Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 167 of 211
Found at i:49242469 original size:12 final size:12
Alignment explanation
Indices: 49242452--49242485 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
49242442 TCGGCTCGTC
49242452 TATATTAATTTT
1 TATATTAATTTT
49242464 TATATT-ATTTT
1 TATATTAATTTT
49242475 TATA-TAATTTT
1 TATATTAATTTT
49242486 AAAAATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 14 0.67
12 6 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATATTAATTTT
Found at i:49242507 original size:18 final size:18
Alignment explanation
Indices: 49242486--49242525 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
49242476 ATATAATTTT
*
49242486 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
49242504 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
49242522 AAAA
1 AAAA
49242526 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:49242652 original size:30 final size:30
Alignment explanation
Indices: 49242608--49242670 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
49242598 ACTTAACAAG
*
49242608 CAAATGCTTCTAAAATAATAATAAAATTAA
1 CAAATGCTTCTAAAATAATAACAAAATTAA
49242638 CAAATGTCTT-TAAAATAATAACAAAATTAA
1 CAAATG-CTTCTAAAATAATAACAAAATTAA
49242668 CAA
1 CAA
49242671 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (30 bp):
CAAATGCTTCTAAAATAATAACAAAATTAA
Found at i:49243470 original size:14 final size:14
Alignment explanation
Indices: 49243451--49243493 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
49243441 TAGAAATTTA
49243451 TTTTAATTATATAT
1 TTTTAATTATATAT
49243465 TTTTAATTATATAT
1 TTTTAATTATATAT
* *
49243479 TTTAAAATATATAT
1 TTTTAATTATATAT
49243493 T
1 T
49243494 CAGAATACGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTAATTATATAT
Found at i:49243998 original size:22 final size:21
Alignment explanation
Indices: 49243964--49244009 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 21
49243954 TCATTATACC
49243964 TTTTAATAAATTTT-TTGAAAA
1 TTTTAATAAATTTTCTT-AAAA
49243985 TTTTAATTAAATTTTCTTAAAA
1 TTTTAA-TAAATTTTCTTAAAA
49244007 TTT
1 TTT
49244010 CTCATTAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.26
22 15 0.65
23 2 0.09
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTTAATAAATTTTCTTAAAA
Found at i:49253686 original size:29 final size:26
Alignment explanation
Indices: 49253638--49253692 Score: 65
Period size: 29 Copynumber: 2.0 Consensus size: 26
49253628 GATCTAATTA
* *
49253638 TAAAAAAAAAATTCATTTTATGCACC
1 TAAAAAAAAAATTCAATTTAAGCACC
49253664 TAAAATAAAAAGATTGCAATTTAAGCACC
1 TAAAA-AAAAA-ATT-CAATTTAAGCACC
49253693 CACATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 5 0.21
27 5 0.21
28 3 0.12
29 11 0.46
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.27
Consensus pattern (26 bp):
TAAAAAAAAAATTCAATTTAAGCACC
Found at i:49253925 original size:19 final size:21
Alignment explanation
Indices: 49253903--49253944 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
49253893 AGAAATATAT
49253903 AAAATACATA-AAT-ATTTTA
1 AAAATACATATAATAATTTTA
*
49253922 AAAATATATATAATAATTTTA
1 AAAATACATATAATAATTTTA
49253943 AA
1 AA
49253945 TTTTATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 3 0.15
21 8 0.40
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAATACATATAATAATTTTA
Found at i:49255863 original size:36 final size:37
Alignment explanation
Indices: 49255816--49255907 Score: 107
Period size: 37 Copynumber: 2.5 Consensus size: 37
49255806 GTCTCCAAAT
* *
49255816 TCACATTTCAATTCAATTTCACTTTTTCACTTTCAA-
1 TCACAATTCAATTCAATTTCACTTTTCCACTTTCAAG
* *
49255852 TCACAATTCAATTCAAAATTCACTTTTCCATTTTCAAG
1 TCACAATTCAATTC-AATTTCACTTTTCCACTTTCAAG
*
49255890 TCA-ATATTCATTTCAATT
1 TCACA-ATTCAATTCAATT
49255908 CCACACATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
36 13 0.28
37 23 0.49
38 11 0.23
ACGTcount: A:0.32, C:0.23, G:0.01, T:0.45
Consensus pattern (37 bp):
TCACAATTCAATTCAATTTCACTTTTCCACTTTCAAG
Found at i:49255908 original size:36 final size:35
Alignment explanation
Indices: 49255816--49255908 Score: 98
Period size: 36 Copynumber: 2.5 Consensus size: 35
49255806 GTCTCCAAAT
* *
49255816 TCACATTTCAATTCAATTTCACTTTTTCACTTTCAA
1 TCACAATTCAATTCAA-TTCACTTTTCCACTTTCAA
*
49255852 TCACAATTCAATTCAAAATTCACTTTTCCATTTTCAA
1 TCACAATTCAATTC--AATTCACTTTTCCACTTTCAA
*
49255889 GTCA-ATATTCATTTCAATTC
1 -TCACA-ATTCAATTCAATTC
49255909 CACACATATA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
36 18 0.37
37 18 0.37
38 13 0.27
ACGTcount: A:0.31, C:0.24, G:0.01, T:0.44
Consensus pattern (35 bp):
TCACAATTCAATTCAATTCACTTTTCCACTTTCAA
Found at i:49256739 original size:19 final size:21
Alignment explanation
Indices: 49256694--49256743 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
49256684 TCTTTTACGT
*
49256694 ATTAGTTAATAATAATAATAC
1 ATTATTTAATAATAATAATAC
49256715 ATTATTATAATAAT-ATAATA-
1 ATTATT-TAATAATAATAATAC
49256735 A-TATTTAAT
1 ATTATTTAAT
49256744 TCATAAATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 4 0.15
19 4 0.15
20 1 0.04
21 11 0.41
22 7 0.26
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
ATTATTTAATAATAATAATAC
Found at i:49267347 original size:153 final size:153
Alignment explanation
Indices: 49267069--49267382 Score: 610
Period size: 153 Copynumber: 2.1 Consensus size: 153
49267059 TCATATTCAG
49267069 AATAATAGGTGAAGTCTAGGTGGATTCTTTCCTGGGTATTGTCTTTCCCATTGGTTGTTCTCTAT
1 AATAATAGGTGAAGTCTAGGTGGATTCTTTCCTGGGTATTGTCTTTCCCATTGGTTGTTCTCTAT
49267134 TATTTTCCCATTTCATTCTCTGTTGCGTTTGTAGCTAAATTAGATTAGTAAATTTAGATGAAAAA
66 TATTTTCCCATTTCATTCTCTGTTGCGTTTGTAGCTAAATTAGATTAGTAAATTTAGATGAAAAA
49267199 CCATCACTTCAATTTATCAGCTA
131 CCATCACTTCAATTTATCAGCTA
*
49267222 AATAATAGGTGAAGTCTAGGTGGATTCTTTCCTGGGTATTGTCTTTCTCATTGGTTGTTCTCTAT
1 AATAATAGGTGAAGTCTAGGTGGATTCTTTCCTGGGTATTGTCTTTCCCATTGGTTGTTCTCTAT
*
49267287 TATTTTCCCATTTCATTCTCTGTTGCGTTTGTAGTTAAATTAGATTAGTAAATTTAGATGAAAAA
66 TATTTTCCCATTTCATTCTCTGTTGCGTTTGTAGCTAAATTAGATTAGTAAATTTAGATGAAAAA
49267352 CCATCACTTCAATTTATCAGCTA
131 CCATCACTTCAATTTATCAGCTA
49267375 AATAATAG
1 AATAATAG
49267383 AAAAATGGTA
Statistics
Matches: 159, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
153 159 1.00
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.42
Consensus pattern (153 bp):
AATAATAGGTGAAGTCTAGGTGGATTCTTTCCTGGGTATTGTCTTTCCCATTGGTTGTTCTCTAT
TATTTTCCCATTTCATTCTCTGTTGCGTTTGTAGCTAAATTAGATTAGTAAATTTAGATGAAAAA
CCATCACTTCAATTTATCAGCTA
Found at i:49272081 original size:76 final size:76
Alignment explanation
Indices: 49271887--49272119 Score: 263
Period size: 76 Copynumber: 3.1 Consensus size: 76
49271877 ATTCGAATTA
* * * * *
49271887 GGTGTTATTCAAGCTTAATGCCTAGCAGGCTTTGTGCCGATGTTATTCAGGCTTAATGCCTAGAA
1 GGTGTTACTCAAGCTTAGTGCCTAGCAGGCTTCGAGCCGGTGTTATTCAGGCTTAATGCCTAGAA
*
49271952 GGCTTTATGCC
66 GGCTTTTTGCC
** * * * *
49271963 AATGTTACTCAAGCTTAGTGCCTAGCAGGCTTCGTGCCGGTGTTATTCAGGATTAGTGCCTAGTA
1 GGTGTTACTCAAGCTTAGTGCCTAGCAGGCTTCGAGCCGGTGTTATTCAGGCTTAATGCCTAGAA
49272028 GGCTTTTTGCC
66 GGCTTTTTGCC
* * * * *
49272039 GGTGTTATTTAAGCTTAGTTCCTAGCAGGC-TC-AGCACTGGTGTTATTCAGGCTTAACGCCAAG
1 GGTGTTACTCAAGCTTAGTGCCTAGCAGGCTTCGAGC-C-GGTGTTATTCAGGCTTAATGCCTAG
* *
49272102 CAGGCTTTTTGCT
64 AAGGCTTTTTGCC
49272115 GGTGT
1 GGTGT
49272120 ACCAAGTTGT
Statistics
Matches: 133, Mismatches: 22, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
74 2 0.02
75 3 0.02
76 128 0.96
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.34
Consensus pattern (76 bp):
GGTGTTACTCAAGCTTAGTGCCTAGCAGGCTTCGAGCCGGTGTTATTCAGGCTTAATGCCTAGAA
GGCTTTTTGCC
Found at i:49272117 original size:38 final size:38
Alignment explanation
Indices: 49271887--49272119 Score: 223
Period size: 38 Copynumber: 6.1 Consensus size: 38
49271877 ATTCGAATTA
49271887 GGTGTTATTCAAGCTTAATGCCTAGCAGGCTTTGTGCC
1 GGTGTTATTCAAGCTTAATGCCTAGCAGGCTTTGTGCC
* * * *
49271925 GATGTTATTCAGGCTTAATGCCTAGAAGGCTTTATGCC
1 GGTGTTATTCAAGCTTAATGCCTAGCAGGCTTTGTGCC
** * * *
49271963 AATGTTACTCAAGCTTAGTGCCTAGCAGGCTTCGTGCC
1 GGTGTTATTCAAGCTTAATGCCTAGCAGGCTTTGTGCC
* * * * *
49272001 GGTGTTATTCAGGATTAGTGCCTAGTAGGCTTTTTGCC
1 GGTGTTATTCAAGCTTAATGCCTAGCAGGCTTTGTGCC
* * * ** ** *
49272039 GGTGTTATTTAAGCTTAGTTCCTAGCAGGCTCAGCACT
1 GGTGTTATTCAAGCTTAATGCCTAGCAGGCTTTGTGCC
* * * * *
49272077 GGTGTTATTCAGGCTTAACGCCAAGCAGGCTTTTTGCT
1 GGTGTTATTCAAGCTTAATGCCTAGCAGGCTTTGTGCC
49272115 GGTGT
1 GGTGT
49272120 ACCAAGTTGT
Statistics
Matches: 154, Mismatches: 41, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
38 154 1.00
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.34
Consensus pattern (38 bp):
GGTGTTATTCAAGCTTAATGCCTAGCAGGCTTTGTGCC
Found at i:49278455 original size:38 final size:38
Alignment explanation
Indices: 49278413--49278695 Score: 261
Period size: 38 Copynumber: 7.4 Consensus size: 38
49278403 GGTGTTATTT
*
49278413 AGGCTTAGTGCCAGCGTTATTCAGGCTTAGTGGCTAGC
1 AGGCTTAGTGCCAGTGTTATTCAGGCTTAGTGGCTAGC
*
49278451 AGGCTTTA-TGCC-GATGTTATTCAGACTTAGT-GCTTAGC
1 AGGC-TTAGTGCCAG-TGTTATTCAGGCTTAGTGGC-TAGC
* * * * *
49278489 AGGCTTTGTGCCGGTGCTATTTAGGCTTAGTGGTTAGC
1 AGGCTTAGTGCCAGTGTTATTCAGGCTTAGTGGCTAGC
* *
49278527 AGGCTCAGTGCCAGTGTTATTTAGGCTTAGTGGCTAGC
1 AGGCTTAGTGCCAGTGTTATTCAGGCTTAGTGGCTAGC
* * *
49278565 AGGCTTCGAG-CAGGTGTTATTCAAGCTTAG-GGCCTAGC
1 AGGCTTAGTGCCA-GTGTTATTCAGGCTTAGTGG-CTAGC
* * * *
49278603 AGGCTTCGTTCCGGTGTTATTCAGGCTTAGTGCCTAGC
1 AGGCTTAGTGCCAGTGTTATTCAGGCTTAGTGGCTAGC
* * * * * *
49278641 AAGCTCAGTGCCGGTGTTATTCAAGCTTAGCGCCTAGC
1 AGGCTTAGTGCCAGTGTTATTCAGGCTTAGTGGCTAGC
* * *
49278679 AGACTTTGTGTCAGTGT
1 AGGCTTAGTGCCAGTGT
49278696 ATCAAGTTTT
Statistics
Matches: 201, Mismatches: 34, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
37 9 0.04
38 185 0.92
39 7 0.03
ACGTcount: A:0.18, C:0.20, G:0.30, T:0.32
Consensus pattern (38 bp):
AGGCTTAGTGCCAGTGTTATTCAGGCTTAGTGGCTAGC
Found at i:49278617 original size:114 final size:114
Alignment explanation
Indices: 49278413--49278680 Score: 333
Period size: 114 Copynumber: 2.4 Consensus size: 114
49278403 GGTGTTATTT
* * * *
49278413 AGGCTTAGTGCCAGCGTTATTCAGGCTTAGTGGCTAGCAGGCTTTATGCCGATGTTATTCAGACT
1 AGGCTCAGTGCCAGTGTTATTCAGGCTTAGTGGCTAGCAGGCTTGATGCAGATGTTATTCAGACT
* * * * **
49278478 TAGTGCTTAGCAGGCTTTGTGCCGGTGCTATTTAGGCTTAGTGGTTAGC
66 TAGGGCCTAGCAGGCTTCGTGCCGGTGCTATTCAGGCTTAGTGCCTAGC
* *
49278527 AGGCTCAGTGCCAGTGTTATTTAGGCTTAGTGGCTAGCAGGCTTCGA-GCAGGTGTTATTCA-AG
1 AGGCTCAGTGCCAGTGTTATTCAGGCTTAGTGGCTAGCAGGCTT-GATGCAGATGTTATTCAGA-
* *
49278590 CTTAGGGCCTAGCAGGCTTCGTTCCGGTGTTATTCAGGCTTAGTGCCTAGC
64 CTTAGGGCCTAGCAGGCTTCGTGCCGGTGCTATTCAGGCTTAGTGCCTAGC
* * * * *
49278641 AAGCTCAGTGCCGGTGTTATTCAAGCTTAGCGCCTAGCAG
1 AGGCTCAGTGCCAGTGTTATTCAGGCTTAGTGGCTAGCAG
49278681 ACTTTGTGTC
Statistics
Matches: 132, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
113 1 0.01
114 130 0.98
115 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.31
Consensus pattern (114 bp):
AGGCTCAGTGCCAGTGTTATTCAGGCTTAGTGGCTAGCAGGCTTGATGCAGATGTTATTCAGACT
TAGGGCCTAGCAGGCTTCGTGCCGGTGCTATTCAGGCTTAGTGCCTAGC
Found at i:49279396 original size:81 final size:80
Alignment explanation
Indices: 49279293--49279451 Score: 291
Period size: 81 Copynumber: 2.0 Consensus size: 80
49279283 CATGGGTTGT
*
49279293 CACACGGCCGTGTGTCACACACGATTTGTTCGCACAACTGTGTGTCTTTTAAGTTTCTAGTGCGG
1 CACACAGCCGTGTGTCACACACGATTTGTTCGCACAACTGTGTGTCTTTTAAGTTTCTAGTGC-G
*
49279358 GTTTCACACGGTCTGG
65 GATTCACACGGTCTGG
49279374 CACACAGCCGTGTGTCACACACGATTTGTTCGCACAACTGTGTGTCTTTTAAGTTTCTAGTGCGG
1 CACACAGCCGTGTGTCACACACGATTTGTTCGCACAACTGTGTGTCTTTTAAGTTTCTAGTGCGG
49279439 ATTCACACGGTCT
66 ATTCACACGGTCT
49279452 AGCAACGGCC
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
80 14 0.18
81 62 0.82
ACGTcount: A:0.19, C:0.25, G:0.24, T:0.32
Consensus pattern (80 bp):
CACACAGCCGTGTGTCACACACGATTTGTTCGCACAACTGTGTGTCTTTTAAGTTTCTAGTGCGG
ATTCACACGGTCTGG
Found at i:49283647 original size:20 final size:19
Alignment explanation
Indices: 49283609--49283648 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
49283599 AAATCGAAAC
* *
49283609 AAAACAGAAAATTTTGGAA
1 AAAACAGAAAAATTGGGAA
49283628 AAAACATGAAAAATTGGGAA
1 AAAACA-GAAAAATTGGGAA
49283648 A
1 A
49283649 TAGGGGTCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.60, C:0.05, G:0.17, T:0.17
Consensus pattern (19 bp):
AAAACAGAAAAATTGGGAA
Found at i:49284799 original size:41 final size:41
Alignment explanation
Indices: 49284753--49284842 Score: 121
Period size: 41 Copynumber: 2.2 Consensus size: 41
49284743 AAATACATCA
* *
49284753 TTTTCATTTGT-CATCCTTTT-TAGATAACATCCTTTTCAACC
1 TTTTCATTT-TACATCCTTTTCCA-ATAAAATCCTTTTCAACC
*
49284794 TTTTCATTTTATATCCTTTTCCAATAAAATCCTTTTCAACC
1 TTTTCATTTTACATCCTTTTCCAATAAAATCCTTTTCAACC
49284835 TTTTCATT
1 TTTTCATT
49284843 GATTCGGTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
40 1 0.02
41 42 0.95
42 1 0.02
ACGTcount: A:0.23, C:0.23, G:0.02, T:0.51
Consensus pattern (41 bp):
TTTTCATTTTACATCCTTTTCCAATAAAATCCTTTTCAACC
Found at i:49289850 original size:25 final size:25
Alignment explanation
Indices: 49289789--49289851 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
49289779 TCAATAATTA
* *
49289789 GCTCACAACAGCTTCCGGTTACATG
1 GCTCACAAGAGCTTCCGGTTAAATG
* *
49289814 GCTCACATGAGCTTCCTGTTAAATG
1 GCTCACAAGAGCTTCCGGTTAAATG
49289839 GCTCGA-AAGAGCT
1 GCTC-ACAAGAGCT
49289852 ACCCTTTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 31 0.97
26 1 0.03
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (25 bp):
GCTCACAAGAGCTTCCGGTTAAATG
Found at i:49291765 original size:46 final size:46
Alignment explanation
Indices: 49291694--49291790 Score: 176
Period size: 46 Copynumber: 2.1 Consensus size: 46
49291684 CAATAAAGAA
*
49291694 ATCTCAAGTATTGAAGAGTCAAGGTGATAGTGATAATTATTGAACT
1 ATCTCAAGTAATGAAGAGTCAAGGTGATAGTGATAATTATTGAACT
*
49291740 ATCTCAAGTAATGAAGAGTCGAGGTGATAGTGATAATTATTGAACT
1 ATCTCAAGTAATGAAGAGTCAAGGTGATAGTGATAATTATTGAACT
49291786 ATCTC
1 ATCTC
49291791 TAAGACGAGT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.32
Consensus pattern (46 bp):
ATCTCAAGTAATGAAGAGTCAAGGTGATAGTGATAATTATTGAACT
Found at i:49296261 original size:27 final size:27
Alignment explanation
Indices: 49296219--49296278 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
49296209 TACACCAAGC
49296219 AAAA-TTTTGACGATTTTACCACTAGT
1 AAAATTTTTGACGATTTTACCACTAGT
* * *
49296245 AAAATTTTTGATGATTTTGCCTCTAGT
1 AAAATTTTTGACGATTTTACCACTAGT
49296272 AAAATTT
1 AAAATTT
49296279 CAAAAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 4 0.13
27 26 0.87
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (27 bp):
AAAATTTTTGACGATTTTACCACTAGT
Found at i:49298255 original size:23 final size:23
Alignment explanation
Indices: 49298225--49298277 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
49298215 TCGGGTTAAA
*
49298225 AAAT-AATTTAATTGAGTAAATT
1 AAATAAATTTAATTGACTAAATT
* * *
49298247 AATTAAATTTATTTTACTAAATT
1 AAATAAATTTAATTGACTAAATT
49298270 AAATAAAT
1 AAATAAAT
49298278 AATATTCTGG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 3 0.12
23 22 0.88
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (23 bp):
AAATAAATTTAATTGACTAAATT
Found at i:49310684 original size:4 final size:4
Alignment explanation
Indices: 49310677--49310726 Score: 91
Period size: 4 Copynumber: 12.5 Consensus size: 4
49310667 TGTACGTACG
*
49310677 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA AACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
49310725 TA
1 TA
49310727 AATTAATTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
TACA
Found at i:49316111 original size:6 final size:6
Alignment explanation
Indices: 49316102--49316143 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
49316092 TCTATTTCTC
49316102 CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT
1 CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT
49316144 GGAGAAAGTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (6 bp):
CATTTT
Found at i:49327598 original size:22 final size:22
Alignment explanation
Indices: 49327573--49327617 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
49327563 AAAAGTAAAC
*
49327573 TAAAATACTTTAA-TAAAATAGA
1 TAAAAT-CTTGAATTAAAATAGA
*
49327595 TAAACTCTTGAATTAAAATAGA
1 TAAAATCTTGAATTAAAATAGA
49327617 T
1 T
49327618 TTCAAGAGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (22 bp):
TAAAATCTTGAATTAAAATAGA
Found at i:49328990 original size:10 final size:9
Alignment explanation
Indices: 49328975--49329002 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
49328965 CGAATGACTC
49328975 TTTTTTTTA
1 TTTTTTTTA
49328984 TTTTTTTTA
1 TTTTTTTTA
49328993 TTTTTTTTA
1 TTTTTTTTA
49329002 T
1 T
49329003 ACAAAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:49341442 original size:44 final size:44
Alignment explanation
Indices: 49341393--49341578 Score: 108
Period size: 44 Copynumber: 4.2 Consensus size: 44
49341383 AGGATAACAG
*
49341393 ATCTTATCTTCCTAAGCAGTAGTGGAGTAGATCAAAGACGACAA
1 ATCTTATCTTCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAA
* * ** * *
49341437 ATCTTATCTTTCAAAG-A-TAGTGGGAAGCAGATTTAAG-CCACCGA
1 ATCTTATCTTCCTAAGCAGTAGT-GG-AGCAGATCAAAGACGA-CAA
* * * * * * * * ** ** *
49341481 ACCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATAACAG
1 ATCTTATCTTCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAA
* * * *
49341525 ACCTTATCTCCCTAAGAAGTAGTGGAGCAGATCAAAGATGACAA
1 ATCTTATCTTCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAA
49341569 ATCTTATCTT
1 ATCTTATCTT
49341579 TCCAGGATAG
Statistics
Matches: 101, Mismatches: 35, Indels: 12
0.68 0.24 0.08
Matches are distributed among these distances:
42 4 0.04
43 5 0.05
44 86 0.85
45 4 0.04
46 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (44 bp):
ATCTTATCTTCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAA
Found at i:49341622 original size:132 final size:132
Alignment explanation
Indices: 49341385--49341665 Score: 429
Period size: 132 Copynumber: 2.1 Consensus size: 132
49341375 GATCAGTAAG
* * *
49341385 GATAACAGATCTTATCTTCCTAAGCAGTAGTGGAGTAGATCAAAGACGACAAATCTTATCTTTCA
1 GATAACAGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCA
* *
49341450 AAGATAGTGGGAAGCAGATTTAAGCCACCGAACCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTG
66 AAGATAGTGGGAAGCAGATTTAAGCCACCGAACCTTGTCTCCCTGAGCAGCAACAGAGTAGGTTG
49341515 AA
131 AA
* * *
49341517 GATAACAGACCTTATCTCCCTAAGAAGTAGTGGAGCAGATCAAAGATGACAAATCTTATCTTTCC
1 GATAACAGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCA
* * * *
49341582 AGGATAGTGGGAATCAGATTTAAGCCACCGAGCCTTGTCTCCCTGAGCAGCAATAGAGTAGGTTG
66 AAGATAGTGGGAAGCAGATTTAAGCCACCGAACCTTGTCTCCCTGAGCAGCAACAGAGTAGGTTG
49341647 AA
131 AA
* *
49341649 AAT-ACAGGTCTTATCTC
1 GATAACAGATCTTATCTC
49341666 TCTGAAGTTG
Statistics
Matches: 134, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
131 12 0.09
132 122 0.91
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.25
Consensus pattern (132 bp):
GATAACAGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCA
AAGATAGTGGGAAGCAGATTTAAGCCACCGAACCTTGTCTCCCTGAGCAGCAACAGAGTAGGTTG
AA
Found at i:49345639 original size:25 final size:25
Alignment explanation
Indices: 49345611--49345694 Score: 105
Period size: 25 Copynumber: 3.4 Consensus size: 25
49345601 ACGAACTGTA
* *
49345611 AATCGATAAGCTCATACGAGATGAG
1 AATCAATAAGATCATACGAGATGAG
*
49345636 AATCAATAAGATCTTACGAGATGAG
1 AATCAATAAGATCATACGAGATGAG
* * *
49345661 AATCAATAAGATCAAACAAGCTGAG
1 AATCAATAAGATCATACGAGATGAG
*
49345686 AATCGATAA
1 AATCAATAA
49345695 TCCCTAATGA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.20
Consensus pattern (25 bp):
AATCAATAAGATCATACGAGATGAG
Found at i:49346059 original size:17 final size:18
Alignment explanation
Indices: 49346025--49346059 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
49346015 AATAAAACAA
49346025 TTCATTTTATACAATTTT
1 TTCATTTTATACAATTTT
49346043 TTCATTTT-TAC-ATTTT
1 TTCATTTTATACAATTTT
49346059 T
1 T
49346060 ATAAAATTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 3 0.18
18 8 0.47
ACGTcount: A:0.23, C:0.11, G:0.00, T:0.66
Consensus pattern (18 bp):
TTCATTTTATACAATTTT
Found at i:49346978 original size:14 final size:15
Alignment explanation
Indices: 49346944--49346979 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
49346934 GCTTATAAAA
49346944 CAAAAATTACTATAT
1 CAAAAATTACTATAT
49346959 CAAAAATTACTATAT
1 CAAAAATTACTATAT
49346974 CAAAAA
1 CAAAAA
49346980 CCTTTTCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (15 bp):
CAAAAATTACTATAT
Found at i:49360860 original size:45 final size:45
Alignment explanation
Indices: 49360794--49360978 Score: 198
Period size: 45 Copynumber: 4.2 Consensus size: 45
49360784 TACGCGTACT
* * * *
49360794 GGGTACCATTGATTATAAAGGTGGTTGTTGTGTGCAAATTCCACC
1 GGGTATCATTGATTATGAAGGTGGTTGTTATGTGCTAATTCCACC
* * * *
49360839 GGGTATCATTGATTATGAAGGTCGTTGCTGTGTGCTGATTCCACC
1 GGGTATCATTGATTATGAAGGTGGTTGTTATGTGCTAATTCCACC
* *
49360884 GGGTA-CTATTGATGATGAAGGTGGTTGTTATGTGCTGATTCCACC
1 GGGTATC-ATTGATTATGAAGGTGGTTGTTATGTGCTAATTCCACC
** *
49360929 AAGTATCATTGACTAT-AAGGGTGG-TGTTATGTGCTAA-TCCACC
1 GGGTATCATTGATTATGAA-GGTGGTTGTTATGTGCTAATTCCACC
*
49360972 GTGTATC
1 GGGTATC
49360979 TGTTATTATT
Statistics
Matches: 120, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
43 11 0.09
44 15 0.12
45 93 0.77
46 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.35
Consensus pattern (45 bp):
GGGTATCATTGATTATGAAGGTGGTTGTTATGTGCTAATTCCACC
Found at i:49366061 original size:35 final size:35
Alignment explanation
Indices: 49366015--49366087 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
49366005 AAAAGATCTC
*
49366015 AGTAATTTCACTTTCAGCTACACACTTTCTAATTA
1 AGTAAGTTCACTTTCAGCTACACACTTTCTAATTA
49366050 AGTAAGTTCACTTTCAGCTACACACTTTCTAATTA
1 AGTAAGTTCACTTTCAGCTACACACTTTCTAATTA
49366085 AGT
1 AGT
49366088 TATCTACACA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (35 bp):
AGTAAGTTCACTTTCAGCTACACACTTTCTAATTA
Found at i:49374207 original size:40 final size:40
Alignment explanation
Indices: 49374163--49374245 Score: 103
Period size: 40 Copynumber: 2.1 Consensus size: 40
49374153 CAAGAGCAAT
* *
49374163 AAAGTGCAAACAGGGGCACAAATGTGCAATTAGGGACACC
1 AAAGTGCAAACAGGAGCACAAATGTGCAATCAGGGACACC
* * * * *
49374203 AAAGTGTATATAGGAGCACAGATGTGCAGTCAGGGACACC
1 AAAGTGCAAACAGGAGCACAAATGTGCAATCAGGGACACC
49374243 AAA
1 AAA
49374246 ATTTATCCAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.40, C:0.18, G:0.28, T:0.14
Consensus pattern (40 bp):
AAAGTGCAAACAGGAGCACAAATGTGCAATCAGGGACACC
Found at i:49374262 original size:40 final size:38
Alignment explanation
Indices: 49374176--49374274 Score: 101
Period size: 40 Copynumber: 2.5 Consensus size: 38
49374166 GTGCAAACAG
* * *
49374176 GGGCACAAATGTGCAATTAGGGACACCAAAGTGTATATA
1 GGGCAC-AATGTGCAGTCAGGGACACCAAAATGTATATA
*
49374215 GGAGCACAGATGTGCAGTCAGGGACACCAAAATTTATCCA-A
1 GG-GCACA-ATGTGCAGTCAGGGACACCAAAATGTAT--ATA
49374256 GGGCACAATTGTGCAGTCA
1 GGGCACAA-TGTGCAGTCA
49374275 ATTGTACATT
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
39 4 0.08
40 43 0.84
41 3 0.06
42 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.19
Consensus pattern (38 bp):
GGGCACAATGTGCAGTCAGGGACACCAAAATGTATATA
Found at i:49376536 original size:17 final size:17
Alignment explanation
Indices: 49376514--49376548 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
49376504 ATGGGCCAAT
* *
49376514 ACACGGTCATGTGTCAC
1 ACACGGGCATGTGACAC
49376531 ACACGGGCATGTGACAC
1 ACACGGGCATGTGACAC
49376548 A
1 A
49376549 GCCATGTGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.17
Consensus pattern (17 bp):
ACACGGGCATGTGACAC
Found at i:49381289 original size:41 final size:41
Alignment explanation
Indices: 49381238--49381341 Score: 147
Period size: 41 Copynumber: 2.5 Consensus size: 41
49381228 CCGAGTGTAC
* *
49381238 ACAGGGGCACGAATATGCTATTTAGGGGTACCA-AAGTACAA
1 ACAGGGGCACGTATATGCAATTTAGGGGTA-CAGAAGTACAA
*
49381279 ACAGGGGCACGTATGTGCAATTTAGGGGTACAGAAGTACAA
1 ACAGGGGCACGTATATGCAATTTAGGGGTACAGAAGTACAA
* *
49381320 ATAAGGGCACGTATATGCAATT
1 ACAGGGGCACGTATATGCAATT
49381342 CAGAGAATAA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 2 0.04
41 54 0.96
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21
Consensus pattern (41 bp):
ACAGGGGCACGTATATGCAATTTAGGGGTACAGAAGTACAA
Found at i:49388763 original size:46 final size:46
Alignment explanation
Indices: 49388685--49388981 Score: 528
Period size: 46 Copynumber: 6.5 Consensus size: 46
49388675 TCACTTTGTC
**
49388685 ACCACTTATCAC-TTGTTC-C-TGATCAGATAAGTGTAGCTAAAACT
1 ACCACTTATCACTTTG-TCACTTGATCAGATAAGTGTAGCTAAGGCT
49388729 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
49388775 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
*
49388821 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
49388867 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
*
49388913 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
49388959 ACCACTTATCACTTTGTCACTTG
1 ACCACTTATCACTTTGTCACTTG
49388982 TCACTGATCA
Statistics
Matches: 245, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
44 14 0.06
45 4 0.02
46 227 0.93
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (46 bp):
ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
Found at i:49388768 original size:108 final size:107
Alignment explanation
Indices: 49388580--49388794 Score: 358
Period size: 108 Copynumber: 2.0 Consensus size: 107
49388570 TACGTATGAT
** *
49388580 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGCCACTTTA
1 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAACTACCACTTATCACTTTGCCACTTGA
*
49388645 TCAGATAAGTGTAGCTAAAGTTACCACTTATCACTTTGTCAC
66 TCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCAC
* *
49388687 CACTTATCACTTGTTCCTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTTGTCACTTG
1 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCT-AAACTACCACTTATCACTTTGCCACTTG
*
49388752 ATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCAC
65 ATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCAC
49388795 TTGATCAGAT
Statistics
Matches: 100, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
107 35 0.35
108 65 0.65
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (107 bp):
CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAACTACCACTTATCACTTTGCCACTTGA
TCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCAC
Found at i:49396010 original size:28 final size:29
Alignment explanation
Indices: 49395962--49396019 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
49395952 GTTCATGTTC
49395962 TTTTTAGATGTGAAATAATTTTTATATTT
1 TTTTTAGATGTGAAATAATTTTTATATTT
* *
49395991 TTTTATAGAT-TGATAT-ATTTTTATGTTT
1 TTTT-TAGATGTGAAATAATTTTTATATTT
49396019 T
1 T
49396020 AAAATGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 12 0.46
29 9 0.35
30 5 0.19
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (29 bp):
TTTTTAGATGTGAAATAATTTTTATATTT
Found at i:49396905 original size:9 final size:9
Alignment explanation
Indices: 49396891--49396939 Score: 80
Period size: 9 Copynumber: 5.4 Consensus size: 9
49396881 TTTGGTTAAA
49396891 AATTAACCG
1 AATTAACCG
*
49396900 AATTAACCA
1 AATTAACCG
49396909 AATTAACCG
1 AATTAACCG
*
49396918 AATTACCCG
1 AATTAACCG
49396927 AATTAACCG
1 AATTAACCG
49396936 AATT
1 AATT
49396940 GAATCCCTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:49398090 original size:28 final size:29
Alignment explanation
Indices: 49398042--49398099 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
49398032 GTTCATGTTC
49398042 TTTTTAGATGTGAAATAATTTTTATATTT
1 TTTTTAGATGTGAAATAATTTTTATATTT
* *
49398071 TTTTATAGAT-TGATAT-ATTTTTATGTTT
1 TTTT-TAGATGTGAAATAATTTTTATATTT
49398099 T
1 T
49398100 AAAATGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 12 0.46
29 9 0.35
30 5 0.19
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (29 bp):
TTTTTAGATGTGAAATAATTTTTATATTT
Found at i:49399086 original size:6 final size:6
Alignment explanation
Indices: 49399024--49399070 Score: 94
Period size: 6 Copynumber: 7.8 Consensus size: 6
49399014 ATTTTTAGAC
49399024 TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAG
1 TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAG
49399071 AATTTTATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (6 bp):
TTTAGT
Found at i:49399094 original size:20 final size:20
Alignment explanation
Indices: 49399024--49399083 Score: 83
Period size: 18 Copynumber: 3.2 Consensus size: 20
49399014 ATTTTTAGAC
49399024 TTTAGTTTTAG--TTTTAGT
1 TTTAGTTTTAGAATTTTAGT
49399042 TTTAGTTTTAG--TTTTAGT
1 TTTAGTTTTAGAATTTTAGT
*
49399060 TTTAGTTTTAGAATTTTATT
1 TTTAGTTTTAGAATTTTAGT
49399080 TTTA
1 TTTA
49399084 TTTATTAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
18 29 0.74
20 10 0.26
ACGTcount: A:0.20, C:0.00, G:0.13, T:0.67
Consensus pattern (20 bp):
TTTAGTTTTAGAATTTTAGT
Found at i:49399751 original size:20 final size:19
Alignment explanation
Indices: 49399718--49399779 Score: 65
Period size: 20 Copynumber: 3.3 Consensus size: 19
49399708 TTAGGATTTA
49399718 AAGTTTTT-TATATTTTTT
1 AAGTTTTTATATATTTTTT
*
49399736 AAGTTTTCTATATATTCTTT
1 AAGTTTT-TATATATTTTTT
*
49399756 AGATTTTTTATA-ATTTTTT
1 A-AGTTTTTATATATTTTTT
*
49399775 GAGTT
1 AAGTT
49399780 GTAAAGTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
18 10 0.28
19 7 0.19
20 14 0.39
21 5 0.14
ACGTcount: A:0.24, C:0.03, G:0.08, T:0.65
Consensus pattern (19 bp):
AAGTTTTTATATATTTTTT
Found at i:49405417 original size:19 final size:19
Alignment explanation
Indices: 49405386--49405435 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
49405376 CATCTCTTCT
49405386 TTCATCT-CTGGTTCTTTG
1 TTCATCTGCTGGTTCTTTG
49405404 TTCATCTGCTGGTTCTTTG
1 TTCATCTGCTGGTTCTTTG
* *
49405423 ATCCTCTGCTGGT
1 TTCATCTGCTGGT
49405436 GCTGGTTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
18 7 0.24
19 22 0.76
ACGTcount: A:0.06, C:0.24, G:0.20, T:0.50
Consensus pattern (19 bp):
TTCATCTGCTGGTTCTTTG
Found at i:49405444 original size:25 final size:25
Alignment explanation
Indices: 49405410--49405532 Score: 150
Period size: 25 Copynumber: 5.2 Consensus size: 25
49405400 TTTGTTCATC
*
49405410 TGCTGGTTCTTTGATCCTCTGCTGG
1 TGCTGGTTCTTTGTTCCTCTGCTGG
*
49405435 TGCTGGTTCTTTGTTCTTCTGCTGG
1 TGCTGGTTCTTTGTTCCTCTGCTGG
*
49405460 TGCTGGTTCTTTCTT-C-CT-C---
1 TGCTGGTTCTTTGTTCCTCTGCTGG
* *
49405479 TGCTGGTTATTTGTTCCTCTGCTTG
1 TGCTGGTTCTTTGTTCCTCTGCTGG
*
49405504 TACTGGTTCTTTGTTCCTCTGCTGG
1 TGCTGGTTCTTTGTTCCTCTGCTGG
49405529 TGCT
1 TGCT
49405533 TTGTTCCTCT
Statistics
Matches: 82, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
19 13 0.16
20 1 0.01
21 2 0.02
22 2 0.02
23 2 0.02
25 62 0.76
ACGTcount: A:0.02, C:0.24, G:0.24, T:0.50
Consensus pattern (25 bp):
TGCTGGTTCTTTGTTCCTCTGCTGG
Found at i:49405483 original size:44 final size:44
Alignment explanation
Indices: 49405435--49405542 Score: 162
Period size: 44 Copynumber: 2.5 Consensus size: 44
49405425 CCTCTGCTGG
* *
49405435 TGCTGGTTCTTTGTTCTTCTGCTGGTGCTGGTTCTTTCTTCCTC
1 TGCTGGTTCTTTGTTCCTCTGCTGGTACTGGTTCTTTCTTCCTC
* * *
49405479 TGCTGGTTATTTGTTCCTCTGCTTGTACTGGTTCTTTGTTCCTC
1 TGCTGGTTCTTTGTTCCTCTGCTGGTACTGGTTCTTTCTTCCTC
*
49405523 TGCTGGTGCTTTGTTCCTCT
1 TGCTGGTTCTTTGTTCCTCT
49405543 TCTCCACCAC
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.02, C:0.24, G:0.22, T:0.52
Consensus pattern (44 bp):
TGCTGGTTCTTTGTTCCTCTGCTGGTACTGGTTCTTTCTTCCTC
Found at i:49405497 original size:69 final size:69
Alignment explanation
Indices: 49405393--49405532 Score: 217
Period size: 69 Copynumber: 2.0 Consensus size: 69
49405383 TCTTTCATCT
* * * *
49405393 CTGGTTCTTTGTTCATCTGCTGGTTCTTTGATCCTCTGCTGGTGCTGGTTCTTTGTTCTTCTGCT
1 CTGGTTCTTTCTTCATCTGCTGGTTATTTGATCCTCTGCTGGTACTGGTTCTTTGTTCCTCTGCT
49405458 GGTG
66 GGTG
* * *
49405462 CTGGTTCTTTCTTCCTCTGCTGGTTATTTGTTCCTCTGCTTGTACTGGTTCTTTGTTCCTCTGCT
1 CTGGTTCTTTCTTCATCTGCTGGTTATTTGATCCTCTGCTGGTACTGGTTCTTTGTTCCTCTGCT
49405527 GGTG
66 GGTG
49405531 CT
1 CT
49405533 TTGTTCCTCT
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 64 1.00
ACGTcount: A:0.03, C:0.24, G:0.24, T:0.50
Consensus pattern (69 bp):
CTGGTTCTTTCTTCATCTGCTGGTTATTTGATCCTCTGCTGGTACTGGTTCTTTGTTCCTCTGCT
GGTG
Found at i:49405539 original size:19 final size:19
Alignment explanation
Indices: 49405393--49405542 Score: 93
Period size: 19 Copynumber: 7.9 Consensus size: 19
49405383 TCTTTCATCT
*
49405393 CTGGTTCTTTGTTCATCTG
1 CTGGTTCTTTGTTCCTCTG
*
49405412 CTGGTTCTTTGATCCTCTG
1 CTGGTTCTTTGTTCCTCTG
* *
49405431 CTGGTGC-TGGTT-CT-T-
1 CTGGTTCTTTGTTCCTCTG
*
49405446 -T-GTTCTTCTG---CTGGTG
1 CTGGTTCTT-TGTTCCT-CTG
*
49405462 CTGGTTCTTTCTTCCTCTG
1 CTGGTTCTTTGTTCCTCTG
*
49405481 CTGGTTATTTGTTCCTCTGCTTG
1 CTGGTTCTTTGTT-C-CT-C-TG
49405504 TACTGGTTCTTTGTTCCTCTG
1 --CTGGTTCTTTGTTCCTCTG
*
49405525 CTGGTGCTTTGTTCCTCT
1 CTGGTTCTTTGTTCCTCT
49405543 TCTCCACCAC
Statistics
Matches: 102, Mismatches: 13, Indels: 32
0.69 0.09 0.22
Matches are distributed among these distances:
13 5 0.05
14 2 0.02
15 2 0.02
16 1 0.01
17 4 0.04
18 9 0.09
19 53 0.52
20 3 0.03
21 4 0.04
22 2 0.02
23 4 0.04
24 1 0.01
25 12 0.12
ACGTcount: A:0.03, C:0.24, G:0.23, T:0.51
Consensus pattern (19 bp):
CTGGTTCTTTGTTCCTCTG
Found at i:49410284 original size:12 final size:13
Alignment explanation
Indices: 49410262--49410290 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
49410252 AAGTTTTATT
49410262 TTTATTTTATTTA
1 TTTATTTTATTTA
49410275 TTTA-TTTATTTA
1 TTTATTTTATTTA
49410287 TTTA
1 TTTA
49410291 CTTAGTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:49414370 original size:18 final size:18
Alignment explanation
Indices: 49414347--49414412 Score: 123
Period size: 18 Copynumber: 3.7 Consensus size: 18
49414337 AAAATATGAG
*
49414347 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
49414365 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
49414383 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
49414401 AAATGATGTTCA
1 AAATGATGTTCA
49414413 AATTGATGGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:49414992 original size:72 final size:72
Alignment explanation
Indices: 49414838--49415010 Score: 215
Period size: 72 Copynumber: 2.4 Consensus size: 72
49414828 AACAACAATG
* * * * * *
49414838 CTAAACTAGTTTTATCAACAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTA
1 CTAAATTAGTTTTATCAAAAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATATTCTACTTA
49414903 TTTATGT
66 TTTATGT
* * *
49414910 GT-AATCTAGTTTTGTTAAAAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATATTCTACTT
1 CTAAAT-TAGTTTTATCAAAAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATATTCTACTT
*
49414974 ATTT-TTT
65 ATTTATGT
*
49414981 ACTAAATTAGTTTTATCAATAGTTGTTTAT
1 -CTAAATTAGTTTTATCAAAAGTTGTTTAT
49415011 ATGTGATTTT
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
71 4 0.05
72 77 0.92
73 3 0.04
ACGTcount: A:0.26, C:0.07, G:0.13, T:0.54
Consensus pattern (72 bp):
CTAAATTAGTTTTATCAAAAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATATTCTACTTA
TTTATGT
Found at i:49420239 original size:25 final size:24
Alignment explanation
Indices: 49420210--49420259 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
49420200 ATTTTATTTT
* *
49420210 AATATTTATATTGATATTAAATAAA
1 AATATCTATATTAATATTAAA-AAA
49420235 AATATCTATATTAATATTAAAAAA
1 AATATCTATATTAATATTAAAAAA
49420259 A
1 A
49420260 TCAATTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
AATATCTATATTAATATTAAAAAA
Found at i:49420268 original size:20 final size:21
Alignment explanation
Indices: 49420223--49420269 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
49420213 ATTTATATTG
* *
49420223 ATATTAA-A-TAAAAATATCT
1 ATATTAATATTAAAAAAATCA
49420242 ATATTAATATTAAAAAAATCA
1 ATATTAATATTAAAAAAATCA
49420263 AT-TTAAT
1 ATATTAAT
49420270 TTTGGAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.29
20 6 0.25
21 11 0.46
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATTAATATTAAAAAAATCA
Found at i:49435438 original size:18 final size:19
Alignment explanation
Indices: 49435412--49435465 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 19
49435402 AATCAATTGT
*
49435412 TAAACATTA-AAAAACTGA
1 TAAAAATTAGAAAAACTGA
*
49435430 TAAAAATTATAAAAA-TGA
1 TAAAAATTAGAAAAACTGA
**
49435448 CGAAAA-TAGAAAAACTGA
1 TAAAAATTAGAAAAACTGA
49435466 AACCAGTCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 7 0.23
18 18 0.60
19 5 0.17
ACGTcount: A:0.63, C:0.07, G:0.09, T:0.20
Consensus pattern (19 bp):
TAAAAATTAGAAAAACTGA
Found at i:49435860 original size:19 final size:18
Alignment explanation
Indices: 49435836--49435880 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
49435826 TTAAAATTTG
49435836 AAATTATAAATATAGTTTT
1 AAATTATAAAT-TAGTTTT
**
49435855 AAATTATTAAATTCTTTTT
1 AAATTA-TAAATTAGTTTT
49435874 AAATTAT
1 AAATTAT
49435881 TATCATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (18 bp):
AAATTATAAATTAGTTTT
Found at i:49436493 original size:21 final size:21
Alignment explanation
Indices: 49436469--49436520 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
49436459 TCTTGTGCTT
* * *
49436469 GTTTTTTTTTTTTTTTTTGAA
1 GTTTTTTTTTGTCTTTTTAAA
*
49436490 GTTTTGTTTTGTCTTTTTAAA
1 GTTTTTTTTTGTCTTTTTAAA
49436511 GTTTTTTTTT
1 GTTTTTTTTT
49436521 ACGTTAGTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.10, C:0.02, G:0.12, T:0.77
Consensus pattern (21 bp):
GTTTTTTTTTGTCTTTTTAAA
Found at i:49444438 original size:18 final size:18
Alignment explanation
Indices: 49444415--49444451 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
49444405 GTAATGGATA
49444415 CTCAACTTTCTTTACTTT
1 CTCAACTTTCTTTACTTT
49444433 CTCAACTTTCTTTACTTT
1 CTCAACTTTCTTTACTTT
49444451 C
1 C
49444452 CCGTGTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.30, G:0.00, T:0.54
Consensus pattern (18 bp):
CTCAACTTTCTTTACTTT
Found at i:49447151 original size:11 final size:11
Alignment explanation
Indices: 49447135--49447161 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
49447125 AACATGTTCA
49447135 TTTTTTTAAAT
1 TTTTTTTAAAT
49447146 TTTTTTTAAAT
1 TTTTTTTAAAT
49447157 TTTTT
1 TTTTT
49447162 ACTAATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTTTAAAT
Found at i:49447408 original size:19 final size:21
Alignment explanation
Indices: 49447365--49447417 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 21
49447355 AAGTTATTAA
49447365 TTTTTAAAATTA-TAAATATAG
1 TTTTT-AAATTATTAAATATAG
49447386 -TTTTAAATTATTAAAT-T-G
1 TTTTTAAATTATTAAATATAG
*
49447404 TTTTTCAATTATTA
1 TTTTTAAATTATTA
49447418 TCATTATACA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 1 0.03
19 19 0.66
20 9 0.31
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (21 bp):
TTTTTAAATTATTAAATATAG
Found at i:49459897 original size:17 final size:17
Alignment explanation
Indices: 49459873--49459910 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
49459863 TATTTTTTGT
49459873 AAAA-AAAATATTAA-TA
1 AAAATAAAATA-TAATTA
49459889 AAAATAAAATATAATTA
1 AAAATAAAATATAATTA
49459906 AAAAT
1 AAAAT
49459911 TTTATATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAATAAAATATAATTA
Found at i:49464555 original size:433 final size:434
Alignment explanation
Indices: 49463749--49464627 Score: 1609
Period size: 433 Copynumber: 2.0 Consensus size: 434
49463739 TTTTGTGTTG
*
49463749 TATTTC-AATTTGGTCTTTTGAATTTCTTTAATTTTAAGCAATACAATTTGTCATTGATTTCATC
1 TATTTCAAATTCGGTCTTTTGAATTTCTTTAATTTTAAGCAATACAATTTGTCATTGATTTCATC
*
49463813 TGGGCCCAGATTAGATGCCGCGTTTTAGAGGGGCGGGGATTATTTCCCGCTTGGTCCCCCAAGTA
66 TGGGCCCAGATTAGATGCCGCGTTTTAGAGGGGCGGGGAATATTTCCCGCTTGGTCCCCCAAGTA
49463878 ATCCGCGCATTACATTCGACCCATTTACTTTATTTTATTTTCATTTGGTTCTTTTAATTCTGTTT
131 ATCCGCGCATTACATTCGACCCATTTACTTTATTTTATTTTCATTTGGTTCTTTTAATTCTGTTT
*
49463943 TTAATTTAATTTAATCCCTTTTTGTATTTTTTATCAATTAATTTAGTACTAATATCATTATTATT
196 TTAATTTAATTTAATCCCTTTTTGTATTTTTTATCAATTAATTTAGTAATAATATCATTATTATT
49464008 TATTAATTCTAGTATCATTCGTATTATCATTAAACTTTTCATTTCATATACATTACTTATTTAGA
261 TATTAATTCTAGTATCATTCGTATTATCATTAAACTTTTCATTTCATATACATTACTTATTTAGA
*
49464073 TTAATGTATGTATATTATTTGGTATATTACACATATATTTTTATTTACTTCGAAATTCATTTTAA
326 TTAATGAATGTATATTATTTGGTATATTACACATATATTTTTATTTACTTCGAAATTCATTTTAA
*
49464138 TATTATAATTTCACATAGTATTTCTTTTTATCTTCCTTTACATC
391 TATTATAATTTCACATAGTATTTCTTTTTATCTTCCTTTAAATC
* *
49464182 TATTTCAAATTCGGTCTTTTGAATTTCTTTAATTTTGAGCAATACAGTTTGTCATTGATTTCATC
1 TATTTCAAATTCGGTCTTTTGAATTTCTTTAATTTTAAGCAATACAATTTGTCATTGATTTCATC
* * *
49464247 TGGGCCTAGATTAGATGCTGCGTTTTGGAGGGGCGGGGAATATTTCCCGCTTGGTCCCCCAAGTA
66 TGGGCCCAGATTAGATGCCGCGTTTTAGAGGGGCGGGGAATATTTCCCGCTTGGTCCCCCAAGTA
* * *
49464312 ATCCGCGCATTACATTTGGCCCCTTTACTTTATTTTATTTTCATTTGGTTCTTTTAATTCTGTTT
131 ATCCGCGCATTACATTCGACCCATTTACTTTATTTTATTTTCATTTGGTTCTTTTAATTCTGTTT
49464377 TTAATTTAATTTAATCCC-TTTTGTATTTTTTATCAATTAATTTAGTAATAATATCATTATTATT
196 TTAATTTAATTTAATCCCTTTTTGTATTTTTTATCAATTAATTTAGTAATAATATCATTATTATT
*
49464441 TATTAATTCTAGTATCATTCGTATTATCATTAAACTTTTCATTTCATATACGTTACTTATTTAGA
261 TATTAATTCTAGTATCATTCGTATTATCATTAAACTTTTCATTTCATATACATTACTTATTTAGA
49464506 TTAATGAATGTATATTATTTGGTATATTACACATATATTTTTATTTACTTCGAAATTCATTTTAA
326 TTAATGAATGTATATTATTTGGTATATTACACATATATTTTTATTTACTTCGAAATTCATTTTAA
*
49464571 TATTATAATTTCATATAGTATTTCTTTTTATCTTCCTTTAAATC
391 TATTATAATTTCACATAGTATTTCTTTTTATCTTCCTTTAAATC
49464615 TATTTCAAATTCG
1 TATTTCAAATTCG
49464628 TCTGTATATA
Statistics
Matches: 430, Mismatches: 15, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
433 234 0.54
434 196 0.46
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.49
Consensus pattern (434 bp):
TATTTCAAATTCGGTCTTTTGAATTTCTTTAATTTTAAGCAATACAATTTGTCATTGATTTCATC
TGGGCCCAGATTAGATGCCGCGTTTTAGAGGGGCGGGGAATATTTCCCGCTTGGTCCCCCAAGTA
ATCCGCGCATTACATTCGACCCATTTACTTTATTTTATTTTCATTTGGTTCTTTTAATTCTGTTT
TTAATTTAATTTAATCCCTTTTTGTATTTTTTATCAATTAATTTAGTAATAATATCATTATTATT
TATTAATTCTAGTATCATTCGTATTATCATTAAACTTTTCATTTCATATACATTACTTATTTAGA
TTAATGAATGTATATTATTTGGTATATTACACATATATTTTTATTTACTTCGAAATTCATTTTAA
TATTATAATTTCACATAGTATTTCTTTTTATCTTCCTTTAAATC
Found at i:49470876 original size:46 final size:46
Alignment explanation
Indices: 49470805--49471017 Score: 376
Period size: 46 Copynumber: 4.7 Consensus size: 46
49470795 GGCTGTTACA
49470805 CTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAG
1 CTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAG
* * *
49470851 CTATCACTTATCACTTTGTTACTTGATCAGATAAGTGTAGTTAAAG
1 CTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAG
49470897 CTACCACTTATCACTTTGTCACTTGATCAGATAA--GTAGCTAAAG
1 CTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAG
49470941 CTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAG
1 CTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAG
*
49470987 CTATCACTTATCACTTTGTCACTTGATCAGA
1 CTACCACTTATCACTTTGTCACTTGATCAGA
49471018 AGTACTCAAA
Statistics
Matches: 158, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
44 43 0.27
46 115 0.73
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (46 bp):
CTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAG
Found at i:49470968 original size:90 final size:91
Alignment explanation
Indices: 49470805--49471017 Score: 374
Period size: 90 Copynumber: 2.3 Consensus size: 91
49470795 GGCTGTTACA
*
49470805 CTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGT
1 CTACCACTTATCACTTTGTCACTTGATCAGATAAG-GTAGCTAAAGCTACCACTTATCACTTTGT
* *
49470870 TACTTGATCAGATAAGTGTAGTTAAAG
65 CACTTGATCAGATAAGTGTAGCTAAAG
49470897 CTACCACTTATCACTTTGTCACTTGATCAGATAA-GTAGCTAAAGCTACCACTTATCACTTTGTC
1 CTACCACTTATCACTTTGTCACTTGATCAGATAAGGTAGCTAAAGCTACCACTTATCACTTTGTC
49470961 ACTTGATCAGATAAGTGTAGCTAAAG
66 ACTTGATCAGATAAGTGTAGCTAAAG
*
49470987 CTATCACTTATCACTTTGTCACTTGATCAGA
1 CTACCACTTATCACTTTGTCACTTGATCAGA
49471018 AGTACTCAAA
Statistics
Matches: 117, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
90 83 0.71
92 34 0.29
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (91 bp):
CTACCACTTATCACTTTGTCACTTGATCAGATAAGGTAGCTAAAGCTACCACTTATCACTTTGTC
ACTTGATCAGATAAGTGTAGCTAAAG
Found at i:49482389 original size:44 final size:44
Alignment explanation
Indices: 49482339--49482680 Score: 427
Period size: 44 Copynumber: 7.8 Consensus size: 44
49482329 TGAAATCACA
* * *
49482339 AAGTCCTATCTCCTTGACCAGCAGTGAAATAGGTTGAAGATTGT
1 AAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGT
* * *
49482383 AAGTCCTATCTCCTTGACCAGCAGTGGAATATGTTGAAGATTGT
1 AAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGT
*
49482427 AAGCCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGT
1 AAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGT
* * * *
49482471 AAATCCTAGCTCCCTGACCAGTAGTGAAATAGGTGGAAGATTGT
1 AAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGT
* * * *
49482515 AAATCCTAGCTCCCTGACCAGCAGTGGAATAGGCGAAAGATTGT
1 AAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGT
** * * * *
49482559 AAAACCTAGCTCCCTGAACAGCAGTGGAATAGGCGAAAGATTGT
1 AAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGT
* * *
49482603 AAGTCCTAACTCCCTGACTAGCAGTGGAATAGGTGGAAGACTGT
1 AAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGT
*
49482647 -AGATCCTATCTCCCTGGA-CAGCAGTAGAATAGGT
1 AAG-TCCTATCTCCCT-GACCAGCAGTGGAATAGGT
49482681 CAAAAATTAC
Statistics
Matches: 268, Mismatches: 28, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
43 2 0.01
44 264 0.99
45 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.24
Consensus pattern (44 bp):
AAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGT
Found at i:49485043 original size:11 final size:13
Alignment explanation
Indices: 49485019--49485050 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
49485009 TAGTTTATTA
49485019 ATATTTTAATATG
1 ATATTTTAATATG
49485032 AT-TTTTAA-ATG
1 ATATTTTAATATG
49485043 ATATTTTA
1 ATATTTTA
49485051 TTAATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (13 bp):
ATATTTTAATATG
Found at i:49488057 original size:20 final size:20
Alignment explanation
Indices: 49488032--49488080 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
49488022 TATGAACTAC
*
49488032 TCCATTTACTTTCTTACCAT
1 TCCATTTACTTACTTACCAT
*
49488052 TCCATTTACTTACTTTCCAT
1 TCCATTTACTTACTTACCAT
*
49488072 TTCATTTAC
1 TCCATTTAC
49488081 CTAGCATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.20, C:0.29, G:0.00, T:0.51
Consensus pattern (20 bp):
TCCATTTACTTACTTACCAT
Found at i:49488822 original size:40 final size:40
Alignment explanation
Indices: 49488758--49488921 Score: 265
Period size: 40 Copynumber: 4.1 Consensus size: 40
49488748 CAAAACACAC
* * * *
49488758 CAGATGCTCATAAGAGCTAGTCCAACCAAAACACACCAGA
1 CAGAAGCTCATAGGAGCTAATCCAACCGAAACACACCAGA
*
49488798 CAAAAGCTCATAGGAGCTAATCCAACCGAAACACACCAGA
1 CAGAAGCTCATAGGAGCTAATCCAACCGAAACACACCAGA
*
49488838 CAGAAGCTCATAGGAGCTAATCCAACCGAAACACACTAGA
1 CAGAAGCTCATAGGAGCTAATCCAACCGAAACACACCAGA
*
49488878 CAGAAGCTCATAGGAGCTAATCCAACCGAAACACACCAGG
1 CAGAAGCTCATAGGAGCTAATCCAACCGAAACACACCAGA
49488918 CAGA
1 CAGA
49488922 TAGTATAACA
Statistics
Matches: 115, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 115 1.00
ACGTcount: A:0.43, C:0.29, G:0.17, T:0.11
Consensus pattern (40 bp):
CAGAAGCTCATAGGAGCTAATCCAACCGAAACACACCAGA
Found at i:49489131 original size:23 final size:23
Alignment explanation
Indices: 49489102--49489163 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
49489092 GTCCGGCCCG
* *
49489102 TTTTTAATTAAAATTAAAATTAT
1 TTTTTAATTAAAATTAAAACTAA
*
49489125 TTTTTAAATAAAATTAAAACTAA
1 TTTTTAATTAAAATTAAAACTAA
*
49489148 TTGTT-ATTAAAATTAA
1 TTTTTAATTAAAATTAA
49489164 TTGTTAGTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 10 0.29
23 24 0.71
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
TTTTTAATTAAAATTAAAACTAA
Found at i:49489176 original size:16 final size:16
Alignment explanation
Indices: 49489139--49489178 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
49489129 TAAATAAAAT
* *
49489139 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
49489155 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
49489171 TAAAATTA
1 TAAAATTA
49489179 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:49489257 original size:59 final size:59
Alignment explanation
Indices: 49489189--49489367 Score: 250
Period size: 68 Copynumber: 2.9 Consensus size: 59
49489179 TCAAATTATT
*
49489189 AATTGTTAATTGTAATAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTAATAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
49489248 AATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTA
1 AATTATTAATTG---T-A----A-TAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTA
49489313 TCA
57 TCA
* *
49489316 AATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAA
1 AATTATTAATTGTAATAATTGTTGTAATAAAATCTAACATTTGATTAGTAAA
49489368 ACAAACTTGA
Statistics
Matches: 108, Mismatches: 3, Indels: 18
0.84 0.02 0.14
Matches are distributed among these distances:
59 47 0.44
62 1 0.01
63 1 0.01
64 1 0.01
65 1 0.01
67 1 0.01
68 56 0.52
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (59 bp):
AATTATTAATTGTAATAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:49489284 original size:9 final size:9
Alignment explanation
Indices: 49489251--49489278 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
49489241 TTTATCAAAT
49489251 TATTAATTG
1 TATTAATTG
49489260 TATTAATTG
1 TATTAATTG
49489269 TATTAATTG
1 TATTAATTG
49489278 T
1 T
49489279 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:49489289 original size:68 final size:68
Alignment explanation
Indices: 49489167--49489337 Score: 310
Period size: 68 Copynumber: 2.5 Consensus size: 68
49489157 AAATTAATTG
*
49489167 TTAGTAAAATTATCAAATTATTAATTG--TTAATTGTAATAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTAATAATTGTTGTAATAAAATCTAACATT
49489230 TGA
66 TGA
*
49489233 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTAATAATTGTTGTAATAAAATCTAACATT
49489298 TGA
66 TGA
49489301 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGT
49489338 TGTAACAAAA
Statistics
Matches: 101, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
66 26 0.26
68 75 0.74
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (68 bp):
TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTAATAATTGTTGTAATAAAATCTAACATT
TGA
Found at i:49489481 original size:23 final size:24
Alignment explanation
Indices: 49489434--49489479 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
49489424 AAATAAACTT
49489434 AAAATAAAAAAATATTATATTTTA
1 AAAATAAAAAAATATTATATTTTA
49489458 AAAATAAAAAAA-ATATATATTT
1 AAAATAAAAAAATAT-TATATTT
49489480 AATATTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
AAAATAAAAAAATATTATATTTTA
Found at i:49490312 original size:25 final size:25
Alignment explanation
Indices: 49490284--49490345 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 25
49490274 AAATAAATTA
* *
49490284 CCACAAAGGCTTTACAGGTGACAAG
1 CCACAAAGGCTTCACAAGTGACAAG
* * **
49490309 CCACAAAAGCTTCCCAAGTGACTCG
1 CCACAAAGGCTTCACAAGTGACAAG
49490334 CCACAAAGGCTT
1 CCACAAAGGCTT
49490346 GGTTTGGTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.34, C:0.31, G:0.19, T:0.16
Consensus pattern (25 bp):
CCACAAAGGCTTCACAAGTGACAAG
Found at i:49493323 original size:11 final size:11
Alignment explanation
Indices: 49493309--49493347 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
49493299 TTGATTTGAT
49493309 TTTTAATTA-TA
1 TTTT-ATTATTA
49493320 TTTTATTATTA
1 TTTTATTATTA
49493331 TTTTATTATTA
1 TTTTATTATTA
49493342 TTTTAT
1 TTTTAT
49493348 CTAGTATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 4 0.15
11 23 0.85
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTTATTATTA
Found at i:49495447 original size:42 final size:42
Alignment explanation
Indices: 49495401--49495480 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
49495391 AGTTTTTTTG
*
49495401 AGCTTCAGTTTAAACC-TTATGGGTTTCCGTTCAGCTCTTACA
1 AGCTTCAG-TTAAACCATTATGGGCTTCCGTTCAGCTCTTACA
* * * *
49495443 AGCTTCCGTTCAACCATTATGGGCTTCTGTTTAGCTCT
1 AGCTTCAGTTAAACCATTATGGGCTTCCGTTCAGCTCT
49495481 CATGAGCTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
41 6 0.19
42 26 0.81
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.39
Consensus pattern (42 bp):
AGCTTCAGTTAAACCATTATGGGCTTCCGTTCAGCTCTTACA
Found at i:49495489 original size:42 final size:41
Alignment explanation
Indices: 49495399--49495496 Score: 97
Period size: 42 Copynumber: 2.3 Consensus size: 41
49495389 TTAGTTTTTT
* * *
49495399 TGAGCTTCAGTTTAAACCTTATGGGTTTCCGTTCAGCTCTTA
1 TGAGCTTCAG-TTCAACCTTATGGGCTTCCGTTCAGCTCTCA
** * * *
49495441 CAAGCTTCCGTTCAACCATTATGGGCTTCTGTTTAGCTCTCA
1 TGAGCTTCAGTTCAACC-TTATGGGCTTCCGTTCAGCTCTCA
*
49495483 TGAGCTTCTGTTCA
1 TGAGCTTCAGTTCA
49495497 GCGTTCGAGC
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
41 6 0.14
42 38 0.86
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.39
Consensus pattern (41 bp):
TGAGCTTCAGTTCAACCTTATGGGCTTCCGTTCAGCTCTCA
Found at i:49501152 original size:20 final size:20
Alignment explanation
Indices: 49501110--49501153 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
49501100 TAGTTAAGTT
* * *
49501110 GTAAAACAGTAGAAGCAATA
1 GTAAAACAATAGAAACAACA
*
49501130 GTAAAACAATGGAAACAACA
1 GTAAAACAATAGAAACAACA
49501150 GTAA
1 GTAA
49501154 TATTTTTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.57, C:0.11, G:0.18, T:0.14
Consensus pattern (20 bp):
GTAAAACAATAGAAACAACA
Found at i:49513755 original size:13 final size:13
Alignment explanation
Indices: 49513737--49513761 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49513727 TTTTGACACT
49513737 CTCGAAAAATTAC
1 CTCGAAAAATTAC
49513750 CTCGAAAAATTA
1 CTCGAAAAATTA
49513762 GGTTGTTACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (13 bp):
CTCGAAAAATTAC
Found at i:49516640 original size:21 final size:21
Alignment explanation
Indices: 49516614--49516687 Score: 148
Period size: 21 Copynumber: 3.5 Consensus size: 21
49516604 TTACTATTAG
49516614 TCTCGAGACATGTCGAGCATA
1 TCTCGAGACATGTCGAGCATA
49516635 TCTCGAGACATGTCGAGCATA
1 TCTCGAGACATGTCGAGCATA
49516656 TCTCGAGACATGTCGAGCATA
1 TCTCGAGACATGTCGAGCATA
49516677 TCTCGAGACAT
1 TCTCGAGACAT
49516688 AGACATCTTG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (21 bp):
TCTCGAGACATGTCGAGCATA
Found at i:49517156 original size:41 final size:41
Alignment explanation
Indices: 49517033--49517156 Score: 158
Period size: 41 Copynumber: 3.0 Consensus size: 41
49517023 CGTTTTCTGA
* * **
49517033 GGGCTTTAGCGGCGTTTTTGAAAAAGCGTCGCTAATGCTCG
1 GGGCTTTAGCGGCGTTTTTTAAGAAGCACCGCTAATGCTCG
* * * * *
49517074 AGACTTTAGCGGCATTTTTTAAGTAGTACCGCTAATGCTCG
1 GGGCTTTAGCGGCGTTTTTTAAGAAGCACCGCTAATGCTCG
*
49517115 GGGCTTTAGCGGCGTTTTTTAAGAAGCACCGCTAATACTCG
1 GGGCTTTAGCGGCGTTTTTTAAGAAGCACCGCTAATGCTCG
49517156 G
1 G
49517157 CGTTTTTGAA
Statistics
Matches: 68, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTTAAGAAGCACCGCTAATGCTCG
Found at i:49520623 original size:43 final size:43
Alignment explanation
Indices: 49520576--49520696 Score: 154
Period size: 43 Copynumber: 2.8 Consensus size: 43
49520566 GAAGCGTCGC
** * *
49520576 TAAAGGTCTTGAGCTATAGTAGCGTTTGTGGGAAAAG-GTCTGT
1 TAAAGGTCTTGAGCTATAGCGGCGTTTGTGGAAAAAGTGT-TGA
* *
49520619 TAAAGGTCTTGAGATATAGCGGCATTTGTGGAAAAAGTGTTGA
1 TAAAGGTCTTGAGCTATAGCGGCGTTTGTGGAAAAAGTGTTGA
* *
49520662 TAAAGGTCTTGATCTATAGCGGCGTTTGTGCAAAA
1 TAAAGGTCTTGAGCTATAGCGGCGTTTGTGGAAAA
49520697 GTGCCGCTAA
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
43 65 0.97
44 2 0.03
ACGTcount: A:0.29, C:0.10, G:0.30, T:0.31
Consensus pattern (43 bp):
TAAAGGTCTTGAGCTATAGCGGCGTTTGTGGAAAAAGTGTTGA
Found at i:49520752 original size:85 final size:86
Alignment explanation
Indices: 49520573--49520764 Score: 199
Period size: 85 Copynumber: 2.2 Consensus size: 86
49520563 CGAGAAGCGT
* * * * * * *
49520573 CGCTAAAGGTCTTGAGCTATAGTAGCGTTTGTGGGAAAAGGTCTGTTAAAGGTCTTGAGATATAG
1 CGCTAAAGGTCTTGATCTATAGCAGCGTTTGTGGCAAAAGGTCCGCTAAAGGTCCTGAGATATAA
* ** * *
49520638 CGGCATTTGTGGAAAAAGTGT
66 CGACATTTGTAAAAAAAATGC
* * * **
49520659 TGATAAAGGTCTTGATCTATAGCGGCGTTTGT-GCAAAA-GTGCCGCTAAAGGTCCTGATCTATA
1 CGCTAAAGGTCTTGATCTATAGCAGCGTTTGTGGCAAAAGGT-CCGCTAAAGGTCCTGAGATATA
49520722 ACGACATTTGTAAAAAAAATGC
65 ACGACATTTGTAAAAAAAATGC
*
49520744 CGCTAAAGGTCCTGATCTATA
1 CGCTAAAGGTCTTGATCTATA
49520765 ATGGCGCTTG
Statistics
Matches: 85, Mismatches: 20, Indels: 3
0.79 0.19 0.03
Matches are distributed among these distances:
84 2 0.02
85 56 0.66
86 27 0.32
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (86 bp):
CGCTAAAGGTCTTGATCTATAGCAGCGTTTGTGGCAAAAGGTCCGCTAAAGGTCCTGAGATATAA
CGACATTTGTAAAAAAAATGC
Found at i:49520754 original size:43 final size:42
Alignment explanation
Indices: 49520662--49520765 Score: 136
Period size: 43 Copynumber: 2.5 Consensus size: 42
49520652 AAAGTGTTGA
* * * * ** *
49520662 TAAAGGTCTTGATCTATAGCGGCGTTTGTGCAAAAGTGCCGC
1 TAAAGGTCCTGATCTATAACGACATTTGTAAAAAAATGCCGC
49520704 TAAAGGTCCTGATCTATAACGACATTTGTAAAAAAAATGCCGC
1 TAAAGGTCCTGATCTATAACGACATTTGT-AAAAAAATGCCGC
49520747 TAAAGGTCCTGATCTATAA
1 TAAAGGTCCTGATCTATAA
49520766 TGGCGCTTGG
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
42 25 0.46
43 29 0.54
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (42 bp):
TAAAGGTCCTGATCTATAACGACATTTGTAAAAAAATGCCGC
Found at i:49520783 original size:43 final size:42
Alignment explanation
Indices: 49520662--49520794 Score: 133
Period size: 43 Copynumber: 3.1 Consensus size: 42
49520652 AAAGTGTTGA
* * *
49520662 TAAAGGTCTTGATCTATAGCGGCGTTTGTGC-AAAAGTGCCGC
1 TAAAGGTCCTGATCTATAACGGCGTTTG-GCAAAAAATGCCGC
* * **
49520704 TAAAGGTCCTGATCTATAACGACATTTGTAAAAAAAATGCCGC
1 TAAAGGTCCTGATCTATAACGGCGTTTG-GCAAAAAATGCCGC
* * *
49520747 TAAAGGTCCTGATCTATAATGGCGCTTGGCATAAAAAACGCCGC
1 TAAAGGTCCTGATCTATAACGGCGTTTGGC--AAAAAATGCCGC
49520791 TAAA
1 TAAA
49520795 AATCTATTTT
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
42 25 0.34
43 34 0.46
44 15 0.20
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.26
Consensus pattern (42 bp):
TAAAGGTCCTGATCTATAACGGCGTTTGGCAAAAAATGCCGC
Found at i:49521183 original size:9 final size:9
Alignment explanation
Indices: 49521169--49521199 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
49521159 GTTAAACGAA
49521169 TCGAGTTAT
1 TCGAGTTAT
*
49521178 TCGAGTTAA
1 TCGAGTTAT
49521187 TCGAGTTAT
1 TCGAGTTAT
49521196 TCGA
1 TCGA
49521200 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:49521694 original size:20 final size:20
Alignment explanation
Indices: 49521655--49521694 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
49521645 TTATTCTTCA
*
49521655 AAACTTTTTATTTTCCCCCT
1 AAACTTTTTATTTTCACCCT
49521675 AAAC-TTTTATTTCTCACCCT
1 AAACTTTTTATTT-TCACCCT
49521695 TTACCCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (20 bp):
AAACTTTTTATTTTCACCCT
Found at i:49521816 original size:9 final size:9
Alignment explanation
Indices: 49521802--49521840 Score: 71
Period size: 9 Copynumber: 4.4 Consensus size: 9
49521792 AATTTCACAT
49521802 TTTATATTA
1 TTTATATTA
49521811 TTTATATTA
1 TTTATATTA
49521820 TTTATATTA
1 TTTATATTA
49521829 TTTA-ATTA
1 TTTATATTA
49521837 TTTA
1 TTTA
49521841 GTCATATTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 8 0.27
9 22 0.73
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTATATTA
Found at i:49521825 original size:18 final size:17
Alignment explanation
Indices: 49521802--49521862 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 17
49521792 AATTTCACAT
49521802 TTTATATTATTTATATTA
1 TTTATATTATTTA-ATTA
49521820 TTTATATTATTTAATTA
1 TTTATATTATTTAATTA
*
49521837 TTTAGTCA-TATTGAA-TA
1 TTTA-T-ATTATTTAATTA
49521854 TTTATATTA
1 TTTATATTA
49521863 AAATTGAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
15 1 0.03
16 3 0.08
17 14 0.36
18 20 0.51
19 1 0.03
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (17 bp):
TTTATATTATTTAATTA
Found at i:49524159 original size:22 final size:23
Alignment explanation
Indices: 49524122--49524168 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 23
49524112 TATTTTTTTG
*
49524122 TTAATTTGAAATTTTAAGTATTTA
1 TTAATTT-AAATTTTAAGAATTTA
49524146 TTAATTT-AATTTTAAGAATTTA
1 TTAATTTAAATTTTAAGAATTTA
49524168 T
1 T
49524169 CAAATAATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.68
24 7 0.32
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.55
Consensus pattern (23 bp):
TTAATTTAAATTTTAAGAATTTA
Found at i:49525697 original size:17 final size:17
Alignment explanation
Indices: 49525671--49525703 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
49525661 AACTTTTTTT
49525671 TTTCAG-TTTTACTTTA
1 TTTCAGTTTTTACTTTA
49525687 TTTCTAGTTTTTACTTT
1 TTTC-AGTTTTTACTTT
49525704 TAAAAGTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 2 0.13
18 9 0.60
ACGTcount: A:0.15, C:0.12, G:0.06, T:0.67
Consensus pattern (17 bp):
TTTCAGTTTTTACTTTA
Found at i:49530546 original size:18 final size:18
Alignment explanation
Indices: 49530523--49530565 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
49530513 TGATAGGTGC
*
49530523 GTATCCTAACCCTTATAT
1 GTATCCTAACCATTATAT
49530541 GTATCCTAACCATTATAT
1 GTATCCTAACCATTATAT
*
49530559 GTTTCCT
1 GTATCCT
49530566 TTATTCAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.07, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCATTATAT
Found at i:49531740 original size:20 final size:20
Alignment explanation
Indices: 49531715--49531756 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
49531705 GGTTATCGGT
49531715 AAATGACGCATTCCTTTTAA
1 AAATGACGCATTCCTTTTAA
*
49531735 AAATGACGCGTTCCTTTTAA
1 AAATGACGCATTCCTTTTAA
49531755 AA
1 AA
49531757 CAGAATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (20 bp):
AAATGACGCATTCCTTTTAA
Found at i:49534407 original size:125 final size:125
Alignment explanation
Indices: 49534104--49534627 Score: 660
Period size: 124 Copynumber: 4.2 Consensus size: 125
49534094 TACGGCCAAG
* * * * * *
49534104 TAGGAACTATTATAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGTAATTTTGCTGACAATGC
1 TAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGAAGCTTTCTTCAGTAATTTTGCTGACAGTGC
* *** * * * * *
49534169 ATCCTGCTTAAAGTGCTTTTGACACTGTTTTTTTTTCAAAATTGTCTTCTTATAATTATTTTTT
66 ATCCTGCTTGAAGCATTTTTGACAC---TATTTTTTCAGAACTGTCTTCTCAAAATTA-TTTTT
* * * * *
49534233 TAGAAACTACTGTAGAAAAAGAACGTCCATGTGGGAGCTTTCTTCAGTAATTTTGCTGATAGTGC
1 TAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGAAGCTTTCTTCAGTAATTTTGCTGACAGTGC
49534298 ATCCTGCTT-ATAGCATTTTTGACACTATTTTTTCAGAACTGTCTTCTCAAAATTATTTTT
66 ATCCTGCTTGA-AGCATTTTTGACACTATTTTTTCAGAACTGTCTTCTCAAAATTATTTTT
* * *
49534358 TAGGAACTACTGTAGAAAAAGAGCTTCCACGTGAAAGCTTTCTTCAGTAATTTTGCTGATAGTGC
1 TAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGAAGCTTTCTTCAGTAATTTTGCTGACAGTGC
** *
49534423 ATATTGCTTGAAGCATTTTTGACACTA-TTTTTCAGAACTGTATTCTCAAAATTATTTTT
66 ATCCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACTGTCTTCTCAAAATTATTTTT
* *
49534482 TAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGAAGCTTTTTTCAATAATTTTGCTGACAGTGC
1 TAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGAAGCTTTCTTCAGTAATTTTGCTGACAGTGC
* * *
49534547 ATCCTGCTTGAAGCGTTTTTGACATTATCTTTTCAGAA-TCGTCTTCTCAAAATTAATTTTT
66 ATCCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACT-GTCTTCTCAAAATT-ATTTTT
*
49534608 CT-GAAACTACTGTAGAAAAA
1 -TAGGAACTACTGTAGAAAAA
49534628 AACAAAATCC
Statistics
Matches: 353, Mismatches: 36, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
124 115 0.33
125 109 0.31
126 49 0.14
127 1 0.00
128 1 0.00
129 78 0.22
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (125 bp):
TAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGAAGCTTTCTTCAGTAATTTTGCTGACAGTGC
ATCCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACTGTCTTCTCAAAATTATTTTT
Found at i:49534551 original size:249 final size:253
Alignment explanation
Indices: 49534104--49534627 Score: 666
Period size: 249 Copynumber: 2.1 Consensus size: 253
49534094 TACGGCCAAG
* * * ** *
49534104 TAGGAACTATTATAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGTAATTTTGCTGACAATGC
1 TAGGAACTACTGTAGAAAAAGAGCGTCCACGTGAAAGCTTTCTTCAGTAATTTTGCTGACAATGC
* ** * * * * *
49534169 ATCCTGCTTAAAGTGCTTTTGACACTGTTTTTTTTTCAAAATTGTCTTCTTATAATTATTTTTTT
66 ATACTGCTTAAAGCACTTTTGACAC---TTATTTTTCAAAACTGTATTCTCAAAATTATTTTTTT
* * * *
49534234 AGAAACTACTGTAGAAAAAGAACGTCCATGTGGGAGCTTTCTTCAGTAATTTTGCTGATAGTGCA
128 AGAAACTACTGTAGAAAAAGAACGTCCACGTGGAAGCTTTCTTCAATAATTTTGCTGACAGTGCA
*
49534299 TCCTGCTT-ATAGCATTTTTGACACTATTTTTTCAGAA-CTGTCTTCTCAAAATT-ATTTTT-
193 TCCTGCTTGA-AGCATTTTTGACACTATCTTTTCAGAATC-GTCTTCTCAAAATTAATTTTTC
* * *
49534358 TAGGAACTACTGTAGAAAAAGAGCTTCCACGTGAAAGCTTTCTTCAGTAATTTTGCTGATAGTGC
1 TAGGAACTACTGTAGAAAAAGAGCGTCCACGTGAAAGCTTTCTTCAGTAATTTTGCTGACAATGC
* * * * *
49534423 ATATTGCTTGAAGCATTTTTGACAC-TATTTTTCAGAACTGTATTCTCAAAATTA-TTTTTTAGG
66 ATACTGCTTAAAGCACTTTTGACACTTATTTTTCAAAACTGTATTCTCAAAATTATTTTTTTAGA
* *
49534486 AACTACTGTAGAAAAAGAGCGTCCACGTGGAAGCTTTTTTCAATAATTTTGCTGACAGTGCATCC
131 AACTACTGTAGAAAAAGAACGTCCACGTGGAAGCTTTCTTCAATAATTTTGCTGACAGTGCATCC
* *
49534551 TGCTTGAAGCGTTTTTGACATTATCTTTTCAGAATCGTCTTCTCAAAATTAATTTTTC
196 TGCTTGAAGCATTTTTGACACTATCTTTTCAGAATCGTCTTCTCAAAATTAATTTTTC
*
49534609 T-GAAACTACTGTAGAAAAA
1 TAGGAACTACTGTAGAAAAA
49534628 AACAAAATCC
Statistics
Matches: 234, Mismatches: 32, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
249 110 0.47
250 48 0.21
251 1 0.00
254 75 0.32
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (253 bp):
TAGGAACTACTGTAGAAAAAGAGCGTCCACGTGAAAGCTTTCTTCAGTAATTTTGCTGACAATGC
ATACTGCTTAAAGCACTTTTGACACTTATTTTTCAAAACTGTATTCTCAAAATTATTTTTTTAGA
AACTACTGTAGAAAAAGAACGTCCACGTGGAAGCTTTCTTCAATAATTTTGCTGACAGTGCATCC
TGCTTGAAGCATTTTTGACACTATCTTTTCAGAATCGTCTTCTCAAAATTAATTTTTC
Found at i:49534736 original size:34 final size:34
Alignment explanation
Indices: 49534692--49534822 Score: 153
Period size: 34 Copynumber: 3.9 Consensus size: 34
49534682 TAAACACAAA
* *
49534692 AATTATTTAAAAAAAT-TAAACCCTAATTTAATT
1 AATTTTTTAAAAAAATCTAAAACCTAATTTAATT
*
49534725 AATTTTCTT-AAAAAATCTAAACCCTAATTTAATT
1 AATTTT-TTAAAAAAATCTAAAACCTAATTTAATT
***
49534759 AATTTGTTTAAAACCCT-TAAAACCTAATTTAATT
1 AATTT-TTTAAAAAAATCTAAAACCTAATTTAATT
*
49534793 -ATTTTTTAAAAAACTCTAAAACCTAATTTA
1 AATTTTTTAAAAAAATCTAAAACCTAATTTA
49534823 TTTTTTAAAA
Statistics
Matches: 86, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
32 9 0.10
33 30 0.35
34 42 0.49
35 5 0.06
ACGTcount: A:0.46, C:0.13, G:0.01, T:0.40
Consensus pattern (34 bp):
AATTTTTTAAAAAAATCTAAAACCTAATTTAATT
Found at i:49534846 original size:28 final size:29
Alignment explanation
Indices: 49534720--49534832 Score: 84
Period size: 29 Copynumber: 3.6 Consensus size: 29
49534710 AACCCTAATT
* *
49534720 TAATTAATTTTCTTAAAAAA-TCTAAACCC
1 TAATTTATTTT-TTAAAAAACTCTAAAACC
** *
49534749 TAATTTAATTAATTTGTTTAAAACCCTTAAAACC
1 TAATTT-ATT--TTT-TAAAAAACTC-TAAAACC
49534783 TAATTTAATTATTTTTTAAAAAACTCTAAAACC
1 TAA--T--TTATTTTTTAAAAAACTCTAAAACC
49534816 TAATTTATTTTTTAAAA
1 TAATTTATTTTTTAAAA
49534833 TTTTTAAACC
Statistics
Matches: 66, Mismatches: 8, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
29 18 0.27
30 3 0.05
31 2 0.03
32 7 0.11
33 11 0.17
34 16 0.24
35 3 0.05
36 1 0.02
37 3 0.05
38 2 0.03
ACGTcount: A:0.43, C:0.12, G:0.01, T:0.43
Consensus pattern (29 bp):
TAATTTATTTTTTAAAAAACTCTAAAACC
Found at i:49535425 original size:18 final size:18
Alignment explanation
Indices: 49535399--49535434 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
49535389 GTTTTTAATA
*
49535399 TTTATAATTTTATAATTT
1 TTTAAAATTTTATAATTT
*
49535417 TTTAAAATTTTATTATTT
1 TTTAAAATTTTATAATTT
49535435 GAGTGTTAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTAAAATTTTATAATTT
Found at i:49535910 original size:26 final size:26
Alignment explanation
Indices: 49535874--49535923 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
49535864 CTAAGCGCCG
49535874 TCATTACTAGCGTCGACACTGGTGGC
1 TCATTACTAGCGTCGACACTGGTGGC
49535900 TCATTACTAGCGTCGACACTGGTG
1 TCATTACTAGCGTCGACACTGGTG
49535924 ACTTCATCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.20, C:0.26, G:0.26, T:0.28
Consensus pattern (26 bp):
TCATTACTAGCGTCGACACTGGTGGC
Found at i:49536518 original size:19 final size:19
Alignment explanation
Indices: 49536498--49536532 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
49536488 CAAACAAATT
49536498 TTTTTG-TTC-ATTTTCAA
1 TTTTTGTTTCAATTTTCAA
49536515 TTTTTGTTTCAATTTTCA
1 TTTTTGTTTCAATTTTCA
49536533 TTCATCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.17, C:0.11, G:0.06, T:0.66
Consensus pattern (19 bp):
TTTTTGTTTCAATTTTCAA
Found at i:49540399 original size:22 final size:21
Alignment explanation
Indices: 49540364--49540447 Score: 68
Period size: 19 Copynumber: 4.1 Consensus size: 21
49540354 AAATGGTATC
* *
49540364 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
49540385 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
49540408 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
49540427 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
49540446 TA
1 TA
49540448 TATATTATAT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
19 27 0.49
21 3 0.05
22 15 0.27
23 10 0.18
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:49540407 original size:23 final size:22
Alignment explanation
Indices: 49540364--49540421 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
49540354 AAATGGTATC
* *
49540364 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
49540385 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
49540408 TGCATATCATATCT
1 TACAAATCATATCT
49540422 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:49540424 original size:19 final size:19
Alignment explanation
Indices: 49540377--49540472 Score: 102
Period size: 19 Copynumber: 4.8 Consensus size: 19
49540367 AAATTAAATC
*
49540377 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
*
49540397 TCTTCTAAGATTGCATATCATA
1 ---TCTAAGATTACATATCATA
*
49540419 TCTAAGATTATATATCATA
1 TCTAAGATTACATATCATA
* *
49540438 TCTAAGATTATATATTATA
1 TCTAAGATTACATATCATA
*
49540457 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
49540473 CCTGAAGATT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
19 48 0.74
22 7 0.11
23 10 0.15
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.40
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:49541113 original size:44 final size:44
Alignment explanation
Indices: 49540998--49541099 Score: 143
Period size: 44 Copynumber: 2.3 Consensus size: 44
49540988 TTTGTTTACT
* ** *
49540998 TTCAACCTATTCCATTGTTGACCAA-GGAGATAGGATTCTCAATC
1 TTCAACCTATTCCAATACTGA-CAAGGGAGATAGGATTCACAATC
49541042 TTCAACCTATTCCAATACTGACAAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCAATACTGACAAGGGAGATAGGATTCACAATC
*
49541086 TTCAATCTATTCCA
1 TTCAACCTATTCCA
49541100 CTGCTGCCGA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
43 3 0.06
44 49 0.94
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (44 bp):
TTCAACCTATTCCAATACTGACAAGGGAGATAGGATTCACAATC
Found at i:49541440 original size:132 final size:132
Alignment explanation
Indices: 49541065--49541432 Score: 614
Period size: 132 Copynumber: 2.8 Consensus size: 132
49541055 AATACTGACA
* * *
49541065 AGGGAGATAGGAT-TCACAATCTTCAATCTATTCCACTGCTG-CCGAGGGAAGTAGAATTACTGG
1 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTGTCC-AGGGAAGTAGAATTACTGG
* * *
49541128 ATTCAATGTACTCCGCTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACT
64 CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACT
49541193 GCTT
129 GCTT
* *
49541197 TGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
*
49541262 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
49541327 TT
131 TT
*
49541329 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTTCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
49541394 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCG
66 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCG
49541433 TTATCTTCAA
Statistics
Matches: 221, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
132 217 0.98
133 4 0.02
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.27
Consensus pattern (132 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
TT
Found at i:49541511 original size:132 final size:131
Alignment explanation
Indices: 49541109--49541504 Score: 395
Period size: 132 Copynumber: 3.0 Consensus size: 131
49541099 ACTGCTGCCG
* * * *
49541109 AGGGAAGTAGAATTACTGGATTCAATGTACTCCGCTGTAACCACAGGGAGGTAAAATCCACCATC
1 AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATC
* * * * * * * * * **
49541174 TTCGATCTGCTCCACTACTGCTTTGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTG-TTG
66 TTCAATCTACTCCACTAATGC-TAGGAAGACAAGATCTGAAATCTTCAACCTACTCCACTGATAA
49541238 TCC
130 T-C
49541241 AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATC
1 AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATC
* * * * * * * * **
49541306 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGT
66 TTCAATCTACTCCACTAATGC-TAGGAAGACAAGATCTGAAATCTTCAACCTACTCCACTGATAA
49541371 TC
130 TC
* **
49541373 AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGTTATC
1 AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATC
** * ** *
49541438 TTCAATCTACTTCGCTGTCAATGC-AGGAAGGCAAGATCTGCTATCCTT-AACCTGCTCCACT-A
66 TTCAATCTAC-TC-CACT-AATGCTAGGAAGACAAGATCTGAAAT-CTTCAACCTACTCCACTGA
49541500 TAATC
127 TAATC
49541505 GAGGAAGGTA
Statistics
Matches: 232, Mismatches: 27, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
132 194 0.84
133 29 0.12
134 5 0.02
135 4 0.02
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (131 bp):
AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATC
TTCAATCTACTCCACTAATGCTAGGAAGACAAGATCTGAAATCTTCAACCTACTCCACTGATAAT
C
Found at i:49547620 original size:19 final size:18
Alignment explanation
Indices: 49547598--49547640 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
49547588 TACATAAGTT
49547598 TTAAAA-AATTAATATAATA
1 TTAAAATAATTAA-ATAA-A
49547617 TTAAAATTAATTAAATAAA
1 TTAAAA-TAATTAAATAAA
49547636 TTAAA
1 TTAAA
49547641 CATGTGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 12 0.55
20 4 0.18
21 6 0.27
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TTAAAATAATTAAATAAA
Found at i:49548305 original size:22 final size:21
Alignment explanation
Indices: 49548270--49548334 Score: 62
Period size: 22 Copynumber: 3.1 Consensus size: 21
49548260 AAAGTGTATC
* *
49548270 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
49548291 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
49548314 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
49548333 TA
1 TA
49548335 TATATCTAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
19 9 0.24
21 3 0.08
22 15 0.41
23 10 0.27
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.35
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:49548313 original size:23 final size:22
Alignment explanation
Indices: 49548270--49548327 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
49548260 AAAGTGTATC
* *
49548270 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
49548291 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
49548314 TGCATATCATATCT
1 TACAAATCATATCT
49548328 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:49548330 original size:19 final size:19
Alignment explanation
Indices: 49548306--49548430 Score: 161
Period size: 19 Copynumber: 6.8 Consensus size: 19
49548296 AATCATATCT
49548306 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
49548325 TCTAAGA-T---TAT-ATA
1 TCTAAGATTGCATATCATA
**
49548339 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
49548358 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
49548377 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
*
49548396 TATAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
49548415 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
49548431 CCTGAAGATT
Statistics
Matches: 91, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
14 10 0.11
15 4 0.04
18 4 0.04
19 73 0.80
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:49548369 original size:52 final size:55
Alignment explanation
Indices: 49548299--49548430 Score: 184
Period size: 57 Copynumber: 2.5 Consensus size: 55
49548289 ATTACAAAAT
*
49548299 CATATC-T-TCTAAGATTGCATATCATATCTAAG-AT-TA-TATATCTAAGATTA
1 CATATCATATCTAAGATTGCATATCATATCTAAGTATATATTATATATAAGATTA
* *
49548349 TATATCATATCTAAGATTGCATATCATATCTAAGATTATATATTATATATAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAG--TATATATTATATATAAGATTA
49548406 CATATCATATCTAAGATTGCATATC
1 CATATCATATCTAAGATTGCATATC
49548431 CCTGAAGATT
Statistics
Matches: 71, Mismatches: 4, Indels: 7
0.87 0.05 0.09
Matches are distributed among these distances:
50 5 0.07
51 1 0.01
52 25 0.35
55 2 0.03
56 2 0.03
57 36 0.51
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (55 bp):
CATATCATATCTAAGATTGCATATCATATCTAAGTATATATTATATATAAGATTA
Found at i:49548391 original size:14 final size:14
Alignment explanation
Indices: 49548322--49548354 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
49548312 ATTGCATATC
49548322 ATATCTAAGATTAT
1 ATATCTAAGATTAT
49548336 ATATCTAAGATTAT
1 ATATCTAAGATTAT
49548350 ATATC
1 ATATC
49548355 ATATCTAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.42
Consensus pattern (14 bp):
ATATCTAAGATTAT
Found at i:49549528 original size:21 final size:20
Alignment explanation
Indices: 49549504--49549546 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
49549494 TCAATTAAAA
*
49549504 ATAATAAGAATTTAATTTATT
1 ATAAAAAGAATTTAA-TTATT
* *
49549525 ATAAAAATATTTTAATTATT
1 ATAAAAAGAATTTAATTATT
49549545 AT
1 AT
49549547 TAAATTATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
ATAAAAAGAATTTAATTATT
Found at i:49556082 original size:24 final size:24
Alignment explanation
Indices: 49556037--49556082 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
49556027 TTGATCATAT
*
49556037 TTATGTAATTCACTTGTACATACA
1 TTATGTAATTCACTTATACATACA
*
49556061 TTATG-AATTCCACTTATGCATA
1 TTATGTAATT-CACTTATACATA
49556083 ATGATGATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (24 bp):
TTATGTAATTCACTTATACATACA
Found at i:49558604 original size:35 final size:35
Alignment explanation
Indices: 49558558--49558626 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
49558548 AAGTCCACCT
*
49558558 CAATGGCTGTTCGGGAACTCCAATTGACAAAGCTC
1 CAATGACTGTTCGGGAACTCCAATTGACAAAGCTC
* * *
49558593 CAATGACTGTTCGGGGACTTCAATTGTCAAAGCT
1 CAATGACTGTTCGGGAACTCCAATTGACAAAGCT
49558627 GATTAATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (35 bp):
CAATGACTGTTCGGGAACTCCAATTGACAAAGCTC
Found at i:49566493 original size:68 final size:68
Alignment explanation
Indices: 49566409--49566542 Score: 198
Period size: 68 Copynumber: 2.0 Consensus size: 68
49566399 GTCTGCCTAC
* *
49566409 TGGACCTTGTAGCCCCCCACATGCGAGCTCCTTGGTATACG-AGAACTGGGACCACGAACTTCCC
1 TGGACCTCGTAGCCCCCCACATGCAAGCTCCTTGGTATACGCA-AACTGGGACCACGAACTTCCC
49566473 TTAT
65 TTAT
* * * *
49566477 TGGACCTCGTAGCCCCCCACATGCAAGTTCCTTGGTGTACGCAAATTGGGACCGCGAACTTCCCT
1 TGGACCTCGTAGCCCCCCACATGCAAGCTCCTTGGTATACGCAAACTGGGACCACGAACTTCCCT
49566542 T
66 T
49566543 GCGAGACCTC
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
68 58 0.98
69 1 0.02
ACGTcount: A:0.21, C:0.33, G:0.22, T:0.24
Consensus pattern (68 bp):
TGGACCTCGTAGCCCCCCACATGCAAGCTCCTTGGTATACGCAAACTGGGACCACGAACTTCCCT
TAT
Found at i:49566816 original size:21 final size:20
Alignment explanation
Indices: 49566776--49566824 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
49566766 TCTTAAATAC
*
49566776 ATATAAAAAAATTCAAACATT
1 ATATAAAAAAAATCAAACA-T
49566797 ATATAAAAAAAAT-AACACAT
1 ATATAAAAAAAATCAA-ACAT
*
49566817 ATCTAAAA
1 ATATAAAA
49566825 GAACATGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.24
Consensus pattern (20 bp):
ATATAAAAAAAATCAAACAT
Found at i:49567161 original size:7 final size:7
Alignment explanation
Indices: 49567149--49567180 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
49567139 TTCCAAACTT
49567149 AAAAAAC
1 AAAAAAC
49567156 AAAAAAC
1 AAAAAAC
49567163 AAAAAAC
1 AAAAAAC
*
49567170 AAAAAAT
1 AAAAAAC
49567177 AAAA
1 AAAA
49567181 TTATCAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.88, C:0.09, G:0.00, T:0.03
Consensus pattern (7 bp):
AAAAAAC
Done.