Score: 272
Period size: 45 Copynumber: 5.2 Consensus size: 45
12243499 TACTAGAAAT
* * * *
12243509 GAGTAAAACCATGATTGAAAGACATTATGACATCATGATTCTATA
1 GAGTAAGACCATGACTGAAAGACATTATGGCATCATGATTCTATC
* * * * * *
12243554 GAGTAAGGCTAGGACTAAAAGACATTATGGCATCATGACTCCATC
1 GAGTAAGACCATGACTGAAAGACATTATGGCATCATGATTCTATC
* * *
12243599 GAGTAAGACCATAACTGAAAGACGTTATGGCATCACGA--CTATC
1 GAGTAAGACCATGACTGAAAGACATTATGGCATCATGATTCTATC
* * *
12243642 GAGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTCTATC
1 GAGTAAGACCATGACTGAAAGACATTATGGCATCATGATTCTATC
** * *
12243687 GAGTAAGACCATGACTGAAAGATTTTATGGCATCATAATTCTATT
1 GAGTAAGACCATGACTGAAAGACATTATGGCATCATGATTCTATC
12243732 GAGTAAGACC
1 GAGTAAGACC
12243742 TTAGTTAAAG
Statistics
Matches: 160, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
43 40 0.25
45 120 0.75
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (45 bp):
GAGTAAGACCATGACTGAAAGACATTATGGCATCATGATTCTATC
Found at i:12243676 original size:88 final size:89
Alignment explanation
Indices: 12243509--12243741 Score: 270
Period size: 88 Copynumber: 2.6 Consensus size: 89
12243499 TACTAGAAAT
* * * * * *
12243509 GAGTAAAACCATGATTGAAAGACATTATGACATCATGATTCTATAGAGTAAGGCTAGGACTAAAA
1 GAGTAAGACCATGACTGAAAGACATTATGGCATCACGA-TCTATAGAGTAAGACCAGGACTAAAA
*
12243574 GACATTATGGCATCATGACTCCATC
65 GACATTATGGCATCACGACTCCATC
* * * *
12243599 GAGTAAGACCATAACTGAAAGACGTTATGGCATCACGA-CTATCGAGTAAGACCATGACTAAAAG
1 GAGTAAGACCATGACTGAAAGACATTATGGCATCACGATCTATAGAGTAAGACCAGGACTAAAAG
* * *
12243663 ACGTTATGGCATCACGATTCTATC
66 ACATTATGGCATCACGACTCCATC
** ** *
12243687 GAGTAAGACCATGACTGAAAGATTTTATGGCATCATAATTCTATTGAGTAAGACC
1 GAGTAAGACCATGACTGAAAGACATTATGGCATCACGA-TCTATAGAGTAAGACC
12243742 TTAGTTAAAG
Statistics
Matches: 121, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
88 75 0.62
90 46 0.38
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (89 bp):
GAGTAAGACCATGACTGAAAGACATTATGGCATCACGATCTATAGAGTAAGACCAGGACTAAAAG
ACATTATGGCATCACGACTCCATC
Found at i:12243676 original size:133 final size:133
Alignment explanation
Indices: 12243509--12243767 Score: 313
Period size: 133 Copynumber: 1.9 Consensus size: 133
12243499 TACTAGAAAT
* * * * *
12243509 GAGTAAAACCATGATTGAAAGACATTATGACATCATGATTCTATAGAGTAAGGCTAGGACTAAAA
1 GAGTAAAACCATGACTAAAAGACATTATGACATCACGATTCTATAGAGTAAGACCAGGACTAAAA
* *
12243574 GACATTATGGCATCATGACTCCATCGAGTAAGACCATAACTGAAA-GACGTTATGGCATCACGAC
66 GACATTATGGCATCATAACTCCATCGAGTAAGACC-TAACTGAAAGGACGCTATGGCATCACGAC
12243638 TATC
130 TATC
* * * * * *
12243642 GAGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTCTATCGAGTAAGACCATGACTGAAA
1 GAGTAAAACCATGACTAAAAGACATTATGACATCACGATTCTATAGAGTAAGACCAGGACTAAAA
** * * * * * *
12243707 GATTTTATGGCATCATAATTCTATTGAGTAAGACCTTAGTTAAAGGACGCTATGGCATCAC
66 GACATTATGGCATCATAACTCCATCGAGTAAGACCTAACTGAAAGGACGCTATGGCATCAC
12243768 AAATCAAATG
Statistics
Matches: 104, Mismatches: 21, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
132 6 0.06
133 98 0.94
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (133 bp):
GAGTAAAACCATGACTAAAAGACATTATGACATCACGATTCTATAGAGTAAGACCAGGACTAAAA
GACATTATGGCATCATAACTCCATCGAGTAAGACCTAACTGAAAGGACGCTATGGCATCACGACT
ATC
Found at i:12243784 original size:45 final size:45
Alignment explanation
Indices: 12243712--12243897 Score: 144
Period size: 45 Copynumber: 4.1 Consensus size: 45
12243702 TGAAAGATTT
* * * * * * *
12243712 TATGGCATCATAATTCTATTGAGTAAGACCTTAGTT-AAAGGACGC
1 TATGGCATCACAAATCAAATGAATAAGACCATAGTTGAAA-GACAC
*
12243757 TATGGCATCACAAATCAAATGAATAAGACCATGGTTGAAAGACAC
1 TATGGCATCACAAATCAAATGAATAAGACCATAGTTGAAAGACAC
* **** * *
12243802 TATGGCAACACGACGGAAAATGAATAAAACCATGGTTGAAAGACAC
1 TATGGCATCAC-AAATCAAATGAATAAGACCATAGTTGAAAGACAC
* * *
12243848 TATGGCATCA-AGATGAGAAT-ACATAAGACCATGGTTGAAAGACAC
1 TATGGCATCACAAATCA-AATGA-ATAAGACCATAGTTGAAAGACAC
*
12243893 CATGG
1 TATGG
12243898 GACACTCTGA
Statistics
Matches: 116, Mismatches: 21, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
44 3 0.03
45 72 0.62
46 41 0.35
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.22
Consensus pattern (45 bp):
TATGGCATCACAAATCAAATGAATAAGACCATAGTTGAAAGACAC
Found at i:12243786 original size:90 final size:88
Alignment explanation
Indices: 12243516--12243808 Score: 212
Period size: 90 Copynumber: 3.3 Consensus size: 88
12243506 AATGAGTAAA
* * * * * * * * * **
12243516 ACCATGATTGAAAGACATTATGACATCATGATTCTATAGAGTAAGGCTAGGACTAAAAGACATTA
1 ACCATGACTGAAAGACGTTATGGCATCA-CA-ACTATCGAGTAAGACCATGACTAAAAGACGCTA
** * * *
12243581 TGGCATCATGACTCCATCGAGTAAG
64 TGGCATCACAAATCAATCGAATAAG
* * *
12243606 ACCATAACTGAAAGACGTTATGGCATCACGACTATCGAGTAAGACCATGACTAAAAGACGTTATG
1 ACCATGACTGAAAGACGTTATGGCATCACAACTATCGAGTAAGACCATGACTAAAAGACGCTATG
* * * *
12243671 GCATCACGATTCTATCGAGTAAG
66 GCATCACAAATCAATCGAATAAG
** * * * * *
12243694 ACCATGACTGAAAGATTTTATGGCATCATAATTCTATTGAGTAAGACC-TTAGTTAAAGGACGCT
1 ACCATGACTGAAAGACGTTATGGCATCACAA--CTATCGAGTAAGACCATGA-CTAAAAGACGCT
12243758 ATGGCATCACAAATCAAAT-GAATAAG
63 ATGGCATCACAAATC-AATCGAATAAG
** **
12243784 ACCATGGTTGAAAGACACTATGGCA
1 ACCATGACTGAAAGACGTTATGGCA
12243809 ACACGACGGA
Statistics
Matches: 165, Mismatches: 34, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
88 75 0.45
89 2 0.01
90 86 0.52
91 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.25
Consensus pattern (88 bp):
ACCATGACTGAAAGACGTTATGGCATCACAACTATCGAGTAAGACCATGACTAAAAGACGCTATG
GCATCACAAATCAATCGAATAAG
Found at i:12243834 original size:46 final size:45
Alignment explanation
Indices: 12243773--12243897 Score: 171
Period size: 46 Copynumber: 2.8 Consensus size: 45
12243763 ATCACAAATC
*
12243773 AAATGAATAAGACCATGGTTGAAAGACACTATGGCAACACGACGGA
1 AAATGAATAAGACCATGGTTGAAAGACACTATGGCAACAAGA-GGA
* * *
12243819 AAATGAATAAAACCATGGTTGAAAGACACTATGGCATCAAGATGA
1 AAATGAATAAGACCATGGTTGAAAGACACTATGGCAACAAGAGGA
* *
12243864 GAAT-ACATAAGACCATGGTTGAAAGACACCATGG
1 AAATGA-ATAAGACCATGGTTGAAAGACACTATGG
12243898 GACACTCTGA
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
44 1 0.01
45 31 0.44
46 39 0.55
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.18
Consensus pattern (45 bp):
AAATGAATAAGACCATGGTTGAAAGACACTATGGCAACAAGAGGA
Found at i:12244785 original size:20 final size:20
Alignment explanation
Indices: 12244760--12244813 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
12244750 TATTTAAGCT
12244760 AAAGTAAGTAAATGCAATGA
1 AAAGTAAGTAAATGCAATGA
*
12244780 AAAGTAAGTAAATGCAATGG
1 AAAGTAAGTAAATGCAATGA
12244800 AAAGTAAGTAAATG
1 AAAGTAAGTAAATG
12244814 GAAGGGTTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.54, C:0.04, G:0.22, T:0.20
Consensus pattern (20 bp):
AAAGTAAGTAAATGCAATGA
Found at i:12246311 original size:13 final size:13
Alignment explanation
Indices: 12246293--12246334 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
12246283 TAGATTTTTC
12246293 CTAAATATTATCA
1 CTAAATATTATCA
12246306 CTAAATATT-T--
1 CTAAATATTATCA
12246316 CT-AATATTATCA
1 CTAAATATTATCA
12246328 CTAAATA
1 CTAAATA
12246335 ATTTAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
9 6 0.24
10 3 0.12
12 3 0.12
13 13 0.52
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.40
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:12246930 original size:9 final size:9
Alignment explanation
Indices: 12246916--12246947 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
12246906 ATCTATATAC
12246916 TTTTTTATT
1 TTTTTTATT
*
12246925 TTTTTTGTT
1 TTTTTTATT
12246934 TTTTTTATT
1 TTTTTTATT
12246943 TTTTT
1 TTTTT
12246948 CAAACATAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.06, C:0.00, G:0.03, T:0.91
Consensus pattern (9 bp):
TTTTTTATT
Found at i:12247832 original size:5 final size:5
Alignment explanation
Indices: 12247824--12247856 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
12247814 ACTAGAATTC
12247824 AAAAT AAAAT AAAAT -AAAT AAAAT AAAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAA
12247857 TGTGGGTTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 17 0.65
6 5 0.19
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:12247844 original size:14 final size:15
Alignment explanation
Indices: 12247825--12247857 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
12247815 CTAGAATTCA
12247825 AAATAAAAT-AAAAT
1 AAATAAAATAAAAAT
12247839 AAATAAAATAAAAAT
1 AAATAAAATAAAAAT
12247854 AAAT
1 AAAT
12247858 GTGGGTTGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATAAAATAAAAAT
Found at i:12256203 original size:53 final size:53
Alignment explanation
Indices: 12256025--12256231 Score: 198
Period size: 53 Copynumber: 3.8 Consensus size: 53
12256015 ATTAGGGTTT
* * * * * * *
12256025 AAGGATACCAAGTAAGACCATGCTAAGGCATGGCATTGGTAAGTTTTACAATGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * * *
12256079 AAGGAAATCATGTAAAACCATGACAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
** * * *
12256134 AAATATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
*
12256187 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
12256232 TAAAAAGGAA
Statistics
Matches: 119, Mismatches: 32, Indels: 5
0.76 0.21 0.03
Matches are distributed among these distances:
53 46 0.39
54 36 0.30
55 37 0.31
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:12279054 original size:29 final size:29
Alignment explanation
Indices: 12279021--12279152 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
12279011 GTGACGAGAT
12279021 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
12279050 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
12279079 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
12279108 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
12279137 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
12279153 AGTTCGGAGG
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:12280675 original size:49 final size:49
Alignment explanation
Indices: 12280603--12280787 Score: 325
Period size: 49 Copynumber: 3.8 Consensus size: 49
12280593 GGGTGTTACA
12280603 GAACGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGT
1 GAACGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGT
* *
12280652 GAACGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCTGATGTGAT
1 GAACGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGT
* *
12280701 GAACGTGAAAGTGTATGTATGTGTGATGAGGCCTAATGGCCGATGAGGT
1 GAACGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGT
*
12280750 GAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATG
1 GAACGTGAAAGTGTATGTATATGTGATGAGGCCTAATG
12280788 ATCAATGTAA
Statistics
Matches: 128, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 128 1.00
ACGTcount: A:0.28, C:0.09, G:0.34, T:0.29
Consensus pattern (49 bp):
GAACGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGT
Found at i:12280942 original size:37 final size:37
Alignment explanation
Indices: 12280891--12281006 Score: 196
Period size: 37 Copynumber: 3.1 Consensus size: 37
12280881 GGAATATGTT
*
12280891 CCGGGCGAGACCCGATGACTACGTGTGAAGATTATGA
1 CCGGGCGAGACCCGATGACTACGTGTGGAGATTATGA
*
12280928 TCGGGCGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGCGAGACCCGATGACTACGTGTGGAGATTATGA
**
12280965 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGCGAGACCCGATGACTACGTGTGGAGATTATGA
12281002 CCGGG
1 CCGGG
12281007 TAAGACTTCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 74 1.00
ACGTcount: A:0.25, C:0.21, G:0.34, T:0.20
Consensus pattern (37 bp):
CCGGGCGAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:12280958 original size:21 final size:21
Alignment explanation
Indices: 12280934--12280995 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
12280924 ATGATCGGGC
12280934 GAGACCCGATGACTACGTGTG
1 GAGACCCGATGACTACGTGTG
** *
12280955 GAGA--TTATGAC--CGGGT-
1 GAGACCCGATGACTACGTGTG
*
12280971 AAGACCCGATGACTACGTGTG
1 GAGACCCGATGACTACGTGTG
12280992 GAGA
1 GAGA
12280996 TTATGACCGG
Statistics
Matches: 28, Mismatches: 8, Indels: 10
0.61 0.17 0.22
Matches are distributed among these distances:
16 3 0.11
17 4 0.14
18 5 0.18
19 5 0.18
20 4 0.14
21 7 0.25
ACGTcount: A:0.27, C:0.19, G:0.34, T:0.19
Consensus pattern (21 bp):
GAGACCCGATGACTACGTGTG
Found at i:12283094 original size:29 final size:29
Alignment explanation
Indices: 12283062--12283193 Score: 228
Period size: 29 Copynumber: 4.6 Consensus size: 29
12283052 CGTTAACCGA
12283062 GCACTATGTGTGCGAGATCAGTAATCGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
12283091 GCACTATGTGTGCGAGATCAGTAATCGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
* *
12283120 GCACTATGTGTGCGAAATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
*
12283149 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
*
12283178 GCACTGTGTGTGCGAG
1 GCACTATGTGTGCGAG
12283194 TTTTTCAACA
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 99 1.00
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATCAGTAATCGAG
Found at i:12283102 original size:58 final size:58
Alignment explanation
Indices: 12283030--12283192 Score: 204
Period size: 58 Copynumber: 2.8 Consensus size: 58
12283020 CGAATGATCA
* * *
12283030 GAGGCACTGTGTGTGC-AAATTCCGTTAACCGA-GCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAAA-TCAG-TAACCGAGGCACTATGTGTGCGAAATCAGTAATC
* * *
12283088 GAGGCACTATGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAAATCAGTAATT
1 GAGGCACTATGTGTGCGAAATCAGTAACCGAGGCACTATGTGTGCGAAATCAGTAATC
* ** *
12283146 GAGGCACTATGTGTGCGAGATCAGTAATTGAGGCACTGTGTGTGCGA
1 GAGGCACTATGTGTGCGAAATCAGTAACCGAGGCACTATGTGTGCGA
12283193 GTTTTTCAAC
Statistics
Matches: 95, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
57 6 0.06
58 87 0.92
59 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (58 bp):
GAGGCACTATGTGTGCGAAATCAGTAACCGAGGCACTATGTGTGCGAAATCAGTAATC
Found at i:12283130 original size:87 final size:87
Alignment explanation
Indices: 12283030--12283193 Score: 242
Period size: 87 Copynumber: 1.9 Consensus size: 87
12283020 CGAATGATCA
* *
12283030 GAGGCACTGTGTGTGC-AAATTCCGTTAACCGA-GCACTATGTGTGCGAGATCAGTAATCGAGGC
1 GAGGCACTATGTGTGCGAAA-TCAG-TAACCGAGGCACTATGTGTGCGAGATCAGTAATCGAGGC
12283093 ACTATGTGTGCGAGATCAGTAATC
64 ACTATGTGTGCGAGATCAGTAATC
** *
12283117 GAGGCACTATGTGTGCGAAATCAGTAATTGAGGCACTATGTGTGCGAGATCAGTAATTGAGGCAC
1 GAGGCACTATGTGTGCGAAATCAGTAACCGAGGCACTATGTGTGCGAGATCAGTAATCGAGGCAC
*
12283182 TGTGTGTGCGAG
66 TATGTGTGCGAG
12283194 TTTTTCAACA
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
86 5 0.07
87 61 0.88
88 3 0.04
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (87 bp):
GAGGCACTATGTGTGCGAAATCAGTAACCGAGGCACTATGTGTGCGAGATCAGTAATCGAGGCAC
TATGTGTGCGAGATCAGTAATC
Found at i:12286758 original size:49 final size:49
Alignment explanation
Indices: 12286694--12286906 Score: 390
Period size: 49 Copynumber: 4.3 Consensus size: 49
12286684 TACATATATG
12286694 TGTGATGAGGCCTAATGGCCGATGTGGTGAACGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAACGTGAAAGTGTATGTATA
12286743 TGTGATGAGGCCTAATGGCCGATGTGGTGAACGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAACGTGAAAGTGTATGTATA
* *
12286792 TGTGATGAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATG
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAACGTGAAAGTGTATGTATA
* *
12286841 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATTTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAACGTGAAAGTGTATGTATA
12286890 TGTGATGAGGCCTAATG
1 TGTGATGAGGCCTAATG
12286907 ACCAATGTAA
Statistics
Matches: 158, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 158 1.00
ACGTcount: A:0.26, C:0.10, G:0.34, T:0.30
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGGTGAACGTGAAAGTGTATGTATA
Found at i:12287060 original size:37 final size:37
Alignment explanation
Indices: 12287017--12287094 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
12287007 GTTCCGGGCG
12287017 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
12287054 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
12287091 AGAC
1 AGAC
12287095 TTCTTTTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.28, C:0.19, G:0.32, T:0.21
Consensus pattern (37 bp):
AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
Found at i:12289550 original size:35 final size:34
Alignment explanation
Indices: 12289511--12289604 Score: 106
Period size: 33 Copynumber: 2.8 Consensus size: 34
12289501 CAATCGGCTG
*
12289511 CATGTGAGGTTATATTGAACTTGTGTATTC-GATTA
1 CATGTGAGATTATATTGAA-TTGTGTATTCAG-TTA
*
12289546 CATGTGA-ACTTCTATTGAATT-TGTATTCAGTTA
1 CATGTGAGA-TTATATTGAATTGTGTATTCAGTTA
*
12289579 CATGCGAGATTATATTGAATT-TGTAT
1 CATGTGAGATTATATTGAATTGTGTAT
12289605 ATTTGGCCAT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
33 32 0.62
34 4 0.08
35 16 0.31
ACGTcount: A:0.28, C:0.10, G:0.19, T:0.44
Consensus pattern (34 bp):
CATGTGAGATTATATTGAATTGTGTATTCAGTTA
Found at i:12306610 original size:35 final size:35
Alignment explanation
Indices: 12306570--12306702 Score: 160
Period size: 35 Copynumber: 3.8 Consensus size: 35
12306560 AGGTAAGTAT
** *
12306570 ATGTGAGGTTATATTGAAGC-TGTATATTCGGCTGC
1 ATGTGAGGTTATATTGAA-CTTGTATATTCGATTAC
* *
12306605 ATGTGAGGTTATATTAAACTTGTGTATTCGATTAC
1 ATGTGAGGTTATATTGAACTTGTATATTCGATTAC
* * *
12306640 ATGTGAGCTTATATTGAACTTGTATTTTCGTTTAC
1 ATGTGAGGTTATATTGAACTTGTATATTCGATTAC
* *
12306675 ATGTGAGATTATATTGAATTTGTATATT
1 ATGTGAGGTTATATTGAACTTGTATATT
12306703 TGGCCTTATA
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
34 1 0.01
35 83 0.99
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.44
Consensus pattern (35 bp):
ATGTGAGGTTATATTGAACTTGTATATTCGATTAC
Found at i:12308132 original size:31 final size:31
Alignment explanation
Indices: 12308094--12308157 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
12308084 CCCTTTCATA
*
12308094 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
**
12308125 TTTCATATTTCATATTACTAGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
12308156 TT
1 TT
12308158 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCGAAGCCT
Found at i:12308415 original size:23 final size:24
Alignment explanation
Indices: 12308365--12308467 Score: 158
Period size: 23 Copynumber: 4.4 Consensus size: 24
12308355 CTGGAGGCCT
*
12308365 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
12308390 AGCCCTTTTAATAACT-GGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
12308413 AGCCC-TTTAATAACTAGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
12308436 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
12308459 AGCCCTTTT
1 AGCCCTTTT
12308468 CACTTCCTCC
Statistics
Matches: 74, Mismatches: 2, Indels: 5
0.91 0.02 0.06
Matches are distributed among these distances:
22 10 0.14
23 45 0.61
24 15 0.20
25 4 0.05
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:12312450 original size:48 final size:48
Alignment explanation
Indices: 12312350--12312454 Score: 140
Period size: 48 Copynumber: 2.2 Consensus size: 48
12312340 GTGTGAGCTT
* * *
12312350 CATTAATTTGGCTTCATGCCATGATATTAGCACTTCGGGTGCAAGTTT
1 CATTGATTTAGCTTCATGCCATGATATTAGCACTTCGGGTGCAAGTTA
* * *
12312398 CATTGATTTAGCTTCGA-GCCATGATATTAGCACTTTGGTTGCGAGTTA
1 CATTGATTTAGCTTC-ATGCCATGATATTAGCACTTCGGGTGCAAGTTA
12312446 CATTGATTT
1 CATTGATTT
12312455 TGGGTTTGGG
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
48 49 0.98
49 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (48 bp):
CATTGATTTAGCTTCATGCCATGATATTAGCACTTCGGGTGCAAGTTA
Found at i:12315992 original size:20 final size:20
Alignment explanation
Indices: 12315967--12316004 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12315957 GACTAAACAG
12315967 AGAACTTTAG-AAATTTTTAC
1 AGAAC-TTAGAAAATTTTTAC
12315987 AGAACTTAGAAAATTTTT
1 AGAACTTAGAAAATTTTT
12316005 CCACTAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (20 bp):
AGAACTTAGAAAATTTTTAC
Found at i:12317565 original size:93 final size:96
Alignment explanation
Indices: 12317401--12317676 Score: 305
Period size: 93 Copynumber: 2.9 Consensus size: 96
12317391 ACATTTGGGT
* * * *
12317401 GATGTGTGTGTCAGTGTAAGACTTGTCTGGGACACAGG-ATCGACACAGAAAAGTGAGAGCCAGT
1 GATGTGTGTGTCAGTGTAAGACCTGTCTGGGACA-TGGCATCGACACAGATAAGTGAGAGCTAGT
* * * *
12317465 GCAAGACCTGTCTTGGACATGGCA-TCGGCTT
65 GTAAGACCTGTCTTGGACATGGCACTAGCCTC
* * *
12317496 GA-G-GTGTGTTAGTGTAAGACCTATCTGGGACATGGCTTCGACACAGATAAGTGAGAGCTAGTG
1 GATGTGTGTGTCAGTGTAAGACCTGTCTGGGACATGGCATCGACACAGATAAGTGAGAGCTAGTG
*
12317559 TAAGACCTGTCTGGGACATGGCACTAGCCTC
66 TAAGACCTGTCTTGGACATGGCACTAGCCTC
* * * **
12317590 GATGTATGTAAGTCAATGTAAGACCTGTGTGGGACATGGCATCGACTTAGAT--GTGAGAGCTAG
1 GATGTGTGT--GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACACAGATAAGTGAGAGCTAG
12317653 TGTAAGACCATGT-TTGGAACATGG
64 TGTAAGACC-TGTCTTGG-ACATGG
12317677 TGTCAGCATC
Statistics
Matches: 152, Mismatches: 21, Indels: 14
0.81 0.11 0.07
Matches are distributed among these distances:
92 2 0.01
93 71 0.47
94 7 0.05
95 3 0.02
96 26 0.17
97 9 0.06
98 34 0.22
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (96 bp):
GATGTGTGTGTCAGTGTAAGACCTGTCTGGGACATGGCATCGACACAGATAAGTGAGAGCTAGTG
TAAGACCTGTCTTGGACATGGCACTAGCCTC
Found at i:12322613 original size:28 final size:27
Alignment explanation
Indices: 12322582--12322715 Score: 133
Period size: 29 Copynumber: 4.7 Consensus size: 27
12322572 ACATACCTGC
*
12322582 ATATGGCCCACTAGGCCCAATCTCATTT
1 ATATGGCCCATTAGGCCCAAT-TCATTT
* * *
12322610 ATATGGCCCATTCGGCCTAATTCACGTTC
1 ATATGGCCCATTAGGCCCAATTCA--TTT
** *
12322639 ATATAACCCATCAGGCCCAATTCATATT
1 ATATGGCCCATTAGGCCCAATTCAT-TT
12322667 CATATGGCCCATTAGGCCCAATCTCATTT
1 -ATATGGCCCATTAGGCCCAAT-TCATTT
**
12322696 ATATGGCCCATCCGGCCCAA
1 ATATGGCCCATTAGGCCCAA
12322716 ATCACATTAT
Statistics
Matches: 86, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
27 4 0.05
28 37 0.43
29 41 0.48
30 4 0.05
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.28
Consensus pattern (27 bp):
ATATGGCCCATTAGGCCCAATTCATTT
Found at i:12322648 original size:29 final size:29
Alignment explanation
Indices: 12322623--12322727 Score: 88
Period size: 29 Copynumber: 3.7 Consensus size: 29
12322613 TGGCCCATTC
* *
12322623 GGCCTAATTCACGTTCATATAACCCATCA
1 GGCCCAATTCACATTCATATAACCCATCA
* ** *
12322652 GGCCCAATTCATATTCATATGGCCCATTA
1 GGCCCAATTCACATTCATATAACCCATCA
* * ** *
12322681 GGCCCAA-TCTCATTTATATGGCCCATCC
1 GGCCCAATTCACATTCATATAACCCATCA
*
12322709 GGCCCAAATCACATT-ATAT
1 GGCCCAATTCACATTCATAT
12322728 TCATGCTCAC
Statistics
Matches: 63, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
28 27 0.43
29 36 0.57
ACGTcount: A:0.29, C:0.30, G:0.12, T:0.29
Consensus pattern (29 bp):
GGCCCAATTCACATTCATATAACCCATCA
Found at i:12325298 original size:40 final size:40
Alignment explanation
Indices: 12325148--12325315 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
12325138 CGGAATACAA
* * *
12325148 CCGGATATAACCA-CATGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAATCACCA-GCACAAATGCCTTCGGGTCTTAGC
* ** *
12325188 CCGGATAGAA-CGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATC-ACCAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
12325228 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
** * * *
12325268 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
12325308 CCGGATAT
1 CCGGATAT
12325316 CATTCAATTG
Statistics
Matches: 104, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 102 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
Found at i:12326575 original size:18 final size:18
Alignment explanation
Indices: 12326554--12326591 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
12326544 ACTTTTCTTC
* *
12326554 CTTTCTTTTTTTTTTTTT
1 CTTTCTTTGTTTTTGTTT
12326572 CTTTCTTTGTTTTTGTTT
1 CTTTCTTTGTTTTTGTTT
12326590 CT
1 CT
12326592 CTCATGTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (18 bp):
CTTTCTTTGTTTTTGTTT
Found at i:12333342 original size:40 final size:40
Alignment explanation
Indices: 12333192--12333359 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
12333182 CGGAATACAA
* * *
12333192 CCGGATATAACCA-CATGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAATCACCA-GCACAAATGCCTTCGGGTCTTAGC
* ** *
12333232 CCGGATAGAA-CGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATC-ACCAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
12333272 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
** * * *
12333312 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
12333352 CCGGATAT
1 CCGGATAT
12333360 CATTCAATTG
Statistics
Matches: 104, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 102 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
Found at i:12334618 original size:17 final size:18
Alignment explanation
Indices: 12334598--12334634 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
12334588 ACTTTTCTTC
*
12334598 CTTTCTTT-TTTTTTTTT
1 CTTTCTTTGTTTTTGTTT
12334615 CTTTCTTTGTTTTTGTTT
1 CTTTCTTTGTTTTTGTTT
12334633 CT
1 CT
12334635 CTCATGTACG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.81
Consensus pattern (18 bp):
CTTTCTTTGTTTTTGTTT
Found at i:12345678 original size:29 final size:29
Alignment explanation
Indices: 12345616--12345718 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
12345606 GTGACGAGAT
* * *
12345616 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
12345645 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * **
12345674 TGGCACTATGTGTGCGGGCTT-GAATCACG
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
12345703 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
12345719 TGATTGAGTA
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
28 3 0.05
29 56 0.95
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:12348962 original size:51 final size:51
Alignment explanation
Indices: 12348896--12348995 Score: 128
Period size: 51 Copynumber: 2.0 Consensus size: 51
12348886 TGGATACAAG
** *
12348896 CATCCGAGCTCGTTGAGTGGTCCGAGTTCATAATGGATGCGATACATGTAA
1 CATCCGAGCTCGTTGAGAAGTCCGAGCTCATAATGGATGCGATACATGTAA
* * * * *
12348947 CATCTGAGCTTGTTGAGAAGTCCGAGCTCATTATGGATGTGTTACATGT
1 CATCCGAGCTCGTTGAGAAGTCCGAGCTCATAATGGATGCGATACATGT
12348996 TATAAGGTAG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (51 bp):
CATCCGAGCTCGTTGAGAAGTCCGAGCTCATAATGGATGCGATACATGTAA
Found at i:12359977 original size:28 final size:28
Alignment explanation
Indices: 12359909--12360006 Score: 119
Period size: 27 Copynumber: 3.5 Consensus size: 28
12359899 ATAATAAGCC
*
12359909 CGCACACTTAGTGCT-TAATAGTCGAACT
1 CGCACACTTAGTGCTAT-ATAATCGAACT
*
12359937 C-CACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCGAACT
* * *
12359964 CGCACACTTAGTGCTATACAATTTGAACC
1 CGCACACTTAGTGCTATATAA-TCGAACT
12359993 CGCACACTTAGTGC
1 CGCACACTTAGTGC
12360007 CAATCTCATG
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
27 23 0.38
28 20 0.33
29 18 0.30
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCGAACT
Found at i:12370139 original size:28 final size:29
Alignment explanation
Indices: 12370107--12370205 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
12370097 ATAATAAGCC
*
12370107 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
12370135 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
12370163 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
12370192 CGCACACTTAGTGC
1 CGCACACTTAGTGC
12370206 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:12376477 original size:20 final size:21
Alignment explanation
Indices: 12376441--12376479 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12376431 GTGTAAATGT
12376441 AGTAACATAATTGTTATTTTA
1 AGTAACATAATTGTTATTTTA
*
12376462 AGTAACTTAA-TGTTATTT
1 AGTAACATAATTGTTATTT
12376480 ATATGATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.49
Consensus pattern (21 bp):
AGTAACATAATTGTTATTTTA
Found at i:12378214 original size:59 final size:59
Alignment explanation
Indices: 12378147--12378264 Score: 218
Period size: 59 Copynumber: 2.0 Consensus size: 59
12378137 CGGGTAAGGG
12378147 GGTGTTACATGTTTAGCCATAAGATGTGGCTCGCATAGGTTATGGCTTGTAAGCCTATT
1 GGTGTTACATGTTTAGCCATAAGATGTGGCTCGCATAGGTTATGGCTTGTAAGCCTATT
* *
12378206 GGTGTTACATGTTTAGCCATGAGATGTGGCTTGCATAGGTTATGGCTTGTAAGCCTATT
1 GGTGTTACATGTTTAGCCATAAGATGTGGCTCGCATAGGTTATGGCTTGTAAGCCTATT
12378265 TATCCAAGCT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.21, C:0.14, G:0.28, T:0.36
Consensus pattern (59 bp):
GGTGTTACATGTTTAGCCATAAGATGTGGCTCGCATAGGTTATGGCTTGTAAGCCTATT
Found at i:12380713 original size:15 final size:15
Alignment explanation
Indices: 12380690--12380732 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
12380680 GTACGATATC
* *
12380690 GTATATTGGGTTTCT
1 GTATCTTGGATTTCT
12380705 GTATCTTGGATTTCT
1 GTATCTTGGATTTCT
12380720 -TCATCTTGGATTT
1 GT-ATCTTGGATTT
12380733 TTCTGTCTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 1 0.04
15 24 0.96
ACGTcount: A:0.14, C:0.12, G:0.21, T:0.53
Consensus pattern (15 bp):
GTATCTTGGATTTCT
Found at i:12380741 original size:15 final size:15
Alignment explanation
Indices: 12380707--12380750 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
12380697 GGGTTTCTGT
12380707 ATCTTGGATTTCTTC
1 ATCTTGGATTTCTTC
12380722 ATCTTGGATTT-TTC
1 ATCTTGGATTTCTTC
* *
12380736 TGTCTTGGGTTTCTT
1 -ATCTTGGATTTCTT
12380751 TATTTTTGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 3 0.12
15 20 0.80
16 2 0.08
ACGTcount: A:0.09, C:0.16, G:0.18, T:0.57
Consensus pattern (15 bp):
ATCTTGGATTTCTTC
Found at i:12381297 original size:23 final size:23
Alignment explanation
Indices: 12381270--12381316 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
12381260 AATAGTCTGA
12381270 ATGAAAAGTGTATATTTCCTAGC
1 ATGAAAAGTGTATATTTCCTAGC
12381293 ATGAAAAGTGTATATTTCCTAGC
1 ATGAAAAGTGTATATTTCCTAGC
12381316 A
1 A
12381317 GACTTTGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (23 bp):
ATGAAAAGTGTATATTTCCTAGC
Found at i:12383922 original size:42 final size:43
Alignment explanation
Indices: 12383849--12383961 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 43
12383839 CCGAACTTGC
* * * ** *
12383849 TGAGTGGTCCAAGTTCGTGATATATGT-AGCATCTGAGCTCGT
1 TGAGTGGTCCGAGTTCATAATGGATGTGAGCATCTAAGCTCGT
* *
12383891 TGAGTGGT-CGAGTTCATTATGGATGTGAGCATCTAAGCTTGT
1 TGAGTGGTCCGAGTTCATAATGGATGTGAGCATCTAAGCTCGT
*
12383933 TTAGTGGTCCGAGTTCATAATGGATGTGA
1 TGAGTGGTCCGAGTTCATAATGGATGTGA
12383962 TACATGTAAC
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
41 13 0.22
42 28 0.47
43 19 0.32
ACGTcount: A:0.22, C:0.13, G:0.30, T:0.35
Consensus pattern (43 bp):
TGAGTGGTCCGAGTTCATAATGGATGTGAGCATCTAAGCTCGT
Found at i:12385026 original size:27 final size:27
Alignment explanation
Indices: 12384994--12385200 Score: 254
Period size: 27 Copynumber: 7.7 Consensus size: 27
12384984 TTAGAATACT
* *
12384994 TTGGTTTACAAAATTACCAAAATACCC
1 TTGGTTTATAAAATTACTAAAATACCC
* * *
12385021 CTGGTTTGTAAAATTACTAGAATACCC
1 TTGGTTTATAAAATTACTAAAATACCC
12385048 TTGGTTTATAAAA-TACTAAAATACCC
1 TTGGTTTATAAAATTACTAAAATACCC
* *
12385074 TTGGTTTACAAAATTACCAAAATACCC
1 TTGGTTTATAAAATTACTAAAATACCC
*
12385101 TTGGTTTGTAAAATTACTAAAATACCC
1 TTGGTTTATAAAATTACTAAAATACCC
* *
12385128 TTTGTTTATAAAATTACAAAAATACCC
1 TTGGTTTATAAAATTACTAAAATACCC
* * * *
12385155 CTGGTTTGTAAAATTACGAAAGTACCC
1 TTGGTTTATAAAATTACTAAAATACCC
* * *
12385182 TCGATTTATAGAATTACTA
1 TTGGTTTATAAAATTACTA
12385201 TTTTACTCTT
Statistics
Matches: 152, Mismatches: 27, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 24 0.16
27 128 0.84
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (27 bp):
TTGGTTTATAAAATTACTAAAATACCC
Found at i:12385127 original size:80 final size:81
Alignment explanation
Indices: 12384994--12385200 Score: 290
Period size: 80 Copynumber: 2.6 Consensus size: 81
12384984 TTAGAATACT
* *
12384994 TTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAGAATACCCTTGGTTTATAA
1 TTGGTTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAA
*
12385059 AA-TACTAAAATACCC
66 AATTACAAAAATACCC
*
12385074 TTGGTTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAA
1 TTGGTTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAA
12385139 AATTACAAAAATACCC
66 AATTACAAAAATACCC
* ** * * * * * *
12385155 CTGGTTTGTAAAATTACGAAAGTACCCTCGATTTATAGAATTACTA
1 TTGGTTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACTA
12385201 TTTTACTCTT
Statistics
Matches: 113, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 64 0.57
81 49 0.43
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (81 bp):
TTGGTTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAA
AATTACAAAAATACCC
Found at i:12385214 original size:27 final size:27
Alignment explanation
Indices: 12385177--12385251 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 27
12385167 ATTACGAAAG
*
12385177 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* * *
12385204 TACTCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
*
12385231 TACCCTCGATTTACAAAATTA
1 TACCCTCGATTTACAGAATTA
12385252 TTGAAATACA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:12385363 original size:27 final size:27
Alignment explanation
Indices: 12385322--12385438 Score: 114
Period size: 27 Copynumber: 4.3 Consensus size: 27
12385312 CCAAATCACC
* *
12385322 AAAATACCC-CTAGTTTGTTAAATGACT
1 AAAATACCCTC-AGTTTGTAAAATTACT
* *
12385349 AAAATACCTTCAGTTTGCAAAATTACT
1 AAAATACCCTCAGTTTGTAAAATTACT
*
12385376 GAAATACCCTC-GATTTGTAAAATTACT
1 AAAATACCCTCAG-TTTGTAAAATTACT
* *
12385403 AAAATACCCTC-GACTTGTAAAATTACC
1 AAAATACCCTCAG-TTTGTAAAATTACT
*
12385430 AAAGTACCC
1 AAAATACCC
12385439 CCGATTCATA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.01
27 75 0.97
28 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAAATACCCTCAGTTTGTAAAATTACT
Found at i:12385500 original size:230 final size:230
Alignment explanation
Indices: 12385077--12385502 Score: 559
Period size: 230 Copynumber: 1.9 Consensus size: 230
12385067 AATACCCTTG
* * * * * *
12385077 GTTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAAT
1 GTTTACAAAATCACCAAAATACCCCTAGTTTGTAAAATGACTAAAATACCCTTAGTTTACAAAAT
* * * * * ***
12385142 TACAAAAATACCCCTGGTTTGTAAAATTACGAAAGTACCCTCGATTTATAGAATTACTATTTTAC
66 TACAAAAATACCCCTGATTTGTAAAATTACGAAAATACCCTCGACTTATAAAATTACCAAAGTAC
* ** * * *
12385207 TCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTATTGAAATACACTTGTAGGGT
131 CCCCGATTCACAGAATTACCGTTTTACCCTCGATTTACAAAATTATTGAAATACACCTGTAGGGT
12385272 AAAAATACCGAAATGCCCCTATTTAGAATACTTTA
196 AAAAATACCGAAATGCCCCTATTTAGAATACTTTA
* * *
12385307 GTTTACCAAATCACCAAAATACCCCTAGTTTGTTAAATGACTAAAATA-CCTTCAGTTTGCAAAA
1 GTTTACAAAATCACCAAAATACCCCTAGTTTGTAAAATGACTAAAATACCCTT-AGTTTACAAAA
** * *
12385371 TTACTGAAATA-CCCTCGATTTGTAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGT
65 TTACAAAAATACCCCT-GATTTGTAAAATTACGAAAATACCCTCGACTTATAAAATTACCAAAGT
* *
12385435 ACCCCCGATTCATAGAATTACCGTTTTACCCTCGATTTACAAAATTATTGAAATAGACCTGTAGG
129 ACCCCCGATTCACAGAATTACCGTTTTACCCTCGATTTACAAAATTATTGAAATACACCTGTAGG
12385500 GTA
194 GTA
12385503 GAATTACCAA
Statistics
Matches: 165, Mismatches: 29, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
229 8 0.05
230 157 0.95
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (230 bp):
GTTTACAAAATCACCAAAATACCCCTAGTTTGTAAAATGACTAAAATACCCTTAGTTTACAAAAT
TACAAAAATACCCCTGATTTGTAAAATTACGAAAATACCCTCGACTTATAAAATTACCAAAGTAC
CCCCGATTCACAGAATTACCGTTTTACCCTCGATTTACAAAATTATTGAAATACACCTGTAGGGT
AAAAATACCGAAATGCCCCTATTTAGAATACTTTA
Found at i:12385507 original size:27 final size:27
Alignment explanation
Indices: 12385492--12385857 Score: 439
Period size: 27 Copynumber: 13.6 Consensus size: 27
12385482 TTGAAATAGA
*
12385492 CCTGTAGGGTAGAATTACCAAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
* *
12385519 CTTATAGGGTAGAATTACCGAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
* * **
12385546 CCTATAAGGTAGAATTACTAAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
* *
12385573 CTTGTAGGGTAGAAATACCGAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
* * * * *
12385600 CTTATAGGGTAGAAATGCCGAAATACT
1 CCTGTAGGGTAGAATTACCGAAATACC
** **
12385627 TTTGTAGGGTAGAATTACTAAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
* * *
12385654 CTTGTAAGGTAGAATTACTG-AATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
* **
12385680 CCTGTAGTGTAGAATTACTAAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
* *
12385707 CTTGTAGGGTAGAATTATCGAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
* *
12385734 CCTGTAGGGTAGAATTATCGCAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
* *
12385761 CCTGTAGGGTAGAATTATCGCAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
12385788 CCTGTAGGGTAGAATTACCGAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
*
12385815 CCTGTAGGGTAGAATTACTGAAATA-C
1 CCTGTAGGGTAGAATTACCGAAATACC
12385841 CCTGTAGGGTAGAATTA
1 CCTGTAGGGTAGAATTA
12385858 TCGATAGGGT
Statistics
Matches: 298, Mismatches: 40, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
26 40 0.13
27 258 0.87
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
CCTGTAGGGTAGAATTACCGAAATACC
Found at i:12385535 original size:54 final size:53
Alignment explanation
Indices: 12385492--12386037 Score: 601
Period size: 54 Copynumber: 10.4 Consensus size: 53
12385482 TTGAAATAGA
* * *
12385492 CCTGTAGGGTAGAATTACCAAAATACCCTTATAGGGTAGAATTACCGAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATA-C
* * ** * *
12385546 CCTATAAGGTAGAATTACTAAAATACCCTTGTAGGGTAGAAATACCGAAATAC
1 CCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATAC
* * * *** **
12385599 CCTTATAGGGTAGAAATGCCGAAATACTTTTGTAGGGTAGAATTACTAAAATAC
1 CC-TGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATAC
* * * **
12385653 CCTTGTAAGGTAGAATTACTG-AATACCCCTGTAGTGTAGAATTACTAAAATAC
1 CC-TGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATAC
* * *
12385706 CCTTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTATCGCAATACC
1 CC-TGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATA-C
* *
12385761 CCTGTAGGGTAGAATTATCGCAATACCCCTGTAGGGTAGAATTACCGAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATA-C
* *
12385815 CCTGTAGGGTAGAATTACTGAAATA-CCCTGTAGGGTAGAATTATCG----A-
1 CCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATAC
12385862 ----TAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATA-C
* *
12385912 CCTGTAGGGTAGAATTATCGCAATACCCCTGTAGGGTAGAATTACCGAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATA-C
** * *
12385966 CCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTGGAATTACCGAGATAC
1 CCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATAC
* * *
12386019 CTTGTGGGGTAAAATTACC
1 CCTGTAGGGTAGAATTACC
12386038 ATTTTGGCCC
Statistics
Matches: 425, Mismatches: 53, Indels: 29
0.84 0.10 0.06
Matches are distributed among these distances:
43 20 0.05
44 20 0.05
48 1 0.00
49 1 0.00
53 85 0.20
54 295 0.69
55 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.26
Consensus pattern (53 bp):
CCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATAC
Found at i:12385546 original size:81 final size:80
Alignment explanation
Indices: 12385474--12385625 Score: 189
Period size: 81 Copynumber: 1.9 Consensus size: 80
12385464 CCTCGATTTA
* * *
12385474 CAAAATTATTGAAATAGACC-TGTAGGGTAGAATTACCAAAATACCCTTATAGGGTAGAATTACC
1 CAAAATTACTAAAATA-ACCTTGTAGGGTAGAAATACCAAAATACCCTTATAGGGTAGAATTACC
*
12385538 GAAATACCCCTATAAGG
65 GAAATACCCCGATAA-G
* * * * * *
12385555 TAGAATTACTAAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTATAGGGTAGAAATGCCG
1 CAAAATTACTAAAATAACCTTGTAGGGTAGAAATACCAAAATACCCTTATAGGGTAGAATTACCG
12385620 AAATAC
66 AAATAC
12385626 TTTTGTAGGG
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
80 2 0.03
81 59 0.97
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.24
Consensus pattern (80 bp):
CAAAATTACTAAAATAACCTTGTAGGGTAGAAATACCAAAATACCCTTATAGGGTAGAATTACCG
AAATACCCCGATAAG
Found at i:12385638 original size:81 final size:81
Alignment explanation
Indices: 12385492--12386037 Score: 632
Period size: 81 Copynumber: 6.9 Consensus size: 81
12385482 TTGAAATAGA
* * * * *
12385492 CCTGTAGGGTAGAATTACCAAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTATAAGGTA
1 CCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTA
**
12385557 GAATTACTAAAATACC
66 GAATTACCGAAATACC
* * * * * * ***
12385573 CTTGTAGGGTAGAAATACCGAAATACCCTTATAGGGTAGAAATGCCGAAATACTTTTGTAGGGTA
1 CCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTA
**
12385638 GAATTACTAAAATACC
66 GAATTACCGAAATACC
* * * * ** *
12385654 CTTGTAAGGTAGAATTACTG-AATACCCCTGTAGTGTAGAATTACTAAAATACCCTTGTAGGGTA
1 CCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTA
*
12385718 GAATTATCGAAATACC
66 GAATTACCGAAATACC
* * * *
12385734 CCTGTAGGGTAGAATTATCGCAATACCCCTGTAGGGTAGAATTATCGCAATACCCCTGTAGGGTA
1 CCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTA
12385799 GAATTACCGAAATACC
66 GAATTACCGAAATACC
* *
12385815 CCTGTAGGGTAGAATTACTGAAATA-CCCTGTAGGGTAGAATTATCG----A------TAGGGTA
1 CCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTA
12385869 GAATTACCGAAATACC
66 GAATTACCGAAATACC
* *
12385885 CCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGCAATACCCCTGTAGGGTA
1 CCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTA
12385950 GAATTACCGAAATACC
66 GAATTACCGAAATACC
** * * * *
12385966 CCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTGGAATTACCGAGATA-CCTTGTGGGGTA
1 CCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTA
*
12386030 AAATTACC
66 GAATTACC
12386038 ATTTTGGCCC
Statistics
Matches: 404, Mismatches: 49, Indels: 25
0.85 0.10 0.05
Matches are distributed among these distances:
70 47 0.12
71 21 0.05
75 1 0.00
76 1 0.00
80 102 0.25
81 232 0.57
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.26
Consensus pattern (81 bp):
CCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTA
GAATTACCGAAATACC
Found at i:12385881 original size:43 final size:44
Alignment explanation
Indices: 12385819--12385901 Score: 150
Period size: 43 Copynumber: 1.9 Consensus size: 44
12385809 AATACCCCTG
*
12385819 TAGGGTAGAATTACTGAAATA-CCCTGTAGGGTAGAATTATCGA
1 TAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGA
12385862 TAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTA
1 TAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTA
12385902 CCGAAATACC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
43 20 0.53
44 18 0.47
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (44 bp):
TAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGA
Found at i:12385900 original size:27 final size:27
Alignment explanation
Indices: 12385862--12386037 Score: 264
Period size: 27 Copynumber: 6.6 Consensus size: 27
12385852 GAATTATCGA
12385862 TAGGGTAGAATTACCGAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
12385889 TAGGGTAGAATTACCGAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
* *
12385916 TAGGGTAGAATTATCGCAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
12385943 TAGGGTAGAATTACCGAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
**
12385970 TAGGGTAGAATTACTAAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
* * *
12385997 TAGGGTGGAATTACCGAGATA-CCTTG
1 TAGGGTAGAATTACCGAAATACCCCTG
* *
12386023 TGGGGTAAAATTACC
1 TAGGGTAGAATTACC
12386038 ATTTTGGCCC
Statistics
Matches: 135, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
26 16 0.12
27 119 0.88
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.24
Consensus pattern (27 bp):
TAGGGTAGAATTACCGAAATACCCCTG
Found at i:12385937 original size:97 final size:98
Alignment explanation
Indices: 12385765--12385955 Score: 332
Period size: 97 Copynumber: 2.0 Consensus size: 98
12385755 AATACCCCTG
* *
12385765 TAGGGTAGAATTATCGCAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAT
1 TAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAT
12385830 TACTGAAATA-CCCTGTAGGGTAGAATTATCGA
66 TACTGAAATACCCCTGTAGGGTAGAATTATCGA
12385862 TAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAT
1 TAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAT
*
12385927 TA-TCGCAATACCCCTGTAGGGTAGAATTA
66 TACT-GAAATACCCCTGTAGGGTAGAATTA
12385956 CCGAAATACC
Statistics
Matches: 89, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
96 1 0.01
97 70 0.79
98 18 0.20
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (98 bp):
TAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAT
TACTGAAATACCCCTGTAGGGTAGAATTATCGA
Found at i:12385990 original size:151 final size:152
Alignment explanation
Indices: 12385711--12386009 Score: 546
Period size: 151 Copynumber: 2.0 Consensus size: 152
12385701 AATACCCTTG
* * *
12385711 TAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTATCGCAATACCCCTGTAGGGTAGAAT
1 TAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAT
*
12385776 TATCGCAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATA-
66 TATCGCAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATAC
12385840 CCCTGTAGGGTAGAATTATCGA
131 CCCTGTAGGGTAGAATTATCGA
12385862 TAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAT
1 TAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAT
12385927 TATCGCAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATAC
66 TATCGCAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATAC
*
12385992 CCCTGTAGGGTGGAATTA
131 CCCTGTAGGGTAGAATTA
12386010 CCGAGATACC
Statistics
Matches: 142, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
151 125 0.88
152 17 0.12
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (152 bp):
TAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAT
TATCGCAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATAC
CCCTGTAGGGTAGAATTATCGA
Found at i:12386513 original size:22 final size:22
Alignment explanation
Indices: 12386461--12386525 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
12386451 TTAAATCCTT
* *
12386461 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
12386483 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
12386505 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
12386526 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:12386766 original size:27 final size:26
Alignment explanation
Indices: 12386684--12386785 Score: 96
Period size: 27 Copynumber: 3.8 Consensus size: 26
12386674 ATTCTGTTAA
* * * *
12386684 GTGGCTTTGCCACATTATCTTTTTCTA
1 GTGGCTCTGCCACAATATC-TATTCTG
* *
12386711 GTGGCTATGCCACTAATATCTATTTTG
1 GTGGCTCTGCCAC-AATATCTATTCTG
*
12386738 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTAT-TCTG
* *
12386765 GTGACTCTGTCACAATATCTA
1 GTGGCTCTGCCACAATATCTA
12386786 ATAACCGAGC
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 8 0.13
27 49 0.79
28 5 0.08
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.39
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTATTCTG
Found at i:12386966 original size:6 final size:6
Alignment explanation
Indices: 12386951--12387009 Score: 52
Period size: 6 Copynumber: 9.8 Consensus size: 6
12386941 TTACCTAATA
* *
12386951 CTGA-T CTGATT CTGATT CTG-TCAC CTGATT CTGATT TTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT
12386999 CT-AGTT CTGAT
1 CTGA-TT CTGAT
12387010 AATGTTTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
5 6 0.14
6 33 0.75
7 4 0.09
8 1 0.02
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:12386971 original size:30 final size:31
Alignment explanation
Indices: 12386935--12387000 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 31
12386925 CTGATTTTTT
*
12386935 ATTCTGTTACCTAATACTGA-TCTGATTCTG
1 ATTCTGTCACCTAATACTGATTCTGATTCTG
* * *
12386965 ATTCTGTCACCTGATTCTGATTTTGATTCTG
1 ATTCTGTCACCTAATACTGATTCTGATTCTG
12386996 ATTCT
1 ATTCT
12387001 AGTTCTGATA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 17 0.55
31 14 0.45
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.47
Consensus pattern (31 bp):
ATTCTGTCACCTAATACTGATTCTGATTCTG
Found at i:12391548 original size:40 final size:39
Alignment explanation
Indices: 12391347--12391568 Score: 247
Period size: 40 Copynumber: 5.6 Consensus size: 39
12391337 TGAATGATGT
* *
12391347 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
12391386 TCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
** *
12391427 CCGGGCTAAG-CCCGAAGGTGTTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA-A
12391466 CCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
12391503 TCCGGGTTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
12391544 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
12391569 AACGAGTAGC
Statistics
Matches: 158, Mismatches: 16, Indels: 16
0.83 0.08 0.08
Matches are distributed among these distances:
38 25 0.16
39 54 0.34
40 69 0.44
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:12391601 original size:79 final size:78
Alignment explanation
Indices: 12391346--12391566 Score: 216
Period size: 78 Copynumber: 2.8 Consensus size: 78
12391336 TTGAATGATG
* * * * * * *
12391346 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAA-ATCTGGACTAAGATCCGAAGGCAT
1 TCCGGGTTAAATCCCGAAGGCATTTGTGC-GAGTTACTAATA-CCGGGCTAAG-CCCGAAGGCA-
*
12391409 TTGTGCGAGTTACTAAT
62 TTGTGCGAGTTACTAAA
* * ** *
12391426 TCCGGGCT-AAGCCCGAAGGTGTTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGT
1 TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGT
12391490 GCGAGTTACTAAA
66 GCGAGTTACTAAA
* * *
12391503 TCCGGGTTAAGTCCCGAAGGCATTTGTGCTAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
12391567 TGAACGAGTA
Statistics
Matches: 118, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
77 25 0.21
78 41 0.35
79 37 0.31
80 15 0.13
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (78 bp):
TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGT
GCGAGTTACTAAA
Found at i:12406154 original size:46 final size:44
Alignment explanation
Indices: 12406104--12406282 Score: 153
Period size: 46 Copynumber: 3.9 Consensus size: 44
12406094 GGTCATTGGT
* *
12406104 ATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAG
1 ATGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAG
* * ** *
12406150 ATGAGTGCTAGTGTAAGACATATCTGGGACATGCATTAGCCTCGAG
1 ATGA--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAG
* *
12406196 ACATAAGCCAGTGTAAGACATGTCTGAGACATGCATCGGC-TACGAG
1 --ATGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCAT-CGAG
* * * *
12406242 ATGTGTCAGTGTAAGACCATGTTTGGGACACGGCATCGGCA
1 ATGAGCCAGTGTAAGA-CATGTCTGGGACA-TGCATCGGCA
12406283 CGGATATGCG
Statistics
Matches: 108, Mismatches: 17, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
44 13 0.12
45 12 0.11
46 56 0.52
47 13 0.12
48 14 0.13
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (44 bp):
ATGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAG
Found at i:12413546 original size:47 final size:47
Alignment explanation
Indices: 12413413--12413638 Score: 290
Period size: 48 Copynumber: 4.8 Consensus size: 47
12413403 AAAATGAAAA
* *
12413413 AACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACAAGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATAC-ATT
* * * * *
12413461 AACGTGGTGCTAAGTGAATATGCCATGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATACATT
* *
12413508 AACGTGGTGCTAAGTGGATATACCACGATTATACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATACAT-T
* * * *
12413556 AACGTGGTGCTAAGTGCATATGCCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATACATT
* * *
12413603 AACGTGGTGCTACGTCGATATACCACGGTTAAACAT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACACAT
12413639 GTAACGTGGT
Statistics
Matches: 151, Mismatches: 26, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
47 72 0.48
48 79 0.52
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (47 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATACATT
Found at i:12413577 original size:95 final size:95
Alignment explanation
Indices: 12413413--12413638 Score: 380
Period size: 95 Copynumber: 2.4 Consensus size: 95
12413403 AAAATGAAAA
*
12413413 AACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACAAGTAACGTGGTGCTAAGTGA
1 AACGTGGTGCTAAGTGGATATACCACGATTAAACATATTGATACAAGTAACGTGGTGCTAAGTGA
*
12413478 ATATGCCATGGTTACATATATTGATTCATT
66 ATATGCCACGGTTACATATATTGATTCATT
* * *
12413508 AACGTGGTGCTAAGTGGATATACCACGATTATACATATTGATACATGTAACGTGGTGCTAAGTGC
1 AACGTGGTGCTAAGTGGATATACCACGATTAAACATATTGATACAAGTAACGTGGTGCTAAGTGA
12413573 ATATGCCACGGTTACATATATTGATTCATT
66 ATATGCCACGGTTACATATATTGATTCATT
* * *
12413603 AACGTGGTGCTACGTCGATATACCACGGTTAAACAT
1 AACGTGGTGCTAAGTGGATATACCACGATTAAACAT
12413639 GTAACGTGGT
Statistics
Matches: 123, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
95 123 1.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (95 bp):
AACGTGGTGCTAAGTGGATATACCACGATTAAACATATTGATACAAGTAACGTGGTGCTAAGTGA
ATATGCCACGGTTACATATATTGATTCATT
Found at i:12413661 original size:38 final size:38
Alignment explanation
Indices: 12413602--12413678 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
12413592 ATTGATTCAT
* *
12413602 TAACGTGGTGCTACGTCGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTCGATATACCACAGTTAAACATG
* * *
12413640 TAACGTGGTGCTAAGTGGATATGCCACAGTTATACATG
1 TAACGTGGTGCTAAGTCGATATACCACAGTTAAACATG
12413678 T
1 T
12413679 TAATTTGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTCGATATACCACAGTTAAACATG
Found at i:12419690 original size:27 final size:28
Alignment explanation
Indices: 12419634--12419703 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
12419624 AAATTTGTAC
12419634 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
12419662 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
12419689 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
12419704 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:12419714 original size:27 final size:27
Alignment explanation
Indices: 12419634--12419715 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
12419624 AAATTTGTAC
* *
12419634 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
12419662 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
12419689 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
12419716 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:12422142 original size:11 final size:11
Alignment explanation
Indices: 12422126--12422151 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12422116 GTAATAAAAT
12422126 AAAATAAATTC
1 AAAATAAATTC
12422137 AAAATAAATTC
1 AAAATAAATTC
12422148 AAAA
1 AAAA
12422152 AATGTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAATAAATTC
Found at i:12431658 original size:31 final size:31
Alignment explanation
Indices: 12431620--12431680 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
12431610 TAACATTTGG
12431620 GTCTATTAGTCCTAACATTACCCACACTTTT
1 GTCTATTAGTCCTAACATTACCCACACTTTT
12431651 GTCTATTAGTCCTAACATTACCCACACTTT
1 GTCTATTAGTCCTAACATTACCCACACTTT
12431681 CCATTAAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.26, C:0.30, G:0.07, T:0.38
Consensus pattern (31 bp):
GTCTATTAGTCCTAACATTACCCACACTTTT
Found at i:12435693 original size:13 final size:13
Alignment explanation
Indices: 12435650--12435694 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
12435640 TAGTTTTTTC
*
12435650 CTAAATATTATCA
1 CTAAATAATATCA
12435663 CTAAATAAT-T--
1 CTAAATAATATCA
12435673 CTAAATAATATCA
1 CTAAATAATATCA
12435686 CTAAATAAT
1 CTAAATAAT
12435695 TTAAAATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 9 0.32
11 1 0.04
12 1 0.04
13 17 0.61
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (13 bp):
CTAAATAATATCA
Found at i:12435701 original size:23 final size:23
Alignment explanation
Indices: 12435650--12435699 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
12435640 TAGTTTTTTC
*
12435650 CTAAATATTATCACTAAATAATT
1 CTAAATAATATCACTAAATAATT
12435673 CTAAATAATATCACTAAATAATT
1 CTAAATAATATCACTAAATAATT
12435696 -TAAA
1 CTAAA
12435700 ATTTAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (23 bp):
CTAAATAATATCACTAAATAATT
Found at i:12439830 original size:16 final size:16
Alignment explanation
Indices: 12439811--12439857 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
12439801 TAAAAATTGC
12439811 AAAACACTAAAGAGAA
1 AAAACACTAAAGAGAA
*
12439827 AAAAGACCTAAA-AGAA
1 AAAACA-CTAAAGAGAA
* *
12439843 TAAGCACTAAAGAGA
1 AAAACACTAAAGAGA
12439858 GAAAGACCCA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 5 0.20
16 15 0.60
17 5 0.20
ACGTcount: A:0.64, C:0.13, G:0.15, T:0.09
Consensus pattern (16 bp):
AAAACACTAAAGAGAA
Found at i:12439871 original size:31 final size:32
Alignment explanation
Indices: 12439815--12439883 Score: 113
Period size: 31 Copynumber: 2.2 Consensus size: 32
12439805 AATTGCAAAA
*
12439815 CACTAAAGAGAAAAAAGACCTAAAAGAATAAG
1 CACTAAAGAGAAAAAAGACCCAAAAGAATAAG
*
12439847 CACTAAAGAG-AGAAAGACCCAAAAGAATAAG
1 CACTAAAGAGAAAAAAGACCCAAAAGAATAAG
12439878 CACTAA
1 CACTAA
12439884 CCGACCTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 25 0.71
32 10 0.29
ACGTcount: A:0.59, C:0.16, G:0.16, T:0.09
Consensus pattern (32 bp):
CACTAAAGAGAAAAAAGACCCAAAAGAATAAG
Found at i:12448635 original size:27 final size:28
Alignment explanation
Indices: 12448605--12448674 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
12448595 ATAATAAGTC
*
12448605 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
12448632 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
12448660 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
12448675 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:12456566 original size:27 final size:28
Alignment explanation
Indices: 12456536--12456605 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
12456526 ATAATAAGTC
*
12456536 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
12456563 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
12456591 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
12456606 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:12458717 original size:31 final size:31
Alignment explanation
Indices: 12458682--12458756 Score: 116
Period size: 31 Copynumber: 2.4 Consensus size: 31
12458672 AGACGTGAAC
* *
12458682 GAATAAGCACTAAAGAG-AAAATGACTCGAAA
1 GAATAAGCACTAAAGAGTAAAA-AACCCGAAA
12458713 GAATAAGCACTAAAGAGTAAAAAACCCGAAA
1 GAATAAGCACTAAAGAGTAAAAAACCCGAAA
12458744 GAATAAGCACTAA
1 GAATAAGCACTAA
12458757 TTGGCCCTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
31 37 0.90
32 4 0.10
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (31 bp):
GAATAAGCACTAAAGAGTAAAAAACCCGAAA
Found at i:12474105 original size:13 final size:13
Alignment explanation
Indices: 12474087--12474120 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
12474077 TATGTTCACT
*
12474087 TATTATTTAAGTA
1 TATTATTAAAGTA
*
12474100 TATTATTAAATTA
1 TATTATTAAAGTA
12474113 TATTATTA
1 TATTATTA
12474121 TAATATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (13 bp):
TATTATTAAAGTA
Found at i:12474953 original size:44 final size:44
Alignment explanation
Indices: 12474903--12474994 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
12474893 TGTACAGGGA
*
12474903 TACTTCGACCATGGGTCGATGAGGCACTAAT-AGTGTCGTACTGT
1 TACTTCGACCATAGGTCGATGAGGCACT-ATGAGTGTCGTACTGT
** * * *
12474947 TACTTCGACTTTATGTCGATGAGGCACTTTGTGTGTCGTACTGT
1 TACTTCGACCATAGGTCGATGAGGCACTATGAGTGTCGTACTGT
12474991 TACT
1 TACT
12474995 GTTACTTCGG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 1 0.02
44 40 0.98
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (44 bp):
TACTTCGACCATAGGTCGATGAGGCACTATGAGTGTCGTACTGT
Found at i:12480073 original size:49 final size:49
Alignment explanation
Indices: 12480015--12480301 Score: 488
Period size: 49 Copynumber: 5.9 Consensus size: 49
12480005 GTATGAGATG
*
12480015 TATATATGTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
12480064 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
12480113 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
12480162 TATACATGTGATAAGGCGTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
12480209 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
12480258 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAACGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
12480302 TATATGTGTG
Statistics
Matches: 225, Mismatches: 11, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
47 42 0.19
49 183 0.81
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:12480350 original size:48 final size:48
Alignment explanation
Indices: 12480296--12480396 Score: 193
Period size: 48 Copynumber: 2.1 Consensus size: 48
12480286 TGTGATGAAC
12480296 GTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAAT
1 GTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAAT
*
12480344 GTGAAATATATGTGTGATATGTATGTGTGGTAAAGCCGAATGGCTAAT
1 GTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAAT
12480392 GTGAA
1 GTGAA
12480397 TGTTGTAACA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.33
Consensus pattern (48 bp):
GTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAAT
Found at i:12480490 original size:37 final size:37
Alignment explanation
Indices: 12480436--12480552 Score: 139
Period size: 37 Copynumber: 3.4 Consensus size: 37
12480426 AACTTGGAAA
*
12480436 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
12480474 TATGTCCGGGTAAGACCCGATGACTAC-------G--
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
12480502 --TGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
12480537 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
12480553 TTCGTAATAA
Statistics
Matches: 67, Mismatches: 1, Indels: 23
0.74 0.01 0.25
Matches are distributed among these distances:
26 25 0.37
30 1 0.01
33 1 0.01
37 36 0.54
38 4 0.06
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:12480512 original size:26 final size:26
Alignment explanation
Indices: 12480476--12480530 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
12480466 GTGGAGATTA
12480476 TGTCCGGGTAAGACCCGATGACTACG
1 TGTCCGGGTAAGACCCGATGACTACG
12480502 TGTCCGGGTAAGACCCGATGACTACG
1 TGTCCGGGTAAGACCCGATGACTACG
12480528 TGT
1 TGT
12480531 GGAGATTATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.22, C:0.25, G:0.31, T:0.22
Consensus pattern (26 bp):
TGTCCGGGTAAGACCCGATGACTACG
Found at i:12483379 original size:48 final size:48
Alignment explanation
Indices: 12483303--12483432 Score: 179
Period size: 48 Copynumber: 2.7 Consensus size: 48
12483293 TACAAGGTAA
* *
12483303 ATATATATATGTGTGGTAAAGCCGAATGGCTAATATGAGACATGTATGAG
1 ATATGTATATGTGT--TAAAGCCGAATGGCTAATATGAAACATGTATGAG
* *
12483353 ATATGTATATGTGTTAAAGCCAAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGTTAAAGCCGAATGGCTAATATGAAACATGTATGAG
* * *
12483401 AGATGTATATTTGGTAAAGCCGAATGGCTAAT
1 ATATGTATATGTGTTAAAGCCGAATGGCTAAT
12483433 GTGCAATACG
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
48 59 0.82
50 13 0.18
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGTTAAAGCCGAATGGCTAATATGAAACATGTATGAG
Found at i:12483456 original size:48 final size:47
Alignment explanation
Indices: 12483316--12483459 Score: 164
Period size: 48 Copynumber: 3.0 Consensus size: 47
12483306 TATATATGTG
* * *
12483316 TGGTAAAGCCGAATGGCTAATATGAGACATGTATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATATGA-ATATGTATGAGATGTGTATATT
* *
12483364 TGTTAAAGCCAAATGGCTAATATGAAATATGTATGAGA-GATGTATATT
1 TGGTAAAGCCGAATGGCTAATATG-AATATGTATGAGATG-TGTATATT
* * * *
12483412 TGGTAAAGCCGAATGGCTAATGTGCAATACGCAGGAGATGTGTATATT
1 TGGTAAAGCCGAATGGCTAATATG-AATATGTATGAGATGTGTATATT
12483460 GTGGCCGAAT
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
48 79 0.98
49 2 0.02
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.30
Consensus pattern (47 bp):
TGGTAAAGCCGAATGGCTAATATGAATATGTATGAGATGTGTATATT
Found at i:12490211 original size:40 final size:40
Alignment explanation
Indices: 12490166--12490332 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
12490156 CGGAATATAA
*
12490166 CCGGATTTAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
12490206 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
12490246 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * ** *
12490286 CCGGATATAATTTCCAGCATAGTTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
12490325 CCGGATAT
1 CCGGATAT
12490333 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 14 0.14
40 89 0.86
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:12498207 original size:40 final size:40
Alignment explanation
Indices: 12498162--12498328 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
12498152 CGGAATATAA
12498162 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
12498202 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
12498242 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
12498282 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
12498321 CCGGATAT
1 CCGGATAT
12498329 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:12498312 original size:80 final size:79
Alignment explanation
Indices: 12498178--12498328 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
12498168 ATAATCACGT
*
12498178 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
12498243 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
12498258 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
12498321 CCGGATAT
64 CCGGATAT
12498329 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:12502547 original size:40 final size:40
Alignment explanation
Indices: 12502502--12502631 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
12502492 CGGAATACAA
12502502 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
12502542 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
12502582 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
12502622 CCGGATATAA
1 CCGGATATAA
12502632 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:12503558 original size:22 final size:21
Alignment explanation
Indices: 12503529--12503573 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
12503519 AGCATGAACC
12503529 ATGCTCATGATGCATCATGCA
1 ATGCTCATGATGCATCATGCA
* *
12503550 ATGCATCATGCTGCATCATTCA
1 ATGC-TCATGATGCATCATGCA
12503572 AT
1 AT
12503574 ACACATCATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (21 bp):
ATGCTCATGATGCATCATGCA
Found at i:12510564 original size:40 final size:40
Alignment explanation
Indices: 12510519--12510648 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
12510509 CGGAATACAA
12510519 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
12510559 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
12510599 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
12510639 CCGGATATAA
1 CCGGATATAA
12510649 TTTCCAGCAA
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:12515860 original size:46 final size:46
Alignment explanation
Indices: 12515619--12515979 Score: 216
Period size: 46 Copynumber: 7.6 Consensus size: 46
12515609 GTTATAATGT
* *
12515619 CGATGCCATGTCCCAGACATGGTCTTACACTAG--CTCATCCATCGA-GT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-C-TCGAGGC
* * ** *
12515666 CGATGTCATGTCCCAGACATGGTCTTACACTGACTATCGAAATTGAGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTC-ATCTCGAGGC
** * * * * *
12515715 CGACACCATGTCCCAGATATGGTCTTACACTAGCTCTTTCATATCTATGC
1 CGA-TGCATGTCCCAGACAT-GTCTTACACTGGCTC--TCATCTCGAGGC
* * * * *
12515765 CAATGCCATGTCCCAGACATGATTTTACACT-G-ACACATCTCGTA-CC
1 CGATG-CATGTCCCAGACATG-TCTTACACTGGCTCTCATCTCG-AGGC
* * *
12515811 CGATGCATGTCCTAGACACGTCTTACACCGGCT-TACATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGAGGC
* * * * * * *
12515857 CGATACATGTCCTAGACATATCTTACACTAGCTCTCGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGC
* * *
12515903 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGAGGC
12515951 CGATGCATGTCCCAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
12515980 AGCACACAAA
Statistics
Matches: 241, Mismatches: 55, Indels: 37
0.72 0.17 0.11
Matches are distributed among these distances:
44 7 0.03
45 15 0.06
46 68 0.28
47 57 0.24
48 27 0.11
49 35 0.15
50 30 0.12
51 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGC
Found at i:12518712 original size:9 final size:9
Alignment explanation
Indices: 12518698--12518731 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
12518688 CGATTAATTA
12518698 AATGTAATG
1 AATGTAATG
12518707 AATGTAATG
1 AATGTAATG
12518716 AATGTAATG
1 AATGTAATG
12518725 AATGTAA
1 AATGTAA
12518732 ATTGGGAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (9 bp):
AATGTAATG
Found at i:12530006 original size:2 final size:2
Alignment explanation
Indices: 12529999--12530025 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
12529989 AAGAGAACTA
12529999 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
12530026 AAAGATCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12535265 original size:19 final size:20
Alignment explanation
Indices: 12535227--12535266 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
12535217 TGTAAAGATT
*
12535227 GTAAAATAGATAGTAATTTG
1 GTAAAATAGATAGAAATTTG
*
12535247 GTAAAATA-ATGGAAATTTG
1 GTAAAATAGATAGAAATTTG
12535266 G
1 G
12535267 GTTGCTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.33
Consensus pattern (20 bp):
GTAAAATAGATAGAAATTTG
Found at i:12535906 original size:49 final size:49
Alignment explanation
Indices: 12535740--12536008 Score: 164
Period size: 49 Copynumber: 5.7 Consensus size: 49
12535730 TAGCCACATT
* * * * * *
12535740 ATGAGAGCCAGTGTAAGACATGTCTGGGACAT-GCATCAACCTCGAGAT
1 ATGAAAGCCAATGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAG
* * * * * * *
12535788 AT-ACAAGCTAGTGTAAGACTTGTCTGGGACATGGCGTC-AGCTTG-TTG
1 ATGA-AAGCCAATGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAG
** *
12535835 -TG-TTG-CAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAG
1 ATGAAAGCCAATGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAG
* * * * *
12535881 ATGAGAGCCAATGTAAGACCTGTCTGGGACATGACATTGGCCTCGATAT
1 ATGAAAGCCAATGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAG
* * * * *
12535930 ATGAAAGTCAGTGTAAGACCTGTCTGAGACATGGCGTCGA-CTTGAT-G
1 ATGAAAGCCAATGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAG
** * *
12535977 -TGCTAGCCAGTGTAAGACCATGTCTAGGACAT
1 ATGAAAGCCAATGTAAGACC-TGTCTGGGACAT
12536009 AGTGTCGACA
Statistics
Matches: 171, Mismatches: 39, Indels: 23
0.73 0.17 0.10
Matches are distributed among these distances:
44 27 0.16
45 3 0.02
46 20 0.12
47 13 0.08
48 38 0.22
49 70 0.41
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (49 bp):
ATGAAAGCCAATGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAG
Found at i:12535965 original size:142 final size:144
Alignment explanation
Indices: 12535740--12536008 Score: 361
Period size: 142 Copynumber: 1.9 Consensus size: 144
12535730 TAGCCACATT
*
12535740 ATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCAACCTCGAGATATACAAGCTAGTGTAAG
1 ATGAGAGCCAATGTAAGACATGTCTGGGACATGCATCAACCTCGAGATATACAAGCTAGTGTAAG
* * * * *
12535805 ACTTGTCTGGGACATGGCGTC-AGCTTGTTGTG-TTG-CAGTGTAAGACC-TGTCTGGGACATGG
66 ACCTGTCTGAGACATGGCGTCGA-CTTGATGTGCTAGCCAGTGTAAGACCATGTCTAGGACATGG
12535866 CATCGACACCGATAG
130 CATCGACACCGATAG
* *** *
12535881 ATGAGAGCCAATGTAAGACCTGTCTGGGACATGACATTGGCCTCGATATATGA-AAG-TCAGTGT
1 ATGAGAGCCAATGTAAGACATGTCTGGGACATG-CATCAACCTCGAGATAT-ACAAGCT-AGTGT
12535944 AAGACCTGTCTGAGACATGGCGTCGACTTGATGTGCTAGCCAGTGTAAGACCATGTCTAGGACAT
63 AAGACCTGTCTGAGACATGGCGTCGACTTGATGTGCTAGCCAGTGTAAGACCATGTCTAGGACAT
12536009 AGTGTCGACA
Statistics
Matches: 110, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
141 32 0.29
142 51 0.46
143 4 0.04
144 12 0.11
145 11 0.10
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (144 bp):
ATGAGAGCCAATGTAAGACATGTCTGGGACATGCATCAACCTCGAGATATACAAGCTAGTGTAAG
ACCTGTCTGAGACATGGCGTCGACTTGATGTGCTAGCCAGTGTAAGACCATGTCTAGGACATGGC
ATCGACACCGATAG
Found at i:12540715 original size:38 final size:39
Alignment explanation
Indices: 12540673--12540776 Score: 99
Period size: 37 Copynumber: 2.7 Consensus size: 39
12540663 CAAAATAGTG
* *
12540673 GCATGTATTAACATGTGATCAATAATTCA-ATAACAGCA
1 GCATGTATTAACATGCGATCAATAATTCACAGAACAGCA
* * * **
12540711 GCATGCT-TT-ACATGCAATCAATAAAT-ACAGAATAGTG
1 GCATG-TATTAACATGCGATCAATAATTCACAGAACAGCA
*
12540748 GCATGTATTAACATGCGATCAGTAATTCA
1 GCATGTATTAACATGCGATCAATAATTCA
12540777 GTAATGGCAT
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
36 2 0.04
37 26 0.51
38 21 0.41
39 2 0.04
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.29
Consensus pattern (39 bp):
GCATGTATTAACATGCGATCAATAATTCACAGAACAGCA
Found at i:12540817 original size:72 final size:74
Alignment explanation
Indices: 12540659--12540818 Score: 252
Period size: 75 Copynumber: 2.2 Consensus size: 74
12540649 AGTTAGGTAC
*
12540659 AATACAAAATAGTGGCATGTATTAACATGTGATCAATAATTCAATAACAGCAGCATGCTTTACAT
1 AATACAAAATAGTGGCATGTATTAACATGCGATCAATAATTCAATAACAG-AGCATGCTTTACAT
12540724 GCAATCAATA
65 GCAATCAATA
* * * *
12540734 AATACAGAATAGTGGCATGTATTAACATGCGATCAGTAATTCAGTAA-TG-GCATGCTTTACATG
1 AATACAAAATAGTGGCATGTATTAACATGCGATCAATAATTCAATAACAGAGCATGCTTTACATG
12540797 CAATCAATA
66 CAATCAATA
12540806 AATACAAAATAGT
1 AATACAAAATAGT
12540819 AAGCATGTTC
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
72 35 0.44
74 1 0.01
75 43 0.54
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (74 bp):
AATACAAAATAGTGGCATGTATTAACATGCGATCAATAATTCAATAACAGAGCATGCTTTACATG
CAATCAATA
Found at i:12541498 original size:20 final size:20
Alignment explanation
Indices: 12541473--12541510 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
12541463 GTTTATTCGC
*
12541473 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
12541493 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
12541511 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:12543162 original size:28 final size:28
Alignment explanation
Indices: 12543130--12543198 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
12543120 GCGTAGATCA
12543130 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
12543158 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
12543186 CGATA-TACCCCTA
1 CGAAATTACCCCTA
12543199 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:12547610 original size:13 final size:14
Alignment explanation
Indices: 12547594--12547622 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
12547584 TTATAAATAT
12547594 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
12547607 TTATAATGGTTTAA
1 TTATAATGGTTTAA
12547621 TT
1 TT
12547623 CGTCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:12548366 original size:31 final size:31
Alignment explanation
Indices: 12548318--12548378 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
12548308 TGTATTTTTT
12548318 ATGCTACATTTGTTGTTTTT-GATTGGATTTC
1 ATGCTACATTTGTTGTTTTTAG-TTGGATTTC
*
12548349 ATGCTATATTT-TCTGTTTTTAGTTGGATTT
1 ATGCTACATTTGT-TGTTTTTAGTTGGATTT
12548379 TAATGTAGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 1 0.04
31 25 0.93
32 1 0.04
ACGTcount: A:0.16, C:0.08, G:0.18, T:0.57
Consensus pattern (31 bp):
ATGCTACATTTGTTGTTTTTAGTTGGATTTC
Found at i:12548520 original size:32 final size:32
Alignment explanation
Indices: 12548475--12548539 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
12548465 AAGTCATGCC
*
12548475 CCCAAAACGTCACTAAAAGCCATGACTTTTAG
1 CCCAAAACATCACTAAAAGCCATGACTTTTAG
12548507 CCCAAAACATCACTAAAAGCCATGACTTTTAG
1 CCCAAAACATCACTAAAAGCCATGACTTTTAG
12548539 C
1 C
12548540 GGCGCTTCCC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.29, G:0.11, T:0.22
Consensus pattern (32 bp):
CCCAAAACATCACTAAAAGCCATGACTTTTAG
Found at i:12549529 original size:14 final size:15
Alignment explanation
Indices: 12549498--12549531 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
12549488 TTTAAGTCAA
**
12549498 TTTTAGGTTTTGATT
1 TTTTAGGTTAAGATT
12549513 TTTTAGGTTAAGATT
1 TTTTAGGTTAAGATT
12549528 TTTT
1 TTTT
12549532 GAGTTCGGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.65
Consensus pattern (15 bp):
TTTTAGGTTAAGATT
Found at i:12550701 original size:43 final size:43
Alignment explanation
Indices: 12550647--12550753 Score: 151
Period size: 43 Copynumber: 2.5 Consensus size: 43
12550637 ATTTATTTTA
* *
12550647 AAAAACCGCCGCTAAAGATCACGATCTTTAGCGGCGCTTATCCC
1 AAAAA-CGCCGCTAAAGATCACGACCTCTAGCGGCGCTTATCCC
* * *
12550691 ACAAACGCCGCTAAAGATCACGACCTCTAGCGGCGCTTTTCTC
1 AAAAACGCCGCTAAAGATCACGACCTCTAGCGGCGCTTATCCC
*
12550734 AAAAACGCCGCTAAAAATCA
1 AAAAACGCCGCTAAAGATCA
12550754 TGAAATTTAA
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
43 52 0.93
44 4 0.07
ACGTcount: A:0.33, C:0.32, G:0.17, T:0.19
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGATCACGACCTCTAGCGGCGCTTATCCC
Found at i:12555544 original size:14 final size:14
Alignment explanation
Indices: 12555525--12555574 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
12555515 AGTTAAGTGA
12555525 TTTTATAAAATATT
1 TTTTATAAAATATT
* *
12555539 TTTTAT-TACTATT
1 TTTTATAAAATATT
* *
12555552 TTTTATAAATTAGT
1 TTTTATAAAATATT
12555566 TTTTATAAA
1 TTTTATAAA
12555575 TAAAAAATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
13 11 0.37
14 19 0.63
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (14 bp):
TTTTATAAAATATT
Found at i:12557727 original size:40 final size:40
Alignment explanation
Indices: 12557629--12557809 Score: 195
Period size: 40 Copynumber: 4.5 Consensus size: 40
12557619 TTCGAATGGT
* * *
12557629 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTAA
* *
12557670 ATCCGGG-TCAACTCCCGAAGGCATTTGTGTGAGTTACCAA
1 ATCCGGGCT-AAGTCCCGAAGGCATTTGTGTGAGTTACTAA
* * *
12557710 AACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAA
* * * * *
12557750 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTA-A
*
12557791 A-CCGGGCTATGTCCCGAAG
1 ATCCGGGCTAAGTCCCGAAG
12557810 ACAATCGAGC
Statistics
Matches: 120, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
40 92 0.77
41 28 0.23
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAA
Found at i:12557794 original size:80 final size:81
Alignment explanation
Indices: 12557631--12557809 Score: 227
Period size: 80 Copynumber: 2.2 Consensus size: 81
12557621 CGAATGGTAT
* *
12557631 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATT
* * *
12557696 GTGTGAGTTACCAAAA
66 GTGCGAATCACCAAAA
* * * *
12557712 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AACTCCCGAAGGCAAT
* *
12557775 TGTGCGAATCACTATAA
65 TGTGCGAATCACCAAAA
*
12557792 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
12557810 ACAATCGAGC
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 1 0.01
80 57 0.68
81 26 0.31
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATT
GTGCGAATCACCAAAA
Found at i:12557834 original size:80 final size:80
Alignment explanation
Indices: 12557665--12557835 Score: 182
Period size: 80 Copynumber: 2.1 Consensus size: 80
12557655 GTGCTAAGTG
* * * * * *
12557665 ACTAAATCCGGG-TCAACTCCCGAAGGCATTTGTGTGAGTTACCAAAACCGGGTTAAGTCCCGAA
1 ACTAAATCCGGGCT-AATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAA
* * * * *
12557729 GGCATTTGTGCGAGTT
65 GACAATCGAGCGAGTC
* * *
12557745 ACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAAG
1 ACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
12557810 ACAATCGAGCGAGTC
66 ACAATCGAGCGAGTC
* *
12557825 GCTACATCCGG
1 ACTAAATCCGG
12557836 TTAAATTCCG
Statistics
Matches: 74, Mismatches: 16, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
80 73 0.99
81 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.22
Consensus pattern (80 bp):
ACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
ACAATCGAGCGAGTC
Found at i:12565760 original size:40 final size:40
Alignment explanation
Indices: 12565662--12565842 Score: 195
Period size: 40 Copynumber: 4.5 Consensus size: 40
12565652 TTCGAATGGT
* * *
12565662 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
* *
12565703 ATCCGGG-TCAACTCCCGAAGGCATTTGTGCGAGTTACCAA
1 ATCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* * *
12565743 AACCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* * * *
12565783 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
12565824 A-CCAGGCTATGTCCCGAAG
1 ATCCGGGCTAAGTCCCGAAG
12565843 ACAATCGAGC
Statistics
Matches: 118, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
40 89 0.75
41 29 0.25
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:12565801 original size:80 final size:81
Alignment explanation
Indices: 12565664--12565842 Score: 218
Period size: 80 Copynumber: 2.2 Consensus size: 81
12565654 CGAATGGTAT
* * *
12565664 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATT
12565729 GTGCGAGTTACCAAAA
66 GTGCGAGTTACCAAAA
* * * *
12565745 CCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTC-AACTCCCGAAGGCAAT
* * * *
12565808 TGTGCGAATCACTATAA
65 TGTGCGAGTTACCAAAA
* *
12565825 CCAGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
12565843 ACAATCGAGC
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.01
80 57 0.69
81 25 0.30
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATT
GTGCGAGTTACCAAAA
Found at i:12565877 original size:80 final size:80
Alignment explanation
Indices: 12565698--12565868 Score: 191
Period size: 80 Copynumber: 2.1 Consensus size: 80
12565688 GTGCTAAGTG
* * * * * *
12565698 ACTAAATCCGGG-TCAACTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAA
1 ACTAAATCCGGGCT-AATTCCCGAAGGCAATTGTGCGAATCACCAAAACCAGGCTAAGTCCCGAA
* * * *
12565762 GGCATTCGTGCGAGTT
65 GACAATCGAGCGAGTC
* * *
12565778 ACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCAGGCTATGTCCCGAAG
1 ACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCAGGCTAAGTCCCGAAG
12565843 ACAATCGAGCGAGTC
66 ACAATCGAGCGAGTC
* *
12565858 GCTACATCCGG
1 ACTAAATCCGG
12565869 TTAAATTCCG
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
80 74 0.99
81 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.21
Consensus pattern (80 bp):
ACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCAGGCTAAGTCCCGAAG
ACAATCGAGCGAGTC
Found at i:12567951 original size:40 final size:40
Alignment explanation
Indices: 12567849--12568002 Score: 164
Period size: 41 Copynumber: 3.8 Consensus size: 40
12567839 GGGTTTAGGA
* *
12567849 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTAACAAAAACGCCGCTAATGCTCT-GT
* * * * *
12567890 CTTTAGCGGCATTTCACCAAAAGCGCCGCTAATGCTCTGT
1 TTTTAGCGGCGTTTTAACAAAAACGCCGCTAATGCTCTGT
* * *
12567930 TTTTAGCGGCGTTTTAACAAAAAACGGCGCTATTGCTCAGT
1 TTTTAGCGGCGTTTTAAC-AAAAACGCCGCTAATGCTCTGT
** * *
12567971 TTTTAGCGATGTTTTGACAAAAACGCTGCTAA
1 TTTTAGCGGCGTTTTAACAAAAACGCCGCTAA
12568003 AGCCCTATTT
Statistics
Matches: 95, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
40 27 0.28
41 68 0.72
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTAACAAAAACGCCGCTAATGCTCTGT
Found at i:12579587 original size:2 final size:2
Alignment explanation
Indices: 12579582--12579616 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
12579572 GTTATGTGTG
12579582 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12579617 GCAAATAGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12580415 original size:20 final size:21
Alignment explanation
Indices: 12580386--12580426 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
12580376 GTCCACTGTA
*
12580386 TTTTGTAAAATTTTCTAAGTT
1 TTTTGTAAAATTTCCTAAGTT
12580407 TTTTG-AAAATTTCCTAAGTT
1 TTTTGTAAAATTTCCTAAGTT
12580427 ACTGGTTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.29, C:0.07, G:0.10, T:0.54
Consensus pattern (21 bp):
TTTTGTAAAATTTCCTAAGTT
Found at i:12582227 original size:106 final size:106
Alignment explanation
Indices: 12582041--12582288 Score: 334
Period size: 106 Copynumber: 2.3 Consensus size: 106
12582031 ATAGAAGTAA
* * * * *
12582041 TGATATTATAAAAGTTAGCTAATTTAAGATCGCAACCTAAGTTTTTTTGAGATAGTTGATTTAAT
1 TGATATTATAAAAGTTAGCTGATTTAAGATCACAACCTAAGTTTCTTCGAGATAGCTGATTTAAT
*
12582106 ATCACAACTCTTAAAACAGATCGATGACCTACGTTCACAAC
66 ATCACAACTCCTAAAACAGATCGATGACCTACGTTCACAAC
* * *
12582147 TGATATTATAAAAGTTAGCCGATTTAAGATCACTACCTAAGTTTCTTCGAGTTAGCTGATTTAAT
1 TGATATTATAAAAGTTAGCTGATTTAAGATCACAACCTAAGTTTCTTCGAGATAGCTGATTTAAT
** * * **
12582212 ATTGCAACTCCTAAAATAGTTCGATGACCTACGTTCACAGT
66 ATCACAACTCCTAAAACAGATCGATGACCTACGTTCACAAC
* * *
12582253 TGATATTATAAAGGTTAGTTGATTTAAGATCGCAAC
1 TGATATTATAAAAGTTAGCTGATTTAAGATCACAAC
12582289 TCCTAGAATA
Statistics
Matches: 122, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
106 122 1.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Consensus pattern (106 bp):
TGATATTATAAAAGTTAGCTGATTTAAGATCACAACCTAAGTTTCTTCGAGATAGCTGATTTAAT
ATCACAACTCCTAAAACAGATCGATGACCTACGTTCACAAC
Done.